diff --git a/revdep/README.md b/revdep/README.md
index 498c024ad2..3d55aec5af 100644
--- a/revdep/README.md
+++ b/revdep/README.md
@@ -1,646 +1,567 @@
# Revdeps
-## Failed to check (165)
+## Failed to check (193)
-|package |version |error |warning |note |
-|:-----------------------|:-------|:------|:-------|:----|
-|abctools |1.1.7 |1 | | |
-|adjclust |? | | | |
-|animalEKF |1.2 |1 | | |
-|ANOM |0.5 |1 | | |
-|atRisk |0.1.0 |1 | | |
-|AutoScore |? | | | |
-|baRulho |? | | | |
-|bayesDP |1.3.6 |1 | | |
-|BayesianFactorZoo |0.0.0.2 |1 | | |
-|BayesSurvive |0.0.2 |1 | | |
-|BCClong |1.0.3 |1 | | |
-|BGGM |2.1.3 |1 | | |
-|binsreg |1.1 |1 | | |
-|bspcov |1.0.0 |1 | | |
-|bsub |1.1.0 |1 | | |
-|BuyseTest |3.0.4 |1 | | |
-|CARBayesST |4.0 |1 | | |
-|CGPfunctions |0.6.3 |1 | | |
-|chemodiv |? | | | |
-|cinaR |? | | | |
-|cmprskcoxmsm |0.2.1 |1 | | |
-|CNVScope |? | | | |
-|COMMA |1.0.0 |1 | | |
-|conos |? | | | |
-|counterfactuals |? | | | |
-|CRMetrics |? | | | |
-|crosstalkr |? | | | |
-|ctsem |3.10.1 |1 | | |
-|DepthProc |2.1.5 |1 | | |
-|DR.SC |3.4 |1 | | |
-|easybgm |0.1.2 |1 | | |
-|EcoEnsemble |1.1.0 |1 | | |
-|ecolottery |1.0.0 |1 | | |
-|EMAS |? | | | |
-|EpiEstim |2.2-4 |1 | | |
-|evolqg |0.3-4 |1 | | |
-|EWSmethods |? | | | |
-|fmx |? | | | |
-|ForecastComb |1.3.1 |1 | | |
-|GALLO |? | | | |
-|gap |? | | | |
-|gapfill |0.9.6-1 |1 | |1 |
-|geneHapR |? | | | |
-|GeneSelectR |? | | | |
-|GeomComb |1.0 |1 | | |
-|geomorph |? | | | |
-|gJLS2 |0.2.0 |1 | | |
-|hettx |0.1.3 |1 | | |
-|Hmisc |? | | | |
-|Hmsc |3.0-13 |1 | | |
-|iClusterVB |0.1.2 |1 | | |
-|[inventorize](failures.md#inventorize)|1.1.1 |__+1__ | | |
-|iNZightPlots |2.15.3 |1 | | |
-|iNZightRegression |1.3.4 |1 | | |
-|IRexamples |0.0.4 |1 | | |
-|jmBIG |0.1.2 |1 | | |
-|joineRML |0.4.6 |1 | | |
-|kibior |? | | | |
-|kmc |0.4-2 |1 | | |
-|L2E |2.0 |1 | | |
-|llbayesireg |1.0.0 |1 | | |
-|locuszoomr |? | | | |
-|LorenzRegression |2.0.0 |1 | | |
-|lsirm12pl |1.3.3 |1 | | |
-|MantaID |? | | | |
-|MARVEL |? | | | |
-|mbsts |3.0 |1 | | |
-|MitoHEAR |? | | | |
-|miWQS |0.4.4 |1 | | |
-|mlmts |1.1.2 |1 | | |
-|mlr |? | | | |
-|MOCHA |? | | | |
-|MRZero |0.2.0 |1 | | |
-|multilevelTools |0.1.1 |1 | | |
-|multinma |0.7.1 |1 | | |
-|NCA |4.0.1 |1 | | |
-|netcmc |1.0.2 |1 | | |
-|NetworkChange |0.8 |1 | | |
-|nlmeVPC |2.6 |1 | | |
-|NMADiagT |0.1.2 |1 | | |
-|ohun |? | | | |
-|optweight |0.2.5 |1 | | |
-|OVtool |1.0.3 |1 | | |
-|pagoda2 |? | | | |
-|PAMpal |1.2.1 |1 | | |
-|PAMscapes |0.6.0 |1 | | |
-|paths |0.1.1 |1 | | |
-|PathwaySpace |? | | | |
-|pcvr |1.0.0 |1 | | |
-|PlasmaMutationDetector |? | | | |
-|PlasmaMutationDetector2 |? | | | |
-|PLMIX |2.1.1 |1 | | |
-|polyRAD |? | | | |
-|popstudy |1.0.1 |1 | | |
-|pould |1.0.1 |1 | | |
-|PoweREST |0.1.0 |1 | | |
-|powerly |1.8.6 |1 | | |
-|pre |1.0.7 |1 | | |
-|ProFAST |? | | | |
-|psbcSpeedUp |2.0.7 |1 | | |
-|pscore |0.4.0 |1 | | |
-|qPCRtools |1.0.1 |1 | | |
-|qris |1.1.1 |1 | | |
-|qte |1.3.1 |1 | | |
-|quantilogram |3.1.1 |1 | | |
-|quid |0.0.1 |1 | | |
-|RcmdrPlugin.RiskDemo |3.2 |1 | | |
-|rddtools |1.6.0 |1 | | |
-|RGraphSpace |? | | | |
-|rms |? | | | |
-|RNAseqQC |? | | | |
-|robmed |1.0.2 |1 | | |
-|robmedExtra |0.1.0 |1 | | |
-|RPPanalyzer |1.4.9 |1 | | |
-|RQdeltaCT |1.3.0 |1 | | |
-|RRPP |? | | | |
-|rstanarm |2.32.1 |1 | | |
-|RTIGER |? | | | |
-|rTwig |1.1.0 |1 | | |
-|RVA |? | | | |
-|scCustomize |? | | | |
-|SCdeconR |1.0.0 |1 | | |
-|scGate |1.6.2 |1 | | |
-|SCIntRuler |0.99.6 |1 | | |
-|scITD |? | | | |
-|scMappR |1.0.11 |1 | | |
-|scpi |2.2.5 |1 | | |
-|scRNAstat |0.1.1 |1 | | |
-|sectorgap |0.1.0 |1 | | |
-|SeedMatchR |? | | | |
-|SEERaBomb |2019.2 |1 | | |
-|semicmprskcoxmsm |0.2.0 |1 | | |
-|SensMap |0.7 |1 | | |
-|sephora |? | | | |
-|Seurat |? | | | |
-|shinyTempSignal |0.0.8 |1 | | |
-|sievePH |1.1 |1 | | |
-|sigminer |? | | | |
-|Signac |? | | | |
-|SimplyAgree |0.2.0 |1 | | |
-|SNPassoc |? | | | |
-|snplinkage |? | | | |
-|SoupX |1.6.2 |1 | | |
-|sparsereg |1.2 |1 | | |
-|SpatialDDLS |? | | | |
-|spikeSlabGAM |1.1-19 |1 | | |
-|statsr |0.3.0 |1 | | |
-|streamDAG |? | | | |
-|survidm |1.3.2 |1 | | |
-|tempted |0.1.1 |1 | | |
-|TestAnaAPP |1.1.1 |1 | | |
-|[tidydr](failures.md#tidydr)|0.0.5 |__+1__ | | |
-|tidyEdSurvey |0.1.3 |1 | | |
-|tidyseurat |0.8.0 |1 | | |
-|tidyvpc |1.5.1 |1 | | |
-|TriDimRegression |1.0.2 |1 | | |
-|TSrepr |1.1.0 |1 | | |
-|twang |2.6.1 |1 | | |
-|updog |? | | | |
-|valr |? | | | |
-|vdg |1.2.3 |1 | | |
-|visa |0.1.0 |1 | | |
-|VisualizeSimon2Stage |? | | | |
-|WRTDStidal |1.1.4 |1 | | |
-|xxdi |? | | | |
+|package |version |error |warning |note |
+|:----------------------|:-------|:---------|:-------|:----|
+|abctools |1.1.7 |1 | | |
+|adjustedCurves |? | | | |
+|animalEKF |1.2 |1 | | |
+|ANOM |0.5 |1 | | |
+|atRisk |0.2.0 |1 | | |
+|autoReg |? | | | |
+|AutoScore |? | | | |
+|[bartMan](failures.md#bartman)|0.1.1 |__+1__ | | |
+|bayesDP |1.3.7 |1 | | |
+|BayesianFactorZoo |0.0.0.3 |1 | | |
+|BayesSurvive |? | | | |
+|BCClong |1.0.3 |1 | | |
+|BGGM |2.1.5 |1 | | |
+|binsreg |1.1 |1 | | |
+|bspcov |1.0.1 |1 | | |
+|BSTZINB |1.0.1 |1 | | |
+|BuyseTest |? | | | |
+|CAESAR.Suite |? | | | |
+|CARBayesST |4.0 |1 | | |
+|Certara.VPCResults |3.0.2 |1 | | |
+|CGPfunctions |0.6.3 |1 | | |
+|cia |? | | | |
+|cinaR |? | | | |
+|cmprskcoxmsm |0.2.1 |1 | | |
+|COMMA |1.1.1 |1 | | |
+|contsurvplot |? | | | |
+|counterfactuals |? | | | |
+|CRMetrics |0.3.2 |1 | | |
+|ctsem |3.10.2 |1 | | |
+|dartR.base |? | | | |
+|dartR.captive |? | | | |
+|dartR.popgen |? | | | |
+|dartR.sexlinked |? | | | |
+|dartR.sim |? | | | |
+|dartR.spatial |? | | | |
+|DepthProc |2.1.5 |1 | | |
+|DFD |? | | | |
+|DR.SC |3.4 |1 | | |
+|dscoreMSM |? | | | |
+|DynForest |? | | | |
+|easybgm |0.2.1 |1 | | |
+|EcoEnsemble |1.1.0 |1 | | |
+|ecolottery |1.0.0 |1 | | |
+|EpiEstim |2.2-4 |1 | | |
+|EpiNow2 |1.6.1 |1 | | |
+|evolqg |0.3-4 |1 | | |
+|EWSmethods |? | | | |
+|flexrsurv |? | | | |
+|fmx |? | | | |
+|ForecastComb |1.3.1 |1 | | |
+|gap |? | | | |
+|gapfill |0.9.6-1 |1 | |1 |
+|genekitr |? | | | |
+|GeneSelectR |? | | | |
+|GeomComb |1.0 |1 | | |
+|geomorph |? | | | |
+|GeoTox |? | | | |
+|[ggmosaic](failures.md#ggmosaic)|0.3.3 |__+1__ | |-1 |
+|[ggtern](failures.md#ggtern)|3.5.0 |__+1__ | |1 -1 |
+|gJLS2 |0.2.0 |1 | | |
+|grandR |? | | | |
+|GseaVis |? | | | |
+|hettx |0.1.3 |1 | | |
+|Hmisc |? | | | |
+|Hmsc |3.0-13 |1 | | |
+|iClusterVB |0.1.4 |1 | | |
+|immcp |? | | | |
+|[inventorize](failures.md#inventorize)|1.1.1 |__+1__ | | |
+|invivoPKfit |2.0.0 |1 | | |
+|iNZightPlots |2.15.3 |1 | | |
+|iNZightRegression |1.3.4 |1 | | |
+|IRexamples |0.0.4 |1 | | |
+|jmBIG |? | | | |
+|joineRML |0.4.6 |1 | | |
+|jsmodule |? | | | |
+|kmc |0.4-2 |1 | | |
+|KMunicate |? | | | |
+|L2E |2.0 |1 | | |
+|Landmarking |? | | | |
+|lavaSearch2 |? | | | |
+|llbayesireg |1.0.0 |1 | | |
+|lnmixsurv |? | | | |
+|LorenzRegression |2.1.0 |1 | | |
+|lsirm12pl |1.3.3 |1 | | |
+|MantaID |? | | | |
+|MARVEL |? | | | |
+|MaxWiK |1.0.5 |1 | | |
+|mbsts |3.0 |1 | | |
+|MendelianRandomization |0.10.0 |1 | | |
+|miWQS |0.4.4 |1 | | |
+|mlmts |1.1.2 |1 | | |
+|mlr |? | | | |
+|MRZero |0.2.0 |1 | | |
+|mstate |? | | | |
+|multilevelTools |0.1.1 |1 | | |
+|multinma |0.7.2 |1 | | |
+|multipleOutcomes |? | | | |
+|MuPETFlow |? | | | |
+|NCA |4.0.2 |1 | | |
+|netcmc |1.0.2 |1 | | |
+|NetworkChange |0.8 |1 | | |
+|nlmeVPC |2.6 |1 | | |
+|NMADiagT |0.1.2 |1 | | |
+|obliqueRSF |? | | | |
+|OlinkAnalyze |? | | | |
+|optweight |0.2.5 |1 | | |
+|OVtool |1.0.3 |1 | | |
+|pammtools |? | | | |
+|paths |0.1.1 |1 | | |
+|PathwaySpace |? | | | |
+|pcvr |1.1.1.0 |1 | | |
+|[PieGlyph](failures.md#pieglyph)|1.0.0 |-1 __+1__ | | |
+|PLMIX |2.1.1 |1 | | |
+|popstudy |1.0.1 |1 | | |
+|pould |? | | | |
+|PoweREST |0.1.0 |1 | | |
+|powerly |1.8.6 |1 | | |
+|pre |1.0.7 |1 | | |
+|ProFAST |? | | | |
+|psbcSpeedUp |? | | | |
+|pscore |0.4.0 |1 | | |
+|pubh |? | | | |
+|qPCRtools |1.0.1 |1 | | |
+|qris |1.1.1 |1 | | |
+|qte |1.3.1 |1 | | |
+|quantilogram |3.1.1 |1 | | |
+|quid |0.0.1 |1 | | |
+|RcmdrPlugin.RiskDemo |3.2 |1 | | |
+|rddtools |1.6.0 |1 | | |
+|relsurv |? | | | |
+|ReporterScore |? | | | |
+|RGraphSpace |? | | | |
+|riskRegression |? | | | |
+|rmlnomogram |? | | | |
+|rms |? | | | |
+|robber |? | | | |
+|robmed |1.2.0 |1 | | |
+|robmedExtra |0.1.1 |1 | | |
+|RPPanalyzer |1.4.9 |1 | | |
+|RQdeltaCT |1.3.0 |1 | | |
+|RRPP |? | | | |
+|rstanarm |2.32.1 |1 | | |
+|rTwig |1.3.0 |1 | | |
+|RVA |? | | | |
+|S4DM |0.0.1 |1 | | |
+|scCustomize |3.0.1 |1 | |1 |
+|SCdeconR |1.0.0 |1 | | |
+|scGate |1.6.2 |1 | | |
+|SCIntRuler |0.99.6 |1 | | |
+|scMappR |1.0.11 |1 | | |
+|scpi |2.2.6 |1 | | |
+|SCpubr |? | | | |
+|scRNAstat |0.1.1 |1 | | |
+|sectorgap |0.1.0 |1 | | |
+|SEERaBomb |2019.2 |1 | | |
+|semicmprskcoxmsm |0.2.0 |1 | | |
+|SensMap |0.7 |1 | | |
+|Seurat |5.2.0 |1 | | |
+|shinyTempSignal |0.0.8 |1 | | |
+|sievePH |1.1 |1 | | |
+|SiFINeT |1.13 |1 | | |
+|Signac |1.14.0 |1 | | |
+|SimplyAgree |0.2.0 |1 | | |
+|smer |? | | | |
+|SNPassoc |? | | | |
+|snplinkage |? | | | |
+|SoupX |1.6.2 |1 | | |
+|SpaCCI |1.0.3 |1 | | |
+|sparsereg |1.2 |1 | | |
+|spikeSlabGAM |1.1-20 |1 | | |
+|stabiliser |1.0.6 |1 | | |
+|statsr |0.3.0 |1 | | |
+|streamDAG |? | | | |
+|survex |? | | | |
+|survHE |? | | | |
+|survidm |1.3.2 |1 | | |
+|tempted |0.1.1 |1 | | |
+|TestAnaAPP |? | | | |
+|[tidydr](failures.md#tidydr)|0.0.5 |__+1__ | | |
+|tidyEdSurvey |0.1.3 |1 | | |
+|tidyseurat |0.8.0 |1 | | |
+|tidyvpc |1.5.2 |1 | | |
+|tinyarray |? | | | |
+|treeclim |2.0.7.1 |1 | | |
+|TriDimRegression |1.0.2 |1 | | |
+|TSrepr |1.1.0 |1 | | |
+|twang |2.6.1 |1 | | |
+|vdg |1.2.3 |1 | | |
+|VecDep |? | | | |
+|visa |0.1.0 |1 | | |
+|VisualizeSimon2Stage |? | | | |
+|WRTDStidal |1.1.4 |1 | | |
+|xxdi |? | | | |
-## New problems (469)
+## New problems (362)
-|package |version |error |warning |note |
-|:---------------------|:---------|:--------|:-------|:--------|
-|[activAnalyzer](problems.md#activanalyzer)|2.1.1 |__+1__ | |1 __+1__ |
-|[actxps](problems.md#actxps)|1.5.0 |__+1__ | |__+1__ |
-|[adaptr](problems.md#adaptr)|1.4.0 |__+3__ | |__+1__ |
-|[AeRobiology](problems.md#aerobiology)|2.0.1 |1 | |__+1__ |
-|[agricolaeplotr](problems.md#agricolaeplotr)|0.5.0 |__+1__ | | |
-|[alien](problems.md#alien)|1.0.2 |__+1__ | |__+1__ |
-|[AlphaPart](problems.md#alphapart)|0.9.8 |1 __+1__ | | |
-|[AnalysisLin](problems.md#analysislin)|0.1.2 |__+1__ | | |
-|[animbook](problems.md#animbook)|1.0.0 |__+1__ | | |
-|[ANN2](problems.md#ann2)|2.3.4 |__+1__ | |3 |
-|[AnnoProbe](problems.md#annoprobe)|0.1.7 |__+1__ | | |
-|[ANOFA](problems.md#anofa)|0.1.3 |__+3__ | |__+1__ |
-|[ANOPA](problems.md#anopa)|0.1.3 |__+3__ | |__+1__ |
-|[AntMAN](problems.md#antman)|1.1.0 |__+2__ | |3 |
-|[APCI](problems.md#apci)|1.0.8 |__+1__ | | |
-|[aplot](problems.md#aplot)|0.2.3 |__+1__ | | |
-|[applicable](problems.md#applicable)|0.1.1 |__+1__ | | |
-|[ASRgenomics](problems.md#asrgenomics)|1.1.4 |__+2__ | |1 |
-|[autocogs](problems.md#autocogs)|0.1.4 |__+1__ | |1 |
-|[autoplotly](problems.md#autoplotly)|0.1.4 |__+2__ | | |
-|[autoReg](problems.md#autoreg)|0.3.3 |__+2__ | |__+1__ |
-|[baggr](problems.md#baggr)|0.7.8 |__+3__ | |2 __+1__ |
-|[banter](problems.md#banter)|0.9.6 |__+1__ | | |
-|[bartMan](problems.md#bartman)|0.1.1 |__+1__ | | |
-|[BasketballAnalyzeR](problems.md#basketballanalyzer)|0.5.0 |__+1__ | |2 |
-|[bayefdr](problems.md#bayefdr)|0.2.1 |__+2__ | | |
-|[bayesAB](problems.md#bayesab)|1.1.3 |__+1__ | | |
-|[BayesGrowth](problems.md#bayesgrowth)|1.0.0 |__+1__ | |2 __+1__ |
-|[BayesianReasoning](problems.md#bayesianreasoning)|0.4.2 |__+2__ | |__+1__ |
-|[BayesMallows](problems.md#bayesmallows)|2.2.2 |__+1__ | |1 |
-|[bayesplay](problems.md#bayesplay)|0.9.3 |__+2__ | |__+1__ |
-|[bayesplot](problems.md#bayesplot)|1.11.1 |1 __+2__ | |1 |
-|[bayestestR](problems.md#bayestestr)|0.14.0 |1 __+1__ | | |
-|[BCEA](problems.md#bcea)|2.4.6 |__+3__ | |__+1__ |
-|[BDgraph](problems.md#bdgraph)|2.73 |__+1__ | |1 __+1__ |
-|[BEAMR](problems.md#beamr)|1.1.0 |__+1__ | | |
-|[beastt](problems.md#beastt)|0.0.1 |__+2__ | |__+1__ |
-|[BeeGUTS](problems.md#beeguts)|1.1.3 |__+2__ | |2 __+1__ |
-|[besthr](problems.md#besthr)|0.3.2 |__+2__ | |__+1__ |
-|[betaclust](problems.md#betaclust)|1.0.3 |__+1__ | |__+1__ |
-|[biclustermd](problems.md#biclustermd)|0.2.3 |__+1__ | |1 |
-|[biodosetools](problems.md#biodosetools)|3.6.1 |__+1__ | | |
-|[BioPred](problems.md#biopred)|1.0.1 |__+1__ | |__+1__ |
-|[BlandAltmanLeh](problems.md#blandaltmanleh)|0.3.1 |__+1__ | | |
-|[bmggum](problems.md#bmggum)|0.1.0 |__+1__ | |3 |
-|[boxly](problems.md#boxly)|0.1.1 |__+1__ | | |
-|[braidReports](problems.md#braidreports)|0.5.4 |__+1__ | | |
-|[BRcal](problems.md#brcal)|0.0.4 |__+2__ | |__+1__ |
-|[breathtestcore](problems.md#breathtestcore)|0.8.7 |__+1__ | | |
-|[brolgar](problems.md#brolgar)|1.0.1 |1 __+1__ | |1 |
-|[calibrationband](problems.md#calibrationband)|0.2.1 |__+1__ | | |
-|[cartograflow](problems.md#cartograflow)|1.0.5 |__+1__ | | |
-|[cases](problems.md#cases)|0.1.1 |__+1__ | |__+1__ |
-|[cats](problems.md#cats)|1.0.2 |__+1__ | |1 |
-|[ceterisParibus](problems.md#ceterisparibus)|0.4.2 |__+1__ | |2 |
-|[cfda](problems.md#cfda)|0.11.0 |__+3__ | |__+1__ |
-|[cheem](problems.md#cheem)|0.4.0.0 |1 __+1__ | | |
-|[chillR](problems.md#chillr)|0.75 |__+1__ | | |
-|[chronicle](problems.md#chronicle)|0.3 |__+2__ | |1 __+1__ |
-|[CINNA](problems.md#cinna)|1.2.2 |__+2__ | |1 __+1__ |
-|[circhelp](problems.md#circhelp)|1.1 |__+2__ | |__+1__ |
-|[clifro](problems.md#clifro)|3.2-5 |__+1__ | | |
-|[clinDataReview](problems.md#clindatareview)|1.6.1 |__+2__ | |1 __+1__ |
-|[clinUtils](problems.md#clinutils)|0.2.0 |__+1__ |-1 |1 __+1__ |
-|[cloneRate](problems.md#clonerate)|0.2.3 |__+1__ | |2 __+1__ |
-|[clustEff](problems.md#clusteff)|0.3.1 |__+1__ | | |
-|[ClustImpute](problems.md#clustimpute)|0.2.4 |__+1__ | |1 |
-|[cmstatr](problems.md#cmstatr)|0.9.3 |__+3__ | |__+1__ |
-|[codaredistlm](problems.md#codaredistlm)|0.1.0 |__+1__ | | |
-|[coefplot](problems.md#coefplot)|1.2.8 |__+1__ | | |
-|[CohortPlat](problems.md#cohortplat)|1.0.5 |__+2__ | |__+1__ |
-|[complmrob](problems.md#complmrob)|0.7.0 |__+1__ | | |
-|[conjoint](problems.md#conjoint)|1.41 |__+1__ | | |
-|[conquestr](problems.md#conquestr)|1.3.4 |__+1__ | |__+1__ |
-|[CoreMicrobiomeR](problems.md#coremicrobiomer)|0.1.0 |__+1__ | | |
-|[correlationfunnel](problems.md#correlationfunnel)|0.2.0 |__+1__ | |1 |
-|[corrViz](problems.md#corrviz)|0.1.0 |__+2__ | |1 __+1__ |
-|[corx](problems.md#corx)|1.0.7.2 |__+1__ | | |
-|[cosinor2](problems.md#cosinor2)|0.2.1 |__+2__ | |__+1__ |
-|[CoSMoS](problems.md#cosmos)|2.1.0 |__+1__ | |__+1__ |
-|[countfitteR](problems.md#countfitter)|1.4 |__+1__ | | |
-|[coursekata](problems.md#coursekata)|0.18.0 |__+2__ | | |
-|[covidcast](problems.md#covidcast)|0.5.2 |__+2__ | |1 __+1__ |
-|[Coxmos](problems.md#coxmos)|1.0.2 |1 __+1__ | |1 |
-|[cpr](problems.md#cpr)|0.4.0 |1 __+1__ | |1 __+1__ |
-|[cpsvote](problems.md#cpsvote)|0.1.0 |__+1__ | | |
-|[crimeutils](problems.md#crimeutils)|0.5.1 |__+1__ | | |
-|[crmPack](problems.md#crmpack)|1.0.6 |__+2__ | |1 |
-|[crosshap](problems.md#crosshap)|1.4.0 |__+1__ | | |
-|[ctrialsgov](problems.md#ctrialsgov)|0.2.5 |__+1__ | |1 |
-|[cubble](problems.md#cubble)|1.0.0 |__+1__ | |1 __+1__ |
-|[curtailment](problems.md#curtailment)|0.2.6 |__+1__ | | |
-|[dabestr](problems.md#dabestr)|2023.9.12 |__+1__ | |__+1__ |
-|[DAISIEprep](problems.md#daisieprep)|0.4.0 |__+1__ | | |
-|[dbmss](problems.md#dbmss)|2.9-2 |__+2__ | |__+1__ |
-|[deeptime](problems.md#deeptime)|2.0.0 |__+2__ | |1 __+1__ |
-|[descriptio](problems.md#descriptio)|1.3 |__+1__ | |1 |
-|[directlabels](problems.md#directlabels)|2024.1.21 |__+1__ | |__+1__ |
-|[disto](problems.md#disto)|0.2.0 |__+2__ | |1 __+1__ |
-|[distributional](problems.md#distributional)|0.4.0 |__+1__ | | |
-|[dittoViz](problems.md#dittoviz)|1.0.1 |__+2__ | | |
-|[dotwhisker](problems.md#dotwhisker)|0.8.2 |__+2__ | |__+1__ |
-|[DRomics](problems.md#dromics)|2.5-2 |1 __+1__ | |1 __+1__ |
-|[dtwclust](problems.md#dtwclust)|6.0.0 |__+1__ |1 |2 |
-|[duke](problems.md#duke)|0.0.3 |__+1__ | | |
-|[easysurv](problems.md#easysurv)|2.0.1 |__+2__ | |__+1__ |
-|[EGAnet](problems.md#eganet)|2.0.7 |__+1__ | |1 |
-|[EGM](problems.md#egm)|0.1.0 |__+1__ | | |
-|[emmeans](problems.md#emmeans)|1.10.4 |1 __+1__ | |2 |
-|[EMMIXmfa](problems.md#emmixmfa)|2.0.14 |__+1__ | | |
-|[entropart](problems.md#entropart)|1.6-15 |__+2__ | |__+1__ |
-|[EnvStats](problems.md#envstats)|3.0.0 |__+1__ | |1 |
-|[epiCleanr](problems.md#epicleanr)|0.2.0 |__+1__ | |1 |
-|[epiphy](problems.md#epiphy)|0.5.0 |__+1__ | | |
-|[EQUALSTATS](problems.md#equalstats)|0.4.0 |__+1__ | |1 |
-|[ergm.multi](problems.md#ergmmulti)|0.2.1 |__+2__ | |__+1__ |
-|[esci](problems.md#esci)|1.0.3 |__+2__ | | |
-|[evalITR](problems.md#evalitr)|1.0.0 |1 | |1 __+1__ |
-|[eventstudyr](problems.md#eventstudyr)|1.1.3 |__+1__ | | |
-|[EvoPhylo](problems.md#evophylo)|0.3.2 |1 __+1__ | |1 __+1__ |
-|[expirest](problems.md#expirest)|0.1.6 |__+1__ | | |
-|[explainer](problems.md#explainer)|1.0.1 |__+1__ | |1 |
-|[exuber](problems.md#exuber)|1.0.2 |__+1__ | |__+1__ |
-|[ezEDA](problems.md#ezeda)|0.1.1 |__+1__ | | |
-|[ezplot](problems.md#ezplot)|0.7.13 |__+1__ | | |
-|[fable.prophet](problems.md#fableprophet)|0.1.0 |__+1__ | |1 __+1__ |
-|[fabletools](problems.md#fabletools)|0.4.2 |__+2__ | | |
-|[factoextra](problems.md#factoextra)|1.0.7 |__+1__ | | |
-|[fairmodels](problems.md#fairmodels)|1.2.1 |__+1__ | | |
-|[fastR2](problems.md#fastr2)|1.2.4 |__+1__ | |1 |
-|[faux](problems.md#faux)|1.2.1 |3 | |__+1__ |
-|[fddm](problems.md#fddm)|1.0-2 |__+1__ | |1 |
-|[feasts](problems.md#feasts)|0.3.2 |__+1__ | | |
-|[fergm](problems.md#fergm)|1.1.4 |__+1__ | | |
-|[ffp](problems.md#ffp)|0.2.2 |__+1__ | | |
-|[fic](problems.md#fic)|1.0.0 |__+1__ | |2 |
-|[fido](problems.md#fido)|1.1.1 |1 __+2__ | |2 |
-|[fitdistrplus](problems.md#fitdistrplus)|1.2-1 |__+3__ | |__+1__ |
-|[fitlandr](problems.md#fitlandr)|0.1.0 |__+1__ | | |
-|[flexsurv](problems.md#flexsurv)|2.3.2 |__+1__ | |2 |
-|[flipr](problems.md#flipr)|0.3.3 |1 | |1 __+1__ |
-|[FLOPART](problems.md#flopart)|2024.6.19 |__+1__ | |__+1__ |
-|[fmesher](problems.md#fmesher)|0.1.7 |__+2__ | |1 __+1__ |
-|[fmf](problems.md#fmf)|1.1.1 |__+1__ | |1 |
-|[forestly](problems.md#forestly)|0.1.1 |__+1__ | |__+1__ |
-|[FossilSim](problems.md#fossilsim)|2.4.0 |__+1__ | | |
-|[FPDclustering](problems.md#fpdclustering)|2.3.1 |__+1__ | | |
-|[frailtyEM](problems.md#frailtyem)|1.0.1 |__+1__ | |2 |
-|[funcharts](problems.md#funcharts)|1.5.0 |__+1__ | | |
-|[FunnelPlotR](problems.md#funnelplotr)|0.5.0 |__+2__ | |__+1__ |
-|[genekitr](problems.md#genekitr)|1.2.8 |__+1__ | | |
-|[geoheatmap](problems.md#geoheatmap)|0.1.0 |__+1__ | |__+1__ |
-|[geomtextpath](problems.md#geomtextpath)|0.1.4 |__+2__ | | |
-|[geostan](problems.md#geostan)|0.6.2 |__+1__ | |3 |
-|[GGally](problems.md#ggally)|2.2.1 |__+2__ | | |
-|[gganimate](problems.md#gganimate)|1.0.9 |__+2__ | |__+1__ |
-|[ggbrain](problems.md#ggbrain)|0.8.1 |__+1__ | |1 __+1__ |
-|[ggbreak](problems.md#ggbreak)|0.1.2 |__+2__ | |__+1__ |
-|[ggcharts](problems.md#ggcharts)|0.2.1 |__+3__ | |__+1__ |
-|[ggdark](problems.md#ggdark)|0.2.1 |__+2__ | |1 |
-|[ggdist](problems.md#ggdist)|3.3.2 |1 __+2__ | |1 __+1__ |
-|[ggeasy](problems.md#ggeasy)|0.1.4 |__+3__ | |__+1__ |
-|[ggedit](problems.md#ggedit)|0.4.1 |__+1__ | | |
-|[ggESDA](problems.md#ggesda)|0.2.0 |__+2__ | |__+1__ |
-|[ggExtra](problems.md#ggextra)|0.10.1 |__+1__ | |1 __+1__ |
-|[ggfacto](problems.md#ggfacto)|0.3.1 |__+1__ | | |
-|[ggfixest](problems.md#ggfixest)|0.1.0 |1 __+1__ | | |
-|[ggfocus](problems.md#ggfocus)|1.0.0 |__+1__ | |1 __+1__ |
-|[ggforce](problems.md#ggforce)|0.4.2 |__+1__ | |1 |
-|[ggformula](problems.md#ggformula)|0.12.0 |__+3__ |__+1__ |1 __+1__ |
-|[ggfortify](problems.md#ggfortify)|0.4.17 |__+3__ | |__+1__ |
-|[gggenomes](problems.md#gggenomes)|1.0.1 |__+2__ | |__+1__ |
-|[ggh4x](problems.md#ggh4x)|0.2.8 |1 __+1__ | |__+1__ |
-|[gghighlight](problems.md#gghighlight)|0.4.1 |__+3__ | |__+1__ |
-|[ggHoriPlot](problems.md#gghoriplot)|1.0.1 |__+1__ | |__+1__ |
-|[ggiraph](problems.md#ggiraph)|0.8.10 |__+2__ | |1 |
-|[ggiraphExtra](problems.md#ggiraphextra)|0.3.0 |__+2__ | |__+1__ |
-|[ggmatplot](problems.md#ggmatplot)|0.1.2 |__+3__ | |__+1__ |
-|[ggmice](problems.md#ggmice)|0.1.0 |__+1__ | |__+1__ |
-|[ggmulti](problems.md#ggmulti)|1.0.7 |__+3__ | |__+1__ |
-|[ggpackets](problems.md#ggpackets)|0.2.1 |__+3__ | |__+1__ |
-|[ggparallel](problems.md#ggparallel)|0.4.0 |__+1__ | | |
-|[ggparty](problems.md#ggparty)|1.0.0 |__+2__ | |2 __+1__ |
-|[ggpicrust2](problems.md#ggpicrust2)|1.7.3 |__+1__ | |2 |
-|[ggplotlyExtra](problems.md#ggplotlyextra)|0.0.1 |__+1__ | |1 |
-|[ggPMX](problems.md#ggpmx)|1.2.11 |__+2__ | |2 __+1__ |
-|[ggpol](problems.md#ggpol)|0.0.7 |__+1__ | |2 |
-|[ggprism](problems.md#ggprism)|1.0.5 |__+3__ | |__+1__ |
-|[ggpubr](problems.md#ggpubr)|0.6.0 |__+2__ | | |
-|[ggrain](problems.md#ggrain)|0.0.4 |__+2__ | |__+1__ |
-|[ggraph](problems.md#ggraph)|2.2.1 |1 __+1__ | |1 __+1__ |
-|[ggredist](problems.md#ggredist)|0.0.2 |__+1__ | | |
-|[ggRtsy](problems.md#ggrtsy)|0.1.0 |__+2__ | |1 __+1__ |
-|[ggseqplot](problems.md#ggseqplot)|0.8.4 |__+3__ | |__+1__ |
-|[ggside](problems.md#ggside)|0.3.1 |__+1__ |__+1__ | |
-|[ggsmc](problems.md#ggsmc)|0.1.2.0 |__+1__ | |1 |
-|[ggspatial](problems.md#ggspatial)|1.1.9 |__+2__ | | |
-|[ggstatsplot](problems.md#ggstatsplot)|0.12.4 |1 __+1__ | | |
-|[ggtern](problems.md#ggtern)|3.5.0 |__+1__ | |2 |
-|[ggupset](problems.md#ggupset)|0.4.0 |__+1__ | | |
-|[ggVennDiagram](problems.md#ggvenndiagram)|1.5.2 |__+1__ | |1 __+1__ |
-|[GimmeMyPlot](problems.md#gimmemyplot)|0.1.0 |__+3__ | |__+1__ |
-|[giniVarCI](problems.md#ginivarci)|0.0.1-3 |__+1__ | |1 |
-|[gMCPLite](problems.md#gmcplite)|0.1.5 |__+1__ | |__+1__ |
-|[gMOIP](problems.md#gmoip)|1.5.2 |__+2__ | |__+1__ |
-|[GofCens](problems.md#gofcens)|1.1 |__+1__ | | |
-|[greatR](problems.md#greatr)|2.0.0 |__+1__ | |__+1__ |
-|[Greymodels](problems.md#greymodels)|2.0.1 |__+1__ | | |
-|[gsDesign](problems.md#gsdesign)|3.6.4 |__+3__ | |__+1__ |
-|[gtExtras](problems.md#gtextras)|0.5.0 |__+1__ | | |
-|[HaploCatcher](problems.md#haplocatcher)|1.0.4 |__+1__ | |__+1__ |
-|[healthyR](problems.md#healthyr)|0.2.2 |__+1__ | |1 __+1__ |
-|[healthyR.ts](problems.md#healthyrts)|0.3.0 |__+2__ | |1 __+1__ |
-|[heatmaply](problems.md#heatmaply)|1.5.0 |__+2__ | |1 __+1__ |
-|[hermiter](problems.md#hermiter)|2.3.1 |__+1__ | |2 __+1__ |
-|[heumilkr](problems.md#heumilkr)|0.2.0 |__+1__ | |__+1__ |
-|[hilldiv](problems.md#hilldiv)|1.5.1 |__+1__ | | |
-|[hmclearn](problems.md#hmclearn)|0.0.5 |__+1__ | | |
-|[HTLR](problems.md#htlr)|0.4-4 |__+1__ | |2 __+1__ |
-|[HVT](problems.md#hvt)|24.5.2 |__+1__ | | |
-|[hypsoLoop](problems.md#hypsoloop)|0.2.0 | |__+1__ | |
-|[ibdsim2](problems.md#ibdsim2)|2.1.1 |__+1__ | | |
-|[ICtest](problems.md#ictest)|0.3-5 |__+1__ | |1 |
-|[idiogramFISH](problems.md#idiogramfish)|2.0.13 |1 | |__+1__ |
-|[IDMIR](problems.md#idmir)|0.1.0 |__+2__ | |__+1__ |
-|[idopNetwork](problems.md#idopnetwork)|0.1.2 |__+1__ | |__+1__ |
-|[ihclust](problems.md#ihclust)|0.1.0 |__+1__ | | |
-|[immunarch](problems.md#immunarch)|0.9.1 |__+1__ | |1 |
-|[incidental](problems.md#incidental)|0.1 |__+1__ | |__+1__ |
-|[infer](problems.md#infer)|1.0.7 |__+3__ | |__+1__ |
-|[injurytools](problems.md#injurytools)|1.0.3 |__+1__ | |__+1__ |
-|[inlabru](problems.md#inlabru)|2.11.1 |1 __+1__ | |1 |
-|[insurancerating](problems.md#insurancerating)|0.7.4 |__+1__ | | |
-|[inTextSummaryTable](problems.md#intextsummarytable)|3.3.3 |__+2__ | |1 __+1__ |
-|[IPV](problems.md#ipv)|1.0.0 |__+2__ | |1 __+1__ |
-|[IRon](problems.md#iron)|0.1.4 |__+1__ | |1 |
-|[irt](problems.md#irt)|0.2.9 |__+1__ | |1 |
-|[isoorbi](problems.md#isoorbi)|1.3.1 |__+1__ | |1 __+1__ |
-|[ivDiag](problems.md#ivdiag)|1.0.6 |__+1__ | | |
-|[ivreg](problems.md#ivreg)|0.6-3 |__+1__ | |__+1__ |
-|[jarbes](problems.md#jarbes)|2.2.1 |__+1__ | |__+1__ |
-|[karel](problems.md#karel)|0.1.1 |__+2__ | |1 |
-|[kDGLM](problems.md#kdglm)|1.2.0 |1 __+1__ | | |
-|[KMEANS.KNN](problems.md#kmeansknn)|0.1.0 |__+2__ | | |
-|[latentcor](problems.md#latentcor)|2.0.1 |__+1__ | | |
-|[lcars](problems.md#lcars)|0.3.8 |__+2__ | | |
-|[lemon](problems.md#lemon)|0.4.9 |__+3__ | |__+1__ |
-|[lfproQC](problems.md#lfproqc)|0.2.0 |__+2__ | |1 __+1__ |
-|[lgpr](problems.md#lgpr)|1.2.4 |__+1__ | |2 |
-|[LightLogR](problems.md#lightlogr)|0.3.8 |__+1__ | | |
-|[LMoFit](problems.md#lmofit)|0.1.7 |__+1__ | |1 __+1__ |
-|[lnmixsurv](problems.md#lnmixsurv)|3.1.6 |__+2__ | |4 __+1__ |
-|[LocalControl](problems.md#localcontrol)|1.1.4 |__+1__ | |2 |
-|[LocalCop](problems.md#localcop)|0.0.1 |1 | |1 __+1__ |
-|[LongDat](problems.md#longdat)|1.1.2 |__+1__ | |__+1__ |
-|[longreadvqs](problems.md#longreadvqs)|0.1.3 |__+2__ | |__+1__ |
-|[lpdensity](problems.md#lpdensity)|2.4 |__+1__ | | |
-|[lspartition](problems.md#lspartition)|0.4 |__+1__ | |1 |
-|[LSTbook](problems.md#lstbook)|0.5.0 |1 __+1__ |1 |1 __+1__ |
-|[manydata](problems.md#manydata)|0.9.3 |__+1__ | |1 |
-|[manymome](problems.md#manymome)|0.2.2 |__+1__ | | |
-|[mapbayr](problems.md#mapbayr)|0.10.0 |__+1__ | | |
-|[MBNMAdose](problems.md#mbnmadose)|0.4.3 |__+1__ | |1 __+1__ |
-|[MBNMAtime](problems.md#mbnmatime)|0.2.4 |1 | |__+1__ |
-|[mecoturn](problems.md#mecoturn)|0.3.0 |__+1__ | | |
-|[MetaNet](problems.md#metanet)|0.1.2 |__+1__ | | |
-|[metR](problems.md#metr)|0.15.0 |__+3__ | |1 __+1__ |
-|[metrica](problems.md#metrica)|2.1.0 |__+1__ | |__+1__ |
-|[miceRanger](problems.md#miceranger)|1.5.0 |__+1__ | | |
-|[microbial](problems.md#microbial)|0.0.21 |__+2__ | |__+1__ |
-|[MicrobiomeSurv](problems.md#microbiomesurv)|0.1.0 |__+1__ | | |
-|[migraph](problems.md#migraph)|1.4.2 |__+1__ | | |
-|[mikropml](problems.md#mikropml)|1.6.1 |__+1__ | | |
-|[MiMIR](problems.md#mimir)|1.5 |__+1__ | | |
-|[miRetrieve](problems.md#miretrieve)|1.3.4 |__+1__ | | |
-|[MiscMetabar](problems.md#miscmetabar)|0.9.3 |__+2__ | | |
-|[misspi](problems.md#misspi)|0.1.0 |__+1__ | | |
-|[mixpoissonreg](problems.md#mixpoissonreg)|1.0.0 |__+3__ | |__+1__ |
-|[mizer](problems.md#mizer)|2.5.1 |__+1__ | |1 |
-|[mlr3spatiotempcv](problems.md#mlr3spatiotempcv)|2.3.1 |1 __+1__ | |1 |
-|[mlr3viz](problems.md#mlr3viz)|0.9.0 |__+2__ | | |
-|[modeltime.resample](problems.md#modeltimeresample)|0.2.3 |__+1__ | |1 |
-|[moreparty](problems.md#moreparty)|0.4 |__+1__ | |__+1__ |
-|[mosaicCalc](problems.md#mosaiccalc)|0.6.4 |__+2__ | |1 __+1__ |
-|[mosaicData](problems.md#mosaicdata)|0.20.4 |__+1__ | |1 |
-|[mosaicModel](problems.md#mosaicmodel)|0.3.0 |__+1__ | |1 __+1__ |
-|[mppR](problems.md#mppr)|1.5.0 |__+1__ | |__+1__ |
-|[MSCMT](problems.md#mscmt)|1.4.0 |__+1__ | |__+1__ |
-|[mstate](problems.md#mstate)|0.3.3 |__+2__ | |1 |
-|[mtb](problems.md#mtb)|0.1.8 |__+1__ | | |
-|[mulgar](problems.md#mulgar)|1.0.2 |__+1__ | |1 |
-|[MultivariateAnalysis](problems.md#multivariateanalysis)|0.5.0 |__+1__ | | |
-|[mxfda](problems.md#mxfda)|0.2.1 | | |__+1__ |
-|[neatmaps](problems.md#neatmaps)|2.1.0 |__+1__ | |1 |
-|[neatStats](problems.md#neatstats)|1.13.3 |__+1__ | | |
-|[netcom](problems.md#netcom)|2.1.7 |__+1__ | |1 __+1__ |
-|[NetFACS](problems.md#netfacs)|0.5.0 |__+2__ | | |
-|[neuroUp](problems.md#neuroup)|0.3.1 |__+3__ | |__+1__ |
-|[NHSRplotthedots](problems.md#nhsrplotthedots)|0.1.0 |__+1__ | |1 |
-|[nichetools](problems.md#nichetools)|0.3.1 |__+1__ | |__+1__ |
-|[NIMAA](problems.md#nimaa)|0.2.1 |__+3__ | |2 __+1__ |
-|[nonmem2R](problems.md#nonmem2r)|0.2.5 |__+2__ | |__+1__ |
-|[nphRCT](problems.md#nphrct)|0.1.1 |__+1__ | |__+1__ |
-|[nprobust](problems.md#nprobust)|0.4.0 |__+1__ | |1 |
-|[nzelect](problems.md#nzelect)|0.4.0 |__+2__ | |2 __+1__ |
-|[OBIC](problems.md#obic)|3.0.3 |__+1__ | |1 __+1__ |
-|[oceanic](problems.md#oceanic)|0.1.7 |__+1__ | |2 |
-|[oddsratio](problems.md#oddsratio)|2.0.1 |__+2__ | |1 __+1__ |
-|[ofpetrial](problems.md#ofpetrial)|0.1.1 |__+1__ | | |
-|[OmicNavigator](problems.md#omicnavigator)|1.13.13 |__+1__ | |1 |
-|[omu](problems.md#omu)|1.1.2 |1 __+1__ | |__+1__ |
-|[OncoBayes2](problems.md#oncobayes2)|0.8-9 |__+1__ | |2 |
-|[oncomsm](problems.md#oncomsm)|0.1.4 |__+2__ | |2 __+1__ |
-|[OneSampleLogRankTest](problems.md#onesamplelogranktest)|0.9.2 |__+2__ | |__+1__ |
-|[onpoint](problems.md#onpoint)|1.0.5 |__+1__ | | |
-|[ordbetareg](problems.md#ordbetareg)|0.7.2 |__+1__ | |2 |
-|[packcircles](problems.md#packcircles)|0.3.6 |__+1__ | |__+1__ |
-|[pafr](problems.md#pafr)|0.0.2 |__+1__ | |1 |
-|[patchwork](problems.md#patchwork)|1.2.0 |__+1__ | | |
-|[pathviewr](problems.md#pathviewr)|1.1.7 |__+1__ | | |
-|[patientProfilesVis](problems.md#patientprofilesvis)|2.0.9 |1 __+1__ | |1 __+1__ |
-|[PCADSC](problems.md#pcadsc)|0.8.0 |__+1__ | |3 |
-|[pcutils](problems.md#pcutils)|0.2.6 |__+1__ | | |
-|[pdxTrees](problems.md#pdxtrees)|0.4.0 |__+1__ | |1 __+1__ |
-|[personalized](problems.md#personalized)|0.2.7 |__+1__ | | |
-|[phyloseqGraphTest](problems.md#phyloseqgraphtest)|0.1.1 |__+2__ | |__+1__ |
-|[PieGlyph](problems.md#pieglyph)|1.0.0 |1 __+2__ | |__+1__ |
-|[Plasmidprofiler](problems.md#plasmidprofiler)|0.1.6 |__+1__ | | |
-|[platetools](problems.md#platetools)|0.1.7 |__+1__ | | |
-|[PLNmodels](problems.md#plnmodels)|1.2.0 |__+1__ | |1 __+1__ |
-|[plotBart](problems.md#plotbart)|0.1.7 |__+1__ | | |
-|[plotDK](problems.md#plotdk)|0.1.0 |__+1__ | |2 |
-|[plotly](problems.md#plotly)|4.10.4 |__+2__ | |1 |
-|[pmartR](problems.md#pmartr)|2.4.5 |__+1__ | |1 |
-|[pmxTools](problems.md#pmxtools)|1.3 |__+1__ | |1 |
-|[posterior](problems.md#posterior)|1.6.0 |1 | |__+1__ |
-|[PPQplan](problems.md#ppqplan)|1.1.0 |1 | |2 __+1__ |
-|[ppseq](problems.md#ppseq)|0.2.5 |__+1__ | |1 __+1__ |
-|[PPtreeregViz](problems.md#pptreeregviz)|2.0.5 |__+2__ | |1 __+1__ |
-|[precintcon](problems.md#precintcon)|2.3.0 |__+1__ | | |
-|[precrec](problems.md#precrec)|0.14.4 |__+1__ | |1 __+1__ |
-|[priorsense](problems.md#priorsense)|1.0.2 |__+2__ | |__+1__ |
-|[probably](problems.md#probably)|1.0.3 |__+1__ | | |
-|[processmapR](problems.md#processmapr)|0.5.5 |__+1__ | | |
-|[projpred](problems.md#projpred)|2.8.0 |1 __+2__ | |1 |
-|[psborrow](problems.md#psborrow)|0.2.1 |__+1__ | | |
-|[pubh](problems.md#pubh)|1.3.7 |1 __+1__ | |__+1__ |
-|[PUPMSI](problems.md#pupmsi)|0.1.0 |__+1__ | | |
-|[qacBase](problems.md#qacbase)|1.0.3 |__+1__ | | |
-|[qPCRhelper](problems.md#qpcrhelper)|0.1.0 |__+2__ | |__+1__ |
-|[r2dii.plot](problems.md#r2diiplot)|0.4.0 |__+1__ | | |
-|[r2spss](problems.md#r2spss)|0.3.2 |__+2__ | |1 |
-|[radiant.basics](problems.md#radiantbasics)|1.6.6 |__+1__ | | |
-|[radiant.data](problems.md#radiantdata)|1.6.6 |__+1__ | | |
-|[radiant.model](problems.md#radiantmodel)|1.6.6 |__+1__ | | |
-|[Radviz](problems.md#radviz)|0.9.3 |__+2__ | |__+1__ |
-|[randomForestExplainer](problems.md#randomforestexplainer)|0.10.1 |__+3__ | |1 __+1__ |
-|[rassta](problems.md#rassta)|1.0.6 |__+3__ | | |
-|[rater](problems.md#rater)|1.3.1 |__+1__ | |2 |
-|[RBesT](problems.md#rbest)|1.7-3 |__+2__ | |2 __+1__ |
-|[rddensity](problems.md#rddensity)|2.5 |__+1__ | | |
-|[RecordTest](problems.md#recordtest)|2.2.0 |__+2__ | |__+1__ |
-|[reda](problems.md#reda)|0.5.4 |__+2__ | |2 __+1__ |
-|[redist](problems.md#redist)|4.2.0 |__+1__ | |1 __+1__ |
-|[registr](problems.md#registr)|2.1.0 |2 __+1__ | |2 __+1__ |
-|[reliabilitydiag](problems.md#reliabilitydiag)|0.2.1 |__+1__ | | |
-|[relliptical](problems.md#relliptical)|1.3.0 |__+1__ | |1 |
-|[reportRmd](problems.md#reportrmd)|0.1.0 |__+2__ | |__+1__ |
-|[reservr](problems.md#reservr)|0.0.3 |1 __+1__ | |2 __+1__ |
-|[RestoreNet](problems.md#restorenet)|1.0.1 |__+1__ |1 | |
-|[rfPermute](problems.md#rfpermute)|2.5.2 |__+1__ | | |
-|[RKorAPClient](problems.md#rkorapclient)|0.8.1 |__+1__ | | |
-|[roahd](problems.md#roahd)|1.4.3 |__+1__ | |1 |
-|[robCompositions](problems.md#robcompositions)|2.4.1 |__+1__ | |3 |
-|[romic](problems.md#romic)|1.1.3 |__+2__ | | |
-|[roptions](problems.md#roptions)|1.0.3 |__+1__ | |1 |
-|[rSAFE](problems.md#rsafe)|0.1.4 |__+2__ | |__+1__ |
-|[santaR](problems.md#santar)|1.2.4 |1 __+1__ | | |
-|[saros](problems.md#saros)|1.2.0 |__+2__ | | |
-|[scatterpie](problems.md#scatterpie)|0.2.4 |__+2__ | |__+1__ |
-|[scdtb](problems.md#scdtb)|0.1.0 |__+1__ | | |
-|[scoringutils](problems.md#scoringutils)|1.2.2 |1 __+1__ | |__+1__ |
-|[scUtils](problems.md#scutils)|0.1.0 |__+1__ | |1 |
-|[SCVA](problems.md#scva)|1.3.1 |__+1__ | | |
-|[sdmTMB](problems.md#sdmtmb)|0.6.0 |__+1__ | |1 |
-|[SDMtune](problems.md#sdmtune)|1.3.1 |1 __+1__ | | |
-|[sedproxy](problems.md#sedproxy)|0.7.5 |__+2__ | |__+1__ |
-|[see](problems.md#see)|0.9.0 |__+1__ | | |
-|[seedreg](problems.md#seedreg)|1.0.3 |__+1__ | | |
-|[semfindr](problems.md#semfindr)|0.1.8 |__+3__ | |__+1__ |
-|[sensiPhy](problems.md#sensiphy)|0.8.5 |1 __+1__ | | |
-|[sglg](problems.md#sglg)|0.2.2 |__+1__ | | |
-|[sgsR](problems.md#sgsr)|1.4.5 |__+1__ | | |
-|[SHAPforxgboost](problems.md#shapforxgboost)|0.1.3 |__+1__ | | |
-|[ShapleyOutlier](problems.md#shapleyoutlier)|0.1.1 |__+2__ | |__+1__ |
-|[shinipsum](problems.md#shinipsum)|0.1.1 |__+1__ | | |
-|[signatureSurvival](problems.md#signaturesurvival)|1.0.0 |__+1__ | |1 |
-|[SimCorrMix](problems.md#simcorrmix)|0.1.1 |__+2__ | |3 __+1__ |
-|[SimMultiCorrData](problems.md#simmulticorrdata)|0.2.2 |__+1__ | |1 __+1__ |
-|[SimNPH](problems.md#simnph)|0.5.5 |__+1__ | | |
-|[slendr](problems.md#slendr)|0.9.1 |1 __+1__ | |1 |
-|[smallsets](problems.md#smallsets)|2.0.0 |__+2__ | |1 __+1__ |
-|[spinifex](problems.md#spinifex)|0.3.7.0 |__+1__ | | |
-|[sport](problems.md#sport)|0.2.1 |__+1__ | |1 |
-|[spotoroo](problems.md#spotoroo)|0.1.4 |__+2__ | |1 __+1__ |
-|[SqueakR](problems.md#squeakr)|1.3.0 |1 | |1 __+1__ |
-|[stability](problems.md#stability)|0.5.0 |__+1__ | | |
-|[statgenGWAS](problems.md#statgengwas)|1.0.9 |__+1__ | |2 |
-|[statgenHTP](problems.md#statgenhtp)|1.0.6.1 |__+3__ | |2 __+1__ |
-|[sugrrants](problems.md#sugrrants)|0.2.9 |__+2__ | |__+1__ |
-|[superb](problems.md#superb)|0.95.15 |__+3__ | |__+1__ |
-|[surveyexplorer](problems.md#surveyexplorer)|0.2.0 |__+1__ | | |
-|[survivalAnalysis](problems.md#survivalanalysis)|0.3.0 |1 __+1__ | |__+1__ |
-|[survminer](problems.md#survminer)|0.4.9 |__+3__ | |1 __+1__ |
-|[survParamSim](problems.md#survparamsim)|0.1.6 |__+1__ | |__+1__ |
-|[survstan](problems.md#survstan)|0.0.7.1 |__+1__ | |3 __+1__ |
-|[SVMMaj](problems.md#svmmaj)|0.2.9.2 |__+2__ | |1 |
-|[Sysrecon](problems.md#sysrecon)|0.1.3 |__+1__ | |1 |
-|[tabledown](problems.md#tabledown)|1.0.0 |__+1__ | |1 |
-|[tcgaViz](problems.md#tcgaviz)|1.0.2 |__+1__ | |__+1__ |
-|[TCIU](problems.md#tciu)|1.2.6 |__+2__ | |1 __+1__ |
-|[tcpl](problems.md#tcpl)|3.1.0 |1 __+1__ | | |
-|[tern](problems.md#tern)|0.9.5 |__+1__ | |1 |
-|[thematic](problems.md#thematic)|0.1.6 |__+2__ | | |
-|[Thermistor](problems.md#thermistor)|1.1.0 |__+1__ | | |
-|[tidybayes](problems.md#tidybayes)|3.0.6 |2 __+1__ | | |
-|[tidycat](problems.md#tidycat)|0.1.2 |__+2__ | |1 __+1__ |
-|[tidyCDISC](problems.md#tidycdisc)|0.2.1 |__+1__ | |1 |
-|[tidysdm](problems.md#tidysdm)|0.9.5 |__+1__ | |1 __+1__ |
-|[tidySEM](problems.md#tidysem)|0.2.7 |__+3__ | |__+1__ |
-|[tidytreatment](problems.md#tidytreatment)|0.2.2 |__+1__ | |1 __+1__ |
-|[timeplyr](problems.md#timeplyr)|0.8.2 |__+1__ | | |
-|[timetk](problems.md#timetk)|2.9.0 |__+1__ | |1 |
-|[tinyarray](problems.md#tinyarray)|2.4.2 |__+1__ | |1 |
-|[tipmap](problems.md#tipmap)|0.5.2 |__+1__ | |__+1__ |
-|[tornado](problems.md#tornado)|0.1.3 |__+3__ | |__+1__ |
-|[TOSTER](problems.md#toster)|0.8.3 |__+3__ | |__+1__ |
-|[TreatmentPatterns](problems.md#treatmentpatterns)|2.6.9 |__+1__ | | |
-|[TreatmentSelection](problems.md#treatmentselection)|2.1.1 |__+1__ | | |
-|[TreeDep](problems.md#treedep)|0.1.3 |__+1__ | | |
-|[TreeDist](problems.md#treedist)|2.9.1 |__+1__ | |1 __+1__ |
-|[treeheatr](problems.md#treeheatr)|0.2.1 |__+2__ | |__+1__ |
-|[trelliscopejs](problems.md#trelliscopejs)|0.2.6 |__+1__ | | |
-|[tricolore](problems.md#tricolore)|1.2.4 |__+2__ | |1 __+1__ |
-|[triptych](problems.md#triptych)|0.1.3 |__+1__ | | |
-|[tsnet](problems.md#tsnet)|0.1.0 |__+1__ | |2 |
-|[UBayFS](problems.md#ubayfs)|1.0 |__+1__ | |__+1__ |
-|[Umatrix](problems.md#umatrix)|4.0.1 |__+1__ | | |
-|[umiAnalyzer](problems.md#umianalyzer)|1.0.0 |__+1__ | | |
-|[UnalR](problems.md#unalr)|1.0.0 |__+2__ | |2 |
-|[unmconf](problems.md#unmconf)|1.0.0 |__+1__ | |__+1__ |
-|[usmap](problems.md#usmap)|0.7.1 |__+3__ | |1 __+1__ |
-|[vannstats](problems.md#vannstats)|1.3.4.14 |__+1__ | | |
-|[vDiveR](problems.md#vdiver)|1.2.1 |__+1__ | |1 |
-|[venn](problems.md#venn)|1.12 |__+1__ | | |
-|[vimpclust](problems.md#vimpclust)|0.1.0 |__+1__ | |1 __+1__ |
-|[vip](problems.md#vip)|0.4.1 |__+2__ | |2 |
-|[VirtualPop](problems.md#virtualpop)|2.0.2 |__+1__ | |__+1__ |
-|[viscomp](problems.md#viscomp)|1.0.0 |__+1__ | | |
-|[vivaldi](problems.md#vivaldi)|1.0.1 |__+3__ | |1 __+1__ |
-|[voiceR](problems.md#voicer)|0.1.0 |__+2__ | |1 |
-|[volcano3D](problems.md#volcano3d)|2.0.9 |__+2__ | |__+1__ |
-|[voluModel](problems.md#volumodel)|0.2.2 |1 __+1__ | |__+1__ |
-|[vsd](problems.md#vsd)|0.1.0 |__+1__ | |1 |
-|[vvshiny](problems.md#vvshiny)|0.1.1 |__+1__ | | |
-|[walker](problems.md#walker)|1.0.10 |__+1__ | |2 __+1__ |
-|[WVPlots](problems.md#wvplots)|1.3.8 |__+3__ | |__+1__ |
-|[xaringanthemer](problems.md#xaringanthemer)|0.4.2 |1 __+1__ | | |
-|[yamlet](problems.md#yamlet)|1.0.3 |__+2__ | |1 |
+|package |version |error |warning |note |
+|:--------------------|:----------|:--------|:--------|:--------|
+|[actxps](problems.md#actxps)|1.6.0 |__+1__ | |__+1__ |
+|[adklakedata](problems.md#adklakedata)|0.6.1 |__+1__ | |1 |
+|[AdverseEvents](problems.md#adverseevents)|0.0.4 | |__+1__ | |
+|[adw](problems.md#adw)|0.4.0 |__+2__ | |__+1__ |
+|[AeRobiology](problems.md#aerobiology)|2.0.1 |__+1__ | |__+1__ |
+|[agricolaeplotr](problems.md#agricolaeplotr)|0.5.0 |__+1__ | | |
+|[AmpliconDuo](problems.md#ampliconduo)|1.1.1 |__+1__ | | |
+|[AnalysisLin](problems.md#analysislin)|0.1.2 |__+1__ | | |
+|[animbook](problems.md#animbook)|1.0.0 |__+1__ | | |
+|[ANN2](problems.md#ann2)|2.3.4 |__+1__ | |3 |
+|[APCtools](problems.md#apctools)|1.0.4 |__+3__ | |__+1__ |
+|[applicable](problems.md#applicable)|0.1.1 |__+1__ | | |
+|[asmbPLS](problems.md#asmbpls)|1.0.0 | |__+1__ |1 |
+|[autocogs](problems.md#autocogs)|0.1.4 |__+1__ | |1 |
+|[autoplotly](problems.md#autoplotly)|0.1.4 |__+2__ | | |
+|[autoTS](problems.md#autots)|0.9.11 |1 | |2 __+1__ |
+|[bayesAB](problems.md#bayesab)|1.1.3 |__+1__ | | |
+|[BayesGrowth](problems.md#bayesgrowth)|1.0.0 |__+1__ | |2 __+1__ |
+|[BayesianReasoning](problems.md#bayesianreasoning)|0.4.2 |__+1__ | | |
+|[BayesMallows](problems.md#bayesmallows)|2.2.3 |__+1__ | |1 |
+|[bayesplot](problems.md#bayesplot)|1.11.1 |1 __+1__ | |1 |
+|[bdl](problems.md#bdl)|1.0.5 | |__+1__ | |
+|[BEAMR](problems.md#beamr)|1.1.0 |__+1__ | | |
+|[beastt](problems.md#beastt)|0.0.1 |__+2__ | |__+1__ |
+|[biclustermd](problems.md#biclustermd)|0.2.3 |__+1__ | |1 |
+|[biodosetools](problems.md#biodosetools)|3.6.1 |__+1__ | | |
+|[BioM2](problems.md#biom2)|1.1.0 | |__+1__ |1 |
+|[BioPred](problems.md#biopred)|1.0.2 |__+2__ | |__+1__ |
+|[boxly](problems.md#boxly)|0.1.1 |__+1__ | | |
+|[brolgar](problems.md#brolgar)|1.0.1 |1 __+1__ | |1 |
+|[bruneimap](problems.md#bruneimap)|0.3.1 | | |__+1__ |
+|[bSi](problems.md#bsi)|1.0.0 | |__+1__ | |
+|[calendR](problems.md#calendr)|1.2 | |__+1__ | |
+|[calendRio](problems.md#calendrio)|0.2.1 | |__+1__ | |
+|[cartograflow](problems.md#cartograflow)|1.0.5 |__+1__ | | |
+|[cats](problems.md#cats)|1.0.2 |__+1__ | |1 |
+|[cellularautomata](problems.md#cellularautomata)|0.1.0 |__+1__ | | |
+|[cheem](problems.md#cheem)|0.4.0.0 |1 __+1__ | | |
+|[CHOIRBM](problems.md#choirbm)|0.0.2 |__+2__ | |__+1__ |
+|[choroplethr](problems.md#choroplethr)|3.7.3 |__+1__ | |1 |
+|[chronicle](problems.md#chronicle)|0.3 |__+2__ | |1 __+1__ |
+|[clinDataReview](problems.md#clindatareview)|1.6.1 |__+2__ | |1 __+1__ |
+|[clinUtils](problems.md#clinutils)|0.2.0 |__+1__ |-1 |1 __+1__ |
+|[ClusROC](problems.md#clusroc)|1.0.2 | |__+1__ | |
+|[clustcurv](problems.md#clustcurv)|2.0.2 |__+1__ | |__+1__ |
+|[clustEff](problems.md#clusteff)|0.3.1 | |__+1__ | |
+|[cnmap](problems.md#cnmap)|0.1.0 |__+2__ | |__+1__ |
+|[coda4microbiome](problems.md#coda4microbiome)|0.2.4 |__+1__ |__+1__ | |
+|[codaredistlm](problems.md#codaredistlm)|0.1.0 |__+1__ | | |
+|[codez](problems.md#codez)|1.0.0 | |__+1__ | |
+|[cogmapr](problems.md#cogmapr)|0.9.3 |__+1__ | | |
+|[CohortConstructor](problems.md#cohortconstructor)|0.3.4 |__+1__ | |1 |
+|[CohortPlat](problems.md#cohortplat)|1.0.5 |__+2__ | |__+1__ |
+|[colorrepel](problems.md#colorrepel)|0.4.1 |__+1__ | | |
+|[CompAREdesign](problems.md#comparedesign)|2.3.1 | |__+1__ | |
+|[CoreMicrobiomeR](problems.md#coremicrobiomer)|0.1.0 |__+1__ | | |
+|[correlationfunnel](problems.md#correlationfunnel)|0.2.0 |__+1__ | |1 |
+|[corrViz](problems.md#corrviz)|0.1.0 |__+2__ | |1 __+1__ |
+|[countfitteR](problems.md#countfitter)|1.4 |__+1__ | | |
+|[coursekata](problems.md#coursekata)|0.18.1 |__+2__ | | |
+|[covidcast](problems.md#covidcast)|0.5.2 |__+2__ | |1 __+1__ |
+|[Coxmos](problems.md#coxmos)|1.1.0 | |__+1__ |1 |
+|[cpsvote](problems.md#cpsvote)|0.1.0 |__+1__ | | |
+|[CRABS](problems.md#crabs)|1.2.0 |__+1__ | | |
+|[crosshap](problems.md#crosshap)|1.4.0 |__+1__ | | |
+|[csa](problems.md#csa)|0.7.1 | |__+1__ | |
+|[ctrialsgov](problems.md#ctrialsgov)|0.2.5 |__+1__ | |1 |
+|[cubble](problems.md#cubble)|1.0.0 |__+1__ | |1 __+1__ |
+|[cylcop](problems.md#cylcop)|0.2.0 |__+1__ | | |
+|[D2MCS](problems.md#d2mcs)|1.0.1 |__+1__ | | |
+|[dafishr](problems.md#dafishr)|1.0.1 |__+1__ | |2 |
+|[daiquiri](problems.md#daiquiri)|1.1.1 |__+2__ | |__+1__ |
+|[DAISIE](problems.md#daisie)|4.4.1 |__+1__ | |2 |
+|[DAISIEprep](problems.md#daisieprep)|1.0.0 |__+1__ | | |
+|[dampack](problems.md#dampack)|1.0.2.1000 |__+3__ | |1 __+1__ |
+|[DeductiveR](problems.md#deductiver)|1.1.0 | |__+1__ | |
+|[deeptime](problems.md#deeptime)|2.1.0 |__+2__ | | |
+|[DEGRE](problems.md#degre)|0.2.0 | |__+1__ | |
+|[Dforest](problems.md#dforest)|0.4.2 |__+1__ | | |
+|[did](problems.md#did)|2.1.2 | |1 __+1__ | |
+|[directlabels](problems.md#directlabels)|2024.1.21 |__+1__ | |__+1__ |
+|[distributional](problems.md#distributional)|0.5.0 |__+1__ | | |
+|[distributions3](problems.md#distributions3)|0.2.2 |__+1__ | | |
+|[dittoViz](problems.md#dittoviz)|1.0.1 |__+2__ | | |
+|[divent](problems.md#divent)|0.4-4 |__+2__ | |1 __+1__ |
+|[dotsViolin](problems.md#dotsviolin)|0.0.1 |__+1__ | |1 |
+|[drugsens](problems.md#drugsens)|0.1.0 | |__+1__ | |
+|[duke](problems.md#duke)|0.0.3 |__+1__ | | |
+|[dymo](problems.md#dymo)|1.1.0 | |__+1__ | |
+|[easysurv](problems.md#easysurv)|2.0.1 |__+2__ | |__+1__ |
+|[EbayesThresh](problems.md#ebayesthresh)|1.4-12 |__+1__ | |__+1__ |
+|[ecolRxC](problems.md#ecolrxc)|0.1.1-10 |__+1__ | | |
+|[EGM](problems.md#egm)|0.1.0 |__+1__ | | |
+|[eiCircles](problems.md#eicircles)|0.0.1-7 |__+1__ | | |
+|[entropart](problems.md#entropart)|1.6-15 |__+2__ | |__+1__ |
+|[epiCleanr](problems.md#epicleanr)|0.2.0 |__+1__ | |1 |
+|[epiphy](problems.md#epiphy)|0.5.0 |__+1__ | | |
+|[episensr](problems.md#episensr)|1.3.0 |__+1__ | |__+1__ |
+|[EQUALSTATS](problems.md#equalstats)|0.5.0 |__+1__ | |1 |
+|[errors](problems.md#errors)|0.4.3 |__+2__ | |__+1__ |
+|[eRTG3D](problems.md#ertg3d)|0.7.0 |__+1__ | | |
+|[esci](problems.md#esci)|1.0.6 |__+2__ | | |
+|[evalITR](problems.md#evalitr)|1.0.0 |1 | |1 __+1__ |
+|[eventstudyr](problems.md#eventstudyr)|1.1.3 |__+1__ | | |
+|[expirest](problems.md#expirest)|0.1.6 |__+1__ | | |
+|[explainer](problems.md#explainer)|1.0.2 |__+1__ | |1 |
+|[ezEDA](problems.md#ezeda)|0.1.1 |__+1__ | | |
+|[fable.prophet](problems.md#fableprophet)|0.1.0 |__+1__ | |1 __+1__ |
+|[fabletools](problems.md#fabletools)|0.5.0 |__+2__ | | |
+|[fairmodels](problems.md#fairmodels)|1.2.1 |__+1__ | | |
+|[fddm](problems.md#fddm)|1.0-2 |__+1__ | |1 |
+|[feasts](problems.md#feasts)|0.4.1 |__+1__ | | |
+|[ffp](problems.md#ffp)|0.2.2 |__+1__ | | |
+|[fgeo.plot](problems.md#fgeoplot)|1.1.11 |__+2__ | | |
+|[fido](problems.md#fido)|1.1.1 |1 __+2__ | |2 |
+|[flexsurv](problems.md#flexsurv)|2.3.2 |__+1__ | |2 |
+|[flipr](problems.md#flipr)|0.3.3 |1 | |1 __+1__ |
+|[forestPSD](problems.md#forestpsd)|1.0.0 |__+1__ | |1 |
+|[frailtyEM](problems.md#frailtyem)|1.0.1 |__+1__ | |2 |
+|[func2vis](problems.md#func2vis)|1.0-3 |__+1__ | | |
+|[FuncNN](problems.md#funcnn)|1.0 | |__+1__ |1 |
+|[GCalignR](problems.md#gcalignr)|1.0.7 |__+3__ | |__+1__ |
+|[geoheatmap](problems.md#geoheatmap)|0.1.0 |__+1__ | |__+1__ |
+|[geomtextpath](problems.md#geomtextpath)|0.1.5 |__+2__ | | |
+|[ggalign](problems.md#ggalign)|0.0.5 | |__+1__ |1 |
+|[GGally](problems.md#ggally)|2.2.1 |__+2__ | | |
+|[gganimate](problems.md#gganimate)|1.0.9 |__+2__ | |__+1__ |
+|[ggblanket](problems.md#ggblanket)|11.1.0 |__+1__ | | |
+|[ggdark](problems.md#ggdark)|0.2.1 |__+2__ | |1 |
+|[ggdist](problems.md#ggdist)|3.3.2 |1 __+2__ | |1 __+1__ |
+|[ggedit](problems.md#ggedit)|0.4.1 |__+1__ | | |
+|[ggenealogy](problems.md#ggenealogy)|1.0.3 |__+2__ | |2 |
+|[ggESDA](problems.md#ggesda)|0.2.0 |__+1__ | | |
+|[ggfixest](problems.md#ggfixest)|0.1.0 |__+1__ | | |
+|[ggforce](problems.md#ggforce)|0.4.2 |__+1__ | |1 |
+|[ggformula](problems.md#ggformula)|0.12.0 |__+2__ |__+1__ |1 |
+|[ggfortify](problems.md#ggfortify)|0.4.17 |__+1__ | | |
+|[gggenomes](problems.md#gggenomes)|1.0.1 |__+1__ | | |
+|[ggh4x](problems.md#ggh4x)|0.3.0 |__+3__ | |__+1__ |
+|[gghalves](problems.md#gghalves)|0.1.4 |__+1__ | |1 |
+|[ggheatmap](problems.md#ggheatmap)|2.2 | |__+1__ | |
+|[gghighlight](problems.md#gghighlight)|0.4.1 |__+3__ | |__+1__ |
+|[ggiraph](problems.md#ggiraph)|0.8.12 |__+2__ | |1 |
+|[ggiraphExtra](problems.md#ggiraphextra)|0.3.0 |__+1__ | | |
+|[ggmcmc](problems.md#ggmcmc)|1.5.1.1 |1 __+1__ | |1 |
+|[ggmice](problems.md#ggmice)|0.1.0 |__+1__ | |__+1__ |
+|[ggmulti](problems.md#ggmulti)|1.0.7 |__+3__ | |__+1__ |
+|[ggparallel](problems.md#ggparallel)|0.4.0 |__+1__ | | |
+|[ggparty](problems.md#ggparty)|1.0.0 |__+1__ | |2 __+1__ |
+|[ggplotlyExtra](problems.md#ggplotlyextra)|0.0.1 |__+1__ | |1 |
+|[ggpol](problems.md#ggpol)|0.0.7 |__+1__ | |2 |
+|[ggpp](problems.md#ggpp)|0.5.8-1 |__+2__ | |__+1__ |
+|[ggpubr](problems.md#ggpubr)|0.6.0 |__+1__ | | |
+|[ggraph](problems.md#ggraph)|2.2.1 |1 __+1__ | |1 __+1__ |
+|[ggredist](problems.md#ggredist)|0.0.2 |__+1__ | | |
+|[ggRtsy](problems.md#ggrtsy)|0.1.0 |__+2__ | |1 __+1__ |
+|[ggScatRidges](problems.md#ggscatridges)|0.1.1 | |__+1__ | |
+|[ggseqplot](problems.md#ggseqplot)|0.8.5 |__+3__ | |__+1__ |
+|[ggside](problems.md#ggside)|0.3.1 |__+1__ |__+1__ | |
+|[ggsmc](problems.md#ggsmc)|0.1.2.0 |__+1__ | |1 |
+|[ggTimeSeries](problems.md#ggtimeseries)|1.0.2 |__+2__ | |__+1__ |
+|[ggupset](problems.md#ggupset)|0.4.0 |__+1__ | | |
+|[ggVennDiagram](problems.md#ggvenndiagram)|1.5.2 |__+1__ | |1 __+1__ |
+|[GimmeMyPlot](problems.md#gimmemyplot)|0.1.0 | |__+1__ | |
+|[greed](problems.md#greed)|0.6.1 |__+1__ | |3 |
+|[Greymodels](problems.md#greymodels)|2.0.1 |__+1__ | | |
+|[healthyR](problems.md#healthyr)|0.2.2 |__+1__ | |1 __+1__ |
+|[healthyR.ts](problems.md#healthyrts)|0.3.1 |__+2__ | |1 __+1__ |
+|[heatmaply](problems.md#heatmaply)|1.5.0 |__+2__ | |1 __+1__ |
+|[hesim](problems.md#hesim)|0.5.5 |__+1__ | |1 |
+|[hilldiv](problems.md#hilldiv)|1.5.1 | |__+1__ | |
+|[hJAM](problems.md#hjam)|1.0.0 | |__+1__ | |
+|[hmsidwR](problems.md#hmsidwr)|1.1.2 |__+1__ | |2 __+1__ |
+|[HVT](problems.md#hvt)|24.9.1 |__+1__ | | |
+|[hypsoLoop](problems.md#hypsoloop)|0.2.0 | |__+1__ | |
+|[IDMIR](problems.md#idmir)|0.1.0 |__+2__ | |__+1__ |
+|[ImFoR](problems.md#imfor)|0.1.0 | |__+1__ | |
+|[incidental](problems.md#incidental)|0.1 |__+1__ | |__+1__ |
+|[iNEXT.4steps](problems.md#inext4steps)|1.0.1 | |__+1__ | |
+|[infer](problems.md#infer)|1.0.7 |__+2__ | |__+1__ |
+|[inferCSN](problems.md#infercsn)|1.0.8 |__+1__ | |1 |
+|[injurytools](problems.md#injurytools)|1.0.3 |__+1__ | |__+1__ |
+|[insane](problems.md#insane)|1.0.3 | |__+1__ | |
+|[inTextSummaryTable](problems.md#intextsummarytable)|3.3.3 |__+2__ | |1 __+1__ |
+|[IPV](problems.md#ipv)|1.0.0 |__+2__ | |1 __+1__ |
+|[IRon](problems.md#iron)|0.1.4 |__+1__ | |1 |
+|[isoorbi](problems.md#isoorbi)|1.3.1 |__+1__ | |1 __+1__ |
+|[jenga](problems.md#jenga)|1.3.0 | |__+1__ | |
+|[karel](problems.md#karel)|0.1.1 |__+2__ | |1 |
+|[kDGLM](problems.md#kdglm)|1.2.0 |__+1__ | | |
+|[knfi](problems.md#knfi)|1.0.1.9 | |__+1__ |1 |
+|[lans2r](problems.md#lans2r)|1.2.0 |__+2__ | |__+1__ |
+|[latentcor](problems.md#latentcor)|2.0.1 |__+1__ | | |
+|[lcars](problems.md#lcars)|0.4.0 |__+2__ | | |
+|[legendry](problems.md#legendry)|0.2.0 |__+1__ | | |
+|[lemon](problems.md#lemon)|0.5.0 |__+3__ | |__+1__ |
+|[lfproQC](problems.md#lfproqc)|1.4.0 |__+2__ | |__+1__ |
+|[LMoFit](problems.md#lmofit)|0.1.7 |__+1__ | |1 __+1__ |
+|[LocalCop](problems.md#localcop)|0.0.2 |1 | |1 __+1__ |
+|[lognorm](problems.md#lognorm)|0.1.10 |__+1__ | |__+1__ |
+|[LorMe](problems.md#lorme)|1.1.0 | |__+1__ |1 |
+|[lphom](problems.md#lphom)|0.3.5-5 |__+1__ | | |
+|[LTCDM](problems.md#ltcdm)|1.0.0 | |__+1__ | |
+|[mapindia](problems.md#mapindia)|1.0.1 |__+1__ | |__+1__ |
+|[mc2d](problems.md#mc2d)|0.2.1 | |__+1__ |1 |
+|[mcStats](problems.md#mcstats)|0.1.2 |__+1__ | |1 |
+|[MetAlyzer](problems.md#metalyzer)|1.1.0 |__+1__ | | |
+|[MetaNet](problems.md#metanet)|0.1.2 |__+1__ | | |
+|[metR](problems.md#metr)|0.17.0 |__+3__ | |1 __+1__ |
+|[MF.beta4](problems.md#mfbeta4)|1.1.1 | |1 __+1__ | |
+|[migraph](problems.md#migraph)|1.4.5 |__+1__ | | |
+|[mikropml](problems.md#mikropml)|1.6.1 |__+1__ | | |
+|[MiMIR](problems.md#mimir)|1.5 |__+1__ | | |
+|[miRetrieve](problems.md#miretrieve)|1.3.4 |__+1__ | | |
+|[MiscMetabar](problems.md#miscmetabar)|0.10.1 |__+1__ | | |
+|[missingHE](problems.md#missinghe)|1.5.0 | |__+1__ |1 |
+|[misspi](problems.md#misspi)|0.1.0 |__+1__ | | |
+|[mizer](problems.md#mizer)|2.5.3 |__+1__ | |1 |
+|[modeltime.resample](problems.md#modeltimeresample)|0.2.3 |__+1__ | |1 |
+|[moreparty](problems.md#moreparty)|0.4 |__+1__ | |__+1__ |
+|[MSPRT](problems.md#msprt)|3.0 | |__+1__ |1 |
+|[mtb](problems.md#mtb)|0.1.8 |__+1__ | | |
+|[MTLR](problems.md#mtlr)|0.2.1 |__+1__ | |1 |
+|[mulgar](problems.md#mulgar)|1.0.2 |__+1__ | |1 |
+|[MultiTraits](problems.md#multitraits)|0.2.0 |__+2__ | |__+1__ |
+|[naive](problems.md#naive)|1.2.3 | |__+1__ | |
+|[neatmaps](problems.md#neatmaps)|2.1.0 |__+1__ | |1 |
+|[NetFACS](problems.md#netfacs)|0.5.0 |__+2__ | | |
+|[NHSRplotthedots](problems.md#nhsrplotthedots)|0.1.0 |__+1__ | |1 |
+|[nichetools](problems.md#nichetools)|0.3.2 |__+1__ | |__+1__ |
+|[NIMAA](problems.md#nimaa)|0.2.1 |__+3__ | |2 __+1__ |
+|[nuts](problems.md#nuts)|1.1.0 |__+1__ | |__+1__ |
+|[nzelect](problems.md#nzelect)|0.4.0 |__+1__ | |2 |
+|[oddsratio](problems.md#oddsratio)|2.0.1 |__+2__ | |1 __+1__ |
+|[OenoKPM](problems.md#oenokpm)|2.4.1 | |__+1__ | |
+|[ofpetrial](problems.md#ofpetrial)|0.1.2 |__+1__ | | |
+|[OmicNavigator](problems.md#omicnavigator)|1.13.13 |__+1__ | |1 |
+|[onemap](problems.md#onemap)|3.2.0 | |__+1__ |1 |
+|[OneSampleLogRankTest](problems.md#onesamplelogranktest)|0.9.2 |__+2__ | |__+1__ |
+|[ordbetareg](problems.md#ordbetareg)|0.7.2 |__+1__ | |2 |
+|[pafr](problems.md#pafr)|0.0.2 |__+1__ | |1 |
+|[pathfindR](problems.md#pathfindr)|2.4.1 |1 __+2__ | |__+1__ |
+|[pathviewr](problems.md#pathviewr)|1.1.7 |__+1__ | | |
+|[pdxTrees](problems.md#pdxtrees)|0.4.0 |__+1__ | |1 __+1__ |
+|[penAFT](problems.md#penaft)|0.3.0 |__+1__ | | |
+|[personalized](problems.md#personalized)|0.2.7 |__+1__ | | |
+|[Plasmidprofiler](problems.md#plasmidprofiler)|0.1.6 |__+1__ | | |
+|[plinkQC](problems.md#plinkqc)|0.3.4 |__+1__ | | |
+|[plotDK](problems.md#plotdk)|0.1.0 |__+1__ | |2 |
+|[PlotFTIR](problems.md#plotftir)|1.0.0 |__+3__ | | |
+|[plothelper](problems.md#plothelper)|0.1.9 |__+1__ | |1 |
+|[plotly](problems.md#plotly)|4.10.4 |__+2__ | |1 |
+|[plotthis](problems.md#plotthis)|0.5.0 |__+1__ | | |
+|[pmartR](problems.md#pmartr)|2.4.6 |__+1__ | |1 |
+|[pmxTools](problems.md#pmxtools)|1.3 |__+1__ | |1 |
+|[PopED](problems.md#poped)|0.7.0 | | |__+1__ |
+|[posterior](problems.md#posterior)|1.6.0 |__+1__ | |__+1__ |
+|[PPQplan](problems.md#ppqplan)|1.1.0 |1 | |2 __+1__ |
+|[ppseq](problems.md#ppseq)|0.2.5 |__+1__ | |1 __+1__ |
+|[precintcon](problems.md#precintcon)|2.3.0 |__+1__ | | |
+|[predictMe](problems.md#predictme)|0.1 |__+2__ | |__+1__ |
+|[prevR](problems.md#prevr)|5.0.0 |__+1__ | |1 __+1__ |
+|[priorsense](problems.md#priorsense)|1.0.4 |__+2__ | |__+1__ |
+|[probably](problems.md#probably)|1.0.3 |__+2__ | | |
+|[processmapR](problems.md#processmapr)|0.5.6 |__+1__ | | |
+|[profoc](problems.md#profoc)|1.3.3 |__+1__ | |1 __+1__ |
+|[promor](problems.md#promor)|0.2.1 |1 __+1__ | |1 |
+|[protag](problems.md#protag)|1.0.0 |__+1__ | |1 |
+|[psborrow](problems.md#psborrow)|0.2.1 |__+1__ | | |
+|[psc](problems.md#psc)|1.1.0 |__+1__ | |__+1__ |
+|[PSCBS](problems.md#pscbs)|0.67.0 | | |__+1__ |
+|[PupilPre](problems.md#pupilpre)|0.6.2 |__+1__ | |__+1__ |
+|[qlifetable](problems.md#qlifetable)|0.0.2-5 |__+1__ | |1 |
+|[quantities](problems.md#quantities)|0.2.3 |__+1__ | |__+1__ |
+|[QurvE](problems.md#qurve)|1.1.1 |__+1__ | |1 |
+|[r2dii.plot](problems.md#r2diiplot)|0.4.0 |__+1__ | | |
+|[Radviz](problems.md#radviz)|0.9.3 |__+2__ | |__+1__ |
+|[rassta](problems.md#rassta)|1.0.6 |__+2__ | | |
+|[rasterdiv](problems.md#rasterdiv)|0.3.6 |__+1__ | |__+1__ |
+|[rater](problems.md#rater)|1.3.1 |__+1__ | |2 |
+|[ratlas](problems.md#ratlas)|0.1.0 |1 __+1__ | |1 __+1__ |
+|[RavenR](problems.md#ravenr)|2.2.2 |__+1__ | | |
+|[RCTrep](problems.md#rctrep)|1.2.0 | |__+1__ | |
+|[registr](problems.md#registr)|2.1.0 |2 __+1__ | |2 __+1__ |
+|[RegrCoeffsExplorer](problems.md#regrcoeffsexplorer)|1.1.0 | | |__+1__ |
+|[regtomean](problems.md#regtomean)|1.2 | |__+1__ |1 |
+|[RKorAPClient](problems.md#rkorapclient)|0.9.0 |__+1__ | | |
+|[roahd](problems.md#roahd)|1.4.3 |__+1__ | |1 |
+|[romic](problems.md#romic)|1.1.3 |__+1__ | | |
+|[roptions](problems.md#roptions)|1.0.3 |__+1__ | |1 |
+|[rSAFE](problems.md#rsafe)|0.1.4 |__+1__ | |__+1__ |
+|[scoringutils](problems.md#scoringutils)|2.0.0 |__+1__ | |__+1__ |
+|[SCOUTer](problems.md#scouter)|1.0.0 | |__+1__ | |
+|[scUtils](problems.md#scutils)|0.1.0 |__+1__ | |1 |
+|[SCVA](problems.md#scva)|1.3.1 |__+1__ | | |
+|[SDMtune](problems.md#sdmtune)|1.3.2 |1 __+1__ | |1 |
+|[seAMLess](problems.md#seamless)|0.1.1 |__+1__ | |1 |
+|[seedreg](problems.md#seedreg)|1.0.3 |__+1__ | | |
+|[segen](problems.md#segen)|1.1.0 | |__+1__ | |
+|[sglg](problems.md#sglg)|0.2.2 |__+1__ | | |
+|[sgsR](problems.md#sgsr)|1.4.5 |__+1__ | | |
+|[SHAPforxgboost](problems.md#shapforxgboost)|0.1.3 |__+1__ | | |
+|[shapr](problems.md#shapr)|1.0.1 |__+1__ | |2 |
+|[simmr](problems.md#simmr)|0.5.1.217 |__+1__ | |__+1__ |
+|[SimNPH](problems.md#simnph)|0.5.5 |__+1__ | | |
+|[sivirep](problems.md#sivirep)|1.0.1 |__+1__ | |1 |
+|[skewlmm](problems.md#skewlmm)|1.1.2 |__+1__ | | |
+|[smdi](problems.md#smdi)|0.3.1 |1 | |__+1__ |
+|[soc.ca](problems.md#socca)|0.8.0 |__+1__ | |2 |
+|[SouthParkRshiny](problems.md#southparkrshiny)|1.0.0 | |__+1__ |2 |
+|[SPARRAfairness](problems.md#sparrafairness)|0.0.0.2 |__+1__ | | |
+|[spinifex](problems.md#spinifex)|0.3.8 |__+1__ | | |
+|[spooky](problems.md#spooky)|1.4.0 | |__+1__ | |
+|[sport](problems.md#sport)|0.2.1 |__+1__ | |1 |
+|[SqueakR](problems.md#squeakr)|1.3.0 |1 |__+1__ |1 __+1__ |
+|[statgenGWAS](problems.md#statgengwas)|1.0.10 |__+1__ | |1 |
+|[statgenHTP](problems.md#statgenhtp)|1.0.7 |__+1__ | |2 |
+|[stats19](problems.md#stats19)|3.3.1 | |1 |__+1__ |
+|[surveyexplorer](problems.md#surveyexplorer)|0.2.0 |__+1__ | | |
+|[survParamSim](problems.md#survparamsim)|0.1.6 |__+1__ | |__+1__ |
+|[symptomcheckR](problems.md#symptomcheckr)|0.1.3 | |__+1__ | |
+|[tabledown](problems.md#tabledown)|1.0.0 |__+1__ | |1 |
+|[TCIU](problems.md#tciu)|1.2.7 |__+2__ | |1 __+1__ |
+|[TestGardener](problems.md#testgardener)|3.3.5 | |__+1__ | |
+|[tetragon](problems.md#tetragon)|1.3.0 | |__+1__ | |
+|[thematic](problems.md#thematic)|0.1.6 |__+2__ | | |
+|[tidybayes](problems.md#tidybayes)|3.0.7 |2 __+1__ | | |
+|[tidycat](problems.md#tidycat)|0.1.2 |__+2__ | |1 __+1__ |
+|[tidyCDISC](problems.md#tidycdisc)|0.2.1 |__+1__ | |1 |
+|[tidyplots](problems.md#tidyplots)|0.2.1 |__+3__ | |__+1__ |
+|[tidytreatment](problems.md#tidytreatment)|0.3.1 |__+1__ | |1 __+1__ |
+|[timetk](problems.md#timetk)|2.9.0 |__+1__ | |1 |
+|[TOSTER](problems.md#toster)|0.8.3 |__+3__ | |__+1__ |
+|[track2KBA](problems.md#track2kba)|1.1.2 |__+1__ | | |
+|[TransProR](problems.md#transpror)|0.0.6 |__+1__ | | |
+|[TreatmentPatterns](problems.md#treatmentpatterns)|2.7.0 |__+1__ | | |
+|[trelliscopejs](problems.md#trelliscopejs)|0.2.6 |__+1__ | | |
+|[tricolore](problems.md#tricolore)|1.2.4 |__+2__ | |1 __+1__ |
+|[tsnet](problems.md#tsnet)|0.1.0 |__+1__ | |2 |
+|[UCSCXenaShiny](problems.md#ucscxenashiny)|2.1.0 |__+1__ | |1 __+1__ |
+|[umiAnalyzer](problems.md#umianalyzer)|1.0.0 |__+1__ | | |
+|[umx](problems.md#umx)|4.21.0 |__+2__ | |3 |
+|[UniprotR](problems.md#uniprotr)|2.4.0 | |__+1__ | |
+|[usmap](problems.md#usmap)|0.7.1 |__+3__ | |1 __+1__ |
+|[vaccineff](problems.md#vaccineff)|1.0.0 |__+1__ | | |
+|[VALERIE](problems.md#valerie)|1.1.0 | |__+1__ |1 |
+|[valr](problems.md#valr)|0.8.3 |__+1__ | |1 |
+|[vannstats](problems.md#vannstats)|1.5.1.8 | |__+1__ | |
+|[vici](problems.md#vici)|0.7.3 | |__+1__ | |
+|[visOmopResults](problems.md#visomopresults)|1.0.0 |__+1__ | | |
+|[vivaldi](problems.md#vivaldi)|1.0.1 |__+3__ | |1 __+1__ |
+|[voi](problems.md#voi)|1.0.3 |__+1__ | |1 __+1__ |
+|[voluModel](problems.md#volumodel)|0.2.2 |1 __+1__ | |__+1__ |
+|[voteogram](problems.md#voteogram)|0.3.2 |__+1__ | |__+1__ |
+|[vvshiny](problems.md#vvshiny)|0.1.1 |__+1__ | | |
+|[VWPre](problems.md#vwpre)|1.2.4 |__+1__ | |__+1__ |
+|[wilson](problems.md#wilson)|2.4.2 |__+1__ | | |
+|[wpa](problems.md#wpa)|1.9.1 |__+1__ | | |
+|[xpose](problems.md#xpose)|0.4.19 |__+3__ | |__+1__ |
+|[xpose.xtras](problems.md#xposextras)|0.0.2 |__+3__ | |3 __+1__ |
+|[xray](problems.md#xray)|0.2 |__+1__ | | |
+|[yamlet](problems.md#yamlet)|1.2.0 |__+2__ | |1 |
diff --git a/revdep/cran.md b/revdep/cran.md
index 4a1365f7a5..5a88006c77 100644
--- a/revdep/cran.md
+++ b/revdep/cran.md
@@ -1,40 +1,38 @@
## revdepcheck results
-We checked 5209 reverse dependencies (5199 from CRAN + 10 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
+We checked 5480 reverse dependencies (5463 from CRAN + 17 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
- * We saw 469 new problems
- * We failed to check 155 packages
+ * We saw 362 new problems
+ * We failed to check 176 packages
Issues with CRAN packages are summarised below.
### New problems
(This reports the first line of each new failure)
-* activAnalyzer
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* actxps
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* adaptr
+* adklakedata
+ checking examples ... ERROR
+
+* AdverseEvents
+ checking whether package ‘AdverseEvents’ can be installed ... WARNING
+
+* adw
checking examples ... ERROR
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* AeRobiology
+ checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* agricolaeplotr
checking tests ... ERROR
-* alien
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* AlphaPart
+* AmpliconDuo
checking examples ... ERROR
* AnalysisLin
@@ -46,37 +44,17 @@ Issues with CRAN packages are summarised below.
* ANN2
checking tests ... ERROR
-* AnnoProbe
- checking examples ... ERROR
-
-* ANOFA
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* ANOPA
+* APCtools
checking examples ... ERROR
checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* AntMAN
- checking examples ... ERROR
- checking tests ... ERROR
-
-* APCI
- checking tests ... ERROR
-
-* aplot
- checking examples ... ERROR
-
* applicable
checking tests ... ERROR
-* ASRgenomics
- checking examples ... ERROR
- checking tests ... ERROR
+* asmbPLS
+ checking whether package ‘asmbPLS’ can be installed ... WARNING
* autocogs
checking tests ... ERROR
@@ -85,30 +63,9 @@ Issues with CRAN packages are summarised below.
checking examples ... ERROR
checking tests ... ERROR
-* autoReg
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* baggr
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
+* autoTS
checking re-building of vignette outputs ... NOTE
-* banter
- checking examples ... ERROR
-
-* bartMan
- checking examples ... ERROR
-
-* BasketballAnalyzeR
- checking examples ... ERROR
-
-* bayefdr
- checking examples ... ERROR
- checking tests ... ERROR
-
* bayesAB
checking tests ... ERROR
@@ -118,33 +75,15 @@ Issues with CRAN packages are summarised below.
* BayesianReasoning
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* BayesMallows
checking tests ... ERROR
-* bayesplay
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* bayesplot
- checking examples ... ERROR
- checking tests ... ERROR
-
-* bayestestR
- checking examples ... ERROR
-
-* BCEA
- checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* BDgraph
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* bdl
+ checking whether package ‘bdl’ can be installed ... WARNING
* BEAMR
checking examples ... ERROR
@@ -154,99 +93,63 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* BeeGUTS
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* besthr
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* betaclust
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* biclustermd
checking tests ... ERROR
* biodosetools
checking tests ... ERROR
+* BioM2
+ checking whether package ‘BioM2’ can be installed ... WARNING
+
* BioPred
+ checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* BlandAltmanLeh
- checking running R code from vignettes ... ERROR
-
-* bmggum
- checking examples ... ERROR
-
* boxly
checking tests ... ERROR
-* braidReports
+* brolgar
checking examples ... ERROR
-* BRcal
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* bruneimap
+ checking installed package size ... NOTE
-* breathtestcore
- checking tests ... ERROR
+* bSi
+ checking whether package ‘bSi’ can be installed ... WARNING
-* brolgar
- checking examples ... ERROR
+* calendR
+ checking whether package ‘calendR’ can be installed ... WARNING
-* calibrationband
- checking examples ... ERROR
+* calendRio
+ checking whether package ‘calendRio’ can be installed ... WARNING
* cartograflow
checking examples ... ERROR
-* cases
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* cats
checking examples ... ERROR
-* ceterisParibus
- checking tests ... ERROR
-
-* cfda
- checking examples ... ERROR
- checking tests ... ERROR
+* cellularautomata
checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* cheem
checking tests ... ERROR
-* chillR
- checking examples ... ERROR
-
-* chronicle
+* CHOIRBM
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* CINNA
+* choroplethr
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* circhelp
+* chronicle
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* clifro
- checking tests ... ERROR
-
* clinDataReview
checking examples ... ERROR
checking tests ... ERROR
@@ -256,42 +159,47 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* cloneRate
+* ClusROC
+ checking whether package ‘ClusROC’ can be installed ... WARNING
+
+* clustcurv
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* clustEff
- checking examples ... ERROR
-
-* ClustImpute
- checking running R code from vignettes ... ERROR
+ checking whether package ‘clustEff’ can be installed ... WARNING
-* cmstatr
+* cnmap
checking examples ... ERROR
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* coda4microbiome
+ checking examples ... ERROR
+ checking whether package ‘coda4microbiome’ can be installed ... WARNING
+
* codaredistlm
checking examples ... ERROR
-* coefplot
+* codez
+ checking whether package ‘codez’ can be installed ... WARNING
+
+* cogmapr
checking examples ... ERROR
+* CohortConstructor
+ checking running R code from vignettes ... ERROR
+
* CohortPlat
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* complmrob
- checking examples ... ERROR
-
-* conjoint
+* colorrepel
checking examples ... ERROR
-* conquestr
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* CompAREdesign
+ checking whether package ‘CompAREdesign’ can be installed ... WARNING
* CoreMicrobiomeR
checking examples ... ERROR
@@ -304,18 +212,6 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* corx
- checking tests ... ERROR
-
-* cosinor2
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* CoSMoS
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* countfitteR
checking tests ... ERROR
@@ -329,25 +225,20 @@ Issues with CRAN packages are summarised below.
checking re-building of vignette outputs ... NOTE
* Coxmos
- checking examples ... ERROR
-
-* cpr
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+ checking Rd files ... WARNING
* cpsvote
checking running R code from vignettes ... ERROR
-* crimeutils
+* CRABS
checking examples ... ERROR
-* crmPack
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
-
* crosshap
checking examples ... ERROR
+* csa
+ checking whether package ‘csa’ can be installed ... WARNING
+
* ctrialsgov
checking tests ... ERROR
@@ -355,75 +246,95 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* curtailment
+* cylcop
+ checking examples ... ERROR
+
+* D2MCS
+ checking tests ... ERROR
+
+* dafishr
checking examples ... ERROR
-* dabestr
+* daiquiri
+ checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* DAISIE
+ checking examples ... ERROR
+
* DAISIEprep
checking tests ... ERROR
-* dbmss
+* dampack
checking examples ... ERROR
+ checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* DeductiveR
+ checking whether package ‘DeductiveR’ can be installed ... WARNING
+
* deeptime
+ checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* descriptio
+* DEGRE
+ checking whether package ‘DEGRE’ can be installed ... WARNING
+
+* Dforest
checking examples ... ERROR
-* directlabels
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* did
+ checking whether package ‘did’ can be installed ... WARNING
-* disto
- checking examples ... ERROR
+* directlabels
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* distributional
checking examples ... ERROR
+* distributions3
+ checking tests ... ERROR
+
* dittoViz
checking examples ... ERROR
checking tests ... ERROR
-* dotwhisker
+* divent
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* DRomics
+* dotsViolin
checking examples ... ERROR
- checking re-building of vignette outputs ... NOTE
-* dtwclust
- checking tests ... ERROR
+* drugsens
+ checking whether package ‘drugsens’ can be installed ... WARNING
* duke
checking tests ... ERROR
+* dymo
+ checking whether package ‘dymo’ can be installed ... WARNING
+
* easysurv
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* EGAnet
+* EbayesThresh
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
+
+* ecolRxC
checking examples ... ERROR
* EGM
checking tests ... ERROR
-* emmeans
- checking examples ... ERROR
-
-* EMMIXmfa
+* eiCircles
checking examples ... ERROR
* entropart
@@ -431,23 +342,27 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* EnvStats
- checking examples ... ERROR
-
* epiCleanr
checking examples ... ERROR
* epiphy
checking examples ... ERROR
+* episensr
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
+
* EQUALSTATS
checking examples ... ERROR
-* ergm.multi
+* errors
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* eRTG3D
+ checking tests ... ERROR
+
* esci
checking examples ... ERROR
checking tests ... ERROR
@@ -458,26 +373,15 @@ Issues with CRAN packages are summarised below.
* eventstudyr
checking tests ... ERROR
-* EvoPhylo
- checking examples ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* expirest
checking tests ... ERROR
* explainer
checking examples ... ERROR
-* exuber
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ezEDA
checking tests ... ERROR
-* ezplot
- checking examples ... ERROR
-
* fable.prophet
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -486,45 +390,25 @@ Issues with CRAN packages are summarised below.
checking examples ... ERROR
checking tests ... ERROR
-* factoextra
- checking examples ... ERROR
-
* fairmodels
checking tests ... ERROR
-* fastR2
- checking examples ... ERROR
-
-* faux
- checking re-building of vignette outputs ... NOTE
-
* fddm
checking running R code from vignettes ... ERROR
* feasts
checking tests ... ERROR
-* fergm
- checking examples ... ERROR
-
* ffp
checking examples ... ERROR
-* fic
- checking running R code from vignettes ... ERROR
-
-* fido
+* fgeo.plot
checking examples ... ERROR
checking tests ... ERROR
-* fitdistrplus
+* fido
checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* fitlandr
- checking examples ... ERROR
* flexsurv
checking running R code from vignettes ... ERROR
@@ -532,42 +416,24 @@ Issues with CRAN packages are summarised below.
* flipr
checking re-building of vignette outputs ... NOTE
-* FLOPART
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* fmesher
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* fmf
- checking examples ... ERROR
-
-* forestly
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* FossilSim
- checking examples ... ERROR
-
-* FPDclustering
+* forestPSD
checking examples ... ERROR
* frailtyEM
checking examples ... ERROR
-* funcharts
+* func2vis
checking examples ... ERROR
-* FunnelPlotR
+* FuncNN
+ checking whether package ‘FuncNN’ can be installed ... WARNING
+
+* GCalignR
checking examples ... ERROR
+ checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* genekitr
- checking examples ... ERROR
-
* geoheatmap
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -576,8 +442,8 @@ Issues with CRAN packages are summarised below.
checking examples ... ERROR
checking tests ... ERROR
-* geostan
- checking examples ... ERROR
+* ggalign
+ checking for code/documentation mismatches ... WARNING
* GGally
checking examples ... ERROR
@@ -588,20 +454,8 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* ggbrain
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* ggbreak
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* ggcharts
+* ggblanket
checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* ggdark
checking examples ... ERROR
@@ -612,83 +466,60 @@ Issues with CRAN packages are summarised below.
checking tests ... ERROR
checking re-building of vignette outputs ... NOTE
-* ggeasy
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggedit
checking examples ... ERROR
-* ggESDA
+* ggenealogy
checking examples ... ERROR
checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* ggExtra
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* ggfacto
+* ggESDA
checking examples ... ERROR
* ggfixest
checking tests ... ERROR
-* ggfocus
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggforce
checking examples ... ERROR
* ggformula
checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
checking for code/documentation mismatches ... WARNING
- checking re-building of vignette outputs ... NOTE
* ggfortify
- checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* gggenomes
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* ggh4x
+ checking examples ... ERROR
checking tests ... ERROR
+ checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* gghalves
+ checking examples ... ERROR
+
+* ggheatmap
+ checking whether package ‘ggheatmap’ can be installed ... WARNING
+
* gghighlight
checking examples ... ERROR
checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* ggHoriPlot
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggiraph
checking examples ... ERROR
checking tests ... ERROR
* ggiraphExtra
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* ggmatplot
+* ggmcmc
checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* ggmice
checking running R code from vignettes ... ERROR
@@ -700,49 +531,27 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* ggpackets
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggparallel
checking tests ... ERROR
* ggparty
- checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* ggpicrust2
- checking examples ... ERROR
-
* ggplotlyExtra
checking examples ... ERROR
-* ggPMX
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggpol
checking examples ... ERROR
-* ggprism
+* ggpp
checking examples ... ERROR
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* ggpubr
- checking examples ... ERROR
checking tests ... ERROR
-* ggrain
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* ggraph
checking examples ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -755,6 +564,9 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* ggScatRidges
+ checking whether package ‘ggScatRidges’ can be installed ... WARNING
+
* ggseqplot
checking examples ... ERROR
checking tests ... ERROR
@@ -768,15 +580,10 @@ Issues with CRAN packages are summarised below.
* ggsmc
checking running R code from vignettes ... ERROR
-* ggspatial
- checking examples ... ERROR
- checking tests ... ERROR
-
-* ggstatsplot
- checking examples ... ERROR
-
-* ggtern
+* ggTimeSeries
checking examples ... ERROR
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
* ggupset
checking examples ... ERROR
@@ -786,46 +593,14 @@ Issues with CRAN packages are summarised below.
checking re-building of vignette outputs ... NOTE
* GimmeMyPlot
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* giniVarCI
- checking examples ... ERROR
-
-* gMCPLite
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* gMOIP
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+ checking whether package ‘GimmeMyPlot’ can be installed ... WARNING
-* GofCens
- checking examples ... ERROR
-
-* greatR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* greed
+ checking tests ... ERROR
* Greymodels
checking examples ... ERROR
-* gsDesign
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* gtExtras
- checking tests ... ERROR
-
-* HaploCatcher
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* healthyR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -840,21 +615,16 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* hermiter
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* heumilkr
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* hesim
+ checking tests ... ERROR
* hilldiv
- checking examples ... ERROR
+ checking whether package ‘hilldiv’ can be installed ... WARNING
-* hmclearn
- checking examples ... ERROR
+* hJAM
+ checking whether package ‘hJAM’ can be installed ... WARNING
-* HTLR
+* hmsidwR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -864,49 +634,35 @@ Issues with CRAN packages are summarised below.
* hypsoLoop
checking whether package ‘hypsoLoop’ can be installed ... WARNING
-* ibdsim2
- checking examples ... ERROR
-
-* ICtest
- checking examples ... ERROR
-
-* idiogramFISH
- checking installed package size ... NOTE
-
* IDMIR
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* idopNetwork
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* ihclust
- checking examples ... ERROR
-
-* immunarch
- checking examples ... ERROR
+* ImFoR
+ checking whether package ‘ImFoR’ can be installed ... WARNING
* incidental
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* iNEXT.4steps
+ checking whether package ‘iNEXT.4steps’ can be installed ... WARNING
+
* infer
checking examples ... ERROR
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* inferCSN
+ checking examples ... ERROR
+
* injurytools
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* inlabru
- checking examples ... ERROR
-
-* insurancerating
- checking examples ... ERROR
+* insane
+ checking whether package ‘insane’ can be installed ... WARNING
* inTextSummaryTable
checking tests ... ERROR
@@ -921,23 +677,12 @@ Issues with CRAN packages are summarised below.
* IRon
checking examples ... ERROR
-* irt
- checking examples ... ERROR
-
* isoorbi
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* ivDiag
- checking examples ... ERROR
-
-* ivreg
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* jarbes
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* jenga
+ checking whether package ‘jenga’ can be installed ... WARNING
* karel
checking examples ... ERROR
@@ -946,9 +691,13 @@ Issues with CRAN packages are summarised below.
* kDGLM
checking examples ... ERROR
-* KMEANS.KNN
- checking examples ... ERROR
+* knfi
+ checking whether package ‘knfi’ can be installed ... WARNING
+
+* lans2r
checking tests ... ERROR
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
* latentcor
checking examples ... ERROR
@@ -957,6 +706,9 @@ Issues with CRAN packages are summarised below.
checking examples ... ERROR
checking running R code from vignettes ... ERROR
+* legendry
+ checking examples ... ERROR
+
* lemon
checking examples ... ERROR
checking tests ... ERROR
@@ -968,63 +720,37 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* lgpr
- checking tests ... ERROR
-
-* LightLogR
- checking examples ... ERROR
-
* LMoFit
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* lnmixsurv
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* LocalControl
- checking running R code from vignettes ... ERROR
-
* LocalCop
checking re-building of vignette outputs ... NOTE
-* LongDat
+* lognorm
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* longreadvqs
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* LorMe
+ checking whether package ‘LorMe’ can be installed ... WARNING
-* lpdensity
+* lphom
checking examples ... ERROR
-* lspartition
- checking examples ... ERROR
+* LTCDM
+ checking whether package ‘LTCDM’ can be installed ... WARNING
-* LSTbook
- checking tests ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* manydata
- checking tests ... ERROR
-
-* manymome
- checking examples ... ERROR
-
-* mapbayr
- checking examples ... ERROR
-
-* MBNMAdose
+* mapindia
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* MBNMAtime
- checking re-building of vignette outputs ... NOTE
+* mc2d
+ checking whether package ‘mc2d’ can be installed ... WARNING
+
+* mcStats
+ checking tests ... ERROR
-* mecoturn
+* MetAlyzer
checking examples ... ERROR
* MetaNet
@@ -1036,20 +762,8 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* metrica
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* miceRanger
- checking running R code from vignettes ... ERROR
-
-* microbial
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* MicrobiomeSurv
- checking examples ... ERROR
+* MF.beta4
+ checking whether package ‘MF.beta4’ can be installed ... WARNING
* migraph
checking tests ... ERROR
@@ -1064,28 +778,17 @@ Issues with CRAN packages are summarised below.
checking tests ... ERROR
* MiscMetabar
- checking examples ... ERROR
checking tests ... ERROR
-* misspi
- checking examples ... ERROR
+* missingHE
+ checking whether package ‘missingHE’ can be installed ... WARNING
-* mixpoissonreg
+* misspi
checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* mizer
checking tests ... ERROR
-* mlr3spatiotempcv
- checking examples ... ERROR
-
-* mlr3viz
- checking examples ... ERROR
- checking tests ... ERROR
-
* modeltime.resample
checking tests ... ERROR
@@ -1093,61 +796,32 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* mosaicCalc
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* mosaicData
- checking examples ... ERROR
-
-* mosaicModel
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* mppR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* MSCMT
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* mstate
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
+* MSPRT
+ checking whether package ‘MSPRT’ can be installed ... WARNING
* mtb
checking tests ... ERROR
-* mulgar
- checking examples ... ERROR
-
-* MultivariateAnalysis
+* MTLR
checking examples ... ERROR
-* mxfda
- checking installed package size ... NOTE
-
-* neatmaps
+* mulgar
checking examples ... ERROR
-* neatStats
+* MultiTraits
checking examples ... ERROR
-
-* netcom
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* NetFACS
+* naive
+ checking whether package ‘naive’ can be installed ... WARNING
+
+* neatmaps
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
-* neuroUp
+* NetFACS
checking examples ... ERROR
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* NHSRplotthedots
checking tests ... ERROR
@@ -1162,131 +836,94 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* nonmem2R
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* nphRCT
+* nuts
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* nprobust
- checking examples ... ERROR
-
* nzelect
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* OBIC
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* oceanic
- checking examples ... ERROR
* oddsratio
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
+* OenoKPM
+ checking whether package ‘OenoKPM’ can be installed ... WARNING
+
* ofpetrial
checking examples ... ERROR
* OmicNavigator
checking tests ... ERROR
-* omu
- checking examples ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* OncoBayes2
- checking examples ... ERROR
-
-* oncomsm
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* onemap
+ checking whether package ‘onemap’ can be installed ... WARNING
* OneSampleLogRankTest
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* onpoint
- checking examples ... ERROR
-
* ordbetareg
checking examples ... ERROR
-* packcircles
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* pafr
checking tests ... ERROR
-* patchwork
+* pathfindR
checking examples ... ERROR
-
-* pathviewr
checking tests ... ERROR
-
-* patientProfilesVis
- checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* PCADSC
- checking examples ... ERROR
-
-* pcutils
- checking examples ... ERROR
+* pathviewr
+ checking tests ... ERROR
* pdxTrees
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* personalized
- checking tests ... ERROR
-
-* phyloseqGraphTest
+* penAFT
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* PieGlyph
- checking examples ... ERROR
+* personalized
checking tests ... ERROR
- checking re-building of vignette outputs ... NOTE
* Plasmidprofiler
checking examples ... ERROR
-* platetools
+* plinkQC
checking tests ... ERROR
-* PLNmodels
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* plotBart
+* plotDK
checking tests ... ERROR
-* plotDK
+* PlotFTIR
+ checking examples ... ERROR
checking tests ... ERROR
+ checking running R code from vignettes ... ERROR
+
+* plothelper
+ checking examples ... ERROR
* plotly
checking examples ... ERROR
checking tests ... ERROR
+* plotthis
+ checking examples ... ERROR
+
* pmartR
checking tests ... ERROR
* pmxTools
checking tests ... ERROR
+* PopED
+ checking installed package size ... NOTE
+
* posterior
+ checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
* PPQplan
@@ -1296,15 +933,15 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* PPtreeregViz
+* precintcon
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* precintcon
+* predictMe
checking examples ... ERROR
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
-* precrec
+* prevR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -1314,114 +951,84 @@ Issues with CRAN packages are summarised below.
checking re-building of vignette outputs ... NOTE
* probably
+ checking examples ... ERROR
checking tests ... ERROR
* processmapR
checking tests ... ERROR
-* projpred
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
-
-* psborrow
- checking tests ... ERROR
-
-* pubh
+* profoc
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* PUPMSI
+* promor
checking examples ... ERROR
-* qacBase
+* protag
checking examples ... ERROR
-* qPCRhelper
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* r2dii.plot
+* psborrow
checking tests ... ERROR
-* r2spss
- checking examples ... ERROR
+* psc
checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
-* radiant.basics
- checking examples ... ERROR
-
-* radiant.data
- checking examples ... ERROR
-
-* radiant.model
- checking examples ... ERROR
+* PSCBS
+ checking installed package size ... NOTE
-* Radviz
- checking examples ... ERROR
+* PupilPre
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* randomForestExplainer
+* qlifetable
checking examples ... ERROR
- checking tests ... ERROR
+
+* quantities
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* rassta
+* QurvE
checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
-* rater
+* r2dii.plot
checking tests ... ERROR
-* RBesT
+* Radviz
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* rddensity
- checking examples ... ERROR
-
-* RecordTest
+* rassta
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+ checking tests ... ERROR
-* reda
- checking examples ... ERROR
+* rasterdiv
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* redist
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* rater
+ checking tests ... ERROR
-* registr
- checking running R code from vignettes ... ERROR
+* ratlas
+ checking tests ... ERROR
checking re-building of vignette outputs ... NOTE
-* reliabilitydiag
+* RavenR
checking examples ... ERROR
-* relliptical
- checking examples ... ERROR
+* RCTrep
+ checking whether package ‘RCTrep’ can be installed ... WARNING
-* reportRmd
- checking examples ... ERROR
+* registr
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* reservr
- checking examples ... ERROR
+* RegrCoeffsExplorer
checking re-building of vignette outputs ... NOTE
-* RestoreNet
- checking examples ... ERROR
-
-* rfPermute
- checking examples ... ERROR
+* regtomean
+ checking whether package ‘regtomean’ can be installed ... WARNING
* RKorAPClient
checking tests ... ERROR
@@ -1429,39 +1036,22 @@ Issues with CRAN packages are summarised below.
* roahd
checking examples ... ERROR
-* robCompositions
- checking examples ... ERROR
-
* romic
- checking examples ... ERROR
checking tests ... ERROR
* roptions
checking examples ... ERROR
* rSAFE
- checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* santaR
- checking tests ... ERROR
-
-* saros
- checking examples ... ERROR
- checking tests ... ERROR
-
-* scatterpie
- checking examples ... ERROR
+* scoringutils
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* scdtb
- checking tests ... ERROR
-
-* scoringutils
- checking examples ... ERROR
- checking re-building of vignette outputs ... NOTE
+* SCOUTer
+ checking whether package ‘SCOUTer’ can be installed ... WARNING
* scUtils
checking tests ... ERROR
@@ -1469,31 +1059,17 @@ Issues with CRAN packages are summarised below.
* SCVA
checking examples ... ERROR
-* sdmTMB
- checking examples ... ERROR
-
* SDMtune
checking tests ... ERROR
-* sedproxy
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* see
+* seAMLess
checking examples ... ERROR
* seedreg
checking examples ... ERROR
-* semfindr
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* sensiPhy
- checking examples ... ERROR
+* segen
+ checking whether package ‘segen’ can be installed ... WARNING
* sglg
checking examples ... ERROR
@@ -1504,127 +1080,84 @@ Issues with CRAN packages are summarised below.
* SHAPforxgboost
checking examples ... ERROR
-* ShapleyOutlier
- checking examples ... ERROR
+* shapr
+ checking tests ... ERROR
+
+* simmr
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* shinipsum
+* SimNPH
checking tests ... ERROR
-* signatureSurvival
- checking examples ... ERROR
+* sivirep
+ checking tests ... ERROR
-* SimCorrMix
+* skewlmm
checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* SimMultiCorrData
- checking running R code from vignettes ... ERROR
+* smdi
checking re-building of vignette outputs ... NOTE
-* SimNPH
- checking tests ... ERROR
-
-* slendr
+* soc.ca
checking examples ... ERROR
-* smallsets
- checking examples ... ERROR
+* SouthParkRshiny
+ checking whether package ‘SouthParkRshiny’ can be installed ... WARNING
+
+* SPARRAfairness
checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* spinifex
checking tests ... ERROR
-* sport
- checking tests ... ERROR
+* spooky
+ checking whether package ‘spooky’ can be installed ... WARNING
-* spotoroo
+* sport
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
* SqueakR
+ checking whether package ‘SqueakR’ can be installed ... WARNING
checking re-building of vignette outputs ... NOTE
-* stability
- checking examples ... ERROR
-
* statgenGWAS
checking tests ... ERROR
* statgenHTP
- checking examples ... ERROR
checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-* sugrrants
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* superb
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
+* stats19
checking re-building of vignette outputs ... NOTE
* surveyexplorer
checking examples ... ERROR
-* survivalAnalysis
- checking examples ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* survminer
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* survParamSim
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* survstan
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* SVMMaj
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
-
-* Sysrecon
- checking examples ... ERROR
+* symptomcheckR
+ checking whether package ‘symptomcheckR’ can be installed ... WARNING
* tabledown
checking examples ... ERROR
-* tcgaViz
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* TCIU
checking examples ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* tcpl
- checking tests ... ERROR
+* TestGardener
+ checking whether package ‘TestGardener’ can be installed ... WARNING
-* tern
- checking examples ... ERROR
+* tetragon
+ checking whether package ‘tetragon’ can be installed ... WARNING
* thematic
checking examples ... ERROR
checking tests ... ERROR
-* Thermistor
- checking examples ... ERROR
-
* tidybayes
checking examples ... ERROR
@@ -1636,11 +1169,7 @@ Issues with CRAN packages are summarised below.
* tidyCDISC
checking tests ... ERROR
-* tidysdm
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* tidySEM
+* tidyplots
checking examples ... ERROR
checking tests ... ERROR
checking running R code from vignettes ... ERROR
@@ -1650,48 +1179,23 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* timeplyr
- checking examples ... ERROR
-
* timetk
checking tests ... ERROR
-* tinyarray
- checking examples ... ERROR
-
-* tipmap
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* tornado
- checking examples ... ERROR
- checking tests ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
* TOSTER
checking examples ... ERROR
checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* TreatmentPatterns
+* track2KBA
checking tests ... ERROR
-* TreatmentSelection
- checking examples ... ERROR
-
-* TreeDep
+* TransProR
checking examples ... ERROR
-* TreeDist
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
-
-* treeheatr
- checking examples ... ERROR
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* TreatmentPatterns
+ checking tests ... ERROR
* trelliscopejs
checking tests ... ERROR
@@ -1701,29 +1205,22 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* triptych
- checking examples ... ERROR
-
* tsnet
checking tests ... ERROR
-* UBayFS
+* UCSCXenaShiny
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* Umatrix
- checking examples ... ERROR
-
* umiAnalyzer
checking examples ... ERROR
-* UnalR
+* umx
checking examples ... ERROR
checking tests ... ERROR
-* unmconf
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* UniprotR
+ checking whether package ‘UniprotR’ can be installed ... WARNING
* usmap
checking examples ... ERROR
@@ -1731,29 +1228,23 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* vannstats
- checking examples ... ERROR
-
-* vDiveR
- checking examples ... ERROR
-
-* venn
- checking examples ... ERROR
+* vaccineff
+ checking tests ... ERROR
-* vimpclust
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* VALERIE
+ checking whether package ‘VALERIE’ can be installed ... WARNING
-* vip
- checking examples ... ERROR
+* valr
checking tests ... ERROR
-* VirtualPop
- checking running R code from vignettes ... ERROR
- checking re-building of vignette outputs ... NOTE
+* vannstats
+ checking whether package ‘vannstats’ can be installed ... WARNING
-* viscomp
- checking examples ... ERROR
+* vici
+ checking whether package ‘vici’ can be installed ... WARNING
+
+* visOmopResults
+ checking tests ... ERROR
* vivaldi
checking examples ... ERROR
@@ -1761,12 +1252,7 @@ Issues with CRAN packages are summarised below.
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* voiceR
- checking examples ... ERROR
- checking tests ... ERROR
-
-* volcano3D
- checking examples ... ERROR
+* voi
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
@@ -1774,24 +1260,37 @@ Issues with CRAN packages are summarised below.
checking examples ... ERROR
checking re-building of vignette outputs ... NOTE
-* vsd
- checking examples ... ERROR
+* voteogram
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
* vvshiny
checking tests ... ERROR
-* walker
+* VWPre
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* WVPlots
+* wilson
+ checking tests ... ERROR
+
+* wpa
+ checking tests ... ERROR
+
+* xpose
checking examples ... ERROR
checking tests ... ERROR
checking running R code from vignettes ... ERROR
checking re-building of vignette outputs ... NOTE
-* xaringanthemer
+* xpose.xtras
+ checking examples ... ERROR
checking tests ... ERROR
+ checking running R code from vignettes ... ERROR
+ checking re-building of vignette outputs ... NOTE
+
+* xray
+ checking examples ... ERROR
* yamlet
checking examples ... ERROR
@@ -1799,158 +1298,179 @@ Issues with CRAN packages are summarised below.
### Failed to check
-* abctools (NA)
-* adjclust (NA)
-* animalEKF (NA)
-* ANOM (NA)
-* atRisk (NA)
-* AutoScore (NA)
-* baRulho (NA)
-* bayesDP (NA)
-* BayesianFactorZoo (NA)
-* BayesSurvive (NA)
-* BCClong (NA)
-* BGGM (NA)
-* binsreg (NA)
-* bspcov (NA)
-* bsub (NA)
-* BuyseTest (NA)
-* CARBayesST (NA)
-* CGPfunctions (NA)
-* chemodiv (NA)
-* cinaR (NA)
-* cmprskcoxmsm (NA)
-* CNVScope (NA)
-* COMMA (NA)
-* conos (NA)
-* counterfactuals (NA)
-* CRMetrics (NA)
-* crosstalkr (NA)
-* ctsem (NA)
-* DepthProc (NA)
-* DR.SC (NA)
-* easybgm (NA)
-* EcoEnsemble (NA)
-* ecolottery (NA)
-* EMAS (NA)
-* EpiEstim (NA)
-* evolqg (NA)
-* ForecastComb (NA)
-* GALLO (NA)
-* gap (NA)
-* gapfill (NA)
-* geneHapR (NA)
-* GeneSelectR (NA)
-* GeomComb (NA)
-* gJLS2 (NA)
-* hettx (NA)
-* Hmisc (NA)
-* Hmsc (NA)
-* iClusterVB (NA)
-* inventorize (NA)
-* iNZightPlots (NA)
-* iNZightRegression (NA)
-* IRexamples (NA)
-* jmBIG (NA)
-* joineRML (NA)
-* kibior (NA)
-* kmc (NA)
-* L2E (NA)
-* llbayesireg (NA)
-* locuszoomr (NA)
-* LorenzRegression (NA)
-* lsirm12pl (NA)
-* MARVEL (NA)
-* mbsts (NA)
-* MitoHEAR (NA)
-* miWQS (NA)
-* mlmts (NA)
-* mlr (NA)
-* MOCHA (NA)
-* MRZero (NA)
-* multilevelTools (NA)
-* multinma (NA)
-* NCA (NA)
-* netcmc (NA)
-* NetworkChange (NA)
-* nlmeVPC (NA)
-* NMADiagT (NA)
-* ohun (NA)
-* optweight (NA)
-* OVtool (NA)
-* pagoda2 (NA)
-* PAMpal (NA)
-* PAMscapes (NA)
-* paths (NA)
-* pcvr (NA)
-* PlasmaMutationDetector (NA)
-* PlasmaMutationDetector2 (NA)
-* PLMIX (NA)
-* polyRAD (NA)
-* popstudy (NA)
-* pould (NA)
-* PoweREST (NA)
-* powerly (NA)
-* pre (NA)
-* ProFAST (NA)
-* psbcSpeedUp (NA)
-* pscore (NA)
-* qPCRtools (NA)
-* qris (NA)
-* qte (NA)
-* quantilogram (NA)
-* quid (NA)
-* RcmdrPlugin.RiskDemo (NA)
-* rddtools (NA)
-* RNAseqQC (NA)
-* robmed (NA)
-* robmedExtra (NA)
-* RPPanalyzer (NA)
-* RQdeltaCT (NA)
-* rstanarm (NA)
-* RTIGER (NA)
-* rTwig (NA)
-* RVA (NA)
-* scCustomize (NA)
-* SCdeconR (NA)
-* scGate (NA)
-* SCIntRuler (NA)
-* scITD (NA)
-* scMappR (NA)
-* scpi (NA)
-* scRNAstat (NA)
-* sectorgap (NA)
-* SeedMatchR (NA)
-* SEERaBomb (NA)
-* semicmprskcoxmsm (NA)
-* SensMap (NA)
-* sephora (NA)
-* Seurat (NA)
-* shinyTempSignal (NA)
-* sievePH (NA)
-* sigminer (NA)
-* Signac (NA)
-* SimplyAgree (NA)
-* SNPassoc (NA)
-* snplinkage (NA)
-* SoupX (NA)
-* sparsereg (NA)
-* SpatialDDLS (NA)
-* spikeSlabGAM (NA)
-* statsr (NA)
-* streamDAG (NA)
-* survidm (NA)
-* tempted (NA)
-* TestAnaAPP (NA)
-* tidydr (NA)
-* tidyEdSurvey (NA)
-* tidyseurat (NA)
-* tidyvpc (NA)
-* TriDimRegression (NA)
-* TSrepr (NA)
-* twang (NA)
-* updog (NA)
-* valr (NA)
-* vdg (NA)
-* visa (NA)
-* WRTDStidal (NA)
+* abctools (NA)
+* adjustedCurves (NA)
+* animalEKF (NA)
+* ANOM (NA)
+* atRisk (NA)
+* autoReg (NA)
+* AutoScore (NA)
+* bartMan (NA)
+* bayesDP (NA)
+* BayesianFactorZoo (NA)
+* BayesSurvive (NA)
+* BCClong (NA)
+* BGGM (NA)
+* binsreg (NA)
+* bspcov (NA)
+* BSTZINB (NA)
+* BuyseTest (NA)
+* CAESAR.Suite (NA)
+* CARBayesST (NA)
+* Certara.VPCResults (NA)
+* CGPfunctions (NA)
+* cinaR (NA)
+* cmprskcoxmsm (NA)
+* COMMA (NA)
+* contsurvplot (NA)
+* counterfactuals (NA)
+* CRMetrics (NA)
+* ctsem (NA)
+* dartR.base (NA)
+* dartR.captive (NA)
+* dartR.popgen (NA)
+* dartR.sexlinked (NA)
+* dartR.sim (NA)
+* dartR.spatial (NA)
+* DepthProc (NA)
+* DFD (NA)
+* DR.SC (NA)
+* dscoreMSM (NA)
+* easybgm (NA)
+* EcoEnsemble (NA)
+* ecolottery (NA)
+* EpiEstim (NA)
+* EpiNow2 (NA)
+* evolqg (NA)
+* flexrsurv (NA)
+* ForecastComb (NA)
+* gap (NA)
+* gapfill (NA)
+* genekitr (NA)
+* GeneSelectR (NA)
+* GeomComb (NA)
+* ggmosaic (NA)
+* ggtern (NA)
+* gJLS2 (NA)
+* grandR (NA)
+* GseaVis (NA)
+* hettx (NA)
+* Hmisc (NA)
+* Hmsc (NA)
+* iClusterVB (NA)
+* immcp (NA)
+* inventorize (NA)
+* invivoPKfit (NA)
+* iNZightPlots (NA)
+* iNZightRegression (NA)
+* IRexamples (NA)
+* jmBIG (NA)
+* joineRML (NA)
+* jsmodule (NA)
+* kmc (NA)
+* KMunicate (NA)
+* L2E (NA)
+* Landmarking (NA)
+* lavaSearch2 (NA)
+* llbayesireg (NA)
+* lnmixsurv (NA)
+* LorenzRegression (NA)
+* lsirm12pl (NA)
+* MARVEL (NA)
+* MaxWiK (NA)
+* mbsts (NA)
+* MendelianRandomization (NA)
+* miWQS (NA)
+* mlmts (NA)
+* mlr (NA)
+* MRZero (NA)
+* mstate (NA)
+* multilevelTools (NA)
+* multinma (NA)
+* multipleOutcomes (NA)
+* MuPETFlow (NA)
+* NCA (NA)
+* netcmc (NA)
+* NetworkChange (NA)
+* nlmeVPC (NA)
+* NMADiagT (NA)
+* obliqueRSF (NA)
+* OlinkAnalyze (NA)
+* optweight (NA)
+* OVtool (NA)
+* pammtools (NA)
+* paths (NA)
+* pcvr (NA)
+* PieGlyph (NA)
+* PLMIX (NA)
+* popstudy (NA)
+* pould (NA)
+* PoweREST (NA)
+* powerly (NA)
+* pre (NA)
+* ProFAST (NA)
+* psbcSpeedUp (NA)
+* pscore (NA)
+* qPCRtools (NA)
+* qris (NA)
+* qte (NA)
+* quantilogram (NA)
+* quid (NA)
+* RcmdrPlugin.RiskDemo (NA)
+* rddtools (NA)
+* relsurv (NA)
+* ReporterScore (NA)
+* riskRegression (NA)
+* robber (NA)
+* robmed (NA)
+* robmedExtra (NA)
+* RPPanalyzer (NA)
+* RQdeltaCT (NA)
+* rstanarm (NA)
+* rTwig (NA)
+* RVA (NA)
+* S4DM (NA)
+* scCustomize (NA)
+* SCdeconR (NA)
+* scGate (NA)
+* SCIntRuler (NA)
+* scMappR (NA)
+* scpi (NA)
+* SCpubr (NA)
+* scRNAstat (NA)
+* sectorgap (NA)
+* SEERaBomb (NA)
+* semicmprskcoxmsm (NA)
+* SensMap (NA)
+* Seurat (NA)
+* shinyTempSignal (NA)
+* sievePH (NA)
+* SiFINeT (NA)
+* Signac (NA)
+* SimplyAgree (NA)
+* SNPassoc (NA)
+* snplinkage (NA)
+* SoupX (NA)
+* SpaCCI (NA)
+* sparsereg (NA)
+* spikeSlabGAM (NA)
+* stabiliser (NA)
+* statsr (NA)
+* streamDAG (NA)
+* survex (NA)
+* survHE (NA)
+* survidm (NA)
+* tempted (NA)
+* TestAnaAPP (NA)
+* tidydr (NA)
+* tidyEdSurvey (NA)
+* tidyseurat (NA)
+* tidyvpc (NA)
+* tinyarray (NA)
+* treeclim (NA)
+* TriDimRegression (NA)
+* TSrepr (NA)
+* twang (NA)
+* vdg (NA)
+* visa (NA)
+* WRTDStidal (NA)
diff --git a/revdep/failures.md b/revdep/failures.md
index 444f4e174b..f51a0edeab 100644
--- a/revdep/failures.md
+++ b/revdep/failures.md
@@ -29,7 +29,7 @@ Run `revdepcheck::cloud_details(, "abctools")` for more info
** package ‘abctools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c abctools.c -o abctools.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o abctools.so abctools.o init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -53,7 +53,7 @@ ERROR: lazy loading failed for package ‘abctools’
** package ‘abctools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c abctools.c -o abctools.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o abctools.so abctools.o init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -70,17 +70,17 @@ ERROR: lazy loading failed for package ‘abctools’
```
-# adjclust
+# adjustedCurves
-* Version: 0.6.9
-* GitHub: https://github.com/pneuvial/adjclust
-* Source code: https://github.com/cran/adjclust
-* Date/Publication: 2024-02-08 08:50:05 UTC
-* Number of recursive dependencies: 119
+* Version: 0.11.2
+* GitHub: https://github.com/RobinDenz1/adjustedCurves
+* Source code: https://github.com/cran/adjustedCurves
+* Date/Publication: 2024-07-29 14:30:02 UTC
+* Number of recursive dependencies: 177
-Run `revdepcheck::cloud_details(, "adjclust")` for more info
+Run `revdepcheck::cloud_details(, "adjustedCurves")` for more info
@@ -89,27 +89,27 @@ Run `revdepcheck::cloud_details(, "adjclust")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/adjclust/new/adjclust.Rcheck’
+* using log directory ‘/tmp/workdir/adjustedCurves/new/adjustedCurves.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘adjclust/DESCRIPTION’ ... OK
+* checking for file ‘adjustedCurves/DESCRIPTION’ ... OK
...
- When sourcing ‘hicClust.R’:
-Error: there is no package called ‘HiTC’
+--- finished re-building ‘plot_customization.rmd’
+
+SUMMARY: processing the following file failed:
+ ‘introduction.Rmd’
+
+Error: Vignette re-building failed.
Execution halted
- ‘hicClust.Rmd’ using ‘UTF-8’... failed
- ‘notesCHAC.Rmd’ using ‘UTF-8’... OK
- ‘snpClust.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 WARNING, 2 NOTEs
+Status: 2 ERRORs, 1 WARNING, 3 NOTEs
@@ -119,27 +119,27 @@ Status: 1 WARNING, 2 NOTEs
### CRAN
```
-* using log directory ‘/tmp/workdir/adjclust/old/adjclust.Rcheck’
+* using log directory ‘/tmp/workdir/adjustedCurves/old/adjustedCurves.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘adjclust/DESCRIPTION’ ... OK
+* checking for file ‘adjustedCurves/DESCRIPTION’ ... OK
...
- When sourcing ‘hicClust.R’:
-Error: there is no package called ‘HiTC’
+--- finished re-building ‘plot_customization.rmd’
+
+SUMMARY: processing the following file failed:
+ ‘introduction.Rmd’
+
+Error: Vignette re-building failed.
Execution halted
- ‘hicClust.Rmd’ using ‘UTF-8’... failed
- ‘notesCHAC.Rmd’ using ‘UTF-8’... OK
- ‘snpClust.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 WARNING, 2 NOTEs
+Status: 2 ERRORs, 1 WARNING, 3 NOTEs
@@ -216,7 +216,7 @@ ERROR: lazy loading failed for package ‘animalEKF’
* GitHub: https://github.com/PhilipPallmann/ANOM
* Source code: https://github.com/cran/ANOM
* Date/Publication: 2017-04-12 13:32:33 UTC
-* Number of recursive dependencies: 60
+* Number of recursive dependencies: 63
Run `revdepcheck::cloud_details(, "ANOM")` for more info
@@ -276,10 +276,10 @@ ERROR: lazy loading failed for package ‘ANOM’
-* Version: 0.1.0
+* Version: 0.2.0
* GitHub: NA
* Source code: https://github.com/cran/atRisk
-* Date/Publication: 2023-08-08 14:50:05 UTC
+* Date/Publication: 2025-01-14 18:50:01 UTC
* Number of recursive dependencies: 37
Run `revdepcheck::cloud_details(, "atRisk")` for more info
@@ -334,17 +334,17 @@ ERROR: lazy loading failed for package ‘atRisk’
```
-# AutoScore
+# autoReg
-* Version: 1.0.0
-* GitHub: https://github.com/nliulab/AutoScore
-* Source code: https://github.com/cran/AutoScore
-* Date/Publication: 2022-10-15 22:15:26 UTC
-* Number of recursive dependencies: 170
+* Version: 0.3.3
+* GitHub: https://github.com/cardiomoon/autoReg
+* Source code: https://github.com/cran/autoReg
+* Date/Publication: 2023-11-14 05:53:27 UTC
+* Number of recursive dependencies: 215
-Run `revdepcheck::cloud_details(, "AutoScore")` for more info
+Run `revdepcheck::cloud_details(, "autoReg")` for more info
@@ -353,27 +353,27 @@ Run `revdepcheck::cloud_details(, "AutoScore")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/AutoScore/new/AutoScore.Rcheck’
+* using log directory ‘/tmp/workdir/autoReg/new/autoReg.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘AutoScore/DESCRIPTION’ ... OK
+* checking for file ‘autoReg/DESCRIPTION’ ... OK
...
-* this is package ‘AutoScore’ version ‘1.0.0’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘survAUC’
+--- failed re-building ‘Survival.Rmd’
+
+SUMMARY: processing the following file failed:
+ ‘Survival.Rmd’
+
+Error: Vignette re-building failed.
+Execution halted
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
* DONE
-Status: 1 ERROR
+Status: 1 ERROR, 1 NOTE
@@ -383,44 +383,44 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/AutoScore/old/AutoScore.Rcheck’
+* using log directory ‘/tmp/workdir/autoReg/old/autoReg.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘AutoScore/DESCRIPTION’ ... OK
+* checking for file ‘autoReg/DESCRIPTION’ ... OK
...
-* this is package ‘AutoScore’ version ‘1.0.0’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘survAUC’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘Automatic_Regression_Modeling.Rmd’ using ‘UTF-8’... OK
+ ‘Bootstrap_Prediction.Rmd’ using ‘UTF-8’... OK
+ ‘Getting_started.Rmd’ using ‘UTF-8’... OK
+ ‘Statiastical_test_in_gaze.Rmd’ using ‘UTF-8’... OK
+ ‘Survival.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: OK
```
-# baRulho
+# AutoScore
-* Version: 2.1.2
-* GitHub: https://github.com/ropensci/baRulho
-* Source code: https://github.com/cran/baRulho
-* Date/Publication: 2024-08-31 13:10:07 UTC
-* Number of recursive dependencies: 115
+* Version: 1.0.0
+* GitHub: https://github.com/nliulab/AutoScore
+* Source code: https://github.com/cran/AutoScore
+* Date/Publication: 2022-10-15 22:15:26 UTC
+* Number of recursive dependencies: 173
-Run `revdepcheck::cloud_details(, "baRulho")` for more info
+Run `revdepcheck::cloud_details(, "AutoScore")` for more info
@@ -429,22 +429,22 @@ Run `revdepcheck::cloud_details(, "baRulho")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/baRulho/new/baRulho.Rcheck’
+* using log directory ‘/tmp/workdir/AutoScore/new/AutoScore.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘baRulho/DESCRIPTION’ ... OK
+* checking for file ‘AutoScore/DESCRIPTION’ ... OK
...
+* this is package ‘AutoScore’ version ‘1.0.0’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'warbleR', 'ohun'
-
-Package suggested but not available for checking: ‘Rraven’
+Package required but not available: ‘survAUC’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -459,22 +459,22 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/baRulho/old/baRulho.Rcheck’
+* using log directory ‘/tmp/workdir/AutoScore/old/AutoScore.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘baRulho/DESCRIPTION’ ... OK
+* checking for file ‘AutoScore/DESCRIPTION’ ... OK
...
+* this is package ‘AutoScore’ version ‘1.0.0’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'warbleR', 'ohun'
-
-Package suggested but not available for checking: ‘Rraven’
+Package required but not available: ‘survAUC’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -485,16 +485,78 @@ Status: 1 ERROR
+```
+# bartMan
+
+
+
+* Version: 0.1.1
+* GitHub: NA
+* Source code: https://github.com/cran/bartMan
+* Date/Publication: 2024-07-24 12:10:02 UTC
+* Number of recursive dependencies: 135
+
+Run `revdepcheck::cloud_details(, "bartMan")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘bartMan’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘bartMan’ ...
+** package ‘bartMan’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+Error in eval(exprs[i], envir) : object 'justify_grobs' not found
+Error: unable to load R code in package ‘bartMan’
+Execution halted
+ERROR: lazy loading failed for package ‘bartMan’
+* removing ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/bartMan’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘bartMan’ ...
+** package ‘bartMan’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+** building package indices
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (bartMan)
+
+
```
# bayesDP
-* Version: 1.3.6
+* Version: 1.3.7
* GitHub: https://github.com/graemeleehickey/bayesDP
* Source code: https://github.com/cran/bayesDP
-* Date/Publication: 2022-01-30 22:20:02 UTC
-* Number of recursive dependencies: 80
+* Date/Publication: 2025-01-12 11:40:10 UTC
+* Number of recursive dependencies: 79
Run `revdepcheck::cloud_details(, "bayesDP")` for more info
@@ -517,10 +579,10 @@ Run `revdepcheck::cloud_details(, "bayesDP")` for more info
** package ‘bayesDP’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o bayesDP.so RcppExports.o bdplm.o ppexp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/bayesDP/new/bayesDP.Rcheck/00LOCK-bayesDP/00new/bayesDP/libs
** R
@@ -542,10 +604,10 @@ ERROR: lazy loading failed for package ‘bayesDP’
** package ‘bayesDP’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o bayesDP.so RcppExports.o bdplm.o ppexp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/bayesDP/old/bayesDP.Rcheck/00LOCK-bayesDP/00new/bayesDP/libs
** R
@@ -564,11 +626,11 @@ ERROR: lazy loading failed for package ‘bayesDP’
-* Version: 0.0.0.2
+* Version: 0.0.0.3
* GitHub: NA
* Source code: https://github.com/cran/BayesianFactorZoo
-* Date/Publication: 2023-11-14 12:43:44 UTC
-* Number of recursive dependencies: 75
+* Date/Publication: 2024-10-04 09:30:08 UTC
+* Number of recursive dependencies: 74
Run `revdepcheck::cloud_details(, "BayesianFactorZoo")` for more info
@@ -632,73 +694,71 @@ ERROR: lazy loading failed for package ‘BayesianFactorZoo’
* GitHub: https://github.com/ocbe-uio/BayesSurvive
* Source code: https://github.com/cran/BayesSurvive
* Date/Publication: 2024-06-04 13:20:12 UTC
-* Number of recursive dependencies: 129
+* Number of recursive dependencies: 118
Run `revdepcheck::cloud_details(, "BayesSurvive")` for more info
-## In both
-
-* checking whether package ‘BayesSurvive’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck/00install.out’ for details.
- ```
-
-## Installation
+## Error before installation
### Devel
```
-* installing *source* package ‘BayesSurvive’ ...
-** package ‘BayesSurvive’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether the compiler supports GNU C++... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+* using log directory ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘BayesSurvive/DESCRIPTION’ ... OK
...
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘BayesSurvive’
-* removing ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck/BayesSurvive’
+* this is package ‘BayesSurvive’ version ‘0.0.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘BayesSurvive’ ...
-** package ‘BayesSurvive’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether the compiler supports GNU C++... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+* using log directory ‘/tmp/workdir/BayesSurvive/old/BayesSurvive.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘BayesSurvive/DESCRIPTION’ ... OK
...
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘BayesSurvive’
-* removing ‘/tmp/workdir/BayesSurvive/old/BayesSurvive.Rcheck/BayesSurvive’
+* this is package ‘BayesSurvive’ version ‘0.0.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
@@ -710,7 +770,7 @@ ERROR: lazy loading failed for package ‘BayesSurvive’
* GitHub: NA
* Source code: https://github.com/cran/BCClong
* Date/Publication: 2024-06-24 00:00:02 UTC
-* Number of recursive dependencies: 145
+* Number of recursive dependencies: 148
Run `revdepcheck::cloud_details(, "BCClong")` for more info
@@ -733,11 +793,11 @@ Run `revdepcheck::cloud_details(, "BCClong")` for more info
** package ‘BCClong’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BCClong.so BCC.o Likelihood.o RcppExports.o c_which.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
...
** R
@@ -760,11 +820,11 @@ ERROR: lazy loading failed for package ‘BCClong’
** package ‘BCClong’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BCClong.so BCC.o Likelihood.o RcppExports.o c_which.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
...
** R
@@ -784,11 +844,11 @@ ERROR: lazy loading failed for package ‘BCClong’
-* Version: 2.1.3
+* Version: 2.1.5
* GitHub: https://github.com/donaldRwilliams/BGGM
* Source code: https://github.com/cran/BGGM
-* Date/Publication: 2024-07-05 20:30:02 UTC
-* Number of recursive dependencies: 209
+* Date/Publication: 2024-12-22 21:40:02 UTC
+* Number of recursive dependencies: 211
Run `revdepcheck::cloud_details(, "BGGM")` for more info
@@ -810,13 +870,13 @@ Run `revdepcheck::cloud_details(, "BGGM")` for more info
* installing *source* package ‘BGGM’ ...
** package ‘BGGM’ successfully unpacked and MD5 sums checked
** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether we are using the GNU C++ compiler... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+configure: creating ./config.status
+config.status: creating src/Makevars
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c bggm_fast.cpp -o bggm_fast.o
...
** data
*** moving datasets to lazyload DB
@@ -837,13 +897,13 @@ ERROR: lazy loading failed for package ‘BGGM’
* installing *source* package ‘BGGM’ ...
** package ‘BGGM’ successfully unpacked and MD5 sums checked
** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether we are using the GNU C++ compiler... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+configure: creating ./config.status
+config.status: creating src/Makevars
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c bggm_fast.cpp -o bggm_fast.o
...
** data
*** moving datasets to lazyload DB
@@ -920,11 +980,11 @@ ERROR: lazy loading failed for package ‘binsreg’
-* Version: 1.0.0
+* Version: 1.0.1
* GitHub: https://github.com/statjs/bspcov
* Source code: https://github.com/cran/bspcov
-* Date/Publication: 2024-02-06 16:50:08 UTC
-* Number of recursive dependencies: 122
+* Date/Publication: 2024-11-13 20:10:02 UTC
+* Number of recursive dependencies: 111
Run `revdepcheck::cloud_details(, "bspcov")` for more info
@@ -978,26 +1038,26 @@ ERROR: lazy loading failed for package ‘bspcov’
```
-# bsub
+# BSTZINB
-* Version: 1.1.0
-* GitHub: https://github.com/jokergoo/bsub
-* Source code: https://github.com/cran/bsub
-* Date/Publication: 2021-07-01 15:50:10 UTC
-* Number of recursive dependencies: 79
+* Version: 1.0.1
+* GitHub: https://github.com/SumanM47/BSTZINB
+* Source code: https://github.com/cran/BSTZINB
+* Date/Publication: 2024-10-31 22:50:02 UTC
+* Number of recursive dependencies: 110
-Run `revdepcheck::cloud_details(, "bsub")` for more info
+Run `revdepcheck::cloud_details(, "BSTZINB")` for more info
## In both
-* checking whether package ‘bsub’ can be installed ... ERROR
+* checking whether package ‘BSTZINB’ can be installed ... ERROR
```
Installation failed.
- See ‘/tmp/workdir/bsub/new/bsub.Rcheck/00install.out’ for details.
+ See ‘/tmp/workdir/BSTZINB/new/BSTZINB.Rcheck/00install.out’ for details.
```
## Installation
@@ -1005,36 +1065,40 @@ Run `revdepcheck::cloud_details(, "bsub")` for more info
### Devel
```
-* installing *source* package ‘bsub’ ...
-** package ‘bsub’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘BSTZINB’ ...
+** package ‘BSTZINB’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
-ERROR: lazy loading failed for package ‘bsub’
-* removing ‘/tmp/workdir/bsub/new/bsub.Rcheck/bsub’
+ERROR: lazy loading failed for package ‘BSTZINB’
+* removing ‘/tmp/workdir/BSTZINB/new/BSTZINB.Rcheck/BSTZINB’
```
### CRAN
```
-* installing *source* package ‘bsub’ ...
-** package ‘bsub’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘BSTZINB’ ...
+** package ‘BSTZINB’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
-ERROR: lazy loading failed for package ‘bsub’
-* removing ‘/tmp/workdir/bsub/old/bsub.Rcheck/bsub’
+ERROR: lazy loading failed for package ‘BSTZINB’
+* removing ‘/tmp/workdir/BSTZINB/old/BSTZINB.Rcheck/BSTZINB’
```
@@ -1042,81 +1106,155 @@ ERROR: lazy loading failed for package ‘bsub’
-* Version: 3.0.4
+* Version: 3.0.5
* GitHub: https://github.com/bozenne/BuyseTest
* Source code: https://github.com/cran/BuyseTest
-* Date/Publication: 2024-07-01 09:20:02 UTC
-* Number of recursive dependencies: 133
+* Date/Publication: 2024-10-13 21:40:02 UTC
+* Number of recursive dependencies: 132
Run `revdepcheck::cloud_details(, "BuyseTest")` for more info
-## In both
-
-* checking whether package ‘BuyseTest’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/00install.out’ for details.
- ```
-
-## Installation
+## Error before installation
### Devel
```
-* installing *source* package ‘BuyseTest’ ...
-** package ‘BuyseTest’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_buyseTest.cpp -o FCT_buyseTest.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_precompute.cpp -o FCT_precompute.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c utils-from-riskRegression.cpp -o utils-from-riskRegression.o
-g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BuyseTest.so FCT_buyseTest.o FCT_precompute.o RcppExports.o utils-from-riskRegression.o -L/opt/R/4.3.1/lib/R/lib -lR
+* using log directory ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘BuyseTest/DESCRIPTION’ ... OK
...
-installing to /tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/00LOCK-BuyseTest/00new/BuyseTest/libs
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Error: unable to load R code in package ‘BuyseTest’
-Execution halted
-ERROR: lazy loading failed for package ‘BuyseTest’
-* removing ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/BuyseTest’
+* this is package ‘BuyseTest’ version ‘3.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘BuyseTest’ ...
-** package ‘BuyseTest’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_buyseTest.cpp -o FCT_buyseTest.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_precompute.cpp -o FCT_precompute.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c utils-from-riskRegression.cpp -o utils-from-riskRegression.o
-g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BuyseTest.so FCT_buyseTest.o FCT_precompute.o RcppExports.o utils-from-riskRegression.o -L/opt/R/4.3.1/lib/R/lib -lR
+* using log directory ‘/tmp/workdir/BuyseTest/old/BuyseTest.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘BuyseTest/DESCRIPTION’ ... OK
...
-installing to /tmp/workdir/BuyseTest/old/BuyseTest.Rcheck/00LOCK-BuyseTest/00new/BuyseTest/libs
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Error: unable to load R code in package ‘BuyseTest’
-Execution halted
-ERROR: lazy loading failed for package ‘BuyseTest’
-* removing ‘/tmp/workdir/BuyseTest/old/BuyseTest.Rcheck/BuyseTest’
+* this is package ‘BuyseTest’ version ‘3.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
-```
-# CARBayesST
+
+
+
+
+```
+# CAESAR.Suite
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/XiaoZhangryy/CAESAR.Suite
+* Source code: https://github.com/cran/CAESAR.Suite
+* Date/Publication: 2024-09-16 14:20:06 UTC
+* Number of recursive dependencies: 269
+
+Run `revdepcheck::cloud_details(, "CAESAR.Suite")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/CAESAR.Suite/new/CAESAR.Suite.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘CAESAR.Suite/DESCRIPTION’ ... OK
+...
+* this is package ‘CAESAR.Suite’ version ‘0.1.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘ProFAST’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/CAESAR.Suite/old/CAESAR.Suite.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘CAESAR.Suite/DESCRIPTION’ ... OK
+...
+* this is package ‘CAESAR.Suite’ version ‘0.1.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘ProFAST’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# CARBayesST
@@ -1124,7 +1262,7 @@ ERROR: lazy loading failed for package ‘BuyseTest’
* GitHub: https://github.com/duncanplee/CARBayesST
* Source code: https://github.com/cran/CARBayesST
* Date/Publication: 2023-10-30 16:40:02 UTC
-* Number of recursive dependencies: 118
+* Number of recursive dependencies: 106
Run `revdepcheck::cloud_details(, "CARBayesST")` for more info
@@ -1147,9 +1285,9 @@ Run `revdepcheck::cloud_details(, "CARBayesST")` for more info
** package ‘CARBayesST’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o CARBayesST.so CARBayesST.o RcppExports.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/CARBayesST/new/CARBayesST.Rcheck/00LOCK-CARBayesST/00new/CARBayesST/libs
** R
@@ -1171,9 +1309,9 @@ ERROR: lazy loading failed for package ‘CARBayesST’
** package ‘CARBayesST’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o CARBayesST.so CARBayesST.o RcppExports.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/CARBayesST/old/CARBayesST.Rcheck/00LOCK-CARBayesST/00new/CARBayesST/libs
** R
@@ -1187,6 +1325,66 @@ ERROR: lazy loading failed for package ‘CARBayesST’
* removing ‘/tmp/workdir/CARBayesST/old/CARBayesST.Rcheck/CARBayesST’
+```
+# Certara.VPCResults
+
+
+
+* Version: 3.0.2
+* GitHub: NA
+* Source code: https://github.com/cran/Certara.VPCResults
+* Date/Publication: 2024-12-02 15:30:02 UTC
+* Number of recursive dependencies: 141
+
+Run `revdepcheck::cloud_details(, "Certara.VPCResults")` for more info
+
+
+
+## In both
+
+* checking whether package ‘Certara.VPCResults’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/Certara.VPCResults/new/Certara.VPCResults.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘Certara.VPCResults’ ...
+** package ‘Certara.VPCResults’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘Certara.VPCResults’
+* removing ‘/tmp/workdir/Certara.VPCResults/new/Certara.VPCResults.Rcheck/Certara.VPCResults’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘Certara.VPCResults’ ...
+** package ‘Certara.VPCResults’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘Certara.VPCResults’
+* removing ‘/tmp/workdir/Certara.VPCResults/old/Certara.VPCResults.Rcheck/Certara.VPCResults’
+
+
```
# CGPfunctions
@@ -1196,7 +1394,7 @@ ERROR: lazy loading failed for package ‘CARBayesST’
* GitHub: https://github.com/ibecav/CGPfunctions
* Source code: https://github.com/cran/CGPfunctions
* Date/Publication: 2020-11-12 14:50:09 UTC
-* Number of recursive dependencies: 148
+* Number of recursive dependencies: 155
Run `revdepcheck::cloud_details(, "CGPfunctions")` for more info
@@ -1252,17 +1450,16 @@ ERROR: lazy loading failed for package ‘CGPfunctions’
```
-# chemodiv
+# cia
-* Version: 0.3.0
-* GitHub: https://github.com/hpetren/chemodiv
-* Source code: https://github.com/cran/chemodiv
-* Date/Publication: 2023-08-17 17:52:33 UTC
-* Number of recursive dependencies: 170
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/cia
+* Number of recursive dependencies: 122
-Run `revdepcheck::cloud_details(, "chemodiv")` for more info
+Run `revdepcheck::cloud_details(, "cia")` for more info
@@ -1271,27 +1468,7 @@ Run `revdepcheck::cloud_details(, "chemodiv")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/chemodiv/new/chemodiv.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘chemodiv/DESCRIPTION’ ... OK
-...
-* this is package ‘chemodiv’ version ‘0.3.0’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'fmcsR', 'ChemmineR'
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
@@ -1301,27 +1478,7 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/chemodiv/old/chemodiv.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘chemodiv/DESCRIPTION’ ... OK
-...
-* this is package ‘chemodiv’ version ‘0.3.0’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'fmcsR', 'ChemmineR'
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
@@ -1336,7 +1493,7 @@ Status: 1 ERROR
* GitHub: https://github.com/eonurk/cinaR
* Source code: https://github.com/cran/cinaR
* Date/Publication: 2022-05-18 14:00:09 UTC
-* Number of recursive dependencies: 177
+* Number of recursive dependencies: 171
Run `revdepcheck::cloud_details(, "cinaR")` for more info
@@ -1351,18 +1508,18 @@ Run `revdepcheck::cloud_details(, "cinaR")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘cinaR/DESCRIPTION’ ... OK
...
+* this is package ‘cinaR’ version ‘0.2.3’
+* package encoding: UTF-8
+* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available:
- 'ChIPseeker', 'TxDb.Hsapiens.UCSC.hg38.knownGene',
- 'TxDb.Hsapiens.UCSC.hg19.knownGene',
- 'TxDb.Mmusculus.UCSC.mm10.knownGene'
+Packages required but not available: 'ChIPseeker', 'fgsea'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1381,18 +1538,18 @@ Status: 1 ERROR
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘cinaR/DESCRIPTION’ ... OK
...
+* this is package ‘cinaR’ version ‘0.2.3’
+* package encoding: UTF-8
+* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available:
- 'ChIPseeker', 'TxDb.Hsapiens.UCSC.hg38.knownGene',
- 'TxDb.Hsapiens.UCSC.hg19.knownGene',
- 'TxDb.Mmusculus.UCSC.mm10.knownGene'
+Packages required but not available: 'ChIPseeker', 'fgsea'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1465,91 +1622,15 @@ ERROR: lazy loading failed for package ‘cmprskcoxmsm’
* removing ‘/tmp/workdir/cmprskcoxmsm/old/cmprskcoxmsm.Rcheck/cmprskcoxmsm’
-```
-# CNVScope
-
-
-
-* Version: 3.7.2
-* GitHub: https://github.com/jamesdalg/CNVScope
-* Source code: https://github.com/cran/CNVScope
-* Date/Publication: 2022-03-30 23:40:08 UTC
-* Number of recursive dependencies: 206
-
-Run `revdepcheck::cloud_details(, "CNVScope")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/CNVScope/new/CNVScope.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘CNVScope/DESCRIPTION’ ... OK
-...
-Packages required but not available: 'GenomicInteractions', 'rtracklayer'
-
-Packages suggested but not available for checking:
- 'ComplexHeatmap', 'HiCseg', 'GenomicFeatures',
- 'BSgenome.Hsapiens.UCSC.hg19'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/CNVScope/old/CNVScope.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘CNVScope/DESCRIPTION’ ... OK
-...
-Packages required but not available: 'GenomicInteractions', 'rtracklayer'
-
-Packages suggested but not available for checking:
- 'ComplexHeatmap', 'HiCseg', 'GenomicFeatures',
- 'BSgenome.Hsapiens.UCSC.hg19'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# COMMA
-* Version: 1.0.0
+* Version: 1.1.1
* GitHub: NA
* Source code: https://github.com/cran/COMMA
-* Date/Publication: 2024-07-21 10:10:05 UTC
+* Date/Publication: 2024-12-13 21:10:02 UTC
* Number of recursive dependencies: 72
Run `revdepcheck::cloud_details(, "COMMA")` for more info
@@ -1573,6 +1654,8 @@ Run `revdepcheck::cloud_details(, "COMMA")` for more info
** package ‘COMMA’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
@@ -1591,6 +1674,8 @@ ERROR: lazy loading failed for package ‘COMMA’
** package ‘COMMA’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
@@ -1602,17 +1687,17 @@ ERROR: lazy loading failed for package ‘COMMA’
```
-# conos
+# contsurvplot
-* Version: 1.5.2
-* GitHub: https://github.com/kharchenkolab/conos
-* Source code: https://github.com/cran/conos
-* Date/Publication: 2024-02-26 19:30:05 UTC
-* Number of recursive dependencies: 240
+* Version: 0.2.1
+* GitHub: https://github.com/RobinDenz1/contsurvplot
+* Source code: https://github.com/cran/contsurvplot
+* Date/Publication: 2023-08-15 08:00:03 UTC
+* Number of recursive dependencies: 156
-Run `revdepcheck::cloud_details(, "conos")` for more info
+Run `revdepcheck::cloud_details(, "contsurvplot")` for more info
@@ -1621,22 +1706,22 @@ Run `revdepcheck::cloud_details(, "conos")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/conos/new/conos.Rcheck’
+* using log directory ‘/tmp/workdir/contsurvplot/new/contsurvplot.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘conos/DESCRIPTION’ ... OK
+* checking for file ‘contsurvplot/DESCRIPTION’ ... OK
...
+* this is package ‘contsurvplot’ version ‘0.2.1’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Package suggested but not available for checking: ‘pagoda2’
+Package required but not available: ‘riskRegression’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1651,22 +1736,22 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/conos/old/conos.Rcheck’
+* using log directory ‘/tmp/workdir/contsurvplot/old/contsurvplot.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘conos/DESCRIPTION’ ... OK
+* checking for file ‘contsurvplot/DESCRIPTION’ ... OK
...
+* this is package ‘contsurvplot’ version ‘0.2.1’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Package suggested but not available for checking: ‘pagoda2’
+Package required but not available: ‘riskRegression’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1682,11 +1767,11 @@ Status: 1 ERROR
-* Version: 0.1.4
+* Version: 0.1.6
* GitHub: https://github.com/dandls/counterfactuals
* Source code: https://github.com/cran/counterfactuals
-* Date/Publication: 2024-05-14 19:00:02 UTC
-* Number of recursive dependencies: 227
+* Date/Publication: 2024-10-17 12:00:06 UTC
+* Number of recursive dependencies: 217
Run `revdepcheck::cloud_details(, "counterfactuals")` for more info
@@ -1701,9 +1786,9 @@ Run `revdepcheck::cloud_details(, "counterfactuals")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘counterfactuals/DESCRIPTION’ ... OK
@@ -1731,9 +1816,9 @@ Status: 1 NOTE
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘counterfactuals/DESCRIPTION’ ... OK
@@ -1758,89 +1843,151 @@ Status: 1 NOTE
-* Version: 0.3.0
+* Version: 0.3.2
* GitHub: https://github.com/khodosevichlab/CRMetrics
* Source code: https://github.com/cran/CRMetrics
-* Date/Publication: 2023-09-01 09:00:06 UTC
-* Number of recursive dependencies: 239
+* Date/Publication: 2024-11-08 00:20:06 UTC
+* Number of recursive dependencies: 242
Run `revdepcheck::cloud_details(, "CRMetrics")` for more info
-## Error before installation
-
-### Devel
+## In both
-```
-* using log directory ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘CRMetrics/DESCRIPTION’ ... OK
-...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘CRMetrics’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
+* checking whether package ‘CRMetrics’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/00install.out’ for details.
+ ```
+## Installation
+### Devel
+```
+* installing *source* package ‘CRMetrics’ ...
+** package ‘CRMetrics’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘CRMetrics’
+* removing ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/CRMetrics’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘CRMetrics/DESCRIPTION’ ... OK
-...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘CRMetrics’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
+* installing *source* package ‘CRMetrics’ ...
+** package ‘CRMetrics’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘CRMetrics’
+* removing ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck/CRMetrics’
+```
+# ctsem
+
+* Version: 3.10.2
+* GitHub: https://github.com/cdriveraus/ctsem
+* Source code: https://github.com/cran/ctsem
+* Date/Publication: 2025-01-13 11:00:08 UTC
+* Number of recursive dependencies: 160
+
+Run `revdepcheck::cloud_details(, "ctsem")` for more info
+
+
+
+## In both
+
+* checking whether package ‘ctsem’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
```
-# crosstalkr
+* installing *source* package ‘ctsem’ ...
+** package ‘ctsem’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+
+
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+...
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+ 654 | return internal::first_aligned::alignment),Derived>(m);
+ | ^~~~~~~~~
+g++: fatal error: Killed signal terminated program cc1plus
+compilation terminated.
+make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1
+ERROR: compilation failed for package ‘ctsem’
+* removing ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/ctsem’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘ctsem’ ...
+** package ‘ctsem’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+
+
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+...
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+ 654 | return internal::first_aligned::alignment),Derived>(m);
+ | ^~~~~~~~~
+g++: fatal error: Killed signal terminated program cc1plus
+compilation terminated.
+make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1
+ERROR: compilation failed for package ‘ctsem’
+* removing ‘/tmp/workdir/ctsem/old/ctsem.Rcheck/ctsem’
+
+
+```
+# dartR.base
-* Version: 1.0.5
+* Version: 0.98
* GitHub: NA
-* Source code: https://github.com/cran/crosstalkr
-* Date/Publication: 2024-05-17 11:40:09 UTC
-* Number of recursive dependencies: 164
+* Source code: https://github.com/cran/dartR.base
+* Date/Publication: 2024-09-19 13:20:02 UTC
+* Number of recursive dependencies: 288
-Run `revdepcheck::cloud_details(, "crosstalkr")` for more info
+Run `revdepcheck::cloud_details(, "dartR.base")` for more info
@@ -1849,22 +1996,22 @@ Run `revdepcheck::cloud_details(, "crosstalkr")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/crosstalkr/new/crosstalkr.Rcheck’
+* using log directory ‘/tmp/workdir/dartR.base/new/dartR.base.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘crosstalkr/DESCRIPTION’ ... OK
+* checking for file ‘dartR.base/DESCRIPTION’ ... OK
...
+* this is package ‘dartR.base’ version ‘0.98’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘ensembldb’
-
-Package suggested but not available for checking: ‘EnsDb.Hsapiens.v86’
+Package required but not available: ‘SNPassoc’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1879,22 +2026,98 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/crosstalkr/old/crosstalkr.Rcheck’
+* using log directory ‘/tmp/workdir/dartR.base/old/dartR.base.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.base/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.base’ version ‘0.98’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘SNPassoc’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# dartR.captive
+
+
+
+* Version: 0.75
+* GitHub: NA
+* Source code: https://github.com/cran/dartR.captive
+* Date/Publication: 2023-11-27 17:10:09 UTC
+* Number of recursive dependencies: 152
+
+Run `revdepcheck::cloud_details(, "dartR.captive")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/dartR.captive/new/dartR.captive.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘crosstalkr/DESCRIPTION’ ... OK
+* checking for file ‘dartR.captive/DESCRIPTION’ ... OK
...
+* this is package ‘dartR.captive’ version ‘0.75’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘ensembldb’
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
-Package suggested but not available for checking: ‘EnsDb.Hsapiens.v86’
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/dartR.captive/old/dartR.captive.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.captive/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.captive’ version ‘0.75’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -1906,81 +2129,307 @@ Status: 1 ERROR
```
-# ctsem
+# dartR.popgen
-* Version: 3.10.1
-* GitHub: https://github.com/cdriveraus/ctsem
-* Source code: https://github.com/cran/ctsem
-* Date/Publication: 2024-08-19 14:40:06 UTC
-* Number of recursive dependencies: 158
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/dartR.popgen
+* Date/Publication: 2024-06-27 23:20:04 UTC
+* Number of recursive dependencies: 175
-Run `revdepcheck::cloud_details(, "ctsem")` for more info
+Run `revdepcheck::cloud_details(, "dartR.popgen")` for more info
-## In both
+## Error before installation
-* checking whether package ‘ctsem’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/00install.out’ for details.
- ```
+### Devel
-## Installation
+```
+* using log directory ‘/tmp/workdir/dartR.popgen/new/dartR.popgen.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.popgen/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.popgen’ version ‘1.0.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/dartR.popgen/old/dartR.popgen.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.popgen/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.popgen’ version ‘1.0.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# dartR.sexlinked
+
+
+
+* Version: 1.0.5
+* GitHub: NA
+* Source code: https://github.com/cran/dartR.sexlinked
+* Date/Publication: 2024-06-24 15:40:02 UTC
+* Number of recursive dependencies: 120
+
+Run `revdepcheck::cloud_details(, "dartR.sexlinked")` for more info
+
+
+
+## Error before installation
### Devel
```
-* installing *source* package ‘ctsem’ ...
-** package ‘ctsem’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++17
+* using log directory ‘/tmp/workdir/dartR.sexlinked/new/dartR.sexlinked.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.sexlinked/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.sexlinked’ version ‘1.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/dartR.sexlinked/old/dartR.sexlinked.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.sexlinked/DESCRIPTION’ ... OK
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
- 654 | return internal::first_aligned::alignment),Derived>(m);
- | ^~~~~~~~~
-g++: fatal error: Killed signal terminated program cc1plus
-compilation terminated.
-make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1
-ERROR: compilation failed for package ‘ctsem’
-* removing ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/ctsem’
+* this is package ‘dartR.sexlinked’ version ‘1.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# dartR.sim
+
+
+
+* Version: 0.70
+* GitHub: https://github.com/green-striped-gecko/dartR.sim
+* Source code: https://github.com/cran/dartR.sim
+* Date/Publication: 2023-11-20 19:30:02 UTC
+* Number of recursive dependencies: 133
+
+Run `revdepcheck::cloud_details(, "dartR.sim")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/dartR.sim/new/dartR.sim.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.sim/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.sim’ version ‘0.70’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘ctsem’ ...
-** package ‘ctsem’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++17
+* using log directory ‘/tmp/workdir/dartR.sim/old/dartR.sim.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.sim/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.sim’ version ‘0.70’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+
+```
+# dartR.spatial
+
+
+
+* Version: 0.78
+* GitHub: NA
+* Source code: https://github.com/cran/dartR.spatial
+* Date/Publication: 2023-11-15 00:50:02 UTC
+* Number of recursive dependencies: 168
+
+Run `revdepcheck::cloud_details(, "dartR.spatial")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/dartR.spatial/new/dartR.spatial.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.spatial/DESCRIPTION’ ... OK
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
- 654 | return internal::first_aligned::alignment),Derived>(m);
- | ^~~~~~~~~
-g++: fatal error: Killed signal terminated program cc1plus
-compilation terminated.
-make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1
-ERROR: compilation failed for package ‘ctsem’
-* removing ‘/tmp/workdir/ctsem/old/ctsem.Rcheck/ctsem’
+* this is package ‘dartR.spatial’ version ‘0.78’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/dartR.spatial/old/dartR.spatial.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dartR.spatial/DESCRIPTION’ ... OK
+...
+* this is package ‘dartR.spatial’ version ‘0.78’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘dartR.base’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
@@ -1992,7 +2441,7 @@ ERROR: compilation failed for package ‘ctsem’
* GitHub: https://github.com/zzawadz/DepthProc
* Source code: https://github.com/cran/DepthProc
* Date/Publication: 2022-02-03 20:30:02 UTC
-* Number of recursive dependencies: 134
+* Number of recursive dependencies: 133
Run `revdepcheck::cloud_details(, "DepthProc")` for more info
@@ -2015,12 +2464,12 @@ Run `revdepcheck::cloud_details(, "DepthProc")` for more info
** package ‘DepthProc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o
...
installing to /tmp/workdir/DepthProc/new/DepthProc.Rcheck/00LOCK-DepthProc/00new/DepthProc/libs
** R
@@ -2042,12 +2491,12 @@ ERROR: lazy loading failed for package ‘DepthProc’
** package ‘DepthProc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o
...
installing to /tmp/workdir/DepthProc/old/DepthProc.Rcheck/00LOCK-DepthProc/00new/DepthProc/libs
** R
@@ -2061,6 +2510,82 @@ ERROR: lazy loading failed for package ‘DepthProc’
* removing ‘/tmp/workdir/DepthProc/old/DepthProc.Rcheck/DepthProc’
+```
+# DFD
+
+
+
+* Version: 0.2.0
+* GitHub: https://github.com/MohmedSoudy/DFD
+* Source code: https://github.com/cran/DFD
+* Date/Publication: 2024-08-28 18:20:02 UTC
+* Number of recursive dependencies: 207
+
+Run `revdepcheck::cloud_details(, "DFD")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/DFD/new/DFD.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘DFD/DESCRIPTION’ ... OK
+...
+* this is package ‘DFD’ version ‘0.2.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘signatureSearch’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/DFD/old/DFD.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘DFD/DESCRIPTION’ ... OK
+...
+* this is package ‘DFD’ version ‘0.2.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘signatureSearch’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
```
# DR.SC
@@ -2093,12 +2618,12 @@ Run `revdepcheck::cloud_details(, "DR.SC")` for more info
** package ‘DR.SC’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o
...
** R
** data
@@ -2120,12 +2645,12 @@ ERROR: lazy loading failed for package ‘DR.SC’
** package ‘DR.SC’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o
...
** R
** data
@@ -2139,16 +2664,127 @@ ERROR: lazy loading failed for package ‘DR.SC’
* removing ‘/tmp/workdir/DR.SC/old/DR.SC.Rcheck/DR.SC’
+```
+# dscoreMSM
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/dscoreMSM
+* Date/Publication: 2024-12-13 16:40:02 UTC
+* Number of recursive dependencies: 121
+
+Run `revdepcheck::cloud_details(, "dscoreMSM")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/dscoreMSM/new/dscoreMSM.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dscoreMSM/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘dscoreMSM.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/dscoreMSM/old/dscoreMSM.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘dscoreMSM/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘dscoreMSM.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+# DynForest
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/DynForest
+* Number of recursive dependencies: 143
+
+Run `revdepcheck::cloud_details(, "DynForest")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
```
# easybgm
-* Version: 0.1.2
+* Version: 0.2.1
* GitHub: https://github.com/KarolineHuth/easybgm
* Source code: https://github.com/cran/easybgm
-* Date/Publication: 2024-03-13 13:40:02 UTC
-* Number of recursive dependencies: 175
+* Date/Publication: 2024-10-17 08:30:02 UTC
+* Number of recursive dependencies: 180
Run `revdepcheck::cloud_details(, "easybgm")` for more info
@@ -2206,7 +2842,7 @@ ERROR: lazy loading failed for package ‘easybgm’
* GitHub: https://github.com/CefasRepRes/EcoEnsemble
* Source code: https://github.com/cran/EcoEnsemble
* Date/Publication: 2024-08-19 17:20:06 UTC
-* Number of recursive dependencies: 91
+* Number of recursive dependencies: 90
Run `revdepcheck::cloud_details(, "EcoEnsemble")` for more info
@@ -2229,16 +2865,16 @@ Run `revdepcheck::cloud_details(, "EcoEnsemble")` for more info
** package ‘EcoEnsemble’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -2256,16 +2892,16 @@ ERROR: compilation failed for package ‘EcoEnsemble’
** package ‘EcoEnsemble’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -2284,7 +2920,7 @@ ERROR: compilation failed for package ‘EcoEnsemble’
* GitHub: https://github.com/frmunoz/ecolottery
* Source code: https://github.com/cran/ecolottery
* Date/Publication: 2017-07-03 11:01:29 UTC
-* Number of recursive dependencies: 88
+* Number of recursive dependencies: 87
Run `revdepcheck::cloud_details(, "ecolottery")` for more info
@@ -2335,82 +2971,6 @@ ERROR: lazy loading failed for package ‘ecolottery’
* removing ‘/tmp/workdir/ecolottery/old/ecolottery.Rcheck/ecolottery’
-```
-# EMAS
-
-
-
-* Version: 0.2.2
-* GitHub: NA
-* Source code: https://github.com/cran/EMAS
-* Date/Publication: 2022-08-11 13:50:07 UTC
-* Number of recursive dependencies: 186
-
-Run `revdepcheck::cloud_details(, "EMAS")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/EMAS/new/EMAS.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘EMAS/DESCRIPTION’ ... OK
-...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available:
- 'minfi', 'IlluminaHumanMethylationEPICanno.ilm10b4.hg19',
- 'IlluminaHumanMethylation450kanno.ilmn12.hg19'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/EMAS/old/EMAS.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘EMAS/DESCRIPTION’ ... OK
-...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available:
- 'minfi', 'IlluminaHumanMethylationEPICanno.ilm10b4.hg19',
- 'IlluminaHumanMethylation450kanno.ilmn12.hg19'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# EpiEstim
@@ -2420,7 +2980,7 @@ Status: 1 ERROR
* GitHub: https://github.com/mrc-ide/EpiEstim
* Source code: https://github.com/cran/EpiEstim
* Date/Publication: 2021-01-07 16:20:10 UTC
-* Number of recursive dependencies: 91
+* Number of recursive dependencies: 90
Run `revdepcheck::cloud_details(, "EpiEstim")` for more info
@@ -2473,6 +3033,84 @@ ERROR: lazy loading failed for package ‘EpiEstim’
* removing ‘/tmp/workdir/EpiEstim/old/EpiEstim.Rcheck/EpiEstim’
+```
+# EpiNow2
+
+
+
+* Version: 1.6.1
+* GitHub: https://github.com/epiforecasts/EpiNow2
+* Source code: https://github.com/cran/EpiNow2
+* Date/Publication: 2024-10-31 14:40:02 UTC
+* Number of recursive dependencies: 131
+
+Run `revdepcheck::cloud_details(, "EpiNow2")` for more info
+
+
+
+## In both
+
+* checking whether package ‘EpiNow2’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘EpiNow2’ ...
+** package ‘EpiNow2’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+
+
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+...
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o EpiNow2.so RcppExports.o stanExports_dist_fit.o stanExports_estimate_infections.o stanExports_estimate_secondary.o stanExports_estimate_truncation.o stanExports_simulate_infections.o stanExports_simulate_secondary.o -L/usr/local/lib/R/site-library/RcppParallel/lib/ -Wl,-rpath,/usr/local/lib/R/site-library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/opt/R/4.3.1/lib/R/lib -lR
+/usr/bin/ld: stanExports_estimate_infections.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_estimate_secondary.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_estimate_truncation.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_truncation.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_simulate_infections.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_simulate_secondary.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+collect2: error: ld returned 1 exit status
+make: *** [/opt/R/4.3.1/lib/R/share/make/shlib.mk:10: EpiNow2.so] Error 1
+ERROR: compilation failed for package ‘EpiNow2’
+* removing ‘/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/EpiNow2’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘EpiNow2’ ...
+** package ‘EpiNow2’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+
+
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+...
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o EpiNow2.so RcppExports.o stanExports_dist_fit.o stanExports_estimate_infections.o stanExports_estimate_secondary.o stanExports_estimate_truncation.o stanExports_simulate_infections.o stanExports_simulate_secondary.o -L/usr/local/lib/R/site-library/RcppParallel/lib/ -Wl,-rpath,/usr/local/lib/R/site-library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/opt/R/4.3.1/lib/R/lib -lR
+/usr/bin/ld: stanExports_estimate_infections.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_estimate_secondary.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_estimate_truncation.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_truncation.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_simulate_infections.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+/usr/bin/ld: stanExports_simulate_secondary.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here
+collect2: error: ld returned 1 exit status
+make: *** [/opt/R/4.3.1/lib/R/share/make/shlib.mk:10: EpiNow2.so] Error 1
+ERROR: compilation failed for package ‘EpiNow2’
+* removing ‘/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/EpiNow2’
+
+
```
# evolqg
@@ -2482,7 +3120,7 @@ ERROR: lazy loading failed for package ‘EpiEstim’
* GitHub: https://github.com/lem-usp/evolqg
* Source code: https://github.com/cran/evolqg
* Date/Publication: 2023-12-05 15:20:12 UTC
-* Number of recursive dependencies: 111
+* Number of recursive dependencies: 110
Run `revdepcheck::cloud_details(, "evolqg")` for more info
@@ -2505,9 +3143,9 @@ Run `revdepcheck::cloud_details(, "evolqg")` for more info
** package ‘evolqg’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/evolqg/new/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs
** R
@@ -2525,39 +3163,75 @@ ERROR: lazy loading failed for package ‘evolqg’
```
### CRAN
-```
-* installing *source* package ‘evolqg’ ...
-** package ‘evolqg’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o
-g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
-installing to /tmp/workdir/evolqg/old/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs
-** R
-** data
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘evolqg’
-* removing ‘/tmp/workdir/evolqg/old/evolqg.Rcheck/evolqg’
+```
+* installing *source* package ‘evolqg’ ...
+** package ‘evolqg’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/evolqg/old/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs
+** R
+** data
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘evolqg’
+* removing ‘/tmp/workdir/evolqg/old/evolqg.Rcheck/evolqg’
+
+
+```
+# EWSmethods
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/EWSmethods
+* Number of recursive dependencies: 139
+
+Run `revdepcheck::cloud_details(, "EWSmethods")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
```
-# EWSmethods
+# flexrsurv
-* Version: NA
+* Version: 2.0.18
* GitHub: NA
-* Source code: https://github.com/cran/EWSmethods
-* Number of recursive dependencies: 140
+* Source code: https://github.com/cran/flexrsurv
+* Date/Publication: 2024-02-09 16:10:02 UTC
+* Number of recursive dependencies: 129
-Run `revdepcheck::cloud_details(, "EWSmethods")` for more info
+Run `revdepcheck::cloud_details(, "flexrsurv")` for more info
@@ -2566,7 +3240,27 @@ Run `revdepcheck::cloud_details(, "EWSmethods")` for more info
### Devel
```
-
+* using log directory ‘/tmp/workdir/flexrsurv/new/flexrsurv.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘flexrsurv/DESCRIPTION’ ... OK
+...
+* checking for missing documentation entries ... OK
+* checking for code/documentation mismatches ... OK
+* checking Rd \usage sections ... OK
+* checking Rd contents ... OK
+* checking for unstated dependencies in examples ... OK
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
@@ -2576,7 +3270,27 @@ Run `revdepcheck::cloud_details(, "EWSmethods")` for more info
### CRAN
```
-
+* using log directory ‘/tmp/workdir/flexrsurv/old/flexrsurv.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘flexrsurv/DESCRIPTION’ ... OK
+...
+* checking for missing documentation entries ... OK
+* checking for code/documentation mismatches ... OK
+* checking Rd \usage sections ... OK
+* checking Rd contents ... OK
+* checking for unstated dependencies in examples ... OK
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
@@ -2626,7 +3340,7 @@ Run `revdepcheck::cloud_details(, "fmx")` for more info
* GitHub: https://github.com/ceweiss/ForecastComb
* Source code: https://github.com/cran/ForecastComb
* Date/Publication: 2018-08-07 13:50:08 UTC
-* Number of recursive dependencies: 74
+* Number of recursive dependencies: 73
Run `revdepcheck::cloud_details(, "ForecastComb")` for more info
@@ -2679,82 +3393,6 @@ ERROR: lazy loading failed for package ‘ForecastComb’
* removing ‘/tmp/workdir/ForecastComb/old/ForecastComb.Rcheck/ForecastComb’
-```
-# GALLO
-
-
-
-* Version: 1.5
-* GitHub: NA
-* Source code: https://github.com/cran/GALLO
-* Date/Publication: 2024-06-04 15:30:20 UTC
-* Number of recursive dependencies: 142
-
-Run `revdepcheck::cloud_details(, "GALLO")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/GALLO/new/GALLO.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘GALLO/DESCRIPTION’ ... OK
-...
-* this is package ‘GALLO’ version ‘1.5’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/GALLO/old/GALLO.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘GALLO/DESCRIPTION’ ... OK
-...
-* this is package ‘GALLO’ version ‘1.5’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# gap
@@ -2764,7 +3402,7 @@ Status: 1 ERROR
* GitHub: https://github.com/jinghuazhao/R
* Source code: https://github.com/cran/gap
* Date/Publication: 2024-08-27 04:40:06 UTC
-* Number of recursive dependencies: 199
+* Number of recursive dependencies: 177
Run `revdepcheck::cloud_details(, "gap")` for more info
@@ -2779,9 +3417,9 @@ Run `revdepcheck::cloud_details(, "gap")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘gap/DESCRIPTION’ ... OK
@@ -2809,9 +3447,9 @@ Status: 4 NOTEs
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘gap/DESCRIPTION’ ... OK
@@ -2840,7 +3478,7 @@ Status: 4 NOTEs
* GitHub: https://github.com/florafauna/gapfill
* Source code: https://github.com/cran/gapfill
* Date/Publication: 2021-02-12 10:10:05 UTC
-* Number of recursive dependencies: 71
+* Number of recursive dependencies: 70
Run `revdepcheck::cloud_details(, "gapfill")` for more info
@@ -2869,9 +3507,9 @@ Run `revdepcheck::cloud_details(, "gapfill")` for more info
** package ‘gapfill’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o gapfill.so RcppExports.o gapfill.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/gapfill/new/gapfill.Rcheck/00LOCK-gapfill/00new/gapfill/libs
** R
@@ -2896,9 +3534,9 @@ ERROR: lazy loading failed for package ‘gapfill’
** package ‘gapfill’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o gapfill.so RcppExports.o gapfill.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/gapfill/old/gapfill.Rcheck/00LOCK-gapfill/00new/gapfill/libs
** R
@@ -2916,17 +3554,17 @@ ERROR: lazy loading failed for package ‘gapfill’
```
-# geneHapR
+# genekitr
-* Version: 1.2.4
-* GitHub: NA
-* Source code: https://github.com/cran/geneHapR
-* Date/Publication: 2024-03-01 14:32:40 UTC
-* Number of recursive dependencies: 180
+* Version: 1.2.8
+* GitHub: https://github.com/GangLiLab/genekitr
+* Source code: https://github.com/cran/genekitr
+* Date/Publication: 2024-09-06 13:00:06 UTC
+* Number of recursive dependencies: 199
-Run `revdepcheck::cloud_details(, "geneHapR")` for more info
+Run `revdepcheck::cloud_details(, "genekitr")` for more info
@@ -2935,22 +3573,22 @@ Run `revdepcheck::cloud_details(, "geneHapR")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/geneHapR/new/geneHapR.Rcheck’
+* using log directory ‘/tmp/workdir/genekitr/new/genekitr.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘geneHapR/DESCRIPTION’ ... OK
+* checking for file ‘genekitr/DESCRIPTION’ ... OK
...
-* this is package ‘geneHapR’ version ‘1.2.4’
-* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
+Package required but not available: ‘clusterProfiler’
+
+Package suggested but not available for checking: ‘fgsea’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -2965,22 +3603,22 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/geneHapR/old/geneHapR.Rcheck’
+* using log directory ‘/tmp/workdir/genekitr/old/genekitr.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘geneHapR/DESCRIPTION’ ... OK
+* checking for file ‘genekitr/DESCRIPTION’ ... OK
...
-* this is package ‘geneHapR’ version ‘1.2.4’
-* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
+Package required but not available: ‘clusterProfiler’
+
+Package suggested but not available for checking: ‘fgsea’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -3000,7 +3638,7 @@ Status: 1 ERROR
* GitHub: https://github.com/dzhakparov/GeneSelectR
* Source code: https://github.com/cran/GeneSelectR
* Date/Publication: 2024-02-03 14:00:05 UTC
-* Number of recursive dependencies: 191
+* Number of recursive dependencies: 183
Run `revdepcheck::cloud_details(, "GeneSelectR")` for more info
@@ -3015,9 +3653,9 @@ Run `revdepcheck::cloud_details(, "GeneSelectR")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘GeneSelectR/DESCRIPTION’ ... OK
@@ -3045,9 +3683,9 @@ Status: 1 WARNING, 1 NOTE
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘GeneSelectR/DESCRIPTION’ ... OK
@@ -3076,7 +3714,7 @@ Status: 1 WARNING, 1 NOTE
* GitHub: https://github.com/ceweiss/GeomComb
* Source code: https://github.com/cran/GeomComb
* Date/Publication: 2016-11-27 16:02:26
-* Number of recursive dependencies: 75
+* Number of recursive dependencies: 74
Run `revdepcheck::cloud_details(, "GeomComb")` for more info
@@ -3133,7 +3771,7 @@ ERROR: lazy loading failed for package ‘GeomComb’
* Version: NA
* GitHub: NA
* Source code: https://github.com/cran/geomorph
-* Number of recursive dependencies: 72
+* Number of recursive dependencies: 71
Run `revdepcheck::cloud_details(, "geomorph")` for more info
@@ -3160,6 +3798,197 @@ Run `revdepcheck::cloud_details(, "geomorph")` for more info
+```
+# GeoTox
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/GeoTox
+* Number of recursive dependencies: 143
+
+Run `revdepcheck::cloud_details(, "GeoTox")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
+```
+# ggmosaic
+
+
+
+* Version: 0.3.3
+* GitHub: https://github.com/haleyjeppson/ggmosaic
+* Source code: https://github.com/cran/ggmosaic
+* Date/Publication: 2021-02-23 19:50:02 UTC
+* Number of recursive dependencies: 76
+
+Run `revdepcheck::cloud_details(, "ggmosaic")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘ggmosaic’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/00install.out’ for details.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ ':::' call which should be '::': ‘scales:::censor’
+ See the note in ?`:::` about the use of this operator.
+ Unexported object imported by a ':::' call: ‘productplots:::bound’
+ See the note in ?`:::` about the use of this operator.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘ggmosaic’ ...
+** package ‘ggmosaic’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in get(x, envir = ns, inherits = FALSE) :
+ object 'is.waive' not found
+Error: unable to load R code in package ‘ggmosaic’
+Execution halted
+ERROR: lazy loading failed for package ‘ggmosaic’
+* removing ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/ggmosaic’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘ggmosaic’ ...
+** package ‘ggmosaic’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+*** copying figures
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (ggmosaic)
+
+
+```
+# ggtern
+
+
+
+* Version: 3.5.0
+* GitHub: NA
+* Source code: https://github.com/cran/ggtern
+* Date/Publication: 2024-03-24 21:50:02 UTC
+* Number of recursive dependencies: 42
+
+Run `revdepcheck::cloud_details(, "ggtern")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘ggtern’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/00install.out’ for details.
+ ```
+
+## Newly fixed
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘chemometrics’
+ ```
+
+## In both
+
+* checking package dependencies ... NOTE
+ ```
+ Package which this enhances but not available for checking: ‘sp’
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘ggtern’ ...
+** package ‘ggtern’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+** demo
+** inst
+** byte-compile and prepare package for lazy loading
+Error in get(x, envir = ns, inherits = FALSE) :
+ object 'update_guides' not found
+Error: unable to load R code in package ‘ggtern’
+Execution halted
+ERROR: lazy loading failed for package ‘ggtern’
+* removing ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/ggtern’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘ggtern’ ...
+** package ‘ggtern’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+** demo
+** inst
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+** building package indices
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (ggtern)
+
+
```
# gJLS2
@@ -3224,6 +4053,158 @@ ERROR: lazy loading failed for package ‘gJLS2’
* removing ‘/tmp/workdir/gJLS2/old/gJLS2.Rcheck/gJLS2’
+```
+# grandR
+
+
+
+* Version: 0.2.5
+* GitHub: https://github.com/erhard-lab/grandR
+* Source code: https://github.com/cran/grandR
+* Date/Publication: 2024-02-15 15:30:02 UTC
+* Number of recursive dependencies: 265
+
+Run `revdepcheck::cloud_details(, "grandR")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/grandR/new/grandR.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘grandR/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘getting-started.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 2 NOTEs
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/grandR/old/grandR.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘grandR/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘getting-started.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 2 NOTEs
+
+
+
+
+
+```
+# GseaVis
+
+
+
+* Version: 0.0.5
+* GitHub: https://github.com/junjunlab/GseaVis
+* Source code: https://github.com/cran/GseaVis
+* Date/Publication: 2022-12-20 19:40:07 UTC
+* Number of recursive dependencies: 104
+
+Run `revdepcheck::cloud_details(, "GseaVis")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/GseaVis/new/GseaVis.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘GseaVis/DESCRIPTION’ ... OK
+...
+* this is package ‘GseaVis’ version ‘0.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘DOSE’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/GseaVis/old/GseaVis.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘GseaVis/DESCRIPTION’ ... OK
+...
+* this is package ‘GseaVis’ version ‘0.0.5’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘DOSE’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
```
# hettx
@@ -3233,7 +4214,7 @@ ERROR: lazy loading failed for package ‘gJLS2’
* GitHub: https://github.com/bfifield/hettx
* Source code: https://github.com/cran/hettx
* Date/Publication: 2023-08-19 22:22:34 UTC
-* Number of recursive dependencies: 85
+* Number of recursive dependencies: 84
Run `revdepcheck::cloud_details(, "hettx")` for more info
@@ -3293,11 +4274,11 @@ ERROR: lazy loading failed for package ‘hettx’
-* Version: 5.1-3
+* Version: 5.2-2
* GitHub: NA
* Source code: https://github.com/cran/Hmisc
-* Date/Publication: 2024-05-28 07:10:02 UTC
-* Number of recursive dependencies: 170
+* Date/Publication: 2025-01-10 23:30:03 UTC
+* Number of recursive dependencies: 173
Run `revdepcheck::cloud_details(, "Hmisc")` for more info
@@ -3312,9 +4293,9 @@ Run `revdepcheck::cloud_details(, "Hmisc")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘Hmisc/DESCRIPTION’ ... OK
@@ -3328,7 +4309,7 @@ Run `revdepcheck::cloud_details(, "Hmisc")` for more info
* checking compiled code ... OK
* checking examples ... OK
* DONE
-Status: 4 NOTEs
+Status: 3 NOTEs
@@ -3342,9 +4323,9 @@ Status: 4 NOTEs
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘Hmisc/DESCRIPTION’ ... OK
@@ -3373,7 +4354,7 @@ Status: 4 NOTEs
* GitHub: https://github.com/hmsc-r/HMSC
* Source code: https://github.com/cran/Hmsc
* Date/Publication: 2022-08-11 14:10:14 UTC
-* Number of recursive dependencies: 76
+* Number of recursive dependencies: 75
Run `revdepcheck::cloud_details(, "Hmsc")` for more info
@@ -3433,11 +4414,11 @@ ERROR: lazy loading failed for package ‘Hmsc’
-* Version: 0.1.2
+* Version: 0.1.4
* GitHub: https://github.com/AbdalkarimA/iClusterVB
* Source code: https://github.com/cran/iClusterVB
-* Date/Publication: 2024-08-20 19:10:02 UTC
-* Number of recursive dependencies: 127
+* Date/Publication: 2024-12-09 19:50:06 UTC
+* Number of recursive dependencies: 128
Run `revdepcheck::cloud_details(, "iClusterVB")` for more info
@@ -3460,9 +4441,9 @@ Run `revdepcheck::cloud_details(, "iClusterVB")` for more info
** package ‘iClusterVB’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o iClusterVB.so CAVI_algorithms.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/iClusterVB/new/iClusterVB.Rcheck/00LOCK-iClusterVB/00new/iClusterVB/libs
** R
@@ -3487,9 +4468,9 @@ ERROR: lazy loading failed for package ‘iClusterVB’
** package ‘iClusterVB’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o iClusterVB.so CAVI_algorithms.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/iClusterVB/old/iClusterVB.Rcheck/00LOCK-iClusterVB/00new/iClusterVB/libs
** R
@@ -3506,6 +4487,82 @@ ERROR: lazy loading failed for package ‘iClusterVB’
* removing ‘/tmp/workdir/iClusterVB/old/iClusterVB.Rcheck/iClusterVB’
+```
+# immcp
+
+
+
+* Version: 1.0.3
+* GitHub: https://github.com/YuanlongHu/immcp
+* Source code: https://github.com/cran/immcp
+* Date/Publication: 2022-05-12 05:50:02 UTC
+* Number of recursive dependencies: 187
+
+Run `revdepcheck::cloud_details(, "immcp")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/immcp/new/immcp.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘immcp/DESCRIPTION’ ... OK
+...
+* this is package ‘immcp’ version ‘1.0.3’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Packages required but not available: 'clusterProfiler', 'DOSE'
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/immcp/old/immcp.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘immcp/DESCRIPTION’ ... OK
+...
+* this is package ‘immcp’ version ‘1.0.3’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Packages required but not available: 'clusterProfiler', 'DOSE'
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
```
# inventorize
@@ -3565,6 +4622,66 @@ Warning in qgamma(service_level, alpha, beta) : NaNs produced
* DONE (inventorize)
+```
+# invivoPKfit
+
+
+
+* Version: 2.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/invivoPKfit
+* Date/Publication: 2025-01-09 14:30:02 UTC
+* Number of recursive dependencies: 172
+
+Run `revdepcheck::cloud_details(, "invivoPKfit")` for more info
+
+
+
+## In both
+
+* checking whether package ‘invivoPKfit’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/invivoPKfit/new/invivoPKfit.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘invivoPKfit’ ...
+** package ‘invivoPKfit’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: object ‘expand1’ is not exported by 'namespace:Matrix'
+Execution halted
+ERROR: lazy loading failed for package ‘invivoPKfit’
+* removing ‘/tmp/workdir/invivoPKfit/new/invivoPKfit.Rcheck/invivoPKfit’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘invivoPKfit’ ...
+** package ‘invivoPKfit’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: object ‘expand1’ is not exported by 'namespace:Matrix'
+Execution halted
+ERROR: lazy loading failed for package ‘invivoPKfit’
+* removing ‘/tmp/workdir/invivoPKfit/old/invivoPKfit.Rcheck/invivoPKfit’
+
+
```
# iNZightPlots
@@ -3574,7 +4691,7 @@ Warning in qgamma(service_level, alpha, beta) : NaNs produced
* GitHub: https://github.com/iNZightVIT/iNZightPlots
* Source code: https://github.com/cran/iNZightPlots
* Date/Publication: 2023-10-14 05:00:02 UTC
-* Number of recursive dependencies: 162
+* Number of recursive dependencies: 161
Run `revdepcheck::cloud_details(, "iNZightPlots")` for more info
@@ -3634,7 +4751,7 @@ ERROR: lazy loading failed for package ‘iNZightPlots’
* GitHub: https://github.com/iNZightVIT/iNZightRegression
* Source code: https://github.com/cran/iNZightRegression
* Date/Publication: 2024-04-05 02:32:59 UTC
-* Number of recursive dependencies: 159
+* Number of recursive dependencies: 162
Run `revdepcheck::cloud_details(, "iNZightRegression")` for more info
@@ -3694,7 +4811,7 @@ ERROR: lazy loading failed for package ‘iNZightRegression’
* GitHub: https://github.com/vinhdizzo/IRexamples
* Source code: https://github.com/cran/IRexamples
* Date/Publication: 2023-10-06 06:40:02 UTC
-* Number of recursive dependencies: 177
+* Number of recursive dependencies: 180
Run `revdepcheck::cloud_details(, "IRexamples")` for more info
@@ -3764,61 +4881,75 @@ ERROR: lazy loading failed for package ‘IRexamples’
-* Version: 0.1.2
+* Version: 0.1.3
* GitHub: NA
* Source code: https://github.com/cran/jmBIG
-* Date/Publication: 2024-03-20 23:40:02 UTC
-* Number of recursive dependencies: 184
+* Date/Publication: 2025-01-19 21:00:02 UTC
+* Number of recursive dependencies: 187
Run `revdepcheck::cloud_details(, "jmBIG")` for more info
-
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘jmBIG/DESCRIPTION’ ... OK
+...
+* checking if there is a namespace ... OK
+* checking for executable files ... OK
+* checking for hidden files and directories ... OK
+* checking for portable file names ... OK
+* checking for sufficient/correct file permissions ... OK
+* checking whether package ‘jmBIG’ can be installed ... ERROR
+Installation failed.
+See ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/00install.out’ for details.
+* DONE
+Status: 1 ERROR
+
-## In both
-* checking whether package ‘jmBIG’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/00install.out’ for details.
- ```
-## Installation
-### Devel
+```
+### CRAN
```
-* installing *source* package ‘jmBIG’ ...
-** package ‘jmBIG’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘jmBIG’
-* removing ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/jmBIG’
+* using log directory ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘jmBIG/DESCRIPTION’ ... OK
+...
+* checking if there is a namespace ... OK
+* checking for executable files ... OK
+* checking for hidden files and directories ... OK
+* checking for portable file names ... OK
+* checking for sufficient/correct file permissions ... OK
+* checking whether package ‘jmBIG’ can be installed ... ERROR
+Installation failed.
+See ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck/00install.out’ for details.
+* DONE
+Status: 1 ERROR
-```
-### CRAN
-```
-* installing *source* package ‘jmBIG’ ...
-** package ‘jmBIG’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘jmBIG’
-* removing ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck/jmBIG’
```
@@ -3830,7 +4961,7 @@ ERROR: lazy loading failed for package ‘jmBIG’
* GitHub: https://github.com/graemeleehickey/joineRML
* Source code: https://github.com/cran/joineRML
* Date/Publication: 2023-01-20 04:50:02 UTC
-* Number of recursive dependencies: 91
+* Number of recursive dependencies: 93
Run `revdepcheck::cloud_details(, "joineRML")` for more info
@@ -3853,12 +4984,12 @@ Run `revdepcheck::cloud_details(, "joineRML")` for more info
** package ‘joineRML’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o
...
** data
*** moving datasets to lazyload DB
@@ -3880,12 +5011,12 @@ ERROR: lazy loading failed for package ‘joineRML’
** package ‘joineRML’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o
...
** data
*** moving datasets to lazyload DB
@@ -3900,17 +5031,17 @@ ERROR: lazy loading failed for package ‘joineRML’
```
-# kibior
+# jsmodule
-* Version: 0.1.1
-* GitHub: https://github.com/regisoc/kibior
-* Source code: https://github.com/cran/kibior
-* Date/Publication: 2021-01-28 15:20:02 UTC
-* Number of recursive dependencies: 140
+* Version: 1.6.1
+* GitHub: https://github.com/jinseob2kim/jsmodule
+* Source code: https://github.com/cran/jsmodule
+* Date/Publication: 2025-01-08 13:10:02 UTC
+* Number of recursive dependencies: 241
-Run `revdepcheck::cloud_details(, "kibior")` for more info
+Run `revdepcheck::cloud_details(, "jsmodule")` for more info
@@ -3919,27 +5050,27 @@ Run `revdepcheck::cloud_details(, "kibior")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/kibior/new/kibior.Rcheck’
+* using log directory ‘/tmp/workdir/jsmodule/new/jsmodule.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘kibior/DESCRIPTION’ ... OK
+* checking for file ‘jsmodule/DESCRIPTION’ ... OK
...
-* this is package ‘kibior’ version ‘0.1.1’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘jsmodule.Rmd’ using ‘UTF-8’... OK
+ ‘jsmodule_subgroup_cmprsk.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: OK
@@ -3949,27 +5080,27 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/kibior/old/kibior.Rcheck’
+* using log directory ‘/tmp/workdir/jsmodule/old/jsmodule.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘kibior/DESCRIPTION’ ... OK
+* checking for file ‘jsmodule/DESCRIPTION’ ... OK
...
-* this is package ‘kibior’ version ‘0.1.1’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘jsmodule.Rmd’ using ‘UTF-8’... OK
+ ‘jsmodule_subgroup_cmprsk.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: OK
@@ -3984,7 +5115,7 @@ Status: 1 ERROR
* GitHub: https://github.com/yfyang86/kmc
* Source code: https://github.com/cran/kmc
* Date/Publication: 2022-11-22 08:30:02 UTC
-* Number of recursive dependencies: 61
+* Number of recursive dependencies: 60
Run `revdepcheck::cloud_details(, "kmc")` for more info
@@ -4007,12 +5138,12 @@ Run `revdepcheck::cloud_details(, "kmc")` for more info
** package ‘kmc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o kmc.so RcppExport.o kmc.o kmc_init.o surv2.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/kmc/new/kmc.Rcheck/00LOCK-kmc/00new/kmc/libs
** R
@@ -4032,12 +5163,12 @@ ERROR: lazy loading failed for package ‘kmc’
** package ‘kmc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o kmc.so RcppExport.o kmc.o kmc_init.o surv2.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/kmc/old/kmc.Rcheck/00LOCK-kmc/00new/kmc/libs
** R
@@ -4049,6 +5180,82 @@ ERROR: lazy loading failed for package ‘kmc’
* removing ‘/tmp/workdir/kmc/old/kmc.Rcheck/kmc’
+```
+# KMunicate
+
+
+
+* Version: 0.2.5
+* GitHub: https://github.com/ellessenne/KMunicate-package
+* Source code: https://github.com/cran/KMunicate
+* Date/Publication: 2024-05-16 11:50:08 UTC
+* Number of recursive dependencies: 171
+
+Run `revdepcheck::cloud_details(, "KMunicate")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/KMunicate/new/KMunicate.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘KMunicate/DESCRIPTION’ ... OK
+...
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘KMunicate.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/KMunicate/old/KMunicate.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘KMunicate/DESCRIPTION’ ... OK
+...
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘KMunicate.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
```
# L2E
@@ -4072,43 +5279,195 @@ Run `revdepcheck::cloud_details(, "L2E")` for more info
See ‘/tmp/workdir/L2E/new/L2E.Rcheck/00install.out’ for details.
```
-## Installation
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘L2E’ ...
+** package ‘L2E’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required
+Execution halted
+ERROR: lazy loading failed for package ‘L2E’
+* removing ‘/tmp/workdir/L2E/new/L2E.Rcheck/L2E’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘L2E’ ...
+** package ‘L2E’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required
+Execution halted
+ERROR: lazy loading failed for package ‘L2E’
+* removing ‘/tmp/workdir/L2E/old/L2E.Rcheck/L2E’
+
+
+```
+# Landmarking
+
+
+
+* Version: 1.0.0
+* GitHub: https://github.com/isobelbarrott/Landmarking
+* Source code: https://github.com/cran/Landmarking
+* Date/Publication: 2022-02-15 20:00:07 UTC
+* Number of recursive dependencies: 122
+
+Run `revdepcheck::cloud_details(, "Landmarking")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/Landmarking/new/Landmarking.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘Landmarking/DESCRIPTION’ ... OK
+...
+* this is package ‘Landmarking’ version ‘1.0.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/Landmarking/old/Landmarking.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘Landmarking/DESCRIPTION’ ... OK
+...
+* this is package ‘Landmarking’ version ‘1.0.0’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# lavaSearch2
+
+
+
+* Version: 2.0.3
+* GitHub: https://github.com/bozenne/lavaSearch2
+* Source code: https://github.com/cran/lavaSearch2
+* Date/Publication: 2024-02-23 09:10:02 UTC
+* Number of recursive dependencies: 149
+
+Run `revdepcheck::cloud_details(, "lavaSearch2")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/lavaSearch2/new/lavaSearch2.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘lavaSearch2/DESCRIPTION’ ... OK
+...
+ [ FAIL 1 | WARN 1 | SKIP 0 | PASS 266 ]
+ Error: Test failures
+ Execution halted
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... NONE
+ ‘overview.pdf.asis’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 ERROR, 1 NOTE
+
-### Devel
-```
-* installing *source* package ‘L2E’ ...
-** package ‘L2E’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
- namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required
-Execution halted
-ERROR: lazy loading failed for package ‘L2E’
-* removing ‘/tmp/workdir/L2E/new/L2E.Rcheck/L2E’
```
### CRAN
```
-* installing *source* package ‘L2E’ ...
-** package ‘L2E’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
- namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required
-Execution halted
-ERROR: lazy loading failed for package ‘L2E’
-* removing ‘/tmp/workdir/L2E/old/L2E.Rcheck/L2E’
+* using log directory ‘/tmp/workdir/lavaSearch2/old/lavaSearch2.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘lavaSearch2/DESCRIPTION’ ... OK
+...
+ [ FAIL 1 | WARN 1 | SKIP 0 | PASS 266 ]
+ Error: Test failures
+ Execution halted
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... NONE
+ ‘overview.pdf.asis’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 ERROR, 1 NOTE
+
+
+
```
@@ -4174,17 +5533,17 @@ ERROR: lazy loading failed for package ‘llbayesireg’
```
-# locuszoomr
+# lnmixsurv
-* Version: 0.3.4
-* GitHub: https://github.com/myles-lewis/locuszoomr
-* Source code: https://github.com/cran/locuszoomr
-* Date/Publication: 2024-09-06 10:10:02 UTC
-* Number of recursive dependencies: 132
+* Version: 3.1.6
+* GitHub: NA
+* Source code: https://github.com/cran/lnmixsurv
+* Date/Publication: 2024-09-03 15:20:08 UTC
+* Number of recursive dependencies: 195
-Run `revdepcheck::cloud_details(, "locuszoomr")` for more info
+Run `revdepcheck::cloud_details(, "lnmixsurv")` for more info
@@ -4193,27 +5552,27 @@ Run `revdepcheck::cloud_details(, "locuszoomr")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/locuszoomr/new/locuszoomr.Rcheck’
+* using log directory ‘/tmp/workdir/lnmixsurv/new/lnmixsurv.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘locuszoomr/DESCRIPTION’ ... OK
+* checking for file ‘lnmixsurv/DESCRIPTION’ ... OK
...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'ensembldb', 'rtracklayer'
+--- finished re-building ‘parallel_computation.Rmd’
-Package suggested but not available for checking: ‘EnsDb.Hsapiens.v75’
+SUMMARY: processing the following file failed:
+ ‘expectation_maximization.Rmd’
+
+Error: Vignette re-building failed.
+Execution halted
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
* DONE
-Status: 1 ERROR
+Status: 2 ERRORs, 5 NOTEs
@@ -4223,27 +5582,27 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/locuszoomr/old/locuszoomr.Rcheck’
+* using log directory ‘/tmp/workdir/lnmixsurv/old/lnmixsurv.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘locuszoomr/DESCRIPTION’ ... OK
+* checking for file ‘lnmixsurv/DESCRIPTION’ ... OK
...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'ensembldb', 'rtracklayer'
-
-Package suggested but not available for checking: ‘EnsDb.Hsapiens.v75’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘compare.Rmd’ using ‘UTF-8’... OK
+ ‘expectation_maximization.Rmd’ using ‘UTF-8’... OK
+ ‘intercept_only.Rmd’ using ‘UTF-8’... OK
+ ‘lnmixsurv.Rmd’ using ‘UTF-8’... OK
+ ‘parallel_computation.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: 4 NOTEs
@@ -4254,10 +5613,10 @@ Status: 1 ERROR
-* Version: 2.0.0
+* Version: 2.1.0
* GitHub: https://github.com/AlJacq/LorenzRegression
* Source code: https://github.com/cran/LorenzRegression
-* Date/Publication: 2024-09-09 11:20:33 UTC
+* Date/Publication: 2024-10-11 16:50:02 UTC
* Number of recursive dependencies: 83
Run `revdepcheck::cloud_details(, "LorenzRegression")` for more info
@@ -4281,12 +5640,12 @@ Run `revdepcheck::cloud_details(, "LorenzRegression")` for more info
** package ‘LorenzRegression’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
...
** data
*** moving datasets to lazyload DB
@@ -4308,12 +5667,12 @@ ERROR: lazy loading failed for package ‘LorenzRegression’
** package ‘LorenzRegression’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
...
** data
*** moving datasets to lazyload DB
@@ -4336,7 +5695,7 @@ ERROR: lazy loading failed for package ‘LorenzRegression’
* GitHub: NA
* Source code: https://github.com/cran/lsirm12pl
* Date/Publication: 2024-08-28 23:00:02 UTC
-* Number of recursive dependencies: 124
+* Number of recursive dependencies: 123
Run `revdepcheck::cloud_details(, "lsirm12pl")` for more info
@@ -4359,12 +5718,12 @@ Run `revdepcheck::cloud_details(, "lsirm12pl")` for more info
** package ‘lsirm12pl’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o
...
** R
** data
@@ -4386,12 +5745,12 @@ ERROR: lazy loading failed for package ‘lsirm12pl’
** package ‘lsirm12pl’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o
...
** R
** data
@@ -4449,7 +5808,7 @@ Run `revdepcheck::cloud_details(, "MantaID")` for more info
* GitHub: NA
* Source code: https://github.com/cran/MARVEL
* Date/Publication: 2022-10-31 10:22:50 UTC
-* Number of recursive dependencies: 231
+* Number of recursive dependencies: 229
Run `revdepcheck::cloud_details(, "MARVEL")` for more info
@@ -4464,9 +5823,9 @@ Run `revdepcheck::cloud_details(, "MARVEL")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘MARVEL/DESCRIPTION’ ... OK
@@ -4494,9 +5853,9 @@ Status: 1 NOTE
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘MARVEL/DESCRIPTION’ ... OK
@@ -4516,6 +5875,70 @@ Status: 1 NOTE
+```
+# MaxWiK
+
+
+
+* Version: 1.0.5
+* GitHub: NA
+* Source code: https://github.com/cran/MaxWiK
+* Date/Publication: 2024-11-25 11:40:13 UTC
+* Number of recursive dependencies: 57
+
+Run `revdepcheck::cloud_details(, "MaxWiK")` for more info
+
+
+
+## In both
+
+* checking whether package ‘MaxWiK’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/MaxWiK/new/MaxWiK.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘MaxWiK’ ...
+** package ‘MaxWiK’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘MaxWiK’
+* removing ‘/tmp/workdir/MaxWiK/new/MaxWiK.Rcheck/MaxWiK’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘MaxWiK’ ...
+** package ‘MaxWiK’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘MaxWiK’
+* removing ‘/tmp/workdir/MaxWiK/old/MaxWiK.Rcheck/MaxWiK’
+
+
```
# mbsts
@@ -4525,7 +5948,7 @@ Status: 1 NOTE
* GitHub: NA
* Source code: https://github.com/cran/mbsts
* Date/Publication: 2023-01-07 01:10:02 UTC
-* Number of recursive dependencies: 82
+* Number of recursive dependencies: 81
Run `revdepcheck::cloud_details(, "mbsts")` for more info
@@ -4577,79 +6000,75 @@ ERROR: lazy loading failed for package ‘mbsts’
```
-# MitoHEAR
+# MendelianRandomization
-* Version: 0.1.0
+* Version: 0.10.0
* GitHub: NA
-* Source code: https://github.com/cran/MitoHEAR
-* Date/Publication: 2022-03-01 21:20:02 UTC
-* Number of recursive dependencies: 183
+* Source code: https://github.com/cran/MendelianRandomization
+* Date/Publication: 2024-04-12 10:10:02 UTC
+* Number of recursive dependencies: 88
-Run `revdepcheck::cloud_details(, "MitoHEAR")` for more info
+Run `revdepcheck::cloud_details(, "MendelianRandomization")` for more info
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/MitoHEAR/new/MitoHEAR.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘MitoHEAR/DESCRIPTION’ ... OK
-...
-* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Packages suggested but not available for checking:
- 'karyoploteR', 'regioneR'
+## In both
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
+* checking whether package ‘MendelianRandomization’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/00install.out’ for details.
+ ```
+## Installation
+### Devel
+```
+* installing *source* package ‘MendelianRandomization’ ...
+** package ‘MendelianRandomization’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c mvmrcML.cpp -o mvmrcML.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o MendelianRandomization.so RcppExports.o mvmrcML.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/00LOCK-MendelianRandomization/00new/MendelianRandomization/libs
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘MendelianRandomization’
+* removing ‘/tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/MendelianRandomization’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/MitoHEAR/old/MitoHEAR.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘MitoHEAR/DESCRIPTION’ ... OK
-...
-* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Packages suggested but not available for checking:
- 'karyoploteR', 'regioneR'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
+* installing *source* package ‘MendelianRandomization’ ...
+** package ‘MendelianRandomization’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c mvmrcML.cpp -o mvmrcML.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o MendelianRandomization.so RcppExports.o mvmrcML.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/MendelianRandomization/old/MendelianRandomization.Rcheck/00LOCK-MendelianRandomization/00new/MendelianRandomization/libs
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘MendelianRandomization’
+* removing ‘/tmp/workdir/MendelianRandomization/old/MendelianRandomization.Rcheck/MendelianRandomization’
```
@@ -4661,7 +6080,7 @@ Status: 1 ERROR
* GitHub: https://github.com/phargarten2/miWQS
* Source code: https://github.com/cran/miWQS
* Date/Publication: 2021-04-02 21:50:02 UTC
-* Number of recursive dependencies: 152
+* Number of recursive dependencies: 151
Run `revdepcheck::cloud_details(, "miWQS")` for more info
@@ -4725,7 +6144,7 @@ ERROR: lazy loading failed for package ‘miWQS’
* GitHub: NA
* Source code: https://github.com/cran/mlmts
* Date/Publication: 2024-08-18 08:40:06 UTC
-* Number of recursive dependencies: 242
+* Number of recursive dependencies: 244
Run `revdepcheck::cloud_details(, "mlmts")` for more info
@@ -4789,7 +6208,7 @@ ERROR: lazy loading failed for package ‘mlmts’
* GitHub: https://github.com/mlr-org/mlr
* Source code: https://github.com/cran/mlr
* Date/Publication: 2024-06-12 10:50:02 UTC
-* Number of recursive dependencies: 362
+* Number of recursive dependencies: 365
Run `revdepcheck::cloud_details(, "mlr")` for more info
@@ -4804,99 +6223,23 @@ Run `revdepcheck::cloud_details(, "mlr")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘mlr/DESCRIPTION’ ... OK
-...
-* checking for unstated dependencies in ‘tests’ ... OK
-* checking tests ... OK
- Running ‘testthat.R’
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘mlr.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 2 NOTEs
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/mlr/old/mlr.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘mlr/DESCRIPTION’ ... OK
...
* checking for unstated dependencies in ‘tests’ ... OK
-* checking tests ... OK
- Running ‘testthat.R’
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘mlr.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 2 NOTEs
-
-
-
-
-
-```
-# MOCHA
-
-
-
-* Version: 1.1.0
-* GitHub: NA
-* Source code: https://github.com/cran/MOCHA
-* Date/Publication: 2024-01-25 12:20:12 UTC
-* Number of recursive dependencies: 249
-
-Run `revdepcheck::cloud_details(, "MOCHA")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/MOCHA/new/MOCHA.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘MOCHA/DESCRIPTION’ ... OK
-...
-
-Packages suggested but not available for checking:
- 'ArchR', 'motifmatchr', 'TxDb.Hsapiens.UCSC.hg38.refGene',
- 'TxDb.Hsapiens.UCSC.hg19.knownGene', 'BSgenome.Hsapiens.UCSC.hg19',
- 'chromVAR', 'rtracklayer'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘mlr.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: 2 NOTEs
@@ -4906,27 +6249,27 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/MOCHA/old/MOCHA.Rcheck’
+* using log directory ‘/tmp/workdir/mlr/old/mlr.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘MOCHA/DESCRIPTION’ ... OK
+* checking for file ‘mlr/DESCRIPTION’ ... OK
...
-
-Packages suggested but not available for checking:
- 'ArchR', 'motifmatchr', 'TxDb.Hsapiens.UCSC.hg38.refGene',
- 'TxDb.Hsapiens.UCSC.hg19.knownGene', 'BSgenome.Hsapiens.UCSC.hg19',
- 'chromVAR', 'rtracklayer'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘mlr.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
* DONE
-Status: 1 ERROR
+Status: 2 NOTEs
@@ -4990,6 +6333,82 @@ ERROR: lazy loading failed for package ‘MRZero’
* removing ‘/tmp/workdir/MRZero/old/MRZero.Rcheck/MRZero’
+```
+# mstate
+
+
+
+* Version: 0.3.3
+* GitHub: https://github.com/hputter/mstate
+* Source code: https://github.com/cran/mstate
+* Date/Publication: 2024-07-11 21:30:06 UTC
+* Number of recursive dependencies: 113
+
+Run `revdepcheck::cloud_details(, "mstate")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/mstate/new/mstate.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘mstate/DESCRIPTION’ ... OK
+...
+--- failed re-building ‘Tutorial.Rnw’
+
+SUMMARY: processing the following file failed:
+ ‘Tutorial.Rnw’
+
+Error: Vignette re-building failed.
+Execution halted
+
+* DONE
+Status: 1 NOTE
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/mstate/old/mstate.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘mstate/DESCRIPTION’ ... OK
+...
+--- failed re-building ‘Tutorial.Rnw’
+
+SUMMARY: processing the following file failed:
+ ‘Tutorial.Rnw’
+
+Error: Vignette re-building failed.
+Execution halted
+
+* DONE
+Status: 1 NOTE
+
+
+
+
+
```
# multilevelTools
@@ -4999,7 +6418,7 @@ ERROR: lazy loading failed for package ‘MRZero’
* GitHub: https://github.com/JWiley/multilevelTools
* Source code: https://github.com/cran/multilevelTools
* Date/Publication: 2020-03-04 09:50:02 UTC
-* Number of recursive dependencies: 168
+* Number of recursive dependencies: 170
Run `revdepcheck::cloud_details(, "multilevelTools")` for more info
@@ -5065,11 +6484,11 @@ ERROR: lazy loading failed for package ‘multilevelTools’
-* Version: 0.7.1
+* Version: 0.7.2
* GitHub: https://github.com/dmphillippo/multinma
* Source code: https://github.com/cran/multinma
-* Date/Publication: 2024-06-11 12:20:06 UTC
-* Number of recursive dependencies: 152
+* Date/Publication: 2024-09-16 12:20:02 UTC
+* Number of recursive dependencies: 151
Run `revdepcheck::cloud_details(, "multinma")` for more info
@@ -5092,16 +6511,16 @@ Run `revdepcheck::cloud_details(, "multinma")` for more info
** package ‘multinma’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -5119,16 +6538,16 @@ ERROR: compilation failed for package ‘multinma’
** package ‘multinma’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’
+/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -5138,16 +6557,168 @@ ERROR: compilation failed for package ‘multinma’
* removing ‘/tmp/workdir/multinma/old/multinma.Rcheck/multinma’
+```
+# multipleOutcomes
+
+
+
+* Version: 0.4
+* GitHub: NA
+* Source code: https://github.com/cran/multipleOutcomes
+* Date/Publication: 2024-05-30 15:00:03 UTC
+* Number of recursive dependencies: 176
+
+Run `revdepcheck::cloud_details(, "multipleOutcomes")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/multipleOutcomes/new/multipleOutcomes.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘multipleOutcomes/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘test.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/multipleOutcomes/old/multipleOutcomes.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘multipleOutcomes/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘test.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+# MuPETFlow
+
+
+
+* Version: 0.1.1
+* GitHub: NA
+* Source code: https://github.com/cran/MuPETFlow
+* Date/Publication: 2025-01-15 19:40:19 UTC
+* Number of recursive dependencies: 85
+
+Run `revdepcheck::cloud_details(, "MuPETFlow")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/MuPETFlow/new/MuPETFlow.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘MuPETFlow/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘MuPETFlow.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 NOTE
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/MuPETFlow/old/MuPETFlow.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘MuPETFlow/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘MuPETFlow.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 NOTE
+
+
+
+
+
```
# NCA
-* Version: 4.0.1
+* Version: 4.0.2
* GitHub: NA
* Source code: https://github.com/cran/NCA
-* Date/Publication: 2024-02-23 09:30:15 UTC
-* Number of recursive dependencies: 99
+* Date/Publication: 2024-11-09 18:10:02 UTC
+* Number of recursive dependencies: 98
Run `revdepcheck::cloud_details(, "NCA")` for more info
@@ -5207,7 +6778,7 @@ ERROR: lazy loading failed for package ‘NCA’
* GitHub: NA
* Source code: https://github.com/cran/netcmc
* Date/Publication: 2022-11-08 22:30:15 UTC
-* Number of recursive dependencies: 61
+* Number of recursive dependencies: 60
Run `revdepcheck::cloud_details(, "netcmc")` for more info
@@ -5230,14 +6801,14 @@ Run `revdepcheck::cloud_details(, "netcmc")` for more info
** package ‘netcmc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o
...
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o
g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o netcmc.so RcppExports.o choleskyDecompositionRcppConversion.o doubleMatrixMultiplicationRcpp.o doubleVectorMultiplicationRcpp.o eigenValuesRcppConversion.o getDiagonalMatrix.o getExp.o getExpDividedByOnePlusExp.o getMeanCenteredRandomEffects.o getMultivariateBinomialNetworkLerouxDIC.o getMultivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariateGaussianNetworkLerouxDIC.o getMultivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariatePoissonNetworkLerouxDIC.o getMultivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getNonZeroEntries.o getSubvector.o getSubvectorIndecies.o getSumExpNetwork.o getSumExpNetworkIndecies.o getSumExpNetworkLeroux.o getSumExpNetworkLerouxIndecies.o getSumLogExp.o getSumLogExpIndecies.o getSumVector.o getTripletForm.o getUnivariateBinomialNetworkLerouxDIC.o getUnivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariateGaussianNetworkLerouxDIC.o getUnivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkDIC.o getUnivariatePoissonNetworkFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkLerouxDIC.o getUnivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getVectorMean.o matrixInverseRcppConversion.o matrixMatrixAdditionRcpp.o matrixMatrixSubtractionRcpp.o matrixVectorMultiplicationRcpp.o multivariateBinomialNetworkLerouxAllUpdate.o multivariateBinomialNetworkLerouxBetaUpdate.o multivariateBinomialNetworkLerouxRhoUpdate.o multivariateBinomialNetworkLerouxSingleUpdate.o multivariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o multivariateBinomialNetworkLerouxTauSquaredUpdate.o multivariateBinomialNetworkLerouxURandomEffectsUpdate.o multivariateBinomialNetworkLerouxVRandomEffectsUpdate.o multivariateBinomialNetworkLerouxVarianceCovarianceUUpdate.o multivariateBinomialNetworkRandAllUpdate.o multivariateBinomialNetworkRandSingleUpdate.o multivariateGaussianNetworkLerouxAllMHUpdate.o multivariateGaussianNetworkLerouxBetaUpdate.o multivariateGaussianNetworkLerouxRhoUpdate.o multivariateGaussianNetworkLerouxSigmaSquaredEUpdate.o multivariateGaussianNetworkLerouxSingleMHUpdate.o multivariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o multivariateGaussianNetworkLerouxTauSquaredUpdate.o multivariateGaussianNetworkLerouxURandomEffectsUpdate.o multivariateGaussianNetworkLerouxVarianceCovarianceUUpdate.o multivariateGaussianNetworkRandAllUpdate.o multivariateGaussianNetworkRandSingleUpdate.o multivariateGaussianNetworkRandVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxAllUpdate.o multivariatePoissonNetworkLerouxBetaUpdate.o multivariatePoissonNetworkLerouxRhoUpdate.o multivariatePoissonNetworkLerouxSingleUpdate.o multivariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o multivariatePoissonNetworkLerouxTauSquaredUpdate.o multivariatePoissonNetworkLerouxURandomEffectsUpdate.o multivariatePoissonNetworkLerouxVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxVarianceCovarianceUUpdate.o multivariatePoissonNetworkRandAllUpdate.o multivariatePoissonNetworkRandSingleUpdate.o sumMatrix.o univariateBinomialNetworkLerouxAllUpdate.o univariateBinomialNetworkLerouxBetaUpdate.o univariateBinomialNetworkLerouxRhoUpdate.o univariateBinomialNetworkLerouxSigmaSquaredUpdate.o univariateBinomialNetworkLerouxSingleUpdate.o univariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o univariateBinomialNetworkLerouxTauSquaredUpdate.o univariateBinomialNetworkLerouxURandomEffectsUpdate.o univariateGaussianNetworkLerouxAllMHUpdate.o univariateGaussianNetworkLerouxBetaUpdate.o univariateGaussianNetworkLerouxRhoUpdate.o univariateGaussianNetworkLerouxSigmaSquaredEUpdate.o univariateGaussianNetworkLerouxSigmaSquaredUUpdate.o univariateGaussianNetworkLerouxSingleMHUpdate.o univariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o univariateGaussianNetworkLerouxTauSquaredUpdate.o univariateGaussianNetworkLerouxURandomEffectsUpdate.o univariatePoissonNetworkLerouxAllUpdate.o univariatePoissonNetworkLerouxBetaUpdate.o univariatePoissonNetworkLerouxRhoUpdate.o univariatePoissonNetworkLerouxSigmaSquaredUpdate.o univariatePoissonNetworkLerouxSingleUpdate.o univariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o univariatePoissonNetworkLerouxTauSquaredUpdate.o univariatePoissonNetworkLerouxURandomEffectsUpdate.o vectorTransposeVectorMultiplicationRcpp.o vectorVectorTransposeMultiplicationRcpp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/netcmc/new/netcmc.Rcheck/00LOCK-netcmc/00new/netcmc/libs
** R
@@ -5257,14 +6828,14 @@ ERROR: lazy loading failed for package ‘netcmc’
** package ‘netcmc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o
...
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o
g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o netcmc.so RcppExports.o choleskyDecompositionRcppConversion.o doubleMatrixMultiplicationRcpp.o doubleVectorMultiplicationRcpp.o eigenValuesRcppConversion.o getDiagonalMatrix.o getExp.o getExpDividedByOnePlusExp.o getMeanCenteredRandomEffects.o getMultivariateBinomialNetworkLerouxDIC.o getMultivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariateGaussianNetworkLerouxDIC.o getMultivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariatePoissonNetworkLerouxDIC.o getMultivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getNonZeroEntries.o getSubvector.o getSubvectorIndecies.o getSumExpNetwork.o getSumExpNetworkIndecies.o getSumExpNetworkLeroux.o getSumExpNetworkLerouxIndecies.o getSumLogExp.o getSumLogExpIndecies.o getSumVector.o getTripletForm.o getUnivariateBinomialNetworkLerouxDIC.o getUnivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariateGaussianNetworkLerouxDIC.o getUnivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkDIC.o getUnivariatePoissonNetworkFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkLerouxDIC.o getUnivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getVectorMean.o matrixInverseRcppConversion.o matrixMatrixAdditionRcpp.o matrixMatrixSubtractionRcpp.o matrixVectorMultiplicationRcpp.o multivariateBinomialNetworkLerouxAllUpdate.o multivariateBinomialNetworkLerouxBetaUpdate.o multivariateBinomialNetworkLerouxRhoUpdate.o multivariateBinomialNetworkLerouxSingleUpdate.o multivariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o multivariateBinomialNetworkLerouxTauSquaredUpdate.o multivariateBinomialNetworkLerouxURandomEffectsUpdate.o multivariateBinomialNetworkLerouxVRandomEffectsUpdate.o multivariateBinomialNetworkLerouxVarianceCovarianceUUpdate.o multivariateBinomialNetworkRandAllUpdate.o multivariateBinomialNetworkRandSingleUpdate.o multivariateGaussianNetworkLerouxAllMHUpdate.o multivariateGaussianNetworkLerouxBetaUpdate.o multivariateGaussianNetworkLerouxRhoUpdate.o multivariateGaussianNetworkLerouxSigmaSquaredEUpdate.o multivariateGaussianNetworkLerouxSingleMHUpdate.o multivariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o multivariateGaussianNetworkLerouxTauSquaredUpdate.o multivariateGaussianNetworkLerouxURandomEffectsUpdate.o multivariateGaussianNetworkLerouxVarianceCovarianceUUpdate.o multivariateGaussianNetworkRandAllUpdate.o multivariateGaussianNetworkRandSingleUpdate.o multivariateGaussianNetworkRandVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxAllUpdate.o multivariatePoissonNetworkLerouxBetaUpdate.o multivariatePoissonNetworkLerouxRhoUpdate.o multivariatePoissonNetworkLerouxSingleUpdate.o multivariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o multivariatePoissonNetworkLerouxTauSquaredUpdate.o multivariatePoissonNetworkLerouxURandomEffectsUpdate.o multivariatePoissonNetworkLerouxVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxVarianceCovarianceUUpdate.o multivariatePoissonNetworkRandAllUpdate.o multivariatePoissonNetworkRandSingleUpdate.o sumMatrix.o univariateBinomialNetworkLerouxAllUpdate.o univariateBinomialNetworkLerouxBetaUpdate.o univariateBinomialNetworkLerouxRhoUpdate.o univariateBinomialNetworkLerouxSigmaSquaredUpdate.o univariateBinomialNetworkLerouxSingleUpdate.o univariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o univariateBinomialNetworkLerouxTauSquaredUpdate.o univariateBinomialNetworkLerouxURandomEffectsUpdate.o univariateGaussianNetworkLerouxAllMHUpdate.o univariateGaussianNetworkLerouxBetaUpdate.o univariateGaussianNetworkLerouxRhoUpdate.o univariateGaussianNetworkLerouxSigmaSquaredEUpdate.o univariateGaussianNetworkLerouxSigmaSquaredUUpdate.o univariateGaussianNetworkLerouxSingleMHUpdate.o univariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o univariateGaussianNetworkLerouxTauSquaredUpdate.o univariateGaussianNetworkLerouxURandomEffectsUpdate.o univariatePoissonNetworkLerouxAllUpdate.o univariatePoissonNetworkLerouxBetaUpdate.o univariatePoissonNetworkLerouxRhoUpdate.o univariatePoissonNetworkLerouxSigmaSquaredUpdate.o univariatePoissonNetworkLerouxSingleUpdate.o univariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o univariatePoissonNetworkLerouxTauSquaredUpdate.o univariatePoissonNetworkLerouxURandomEffectsUpdate.o vectorTransposeVectorMultiplicationRcpp.o vectorVectorTransposeMultiplicationRcpp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/netcmc/old/netcmc.Rcheck/00LOCK-netcmc/00new/netcmc/libs
** R
@@ -5285,7 +6856,7 @@ ERROR: lazy loading failed for package ‘netcmc’
* GitHub: https://github.com/jongheepark/NetworkChange
* Source code: https://github.com/cran/NetworkChange
* Date/Publication: 2022-03-04 07:30:02 UTC
-* Number of recursive dependencies: 133
+* Number of recursive dependencies: 122
Run `revdepcheck::cloud_details(, "NetworkChange")` for more info
@@ -5366,10 +6937,10 @@ Run `revdepcheck::cloud_details(, "nlmeVPC")` for more info
** package ‘nlmeVPC’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o nlmeVPC.so Misc.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/nlmeVPC/new/nlmeVPC.Rcheck/00LOCK-nlmeVPC/00new/nlmeVPC/libs
** R
@@ -5391,10 +6962,10 @@ ERROR: lazy loading failed for package ‘nlmeVPC’
** package ‘nlmeVPC’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o nlmeVPC.so Misc.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/nlmeVPC/old/nlmeVPC.Rcheck/00LOCK-nlmeVPC/00new/nlmeVPC/libs
** R
@@ -5417,7 +6988,7 @@ ERROR: lazy loading failed for package ‘nlmeVPC’
* GitHub: NA
* Source code: https://github.com/cran/NMADiagT
* Date/Publication: 2020-02-26 07:00:02 UTC
-* Number of recursive dependencies: 79
+* Number of recursive dependencies: 78
Run `revdepcheck::cloud_details(, "NMADiagT")` for more info
@@ -5454,32 +7025,108 @@ ERROR: lazy loading failed for package ‘NMADiagT’
### CRAN
```
-* installing *source* package ‘NMADiagT’ ...
-** package ‘NMADiagT’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘NMADiagT’
-* removing ‘/tmp/workdir/NMADiagT/old/NMADiagT.Rcheck/NMADiagT’
+* installing *source* package ‘NMADiagT’ ...
+** package ‘NMADiagT’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘NMADiagT’
+* removing ‘/tmp/workdir/NMADiagT/old/NMADiagT.Rcheck/NMADiagT’
+
+
+```
+# obliqueRSF
+
+
+
+* Version: 0.1.2
+* GitHub: NA
+* Source code: https://github.com/cran/obliqueRSF
+* Date/Publication: 2022-08-28 20:50:02 UTC
+* Number of recursive dependencies: 117
+
+Run `revdepcheck::cloud_details(, "obliqueRSF")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/obliqueRSF/new/obliqueRSF.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘obliqueRSF/DESCRIPTION’ ... OK
+...
+* checking for missing documentation entries ... OK
+* checking for code/documentation mismatches ... OK
+* checking Rd \usage sections ... OK
+* checking Rd contents ... OK
+* checking for unstated dependencies in examples ... OK
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/obliqueRSF/old/obliqueRSF.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘obliqueRSF/DESCRIPTION’ ... OK
+...
+* checking for missing documentation entries ... OK
+* checking for code/documentation mismatches ... OK
+* checking Rd \usage sections ... OK
+* checking Rd contents ... OK
+* checking for unstated dependencies in examples ... OK
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
+
+
+
```
-# ohun
+# OlinkAnalyze
-* Version: 1.0.2
-* GitHub: https://github.com/ropensci/ohun
-* Source code: https://github.com/cran/ohun
-* Date/Publication: 2024-08-19 18:40:02 UTC
-* Number of recursive dependencies: 100
+* Version: 4.0.2
+* GitHub: https://github.com/Olink-Proteomics/OlinkRPackage
+* Source code: https://github.com/cran/OlinkAnalyze
+* Date/Publication: 2024-11-22 16:20:02 UTC
+* Number of recursive dependencies: 210
-Run `revdepcheck::cloud_details(, "ohun")` for more info
+Run `revdepcheck::cloud_details(, "OlinkAnalyze")` for more info
@@ -5488,27 +7135,27 @@ Run `revdepcheck::cloud_details(, "ohun")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/ohun/new/ohun.Rcheck’
+* using log directory ‘/tmp/workdir/OlinkAnalyze/new/OlinkAnalyze.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘ohun/DESCRIPTION’ ... OK
+* checking for file ‘OlinkAnalyze/DESCRIPTION’ ... OK
...
-* this is package ‘ohun’ version ‘1.0.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘warbleR’
+--- finished re-building ‘plate_randomizer.Rmd’
+
+SUMMARY: processing the following file failed:
+ ‘Vignett.Rmd’
+
+Error: Vignette re-building failed.
+Execution halted
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
* DONE
-Status: 1 ERROR
+Status: 1 ERROR, 2 NOTEs
@@ -5518,27 +7165,27 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/ohun/old/ohun.Rcheck’
+* using log directory ‘/tmp/workdir/OlinkAnalyze/old/OlinkAnalyze.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘ohun/DESCRIPTION’ ... OK
+* checking for file ‘OlinkAnalyze/DESCRIPTION’ ... OK
...
-* this is package ‘ohun’ version ‘1.0.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘warbleR’
+--- finished re-building ‘plate_randomizer.Rmd’
+
+SUMMARY: processing the following file failed:
+ ‘Vignett.Rmd’
+
+Error: Vignette re-building failed.
+Execution halted
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
* DONE
-Status: 1 ERROR
+Status: 1 ERROR, 2 NOTEs
@@ -5611,7 +7258,7 @@ ERROR: lazy loading failed for package ‘optweight’
* GitHub: NA
* Source code: https://github.com/cran/OVtool
* Date/Publication: 2021-11-02 08:10:07 UTC
-* Number of recursive dependencies: 157
+* Number of recursive dependencies: 156
Run `revdepcheck::cloud_details(, "OVtool")` for more info
@@ -5665,17 +7312,17 @@ ERROR: lazy loading failed for package ‘OVtool’
```
-# pagoda2
+# pammtools
-* Version: 1.0.12
-* GitHub: https://github.com/kharchenkolab/pagoda2
-* Source code: https://github.com/cran/pagoda2
-* Date/Publication: 2024-02-27 00:50:02 UTC
-* Number of recursive dependencies: 162
+* Version: 0.5.93
+* GitHub: https://github.com/adibender/pammtools
+* Source code: https://github.com/cran/pammtools
+* Date/Publication: 2024-02-25 10:10:02 UTC
+* Number of recursive dependencies: 124
-Run `revdepcheck::cloud_details(, "pagoda2")` for more info
+Run `revdepcheck::cloud_details(, "pammtools")` for more info
@@ -5684,27 +7331,27 @@ Run `revdepcheck::cloud_details(, "pagoda2")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/pagoda2/new/pagoda2.Rcheck’
+* using log directory ‘/tmp/workdir/pammtools/new/pammtools.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘pagoda2/DESCRIPTION’ ... OK
+* checking for file ‘pammtools/DESCRIPTION’ ... OK
...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rjson’
-
-Package suggested but not available for checking: ‘scde’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking data for non-ASCII characters ... OK
+* checking LazyData ... OK
+* checking data for ASCII and uncompressed saves ... OK
+* checking R/sysdata.rda ... OK
+* checking examples ... OK
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
* DONE
-Status: 1 ERROR
+Status: OK
@@ -5714,154 +7361,30 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/pagoda2/old/pagoda2.Rcheck’
+* using log directory ‘/tmp/workdir/pammtools/old/pammtools.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘pagoda2/DESCRIPTION’ ... OK
+* checking for file ‘pammtools/DESCRIPTION’ ... OK
...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rjson’
-
-Package suggested but not available for checking: ‘scde’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
+* checking data for non-ASCII characters ... OK
+* checking LazyData ... OK
+* checking data for ASCII and uncompressed saves ... OK
+* checking R/sysdata.rda ... OK
+* checking examples ... OK
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-# PAMpal
-
-
-
-* Version: 1.2.1
-* GitHub: NA
-* Source code: https://github.com/cran/PAMpal
-* Date/Publication: 2024-07-11 22:50:02 UTC
-* Number of recursive dependencies: 118
-
-Run `revdepcheck::cloud_details(, "PAMpal")` for more info
-
-
-
-## In both
-
-* checking whether package ‘PAMpal’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/PAMpal/new/PAMpal.Rcheck/00install.out’ for details.
- ```
-
-## Installation
-
-### Devel
-
-```
-* installing *source* package ‘PAMpal’ ...
-** package ‘PAMpal’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘PAMpal’
-* removing ‘/tmp/workdir/PAMpal/new/PAMpal.Rcheck/PAMpal’
-
-
-```
-### CRAN
-
-```
-* installing *source* package ‘PAMpal’ ...
-** package ‘PAMpal’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘PAMpal’
-* removing ‘/tmp/workdir/PAMpal/old/PAMpal.Rcheck/PAMpal’
-
-
-```
-# PAMscapes
-
-
-
-* Version: 0.6.0
-* GitHub: NA
-* Source code: https://github.com/cran/PAMscapes
-* Date/Publication: 2024-07-09 22:50:02 UTC
-* Number of recursive dependencies: 110
-
-Run `revdepcheck::cloud_details(, "PAMscapes")` for more info
-
-
-
-## In both
-
-* checking whether package ‘PAMscapes’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/PAMscapes/new/PAMscapes.Rcheck/00install.out’ for details.
- ```
-
-## Installation
-
-### Devel
-
-```
-* installing *source* package ‘PAMscapes’ ...
-** package ‘PAMscapes’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘PAMscapes’
-* removing ‘/tmp/workdir/PAMscapes/new/PAMscapes.Rcheck/PAMscapes’
+Status: OK
-```
-### CRAN
-```
-* installing *source* package ‘PAMscapes’ ...
-** package ‘PAMscapes’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rjson’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘PAMscapes’
-* removing ‘/tmp/workdir/PAMscapes/old/PAMscapes.Rcheck/PAMscapes’
```
@@ -5936,7 +7459,7 @@ ERROR: lazy loading failed for package ‘paths’
* Version: NA
* GitHub: NA
* Source code: https://github.com/cran/PathwaySpace
-* Number of recursive dependencies: 70
+* Number of recursive dependencies: 69
Run `revdepcheck::cloud_details(, "PathwaySpace")` for more info
@@ -5968,11 +7491,11 @@ Run `revdepcheck::cloud_details(, "PathwaySpace")` for more info
-* Version: 1.0.0
+* Version: 1.1.1.0
* GitHub: https://github.com/danforthcenter/pcvr
* Source code: https://github.com/cran/pcvr
-* Date/Publication: 2024-09-05 17:30:02 UTC
-* Number of recursive dependencies: 189
+* Date/Publication: 2024-11-06 20:50:02 UTC
+* Number of recursive dependencies: 192
Run `revdepcheck::cloud_details(, "pcvr")` for more info
@@ -6007,182 +7530,120 @@ Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[
Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
ERROR: lazy loading failed for package ‘pcvr’
-* removing ‘/tmp/workdir/pcvr/new/pcvr.Rcheck/pcvr’
-
-
-```
-### CRAN
-
-```
-* installing *source* package ‘pcvr’ ...
-** package ‘pcvr’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Warning in check_dep_version() :
- ABI version mismatch:
-lme4 was built with Matrix ABI version 1
-Current Matrix ABI version is 0
-Please re-install lme4 from source or restore original ‘Matrix’ package
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘pcvr’
-* removing ‘/tmp/workdir/pcvr/old/pcvr.Rcheck/pcvr’
-
-
-```
-# PlasmaMutationDetector
-
-
-
-* Version: 1.7.2
-* GitHub: NA
-* Source code: https://github.com/cran/PlasmaMutationDetector
-* Date/Publication: 2018-06-11 07:43:09 UTC
-* Number of recursive dependencies: 91
-
-Run `revdepcheck::cloud_details(, "PlasmaMutationDetector")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/PlasmaMutationDetector/new/PlasmaMutationDetector.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘PlasmaMutationDetector/DESCRIPTION’ ... OK
-...
-* this is package ‘PlasmaMutationDetector’ version ‘1.7.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'VariantAnnotation', 'rtracklayer'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/PlasmaMutationDetector/old/PlasmaMutationDetector.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘PlasmaMutationDetector/DESCRIPTION’ ... OK
-...
-* this is package ‘PlasmaMutationDetector’ version ‘1.7.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'VariantAnnotation', 'rtracklayer'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
+* removing ‘/tmp/workdir/pcvr/new/pcvr.Rcheck/pcvr’
+```
+### CRAN
+```
+* installing *source* package ‘pcvr’ ...
+** package ‘pcvr’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Warning in check_dep_version() :
+ ABI version mismatch:
+lme4 was built with Matrix ABI version 1
+Current Matrix ABI version is 0
+Please re-install lme4 from source or restore original ‘Matrix’ package
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘pcvr’
+* removing ‘/tmp/workdir/pcvr/old/pcvr.Rcheck/pcvr’
```
-# PlasmaMutationDetector2
+# PieGlyph
-* Version: 1.1.11
-* GitHub: NA
-* Source code: https://github.com/cran/PlasmaMutationDetector2
-* Date/Publication: 2022-05-03 10:00:08 UTC
-* Number of recursive dependencies: 91
+* Version: 1.0.0
+* GitHub: https://github.com/rishvish/PieGlyph
+* Source code: https://github.com/cran/PieGlyph
+* Date/Publication: 2024-06-28 12:00:02 UTC
+* Number of recursive dependencies: 90
-Run `revdepcheck::cloud_details(, "PlasmaMutationDetector2")` for more info
+Run `revdepcheck::cloud_details(, "PieGlyph")` for more info
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/PlasmaMutationDetector2/new/PlasmaMutationDetector2.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘PlasmaMutationDetector2/DESCRIPTION’ ... OK
-...
-* this is package ‘PlasmaMutationDetector2’ version ‘1.1.11’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'VariantAnnotation', 'rtracklayer'
+## Newly broken
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
+* checking whether package ‘PieGlyph’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/00install.out’ for details.
+ ```
+
+## Newly fixed
+
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘time-series-example.Rmd’
+ ...
+ 135 92 1506 720 323 16155 0.1073748 10 0 1980.167
+ 136 100 1360 646 310 16585 0.1116954 4 0 1980.250
+ 137 95 1453 765 424 18117 0.1106382 8 0 1980.333
+ 138 114 1522 820 403 17552 0.1118552 8 0 1980.417
+
+ > knitr::include_graphics("../man/figures/scatterpie-1.png")
+
+ ...
+ before plotting.
+ Execution halted
+
+ ‘PieGlyph.Rmd’ using ‘UTF-8’... OK
+ ‘interactive-pie-glyphs.Rmd’ using ‘UTF-8’... OK
+ ‘multinomial-classification-example.Rmd’ using ‘UTF-8’... OK
+ ‘pie-lollipop-example.Rmd’ using ‘UTF-8’... OK
+ ‘spatial-example.Rmd’ using ‘UTF-8’... OK
+ ‘time-series-example.Rmd’ using ‘UTF-8’... failed
+ ‘unusual-situations.Rmd’ using ‘UTF-8’... failed
+ ```
+## Installation
+### Devel
+```
+* installing *source* package ‘PieGlyph’ ...
+** package ‘PieGlyph’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in get(x, envir = ns, inherits = FALSE) :
+ object 'is.waive' not found
+Error: unable to load R code in package ‘PieGlyph’
+Execution halted
+ERROR: lazy loading failed for package ‘PieGlyph’
+* removing ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/PieGlyph’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/PlasmaMutationDetector2/old/PlasmaMutationDetector2.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘PlasmaMutationDetector2/DESCRIPTION’ ... OK
-...
-* this is package ‘PlasmaMutationDetector2’ version ‘1.1.11’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'VariantAnnotation', 'rtracklayer'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
+* installing *source* package ‘PieGlyph’ ...
+** package ‘PieGlyph’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+*** copying figures
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (PieGlyph)
```
@@ -6194,7 +7655,7 @@ Status: 1 ERROR
* GitHub: NA
* Source code: https://github.com/cran/PLMIX
* Date/Publication: 2019-09-04 11:50:02 UTC
-* Number of recursive dependencies: 139
+* Number of recursive dependencies: 128
Run `revdepcheck::cloud_details(, "PLMIX")` for more info
@@ -6217,12 +7678,12 @@ Run `revdepcheck::cloud_details(, "PLMIX")` for more info
** package ‘PLMIX’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o
...
** data
*** moving datasets to lazyload DB
@@ -6244,12 +7705,12 @@ ERROR: lazy loading failed for package ‘PLMIX’
** package ‘PLMIX’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o
...
** data
*** moving datasets to lazyload DB
@@ -6263,82 +7724,6 @@ ERROR: lazy loading failed for package ‘PLMIX’
* removing ‘/tmp/workdir/PLMIX/old/PLMIX.Rcheck/PLMIX’
-```
-# polyRAD
-
-
-
-* Version: 2.0.0
-* GitHub: https://github.com/lvclark/polyRAD
-* Source code: https://github.com/cran/polyRAD
-* Date/Publication: 2022-11-06 21:50:02 UTC
-* Number of recursive dependencies: 135
-
-Run `revdepcheck::cloud_details(, "polyRAD")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/polyRAD/new/polyRAD.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘polyRAD/DESCRIPTION’ ... OK
-...
-
- When sourcing ‘polyRADtutorial.R’:
-Error: Probabilities must be finite and non-negative!
-Execution halted
-
- ‘isolocus_sorting.Rmd’ using ‘UTF-8’... OK
- ‘polyRADtutorial.Rmd’ using ‘UTF-8’... failed
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 1 ERROR, 3 NOTEs
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/polyRAD/old/polyRAD.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘polyRAD/DESCRIPTION’ ... OK
-...
-
- When sourcing ‘polyRADtutorial.R’:
-Error: Probabilities must be finite and non-negative!
-Execution halted
-
- ‘isolocus_sorting.Rmd’ using ‘UTF-8’... OK
- ‘polyRADtutorial.Rmd’ using ‘UTF-8’... failed
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 1 ERROR, 3 NOTEs
-
-
-
-
-
```
# popstudy
@@ -6348,7 +7733,7 @@ Status: 1 ERROR, 3 NOTEs
* GitHub: NA
* Source code: https://github.com/cran/popstudy
* Date/Publication: 2023-10-17 23:50:02 UTC
-* Number of recursive dependencies: 240
+* Number of recursive dependencies: 242
Run `revdepcheck::cloud_details(, "popstudy")` for more info
@@ -6418,53 +7803,65 @@ Run `revdepcheck::cloud_details(, "pould")` for more info
-## In both
-
-* checking whether package ‘pould’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/pould/new/pould.Rcheck/00install.out’ for details.
- ```
-
-## Installation
+## Error before installation
### Devel
```
-* installing *source* package ‘pould’ ...
-** package ‘pould’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘pould’
-* removing ‘/tmp/workdir/pould/new/pould.Rcheck/pould’
+* using log directory ‘/tmp/workdir/pould/new/pould.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘pould/DESCRIPTION’ ... OK
+...
+* this is package ‘pould’ version ‘1.0.1’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘haplo.stats’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘pould’ ...
-** package ‘pould’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘pould’
-* removing ‘/tmp/workdir/pould/old/pould.Rcheck/pould’
+* using log directory ‘/tmp/workdir/pould/old/pould.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘pould/DESCRIPTION’ ... OK
+...
+* this is package ‘pould’ version ‘1.0.1’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘haplo.stats’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
@@ -6540,7 +7937,7 @@ ERROR: lazy loading failed for package ‘PoweREST’
* GitHub: https://github.com/mihaiconstantin/powerly
* Source code: https://github.com/cran/powerly
* Date/Publication: 2022-09-09 14:10:01 UTC
-* Number of recursive dependencies: 181
+* Number of recursive dependencies: 169
Run `revdepcheck::cloud_details(, "powerly")` for more info
@@ -6610,7 +8007,7 @@ ERROR: lazy loading failed for package ‘powerly’
* GitHub: https://github.com/marjoleinF/pre
* Source code: https://github.com/cran/pre
* Date/Publication: 2024-01-12 19:30:02 UTC
-* Number of recursive dependencies: 151
+* Number of recursive dependencies: 153
Run `revdepcheck::cloud_details(, "pre")` for more info
@@ -6674,7 +8071,7 @@ ERROR: lazy loading failed for package ‘pre’
* GitHub: https://github.com/feiyoung/ProFAST
* Source code: https://github.com/cran/ProFAST
* Date/Publication: 2024-03-18 08:10:06 UTC
-* Number of recursive dependencies: 245
+* Number of recursive dependencies: 248
Run `revdepcheck::cloud_details(, "ProFAST")` for more info
@@ -6689,9 +8086,9 @@ Run `revdepcheck::cloud_details(, "ProFAST")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘ProFAST/DESCRIPTION’ ... OK
@@ -6719,9 +8116,9 @@ Status: 1 ERROR
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘ProFAST/DESCRIPTION’ ... OK
@@ -6750,73 +8147,71 @@ Status: 1 ERROR
* GitHub: https://github.com/ocbe-uio/psbcSpeedUp
* Source code: https://github.com/cran/psbcSpeedUp
* Date/Publication: 2024-07-01 09:00:02 UTC
-* Number of recursive dependencies: 130
+* Number of recursive dependencies: 119
Run `revdepcheck::cloud_details(, "psbcSpeedUp")` for more info
-## In both
-
-* checking whether package ‘psbcSpeedUp’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck/00install.out’ for details.
- ```
-
-## Installation
+## Error before installation
### Devel
```
-* installing *source* package ‘psbcSpeedUp’ ...
-** package ‘psbcSpeedUp’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether the compiler supports GNU C++... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+* using log directory ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘psbcSpeedUp/DESCRIPTION’ ... OK
...
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘psbcSpeedUp’
-* removing ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck/psbcSpeedUp’
+* this is package ‘psbcSpeedUp’ version ‘2.0.7’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘psbcSpeedUp’ ...
-** package ‘psbcSpeedUp’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking whether the C++ compiler works... yes
-checking for C++ compiler default output file name... a.out
-checking for suffix of executables...
-checking whether we are cross compiling... no
-checking for suffix of object files... o
-checking whether the compiler supports GNU C++... yes
-checking whether g++ -std=gnu++17 accepts -g... yes
+* using log directory ‘/tmp/workdir/psbcSpeedUp/old/psbcSpeedUp.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘psbcSpeedUp/DESCRIPTION’ ... OK
...
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘psbcSpeedUp’
-* removing ‘/tmp/workdir/psbcSpeedUp/old/psbcSpeedUp.Rcheck/psbcSpeedUp’
+* this is package ‘psbcSpeedUp’ version ‘2.0.7’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘riskRegression’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
@@ -6828,7 +8223,7 @@ ERROR: lazy loading failed for package ‘psbcSpeedUp’
* GitHub: https://github.com/JWiley/score-project
* Source code: https://github.com/cran/pscore
* Date/Publication: 2022-05-13 22:30:02 UTC
-* Number of recursive dependencies: 169
+* Number of recursive dependencies: 171
Run `revdepcheck::cloud_details(, "pscore")` for more info
@@ -6891,6 +8286,41 @@ ERROR: lazy loading failed for package ‘pscore’
* removing ‘/tmp/workdir/pscore/old/pscore.Rcheck/pscore’
+```
+# pubh
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/pubh
+* Number of recursive dependencies: 160
+
+Run `revdepcheck::cloud_details(, "pubh")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
```
# qPCRtools
@@ -6900,7 +8330,7 @@ ERROR: lazy loading failed for package ‘pscore’
* GitHub: https://github.com/lixiang117423/qPCRtools
* Source code: https://github.com/cran/qPCRtools
* Date/Publication: 2023-11-02 13:10:05 UTC
-* Number of recursive dependencies: 106
+* Number of recursive dependencies: 110
Run `revdepcheck::cloud_details(, "qPCRtools")` for more info
@@ -6960,7 +8390,7 @@ ERROR: lazy loading failed for package ‘qPCRtools’
* GitHub: https://github.com/Kyuhyun07/qris
* Source code: https://github.com/cran/qris
* Date/Publication: 2024-03-05 14:40:03 UTC
-* Number of recursive dependencies: 55
+* Number of recursive dependencies: 54
Run `revdepcheck::cloud_details(, "qris")` for more info
@@ -6983,12 +8413,12 @@ Run `revdepcheck::cloud_details(, "qris")` for more info
** package ‘qris’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o
...
installing to /tmp/workdir/qris/new/qris.Rcheck/00LOCK-qris/00new/qris/libs
** R
@@ -7010,12 +8440,12 @@ ERROR: lazy loading failed for package ‘qris’
** package ‘qris’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++11
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o
...
installing to /tmp/workdir/qris/old/qris.Rcheck/00LOCK-qris/00new/qris/libs
** R
@@ -7038,7 +8468,7 @@ ERROR: lazy loading failed for package ‘qris’
* GitHub: NA
* Source code: https://github.com/cran/qte
* Date/Publication: 2022-09-01 14:30:02 UTC
-* Number of recursive dependencies: 87
+* Number of recursive dependencies: 123
Run `revdepcheck::cloud_details(, "qte")` for more info
@@ -7164,7 +8594,7 @@ ERROR: lazy loading failed for package ‘quantilogram’
* GitHub: NA
* Source code: https://github.com/cran/quid
* Date/Publication: 2021-12-09 09:00:02 UTC
-* Number of recursive dependencies: 95
+* Number of recursive dependencies: 94
Run `revdepcheck::cloud_details(, "quid")` for more info
@@ -7228,7 +8658,7 @@ ERROR: lazy loading failed for package ‘quid’
* GitHub: NA
* Source code: https://github.com/cran/RcmdrPlugin.RiskDemo
* Date/Publication: 2024-02-06 09:20:02 UTC
-* Number of recursive dependencies: 200
+* Number of recursive dependencies: 201
Run `revdepcheck::cloud_details(, "RcmdrPlugin.RiskDemo")` for more info
@@ -7300,7 +8730,7 @@ ERROR: lazy loading failed for package ‘RcmdrPlugin.RiskDemo’
* GitHub: https://github.com/bquast/rddtools
* Source code: https://github.com/cran/rddtools
* Date/Publication: 2022-01-10 12:42:49 UTC
-* Number of recursive dependencies: 106
+* Number of recursive dependencies: 108
Run `revdepcheck::cloud_details(, "rddtools")` for more info
@@ -7352,16 +8782,17 @@ ERROR: lazy loading failed for package ‘rddtools’
```
-# RGraphSpace
+# relsurv
-* Version: NA
+* Version: 2.3-1
* GitHub: NA
-* Source code: https://github.com/cran/RGraphSpace
-* Number of recursive dependencies: 65
+* Source code: https://github.com/cran/relsurv
+* Date/Publication: 2025-01-20 15:40:01 UTC
+* Number of recursive dependencies: 112
-Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info
+Run `revdepcheck::cloud_details(, "relsurv")` for more info
@@ -7370,7 +8801,27 @@ Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info
### Devel
```
-
+* using log directory ‘/tmp/workdir/relsurv/new/relsurv.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘relsurv/DESCRIPTION’ ... OK
+...
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking line endings in Makefiles ... OK
+* checking compilation flags in Makevars ... OK
+* checking for GNU extensions in Makefiles ... OK
+* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
+* checking use of PKG_*FLAGS in Makefiles ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
@@ -7380,23 +8831,119 @@ Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info
### CRAN
```
+* using log directory ‘/tmp/workdir/relsurv/old/relsurv.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘relsurv/DESCRIPTION’ ... OK
+...
+* checking line endings in C/C++/Fortran sources/headers ... OK
+* checking line endings in Makefiles ... OK
+* checking compilation flags in Makevars ... OK
+* checking for GNU extensions in Makefiles ... OK
+* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
+* checking use of PKG_*FLAGS in Makefiles ... OK
+* checking compiled code ... OK
+* checking examples ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+# ReporterScore
+
+
+* Version: 0.1.9
+* GitHub: https://github.com/Asa12138/ReporterScore
+* Source code: https://github.com/cran/ReporterScore
+* Date/Publication: 2024-11-28 14:10:06 UTC
+* Number of recursive dependencies: 250
+Run `revdepcheck::cloud_details(, "ReporterScore")` for more info
+
+## Error before installation
+### Devel
```
-# rms
+* using log directory ‘/tmp/workdir/ReporterScore/new/ReporterScore.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘ReporterScore/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘ReporterScore.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 NOTE
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/ReporterScore/old/ReporterScore.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘ReporterScore/DESCRIPTION’ ... OK
+...
+* checking installed files from ‘inst/doc’ ... OK
+* checking files in ‘vignettes’ ... OK
+* checking examples ... OK
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘ReporterScore.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 1 NOTE
+
+
+
+
+
+```
+# RGraphSpace
* Version: NA
* GitHub: NA
-* Source code: https://github.com/cran/rms
-* Number of recursive dependencies: 145
+* Source code: https://github.com/cran/RGraphSpace
+* Number of recursive dependencies: 64
-Run `revdepcheck::cloud_details(, "rms")` for more info
+Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info
@@ -7422,17 +8969,17 @@ Run `revdepcheck::cloud_details(, "rms")` for more info
```
-# RNAseqQC
+# riskRegression
-* Version: 0.2.1
-* GitHub: https://github.com/frederikziebell/RNAseqQC
-* Source code: https://github.com/cran/RNAseqQC
-* Date/Publication: 2024-07-15 14:40:02 UTC
-* Number of recursive dependencies: 162
+* Version: 2023.12.21
+* GitHub: https://github.com/tagteam/riskRegression
+* Source code: https://github.com/cran/riskRegression
+* Date/Publication: 2023-12-19 17:00:02 UTC
+* Number of recursive dependencies: 185
-Run `revdepcheck::cloud_details(, "RNAseqQC")` for more info
+Run `revdepcheck::cloud_details(, "riskRegression")` for more info
@@ -7441,22 +8988,22 @@ Run `revdepcheck::cloud_details(, "RNAseqQC")` for more info
### Devel
```
-* using log directory ‘/tmp/workdir/RNAseqQC/new/RNAseqQC.Rcheck’
+* using log directory ‘/tmp/workdir/riskRegression/new/riskRegression.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘RNAseqQC/DESCRIPTION’ ... OK
+* checking for file ‘riskRegression/DESCRIPTION’ ... OK
...
+* this is package ‘riskRegression’ version ‘2023.12.21’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'ensembldb', 'ComplexHeatmap'
-
-Package suggested but not available for checking: ‘recount3’
+Package required but not available: ‘rms’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -7471,27 +9018,173 @@ Status: 1 ERROR
### CRAN
```
-* using log directory ‘/tmp/workdir/RNAseqQC/old/RNAseqQC.Rcheck’
+* using log directory ‘/tmp/workdir/riskRegression/old/riskRegression.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
-* checking for file ‘RNAseqQC/DESCRIPTION’ ... OK
+* checking for file ‘riskRegression/DESCRIPTION’ ... OK
...
+* this is package ‘riskRegression’ version ‘2023.12.21’
+* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'ensembldb', 'ComplexHeatmap'
-
-Package suggested but not available for checking: ‘recount3’
+Package required but not available: ‘rms’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
* DONE
-Status: 1 ERROR
+Status: 1 ERROR
+
+
+
+
+
+```
+# rmlnomogram
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/rmlnomogram
+* Number of recursive dependencies: 181
+
+Run `revdepcheck::cloud_details(, "rmlnomogram")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
+```
+# rms
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/rms
+* Number of recursive dependencies: 148
+
+Run `revdepcheck::cloud_details(, "rms")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
+```
+# robber
+
+
+
+* Version: 0.2.4
+* GitHub: https://github.com/Chabert-Liddell/robber
+* Source code: https://github.com/cran/robber
+* Date/Publication: 2024-02-07 13:50:02 UTC
+* Number of recursive dependencies: 143
+
+Run `revdepcheck::cloud_details(, "robber")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/robber/new/robber.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘robber/DESCRIPTION’ ... OK
+...
+* checking tests ... OK
+ Running ‘spelling.R’
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘topological-analysis.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/robber/old/robber.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘robber/DESCRIPTION’ ... OK
+...
+* checking tests ... OK
+ Running ‘spelling.R’
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... OK
+ ‘topological-analysis.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: OK
@@ -7502,11 +9195,11 @@ Status: 1 ERROR
-* Version: 1.0.2
+* Version: 1.2.0
* GitHub: https://github.com/aalfons/robmed
* Source code: https://github.com/cran/robmed
-* Date/Publication: 2023-06-16 23:00:02 UTC
-* Number of recursive dependencies: 60
+* Date/Publication: 2024-12-10 00:00:02 UTC
+* Number of recursive dependencies: 59
Run `revdepcheck::cloud_details(, "robmed")` for more info
@@ -7566,11 +9259,11 @@ ERROR: lazy loading failed for package ‘robmed’
-* Version: 0.1.0
+* Version: 0.1.1
* GitHub: https://github.com/aalfons/robmedExtra
* Source code: https://github.com/cran/robmedExtra
-* Date/Publication: 2023-06-02 14:40:02 UTC
-* Number of recursive dependencies: 90
+* Date/Publication: 2024-11-03 12:10:01 UTC
+* Number of recursive dependencies: 91
Run `revdepcheck::cloud_details(, "robmedExtra")` for more info
@@ -7690,7 +9383,7 @@ ERROR: lazy loading failed for package ‘RPPanalyzer’
* GitHub: NA
* Source code: https://github.com/cran/RQdeltaCT
* Date/Publication: 2024-04-17 15:50:02 UTC
-* Number of recursive dependencies: 166
+* Number of recursive dependencies: 163
Run `revdepcheck::cloud_details(, "RQdeltaCT")` for more info
@@ -7753,7 +9446,7 @@ ERROR: lazy loading failed for package ‘RQdeltaCT’
* Version: NA
* GitHub: NA
* Source code: https://github.com/cran/RRPP
-* Number of recursive dependencies: 68
+* Number of recursive dependencies: 67
Run `revdepcheck::cloud_details(, "RRPP")` for more info
@@ -7789,7 +9482,7 @@ Run `revdepcheck::cloud_details(, "RRPP")` for more info
* GitHub: https://github.com/stan-dev/rstanarm
* Source code: https://github.com/cran/rstanarm
* Date/Publication: 2024-01-18 23:00:03 UTC
-* Number of recursive dependencies: 138
+* Number of recursive dependencies: 140
Run `revdepcheck::cloud_details(, "rstanarm")` for more info
@@ -7812,15 +9505,15 @@ Run `revdepcheck::cloud_details(, "rstanarm")` for more info
** package ‘rstanarm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
"/opt/R/4.3.1/lib/R/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan
Wrote C++ file "stan_files/bernoulli.cc"
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:16: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -7839,15 +9532,15 @@ ERROR: compilation failed for package ‘rstanarm’
** package ‘rstanarm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
"/opt/R/4.3.1/lib/R/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan
Wrote C++ file "stan_files/bernoulli.cc"
...
-/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:16: required from here
-/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
+/usr/local/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here
+/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes]
654 | return internal::first_aligned::alignment),Derived>(m);
| ^~~~~~~~~
g++: fatal error: Killed signal terminated program cc1plus
@@ -7858,92 +9551,16 @@ ERROR: compilation failed for package ‘rstanarm’
* removing ‘/tmp/workdir/rstanarm/old/rstanarm.Rcheck/rstanarm’
-```
-# RTIGER
-
-
-
-* Version: 2.1.0
-* GitHub: NA
-* Source code: https://github.com/cran/RTIGER
-* Date/Publication: 2023-03-29 09:20:02 UTC
-* Number of recursive dependencies: 160
-
-Run `revdepcheck::cloud_details(, "RTIGER")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/RTIGER/new/RTIGER.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘RTIGER/DESCRIPTION’ ... OK
-...
-* checking installed files from ‘inst/doc’ ... OK
-* checking files in ‘vignettes’ ... OK
-* checking examples ... OK
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘tutorial_RTIGER.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 1 NOTE
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/RTIGER/old/RTIGER.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘RTIGER/DESCRIPTION’ ... OK
-...
-* checking installed files from ‘inst/doc’ ... OK
-* checking files in ‘vignettes’ ... OK
-* checking examples ... OK
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘tutorial_RTIGER.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 1 NOTE
-
-
-
-
-
```
# rTwig
-* Version: 1.1.0
+* Version: 1.3.0
* GitHub: https://github.com/aidanmorales/rTwig
* Source code: https://github.com/cran/rTwig
-* Date/Publication: 2024-08-21 00:50:02 UTC
-* Number of recursive dependencies: 147
+* Date/Publication: 2024-11-21 21:30:02 UTC
+* Number of recursive dependencies: 141
Run `revdepcheck::cloud_details(, "rTwig")` for more info
@@ -7966,12 +9583,12 @@ Run `revdepcheck::cloud_details(, "rTwig")` for more info
** package ‘rTwig’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c box_counting.cpp -o box_counting.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c colors.cpp -o colors.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cylinder_mesh.cpp -o cylinder_mesh.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c box_counting.cpp -o box_counting.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cluster_cloud.cpp -o cluster_cloud.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c colors.cpp -o colors.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o
...
** data
*** moving datasets to lazyload DB
@@ -7993,12 +9610,12 @@ ERROR: lazy loading failed for package ‘rTwig’
** package ‘rTwig’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c box_counting.cpp -o box_counting.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c colors.cpp -o colors.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cylinder_mesh.cpp -o cylinder_mesh.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c box_counting.cpp -o box_counting.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cluster_cloud.cpp -o cluster_cloud.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c colors.cpp -o colors.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o
...
** data
*** moving datasets to lazyload DB
@@ -8021,7 +9638,7 @@ ERROR: lazy loading failed for package ‘rTwig’
* GitHub: https://github.com/THERMOSTATS/RVA
* Source code: https://github.com/cran/RVA
* Date/Publication: 2021-11-01 21:40:02 UTC
-* Number of recursive dependencies: 207
+* Number of recursive dependencies: 210
Run `revdepcheck::cloud_details(, "RVA")` for more info
@@ -8036,9 +9653,9 @@ Run `revdepcheck::cloud_details(, "RVA")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘RVA/DESCRIPTION’ ... OK
@@ -8047,7 +9664,7 @@ Run `revdepcheck::cloud_details(, "RVA")` for more info
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'ComplexHeatmap', 'rWikiPathways'
+Package required but not available: ‘clusterProfiler’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -8066,9 +9683,9 @@ Status: 1 ERROR
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘RVA/DESCRIPTION’ ... OK
@@ -8077,7 +9694,7 @@ Status: 1 ERROR
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
-Packages required but not available: 'ComplexHeatmap', 'rWikiPathways'
+Package required but not available: ‘clusterProfiler’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
@@ -8089,79 +9706,132 @@ Status: 1 ERROR
```
-# scCustomize
+# S4DM
-* Version: 2.1.2
-* GitHub: https://github.com/samuel-marsh/scCustomize
-* Source code: https://github.com/cran/scCustomize
-* Date/Publication: 2024-02-28 19:40:02 UTC
-* Number of recursive dependencies: 267
+* Version: 0.0.1
+* GitHub: NA
+* Source code: https://github.com/cran/S4DM
+* Date/Publication: 2025-01-10 21:00:02 UTC
+* Number of recursive dependencies: 138
-Run `revdepcheck::cloud_details(, "scCustomize")` for more info
+Run `revdepcheck::cloud_details(, "S4DM")` for more info
-## Error before installation
+## In both
+
+* checking whether package ‘S4DM’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/S4DM/new/S4DM.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
### Devel
```
-* using log directory ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘scCustomize/DESCRIPTION’ ... OK
-...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘scCustomize’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
+* installing *source* package ‘S4DM’ ...
+** package ‘S4DM’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘S4DM’
+* removing ‘/tmp/workdir/S4DM/new/S4DM.Rcheck/S4DM’
+```
+### CRAN
+```
+* installing *source* package ‘S4DM’ ...
+** package ‘S4DM’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘S4DM’
+* removing ‘/tmp/workdir/S4DM/old/S4DM.Rcheck/S4DM’
```
-### CRAN
+# scCustomize
+
+
+
+* Version: 3.0.1
+* GitHub: https://github.com/samuel-marsh/scCustomize
+* Source code: https://github.com/cran/scCustomize
+* Date/Publication: 2024-12-18 18:40:02 UTC
+* Number of recursive dependencies: 272
+
+Run `revdepcheck::cloud_details(, "scCustomize")` for more info
+
+
+
+## In both
+
+* checking whether package ‘scCustomize’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/00install.out’ for details.
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘Nebulosa’
+ ```
+
+## Installation
+
+### Devel
```
-* using log directory ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘scCustomize/DESCRIPTION’ ... OK
-...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘scCustomize’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
+* installing *source* package ‘scCustomize’ ...
+** package ‘scCustomize’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
+Execution halted
+ERROR: lazy loading failed for package ‘scCustomize’
+* removing ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/scCustomize’
+```
+### CRAN
+```
+* installing *source* package ‘scCustomize’ ...
+** package ‘scCustomize’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
+Execution halted
+ERROR: lazy loading failed for package ‘scCustomize’
+* removing ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck/scCustomize’
```
@@ -8173,7 +9843,7 @@ Status: 1 ERROR, 1 NOTE
* GitHub: https://github.com/Liuy12/SCdeconR
* Source code: https://github.com/cran/SCdeconR
* Date/Publication: 2024-03-22 19:20:02 UTC
-* Number of recursive dependencies: 236
+* Number of recursive dependencies: 237
Run `revdepcheck::cloud_details(, "SCdeconR")` for more info
@@ -8231,7 +9901,7 @@ ERROR: lazy loading failed for package ‘SCdeconR’
* GitHub: https://github.com/carmonalab/scGate
* Source code: https://github.com/cran/scGate
* Date/Publication: 2024-04-23 08:50:02 UTC
-* Number of recursive dependencies: 179
+* Number of recursive dependencies: 180
Run `revdepcheck::cloud_details(, "scGate")` for more info
@@ -8326,9 +9996,9 @@ Run `revdepcheck::cloud_details(, "SCIntRuler")` for more info
** package ‘SCIntRuler’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SCIntRuler.so RcppExports.o crossdist.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/SCIntRuler/new/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs
** R
@@ -8353,99 +10023,23 @@ ERROR: lazy loading failed for package ‘SCIntRuler’
** package ‘SCIntRuler’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SCIntRuler.so RcppExports.o crossdist.o -L/opt/R/4.3.1/lib/R/lib -lR
-installing to /tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs
-** R
-...
-** data
-*** moving datasets to lazyload DB
-** inst
-** byte-compile and prepare package for lazy loading
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
-Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
-Execution halted
-ERROR: lazy loading failed for package ‘SCIntRuler’
-* removing ‘/tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/SCIntRuler’
-
-
-```
-# scITD
-
-
-
-* Version: 1.0.4
-* GitHub: NA
-* Source code: https://github.com/cran/scITD
-* Date/Publication: 2023-09-08 16:00:02 UTC
-* Number of recursive dependencies: 233
-
-Run `revdepcheck::cloud_details(, "scITD")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/scITD/new/scITD.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘scITD/DESCRIPTION’ ... OK
-...
-* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Packages suggested but not available for checking:
- 'simplifyEnrichment', 'conos', 'pagoda2'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/scITD/old/scITD.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘scITD/DESCRIPTION’ ... OK
-...
-* checking package dependencies ... ERROR
-Package required but not available: ‘ComplexHeatmap’
-
-Packages suggested but not available for checking:
- 'simplifyEnrichment', 'conos', 'pagoda2'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
+installing to /tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs
+** R
+...
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘SCIntRuler’
+* removing ‘/tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/SCIntRuler’
```
@@ -8517,11 +10111,11 @@ ERROR: lazy loading failed for package ‘scMappR’
-* Version: 2.2.5
+* Version: 2.2.6
* GitHub: NA
* Source code: https://github.com/cran/scpi
-* Date/Publication: 2023-11-01 06:10:07 UTC
-* Number of recursive dependencies: 98
+* Date/Publication: 2024-11-11 23:40:02 UTC
+* Number of recursive dependencies: 96
Run `revdepcheck::cloud_details(, "scpi")` for more info
@@ -8590,6 +10184,82 @@ ERROR: lazy loading failed for package ‘scpi’
* removing ‘/tmp/workdir/scpi/old/scpi.Rcheck/scpi’
+```
+# SCpubr
+
+
+
+* Version: 2.0.2
+* GitHub: https://github.com/enblacar/SCpubr
+* Source code: https://github.com/cran/SCpubr
+* Date/Publication: 2023-10-11 09:50:02 UTC
+* Number of recursive dependencies: 301
+
+Run `revdepcheck::cloud_details(, "SCpubr")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/SCpubr/new/SCpubr.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘SCpubr/DESCRIPTION’ ... OK
+...
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... NONE
+ ‘reference_manual.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 2 NOTEs
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/SCpubr/old/SCpubr.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘SCpubr/DESCRIPTION’ ... OK
+...
+* checking for unstated dependencies in ‘tests’ ... OK
+* checking tests ... OK
+ Running ‘testthat.R’
+* checking for unstated dependencies in vignettes ... OK
+* checking package vignettes in ‘inst/doc’ ... OK
+* checking running R code from vignettes ... NONE
+ ‘reference_manual.Rmd’ using ‘UTF-8’... OK
+* checking re-building of vignette outputs ... OK
+* DONE
+Status: 2 NOTEs
+
+
+
+
+
```
# scRNAstat
@@ -8732,82 +10402,6 @@ ERROR: lazy loading failed for package ‘sectorgap’
* removing ‘/tmp/workdir/sectorgap/old/sectorgap.Rcheck/sectorgap’
-```
-# SeedMatchR
-
-
-
-* Version: 1.1.1
-* GitHub: NA
-* Source code: https://github.com/cran/SeedMatchR
-* Date/Publication: 2023-10-24 20:30:02 UTC
-* Number of recursive dependencies: 167
-
-Run `revdepcheck::cloud_details(, "SeedMatchR")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/SeedMatchR/new/SeedMatchR.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘SeedMatchR/DESCRIPTION’ ... OK
-...
-* this is package ‘SeedMatchR’ version ‘1.1.1’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'msa', 'GenomicFeatures'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/SeedMatchR/old/SeedMatchR.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘SeedMatchR/DESCRIPTION’ ... OK
-...
-* this is package ‘SeedMatchR’ version ‘1.1.1’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'msa', 'GenomicFeatures'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# SEERaBomb
@@ -8840,11 +10434,11 @@ Run `revdepcheck::cloud_details(, "SEERaBomb")` for more info
** package ‘SEERaBomb’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SEERaBomb.so RcppExports.o SEERaBomb_init.o fillPYM.o -L/opt/R/4.3.1/lib/R/lib -lR
...
** R
@@ -8867,11 +10461,11 @@ ERROR: lazy loading failed for package ‘SEERaBomb’
** package ‘SEERaBomb’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SEERaBomb.so RcppExports.o SEERaBomb_init.o fillPYM.o -L/opt/R/4.3.1/lib/R/lib -lR
...
** R
@@ -8953,7 +10547,7 @@ ERROR: lazy loading failed for package ‘semicmprskcoxmsm’
* GitHub: https://github.com/IbtihelRebhi/SensMap
* Source code: https://github.com/cran/SensMap
* Date/Publication: 2022-07-04 19:00:02 UTC
-* Number of recursive dependencies: 145
+* Number of recursive dependencies: 148
Run `revdepcheck::cloud_details(, "SensMap")` for more info
@@ -9008,156 +10602,82 @@ ERROR: lazy loading failed for package ‘SensMap’
* removing ‘/tmp/workdir/SensMap/old/SensMap.Rcheck/SensMap’
-```
-# sephora
-
-
-
-* Version: 0.1.31
-* GitHub: NA
-* Source code: https://github.com/cran/sephora
-* Date/Publication: 2024-01-17 18:40:02 UTC
-* Number of recursive dependencies: 139
-
-Run `revdepcheck::cloud_details(, "sephora")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/sephora/new/sephora.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘sephora/DESCRIPTION’ ... OK
-...
-* this is package ‘sephora’ version ‘0.1.31’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘spiralize’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/sephora/old/sephora.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘sephora/DESCRIPTION’ ... OK
-...
-* this is package ‘sephora’ version ‘0.1.31’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘spiralize’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# Seurat
-* Version: 5.1.0
+* Version: 5.2.0
* GitHub: https://github.com/satijalab/seurat
* Source code: https://github.com/cran/Seurat
-* Date/Publication: 2024-05-10 17:23:17 UTC
-* Number of recursive dependencies: 267
+* Date/Publication: 2025-01-13 23:20:01 UTC
+* Number of recursive dependencies: 281
Run `revdepcheck::cloud_details(, "Seurat")` for more info
-## Error before installation
+## In both
+
+* checking whether package ‘Seurat’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
### Devel
```
-* using log directory ‘/tmp/workdir/Seurat/new/Seurat.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘Seurat/DESCRIPTION’ ... OK
+* installing *source* package ‘Seurat’ ...
+** package ‘Seurat’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c ModularityOptimizer.cpp -o ModularityOptimizer.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RModularityOptimizer.cpp -o RModularityOptimizer.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘Seurat’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
-
-
-
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
+Execution halted
+ERROR: lazy loading failed for package ‘Seurat’
+* removing ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/Seurat’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/Seurat/old/Seurat.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘Seurat/DESCRIPTION’ ... OK
+* installing *source* package ‘Seurat’ ...
+** package ‘Seurat’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+using C++17
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c ModularityOptimizer.cpp -o ModularityOptimizer.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RModularityOptimizer.cpp -o RModularityOptimizer.o
+In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205,
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘Seurat’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/Seurat/old/Seurat.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
-
-
-
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required
+Execution halted
+ERROR: lazy loading failed for package ‘Seurat’
+* removing ‘/tmp/workdir/Seurat/old/Seurat.Rcheck/Seurat’
```
@@ -9169,7 +10689,7 @@ Status: 1 ERROR, 1 NOTE
* GitHub: https://github.com/YuLab-SMU/shinyTempSignal
* Source code: https://github.com/cran/shinyTempSignal
* Date/Publication: 2024-03-06 08:00:02 UTC
-* Number of recursive dependencies: 137
+* Number of recursive dependencies: 134
Run `revdepcheck::cloud_details(, "shinyTempSignal")` for more info
@@ -9229,7 +10749,7 @@ ERROR: lazy loading failed for package ‘shinyTempSignal’
* GitHub: https://github.com/mjuraska/sievePH
* Source code: https://github.com/cran/sievePH
* Date/Publication: 2024-05-17 23:40:02 UTC
-* Number of recursive dependencies: 72
+* Number of recursive dependencies: 76
Run `revdepcheck::cloud_details(, "sievePH")` for more info
@@ -9252,13 +10772,14 @@ Run `revdepcheck::cloud_details(, "sievePH")` for more info
** package ‘sievePH’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sievePH.so RcppExports.o kernel_sievePH_utils.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/sievePH/new/sievePH.Rcheck/00LOCK-sievePH/00new/sievePH/libs
** R
** byte-compile and prepare package for lazy loading
+Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘sievePH’
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
@@ -9275,9 +10796,9 @@ ERROR: lazy loading failed for package ‘sievePH’
** package ‘sievePH’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o
g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sievePH.so RcppExports.o kernel_sievePH_utils.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/sievePH/old/sievePH.Rcheck/00LOCK-sievePH/00new/sievePH/libs
** R
@@ -9291,79 +10812,81 @@ ERROR: lazy loading failed for package ‘sievePH’
```
-# sigminer
+# SiFINeT
+
+
+
+* Version: 1.13
+* GitHub: NA
+* Source code: https://github.com/cran/SiFINeT
+* Date/Publication: 2025-01-16 15:10:05 UTC
+* Number of recursive dependencies: 75
-
+Run `revdepcheck::cloud_details(, "SiFINeT")` for more info
-* Version: 2.3.1
-* GitHub: https://github.com/ShixiangWang/sigminer
-* Source code: https://github.com/cran/sigminer
-* Date/Publication: 2024-05-11 08:50:02 UTC
-* Number of recursive dependencies: 209
+
-Run `revdepcheck::cloud_details(, "sigminer")` for more info
+## In both
-
+* checking whether package ‘SiFINeT’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/00install.out’ for details.
+ ```
-## Error before installation
+## Installation
### Devel
```
-* using log directory ‘/tmp/workdir/sigminer/new/sigminer.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘sigminer/DESCRIPTION’ ... OK
+* installing *source* package ‘SiFINeT’ ...
+** package ‘SiFINeT’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c EstNull.cpp -o EstNull.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp.cpp -o cal_coexp.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp_sp.cpp -o cal_coexp_sp.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_conn.cpp -o cal_conn.o
...
- 18. └─rlang::abort(...)
+installing to /tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/00LOCK-SiFINeT/00new/SiFINeT/libs
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘cnsignature.Rmd’ using ‘UTF-8’... OK
- ‘sigminer.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 1 ERROR, 2 NOTEs
-
-
-
+ERROR: lazy loading failed for package ‘SiFINeT’
+* removing ‘/tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/SiFINeT’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/sigminer/old/sigminer.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘sigminer/DESCRIPTION’ ... OK
+* installing *source* package ‘SiFINeT’ ...
+** package ‘SiFINeT’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c EstNull.cpp -o EstNull.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp.cpp -o cal_coexp.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp_sp.cpp -o cal_coexp_sp.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_conn.cpp -o cal_conn.o
...
-* checking files in ‘vignettes’ ... OK
-* checking examples ... OK
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘cnsignature.Rmd’ using ‘UTF-8’... OK
- ‘sigminer.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 2 NOTEs
-
-
-
+installing to /tmp/workdir/SiFINeT/old/SiFINeT.Rcheck/00LOCK-SiFINeT/00new/SiFINeT/libs
+** R
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘SiFINeT’
+* removing ‘/tmp/workdir/SiFINeT/old/SiFINeT.Rcheck/SiFINeT’
```
@@ -9375,71 +10898,73 @@ Status: 2 NOTEs
* GitHub: https://github.com/stuart-lab/signac
* Source code: https://github.com/cran/Signac
* Date/Publication: 2024-08-21 07:40:02 UTC
-* Number of recursive dependencies: 247
+* Number of recursive dependencies: 246
Run `revdepcheck::cloud_details(, "Signac")` for more info
-## Error before installation
+## In both
+
+* checking whether package ‘Signac’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/Signac/new/Signac.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
### Devel
```
-* using log directory ‘/tmp/workdir/Signac/new/Signac.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘Signac/DESCRIPTION’ ... OK
+* installing *source* package ‘Signac’ ...
+** package ‘Signac’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c filter.cpp -o filter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c group.cpp -o group.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c split.cpp -o split.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c validate.cpp -o validate.o
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘Signac’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/Signac/new/Signac.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
-
-
-
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘Signac’
+* removing ‘/tmp/workdir/Signac/new/Signac.Rcheck/Signac’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/Signac/old/Signac.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘Signac/DESCRIPTION’ ... OK
+* installing *source* package ‘Signac’ ...
+** package ‘Signac’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c filter.cpp -o filter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c group.cpp -o group.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c split.cpp -o split.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c validate.cpp -o validate.o
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘Signac’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/Signac/old/Signac.Rcheck/00install.out’ for details.
-* DONE
-Status: 1 ERROR, 1 NOTE
-
-
-
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘Signac’
+* removing ‘/tmp/workdir/Signac/old/Signac.Rcheck/Signac’
```
@@ -9451,7 +10976,7 @@ Status: 1 ERROR, 1 NOTE
* GitHub: https://github.com/arcaldwell49/SimplyAgree
* Source code: https://github.com/cran/SimplyAgree
* Date/Publication: 2024-03-21 14:20:06 UTC
-* Number of recursive dependencies: 115
+* Number of recursive dependencies: 118
Run `revdepcheck::cloud_details(, "SimplyAgree")` for more info
@@ -9516,16 +11041,51 @@ ERROR: lazy loading failed for package ‘SimplyAgree’
* removing ‘/tmp/workdir/SimplyAgree/old/SimplyAgree.Rcheck/SimplyAgree’
+```
+# smer
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/smer
+* Number of recursive dependencies: 114
+
+Run `revdepcheck::cloud_details(, "smer")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
```
# SNPassoc
-* Version: 2.1-0
+* Version: 2.1-2
* GitHub: https://github.com/isglobal-brge/SNPassoc
* Source code: https://github.com/cran/SNPassoc
-* Date/Publication: 2022-12-14 20:20:02 UTC
-* Number of recursive dependencies: 168
+* Date/Publication: 2024-10-28 17:30:02 UTC
+* Number of recursive dependencies: 164
Run `revdepcheck::cloud_details(, "SNPassoc")` for more info
@@ -9540,23 +11100,23 @@ Run `revdepcheck::cloud_details(, "SNPassoc")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘SNPassoc/DESCRIPTION’ ... OK
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘SNPassoc’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/SNPassoc/new/SNPassoc.Rcheck/00install.out’ for details.
+* this is package ‘SNPassoc’ version ‘2.1-2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘haplo.stats’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
* DONE
-Status: 1 ERROR, 1 NOTE
+Status: 1 ERROR
@@ -9570,23 +11130,23 @@ Status: 1 ERROR, 1 NOTE
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘SNPassoc/DESCRIPTION’ ... OK
...
-* checking if there is a namespace ... OK
-* checking for executable files ... OK
-* checking for hidden files and directories ... OK
-* checking for portable file names ... OK
-* checking for sufficient/correct file permissions ... OK
-* checking whether package ‘SNPassoc’ can be installed ... ERROR
-Installation failed.
-See ‘/tmp/workdir/SNPassoc/old/SNPassoc.Rcheck/00install.out’ for details.
+* this is package ‘SNPassoc’ version ‘2.1-2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘haplo.stats’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
* DONE
-Status: 1 ERROR, 1 NOTE
+Status: 1 ERROR
@@ -9601,7 +11161,7 @@ Status: 1 ERROR, 1 NOTE
* GitHub: NA
* Source code: https://github.com/cran/snplinkage
* Date/Publication: 2024-09-09 19:10:02 UTC
-* Number of recursive dependencies: 153
+* Number of recursive dependencies: 155
Run `revdepcheck::cloud_details(, "snplinkage")` for more info
@@ -9616,9 +11176,9 @@ Run `revdepcheck::cloud_details(, "snplinkage")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘snplinkage/DESCRIPTION’ ... OK
@@ -9646,9 +11206,9 @@ Status: 1 ERROR
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘snplinkage/DESCRIPTION’ ... OK
@@ -9677,7 +11237,7 @@ Status: 1 ERROR
* GitHub: https://github.com/constantAmateur/SoupX
* Source code: https://github.com/cran/SoupX
* Date/Publication: 2022-11-01 14:00:03 UTC
-* Number of recursive dependencies: 201
+* Number of recursive dependencies: 202
Run `revdepcheck::cloud_details(, "SoupX")` for more info
@@ -9733,26 +11293,26 @@ ERROR: lazy loading failed for package ‘SoupX’
```
-# sparsereg
+# SpaCCI
-* Version: 1.2
+* Version: 1.0.3
* GitHub: NA
-* Source code: https://github.com/cran/sparsereg
-* Date/Publication: 2016-03-10 23:32:18
-* Number of recursive dependencies: 50
+* Source code: https://github.com/cran/SpaCCI
+* Date/Publication: 2025-01-18 23:10:02 UTC
+* Number of recursive dependencies: 151
-Run `revdepcheck::cloud_details(, "sparsereg")` for more info
+Run `revdepcheck::cloud_details(, "SpaCCI")` for more info
## In both
-* checking whether package ‘sparsereg’ can be installed ... ERROR
+* checking whether package ‘SpaCCI’ can be installed ... ERROR
```
Installation failed.
- See ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/00install.out’ for details.
+ See ‘/tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/00install.out’ for details.
```
## Installation
@@ -9760,126 +11320,124 @@ Run `revdepcheck::cloud_details(, "sparsereg")` for more info
### Devel
```
-* installing *source* package ‘sparsereg’ ...
-** package ‘sparsereg’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘SpaCCI’ ...
+** package ‘SpaCCI’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o
-g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
-installing to /tmp/workdir/sparsereg/new/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c permutation_func.cpp -o permutation_func.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SpaCCI.so RcppExports.o permutation_func.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/00LOCK-SpaCCI/00new/SpaCCI/libs
** R
+** data
+** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required
Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
-ERROR: lazy loading failed for package ‘sparsereg’
-* removing ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/sparsereg’
+ERROR: lazy loading failed for package ‘SpaCCI’
+* removing ‘/tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/SpaCCI’
```
### CRAN
```
-* installing *source* package ‘sparsereg’ ...
-** package ‘sparsereg’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘SpaCCI’ ...
+** package ‘SpaCCI’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o
-g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
-installing to /tmp/workdir/sparsereg/old/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c permutation_func.cpp -o permutation_func.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SpaCCI.so RcppExports.o permutation_func.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/SpaCCI/old/SpaCCI.Rcheck/00LOCK-SpaCCI/00new/SpaCCI/libs
** R
+** data
+** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required
Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
-ERROR: lazy loading failed for package ‘sparsereg’
-* removing ‘/tmp/workdir/sparsereg/old/sparsereg.Rcheck/sparsereg’
+ERROR: lazy loading failed for package ‘SpaCCI’
+* removing ‘/tmp/workdir/SpaCCI/old/SpaCCI.Rcheck/SpaCCI’
```
-# SpatialDDLS
+# sparsereg
-* Version: 1.0.2
-* GitHub: https://github.com/diegommcc/SpatialDDLS
-* Source code: https://github.com/cran/SpatialDDLS
-* Date/Publication: 2024-04-26 16:10:02 UTC
-* Number of recursive dependencies: 207
+* Version: 1.2
+* GitHub: NA
+* Source code: https://github.com/cran/sparsereg
+* Date/Publication: 2016-03-10 23:32:18
+* Number of recursive dependencies: 50
-Run `revdepcheck::cloud_details(, "SpatialDDLS")` for more info
+Run `revdepcheck::cloud_details(, "sparsereg")` for more info
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/SpatialDDLS/new/SpatialDDLS.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘SpatialDDLS/DESCRIPTION’ ... OK
-...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘SpatialExperiment’
-
-Package suggested but not available for checking: ‘ComplexHeatmap’
+## In both
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
+* checking whether package ‘sparsereg’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/00install.out’ for details.
+ ```
+## Installation
+### Devel
+```
+* installing *source* package ‘sparsereg’ ...
+** package ‘sparsereg’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/sparsereg/new/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs
+** R
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘sparsereg’
+* removing ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/sparsereg’
```
### CRAN
```
-* using log directory ‘/tmp/workdir/SpatialDDLS/old/SpatialDDLS.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘SpatialDDLS/DESCRIPTION’ ... OK
-...
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘SpatialExperiment’
-
-Package suggested but not available for checking: ‘ComplexHeatmap’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
+* installing *source* package ‘sparsereg’ ...
+** package ‘sparsereg’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o
+g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
+installing to /tmp/workdir/sparsereg/old/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs
+** R
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘sparsereg’
+* removing ‘/tmp/workdir/sparsereg/old/sparsereg.Rcheck/sparsereg’
```
@@ -9887,10 +11445,10 @@ Status: 1 ERROR
-* Version: 1.1-19
+* Version: 1.1-20
* GitHub: https://github.com/fabian-s/spikeSlabGAM
* Source code: https://github.com/cran/spikeSlabGAM
-* Date/Publication: 2022-06-10 15:50:07 UTC
+* Date/Publication: 2024-10-22 17:30:02 UTC
* Number of recursive dependencies: 77
Run `revdepcheck::cloud_details(, "spikeSlabGAM")` for more info
@@ -9914,7 +11472,7 @@ Run `revdepcheck::cloud_details(, "spikeSlabGAM")` for more info
** package ‘spikeSlabGAM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sampler.c -o sampler.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c spikeSlabGAM_init.c -o spikeSlabGAM_init.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o spikeSlabGAM.so sampler.o spikeSlabGAM_init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -9938,7 +11496,7 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’
** package ‘spikeSlabGAM’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sampler.c -o sampler.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c spikeSlabGAM_init.c -o spikeSlabGAM_init.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o spikeSlabGAM.so sampler.o spikeSlabGAM_init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -9954,6 +11512,70 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’
* removing ‘/tmp/workdir/spikeSlabGAM/old/spikeSlabGAM.Rcheck/spikeSlabGAM’
+```
+# stabiliser
+
+
+
+* Version: 1.0.6
+* GitHub: NA
+* Source code: https://github.com/cran/stabiliser
+* Date/Publication: 2023-05-17 11:00:05 UTC
+* Number of recursive dependencies: 151
+
+Run `revdepcheck::cloud_details(, "stabiliser")` for more info
+
+
+
+## In both
+
+* checking whether package ‘stabiliser’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/stabiliser/new/stabiliser.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘stabiliser’ ...
+** package ‘stabiliser’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
+ there is no package called ‘maditr’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+Execution halted
+ERROR: lazy loading failed for package ‘stabiliser’
+* removing ‘/tmp/workdir/stabiliser/new/stabiliser.Rcheck/stabiliser’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘stabiliser’ ...
+** package ‘stabiliser’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
+ there is no package called ‘maditr’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+Execution halted
+ERROR: lazy loading failed for package ‘stabiliser’
+* removing ‘/tmp/workdir/stabiliser/old/stabiliser.Rcheck/stabiliser’
+
+
```
# statsr
@@ -9963,7 +11585,7 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’
* GitHub: https://github.com/StatsWithR/statsr
* Source code: https://github.com/cran/statsr
* Date/Publication: 2021-01-22 20:40:03 UTC
-* Number of recursive dependencies: 97
+* Number of recursive dependencies: 96
Run `revdepcheck::cloud_details(, "statsr")` for more info
@@ -10021,11 +11643,11 @@ ERROR: lazy loading failed for package ‘statsr’
-* Version: 1.5
+* Version: 1.5-9
* GitHub: NA
* Source code: https://github.com/cran/streamDAG
-* Date/Publication: 2023-10-06 18:50:02 UTC
-* Number of recursive dependencies: 132
+* Date/Publication: 2025-01-14 21:50:02 UTC
+* Number of recursive dependencies: 139
Run `revdepcheck::cloud_details(, "streamDAG")` for more info
@@ -10040,13 +11662,13 @@ Run `revdepcheck::cloud_details(, "streamDAG")` for more info
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘streamDAG/DESCRIPTION’ ... OK
-* this is package ‘streamDAG’ version ‘1.5’
+* this is package ‘streamDAG’ version ‘1.5-9’
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Package required but not available: ‘asbio’
@@ -10068,13 +11690,13 @@ Status: 1 ERROR
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* using option ‘--no-manual’
* checking for file ‘streamDAG/DESCRIPTION’ ... OK
-* this is package ‘streamDAG’ version ‘1.5’
+* this is package ‘streamDAG’ version ‘1.5-9’
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Package required but not available: ‘asbio’
@@ -10088,6 +11710,158 @@ Status: 1 ERROR
+```
+# survex
+
+
+
+* Version: 1.2.0
+* GitHub: https://github.com/ModelOriented/survex
+* Source code: https://github.com/cran/survex
+* Date/Publication: 2023-10-24 18:50:07 UTC
+* Number of recursive dependencies: 182
+
+Run `revdepcheck::cloud_details(, "survex")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/survex/new/survex.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘survex/DESCRIPTION’ ... OK
+...
+ [32m A new explainer has been created! [39m
+>
+> y <- cph_exp$y
+> times <- cph_exp$times
+> surv <- cph_exp$predict_survival_function(cph, cph_exp$data, times)
+Error in loadNamespace(x) : there is no package called ‘riskRegression’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+Execution halted
+* DONE
+Status: 1 ERROR, 1 NOTE
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/survex/old/survex.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘survex/DESCRIPTION’ ... OK
+...
+ [32m A new explainer has been created! [39m
+>
+> y <- cph_exp$y
+> times <- cph_exp$times
+> surv <- cph_exp$predict_survival_function(cph, cph_exp$data, times)
+Error in loadNamespace(x) : there is no package called ‘riskRegression’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+Execution halted
+* DONE
+Status: 1 ERROR, 1 NOTE
+
+
+
+
+
+```
+# survHE
+
+
+
+* Version: 2.0.2
+* GitHub: https://github.com/giabaio/survHE
+* Source code: https://github.com/cran/survHE
+* Date/Publication: 2024-10-04 09:50:02 UTC
+* Number of recursive dependencies: 129
+
+Run `revdepcheck::cloud_details(, "survHE")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/survHE/new/survHE.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘survHE/DESCRIPTION’ ... OK
+...
+* checking package dependencies ... ERROR
+Package required but not available: ‘rms’
+
+Packages suggested but not available for checking:
+ 'survHEinla', 'survHEhmc'
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/survHE/old/survHE.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘survHE/DESCRIPTION’ ... OK
+...
+* checking package dependencies ... ERROR
+Package required but not available: ‘rms’
+
+Packages suggested but not available for checking:
+ 'survHEinla', 'survHEhmc'
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
```
# survidm
@@ -10120,9 +11894,9 @@ Run `revdepcheck::cloud_details(, "survidm")` for more info
** package ‘survidm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o survidm.so survidm_init.o survivalBIV.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/survidm/new/survidm.Rcheck/00LOCK-survidm/00new/survidm/libs
** R
@@ -10145,9 +11919,9 @@ ERROR: lazy loading failed for package ‘survidm’
** package ‘survidm’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o
-gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o
+gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o survidm.so survidm_init.o survivalBIV.o -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/survidm/old/survidm.Rcheck/00LOCK-survidm/00new/survidm/libs
** R
@@ -10229,69 +12003,75 @@ ERROR: lazy loading failed for package ‘tempted’
-* Version: 1.1.1
+* Version: 1.1.2
* GitHub: https://github.com/jiangyouxiang/TestAnaAPP
* Source code: https://github.com/cran/TestAnaAPP
-* Date/Publication: 2024-09-10 07:30:02 UTC
-* Number of recursive dependencies: 250
+* Date/Publication: 2024-11-09 04:00:02 UTC
+* Number of recursive dependencies: 255
Run `revdepcheck::cloud_details(, "TestAnaAPP")` for more info
-## In both
-
-* checking whether package ‘TestAnaAPP’ can be installed ... ERROR
- ```
- Installation failed.
- See ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck/00install.out’ for details.
- ```
-
-## Installation
+## Error before installation
### Devel
```
-* installing *source* package ‘TestAnaAPP’ ...
-** package ‘TestAnaAPP’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Warning in check_dep_version() :
- ABI version mismatch:
-lme4 was built with Matrix ABI version 1
-Current Matrix ABI version is 0
-Please re-install lme4 from source or restore original ‘Matrix’ package
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘TestAnaAPP’
-* removing ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck/TestAnaAPP’
+* using log directory ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘TestAnaAPP/DESCRIPTION’ ... OK
+...
+* this is package ‘TestAnaAPP’ version ‘1.1.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘lordif’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
### CRAN
```
-* installing *source* package ‘TestAnaAPP’ ...
-** package ‘TestAnaAPP’ successfully unpacked and MD5 sums checked
-** using staged installation
-** R
-** inst
-** byte-compile and prepare package for lazy loading
-Warning in check_dep_version() :
- ABI version mismatch:
-lme4 was built with Matrix ABI version 1
-Current Matrix ABI version is 0
-Please re-install lme4 from source or restore original ‘Matrix’ package
-Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
- there is no package called ‘rms’
-Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
-Execution halted
-ERROR: lazy loading failed for package ‘TestAnaAPP’
-* removing ‘/tmp/workdir/TestAnaAPP/old/TestAnaAPP.Rcheck/TestAnaAPP’
+* using log directory ‘/tmp/workdir/TestAnaAPP/old/TestAnaAPP.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘TestAnaAPP/DESCRIPTION’ ... OK
+...
+* this is package ‘TestAnaAPP’ version ‘1.1.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘lordif’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
```
@@ -10365,7 +12145,7 @@ ERROR: lazy loading failed for package ‘tidydr’
* GitHub: NA
* Source code: https://github.com/cran/tidyEdSurvey
* Date/Publication: 2024-05-14 20:20:03 UTC
-* Number of recursive dependencies: 111
+* Number of recursive dependencies: 113
Run `revdepcheck::cloud_details(, "tidyEdSurvey")` for more info
@@ -10431,7 +12211,7 @@ ERROR: lazy loading failed for package ‘tidyEdSurvey’
* GitHub: https://github.com/stemangiola/tidyseurat
* Source code: https://github.com/cran/tidyseurat
* Date/Publication: 2024-01-10 04:50:02 UTC
-* Number of recursive dependencies: 208
+* Number of recursive dependencies: 196
Run `revdepcheck::cloud_details(, "tidyseurat")` for more info
@@ -10489,11 +12269,11 @@ ERROR: lazy loading failed for package ‘tidyseurat’
-* Version: 1.5.1
+* Version: 1.5.2
* GitHub: https://github.com/certara/tidyvpc
* Source code: https://github.com/cran/tidyvpc
-* Date/Publication: 2024-01-18 13:10:02 UTC
-* Number of recursive dependencies: 176
+* Date/Publication: 2024-11-21 23:10:02 UTC
+* Number of recursive dependencies: 180
Run `revdepcheck::cloud_details(, "tidyvpc")` for more info
@@ -10548,6 +12328,160 @@ ERROR: lazy loading failed for package ‘tidyvpc’
* removing ‘/tmp/workdir/tidyvpc/old/tidyvpc.Rcheck/tidyvpc’
+```
+# tinyarray
+
+
+
+* Version: 2.4.2
+* GitHub: https://github.com/xjsun1221/tinyarray
+* Source code: https://github.com/cran/tinyarray
+* Date/Publication: 2024-06-13 14:20:02 UTC
+* Number of recursive dependencies: 250
+
+Run `revdepcheck::cloud_details(, "tinyarray")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+* using log directory ‘/tmp/workdir/tinyarray/new/tinyarray.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘tinyarray/DESCRIPTION’ ... OK
+...
+* this is package ‘tinyarray’ version ‘2.4.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘clusterProfiler’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+### CRAN
+
+```
+* using log directory ‘/tmp/workdir/tinyarray/old/tinyarray.Rcheck’
+* using R version 4.3.1 (2023-06-16)
+* using platform: x86_64-pc-linux-gnu (64-bit)
+* R was compiled by
+ gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+ GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
+* running under: Ubuntu 24.04.1 LTS
+* using session charset: UTF-8
+* using option ‘--no-manual’
+* checking for file ‘tinyarray/DESCRIPTION’ ... OK
+...
+* this is package ‘tinyarray’ version ‘2.4.2’
+* package encoding: UTF-8
+* checking package namespace information ... OK
+* checking package dependencies ... ERROR
+Package required but not available: ‘clusterProfiler’
+
+See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+manual.
+* DONE
+Status: 1 ERROR
+
+
+
+
+
+```
+# treeclim
+
+
+
+* Version: 2.0.7.1
+* GitHub: https://github.com/cszang/treeclim
+* Source code: https://github.com/cran/treeclim
+* Date/Publication: 2024-12-16 16:20:02 UTC
+* Number of recursive dependencies: 60
+
+Run `revdepcheck::cloud_details(, "treeclim")` for more info
+
+
+
+## In both
+
+* checking whether package ‘treeclim’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/tmp/workdir/treeclim/new/treeclim.Rcheck/00install.out’ for details.
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘treeclim’ ...
+** package ‘treeclim’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun.cpp -o corfun.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_exact.cpp -o corfun_exact.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_noboot.cpp -o corfun_noboot.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c pcor.cpp -o pcor.o
+...
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘treeclim’
+* removing ‘/tmp/workdir/treeclim/new/treeclim.Rcheck/treeclim’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘treeclim’ ...
+** package ‘treeclim’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun.cpp -o corfun.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_exact.cpp -o corfun_exact.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_noboot.cpp -o corfun_noboot.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c pcor.cpp -o pcor.o
+...
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
+Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace
+Execution halted
+ERROR: lazy loading failed for package ‘treeclim’
+* removing ‘/tmp/workdir/treeclim/old/treeclim.Rcheck/treeclim’
+
+
```
# TriDimRegression
@@ -10557,7 +12491,7 @@ ERROR: lazy loading failed for package ‘tidyvpc’
* GitHub: https://github.com/alexander-pastukhov/tridim-regression
* Source code: https://github.com/cran/TriDimRegression
* Date/Publication: 2023-09-13 14:10:03 UTC
-* Number of recursive dependencies: 99
+* Number of recursive dependencies: 98
Run `revdepcheck::cloud_details(, "TriDimRegression")` for more info
@@ -10609,7 +12543,7 @@ ERROR: configuration failed for package ‘TriDimRegression’
* GitHub: https://github.com/PetoLau/TSrepr
* Source code: https://github.com/cran/TSrepr
* Date/Publication: 2020-07-13 06:50:15 UTC
-* Number of recursive dependencies: 72
+* Number of recursive dependencies: 71
Run `revdepcheck::cloud_details(, "TSrepr")` for more info
@@ -10632,12 +12566,12 @@ Run `revdepcheck::cloud_details(, "TSrepr")` for more info
** package ‘TSrepr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o
...
** data
*** moving datasets to lazyload DB
@@ -10659,12 +12593,12 @@ ERROR: lazy loading failed for package ‘TSrepr’
** package ‘TSrepr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o
-g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o
+using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o
+g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o
...
** data
*** moving datasets to lazyload DB
@@ -10710,7 +12644,7 @@ Run `revdepcheck::cloud_details(, "twang")` for more info
** package ‘twang’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ks.c -o ks.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o twang.so init.o ks.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -10735,7 +12669,7 @@ ERROR: lazy loading failed for package ‘twang’
** package ‘twang’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ks.c -o ks.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o twang.so init.o ks.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
@@ -10752,158 +12686,6 @@ ERROR: lazy loading failed for package ‘twang’
* removing ‘/tmp/workdir/twang/old/twang.Rcheck/twang’
-```
-# updog
-
-
-
-* Version: 2.1.5
-* GitHub: https://github.com/dcgerard/updog
-* Source code: https://github.com/cran/updog
-* Date/Publication: 2023-11-29 15:50:02 UTC
-* Number of recursive dependencies: 138
-
-Run `revdepcheck::cloud_details(, "updog")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/updog/new/updog.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘updog/DESCRIPTION’ ... OK
-...
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘multidog.Rmd’ using ‘UTF-8’... OK
- ‘oracle_calculations.Rmd’ using ‘UTF-8’... OK
- ‘simulate_ngs.Rmd’ using ‘UTF-8’... OK
- ‘smells_like_updog.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 2 NOTEs
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/updog/old/updog.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘updog/DESCRIPTION’ ... OK
-...
-* checking for unstated dependencies in vignettes ... OK
-* checking package vignettes in ‘inst/doc’ ... OK
-* checking running R code from vignettes ... OK
- ‘multidog.Rmd’ using ‘UTF-8’... OK
- ‘oracle_calculations.Rmd’ using ‘UTF-8’... OK
- ‘simulate_ngs.Rmd’ using ‘UTF-8’... OK
- ‘smells_like_updog.Rmd’ using ‘UTF-8’... OK
-* checking re-building of vignette outputs ... OK
-* DONE
-Status: 2 NOTEs
-
-
-
-
-
-```
-# valr
-
-
-
-* Version: 0.8.2
-* GitHub: https://github.com/rnabioco/valr
-* Source code: https://github.com/cran/valr
-* Date/Publication: 2024-08-30 22:10:03 UTC
-* Number of recursive dependencies: 176
-
-Run `revdepcheck::cloud_details(, "valr")` for more info
-
-
-
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/valr/new/valr.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘valr/DESCRIPTION’ ... OK
-...
-* this is package ‘valr’ version ‘0.8.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
-```
-### CRAN
-
-```
-* using log directory ‘/tmp/workdir/valr/old/valr.Rcheck’
-* using R version 4.3.1 (2023-06-16)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* R was compiled by
- gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
- GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
-* running under: Ubuntu 22.04.4 LTS
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘valr/DESCRIPTION’ ... OK
-...
-* this is package ‘valr’ version ‘0.8.2’
-* package encoding: UTF-8
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Package required but not available: ‘rtracklayer’
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
-
-
```
# vdg
@@ -10936,7 +12718,7 @@ Run `revdepcheck::cloud_details(, "vdg")` for more info
** package ‘vdg’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using Fortran compiler: ‘GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using Fortran compiler: ‘GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gfortran -fpic -g -O2 -c FDS.f -o FDS.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o vdg.so FDS.o -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/vdg/new/vdg.Rcheck/00LOCK-vdg/00new/vdg/libs
@@ -10960,7 +12742,7 @@ ERROR: lazy loading failed for package ‘vdg’
** package ‘vdg’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
-using Fortran compiler: ‘GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
+using Fortran compiler: ‘GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
gfortran -fpic -g -O2 -c FDS.f -o FDS.o
gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o vdg.so FDS.o -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR
installing to /tmp/workdir/vdg/old/vdg.Rcheck/00LOCK-vdg/00new/vdg/libs
@@ -10976,6 +12758,41 @@ ERROR: lazy loading failed for package ‘vdg’
* removing ‘/tmp/workdir/vdg/old/vdg.Rcheck/vdg’
+```
+# VecDep
+
+
+
+* Version: NA
+* GitHub: NA
+* Source code: https://github.com/cran/VecDep
+* Number of recursive dependencies: 100
+
+Run `revdepcheck::cloud_details(, "VecDep")` for more info
+
+
+
+## Error before installation
+
+### Devel
+
+```
+
+
+
+
+
+
+```
+### CRAN
+
+```
+
+
+
+
+
+
```
# visa
@@ -10985,7 +12802,7 @@ ERROR: lazy loading failed for package ‘vdg’
* GitHub: https://github.com/kang-yu/visa
* Source code: https://github.com/cran/visa
* Date/Publication: 2021-04-20 07:20:02 UTC
-* Number of recursive dependencies: 140
+* Number of recursive dependencies: 139
Run `revdepcheck::cloud_details(, "visa")` for more info
@@ -11048,7 +12865,7 @@ ERROR: lazy loading failed for package ‘visa’
* Version: NA
* GitHub: NA
* Source code: https://github.com/cran/VisualizeSimon2Stage
-* Number of recursive dependencies: 30
+* Number of recursive dependencies: 36
Run `revdepcheck::cloud_details(, "VisualizeSimon2Stage")` for more info
diff --git a/revdep/problems.md b/revdep/problems.md
index 73ee83725d..2a54d17a17 100644
--- a/revdep/problems.md
+++ b/revdep/problems.md
@@ -1,63 +1,11 @@
-# activAnalyzer
-
-
-
-* Version: 2.1.1
-* GitHub: https://github.com/pydemull/activAnalyzer
-* Source code: https://github.com/cran/activAnalyzer
-* Date/Publication: 2024-05-05 22:40:03 UTC
-* Number of recursive dependencies: 148
-
-Run `revdepcheck::cloud_details(, "activAnalyzer")` for more info
-
-
-
-## Newly broken
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘activAnalyzer.Rmd’
- ...
- > p3 <- accum_metrics_sed$p_UBD
-
- > p4 <- accum_metrics_sed$p_gini
-
- > (p1 | p2)/(p3 | p4) + plot_layout(guides = "collect") &
- + theme(legend.position = "bottom")
-
- When sourcing ‘activAnalyzer.R’:
- Error: object is not a unit
- Execution halted
-
- ‘activAnalyzer.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘activAnalyzer.Rmd’ using rmarkdown
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 5.8Mb
- sub-directories of 1Mb or more:
- R 1.5Mb
- doc 1.0Mb
- extdata 2.0Mb
- ```
-
# actxps
-* Version: 1.5.0
+* Version: 1.6.0
* GitHub: https://github.com/mattheaphy/actxps
* Source code: https://github.com/cran/actxps
-* Date/Publication: 2024-06-25 12:40:02 UTC
+* Date/Publication: 2025-01-07 13:00:02 UTC
* Number of recursive dependencies: 130
Run `revdepcheck::cloud_details(, "actxps")` for more info
@@ -116,17 +64,17 @@ Run `revdepcheck::cloud_details(, "actxps")` for more info
Execution halted
```
-# adaptr
+# adklakedata
-* Version: 1.4.0
-* GitHub: https://github.com/INCEPTdk/adaptr
-* Source code: https://github.com/cran/adaptr
-* Date/Publication: 2024-05-03 12:10:02 UTC
-* Number of recursive dependencies: 74
+* Version: 0.6.1
+* GitHub: https://github.com/lawinslow/adklakedata
+* Source code: https://github.com/cran/adklakedata
+* Date/Publication: 2018-02-16 19:08:16 UTC
+* Number of recursive dependencies: 64
-Run `revdepcheck::cloud_details(, "adaptr")` for more info
+Run `revdepcheck::cloud_details(, "adklakedata")` for more info
@@ -134,79 +82,130 @@ Run `revdepcheck::cloud_details(, "adaptr")` for more info
* checking examples ... ERROR
```
- Running examples in ‘adaptr-Ex.R’ failed
+ Running examples in ‘adklakedata-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot_history
- > ### Title: Plot trial metric history
- > ### Aliases: plot_history plot_history.trial_result
- > ### plot_history.trial_results
+ > ### Name: adk_lake_shapes
+ > ### Title: Return path to Lake Polygons Shapefile
+ > ### Aliases: adk_lake_shapes
>
> ### ** Examples
>
- ...
- + # Run a single simulation with a fixed random seed
- + res <- run_trial(binom_trial, seed = 12345)
- +
- + # Plot total allocations to each arm according to overall total allocations
- + plot_history(res, x_value = "total n", y_value = "n")
- +
- + }
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot_history ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > library(sf)
+ Linking to GEOS 3.12.1, GDAL 3.8.4, PROJ 9.4.0; sf_use_s2() is TRUE
+ > bl = read_sf(adklakedata::adk_shape())
+ Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, :
+ package tibble not available: install first?
+ Calls: read_sf ... st_read -> st_read.character -> process_cpl_read_ogr
Execution halted
```
-* checking tests ... ERROR
+## In both
+
+* checking LazyData ... NOTE
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(adaptr)
- Loading 'adaptr' package v1.4.0.
- For instructions, type 'help("adaptr")'
- or see https://inceptdk.github.io/adaptr/.
- >
- > test_check("adaptr")
- ...
- • plot_history/history-plot-binomial-single-ratio-ys-look.svg
- • plot_metrics_ecdf/errors.svg
- • plot_metrics_ecdf/selected.svg
- • plot_metrics_ecdf/size-only.svg
- • plot_metrics_ecdf/superior.svg
- • plot_status/status-plot-across-arms-binomial.svg
- • plot_status/status-plot-for-all-arms-binomial.svg
- • plot_status/status-plot-for-arm-c-binom.svg
- Error: Test failures
- Execution halted
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# AdverseEvents
+
+
+
+* Version: 0.0.4
+* GitHub: https://github.com/dungtsa/AdverseEvents
+* Source code: https://github.com/cran/AdverseEvents
+* Date/Publication: 2024-11-20 22:50:02 UTC
+* Number of recursive dependencies: 176
+
+Run `revdepcheck::cloud_details(, "AdverseEvents")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘AdverseEvents’ can be installed ... WARNING
+ ```
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘AdverseEvents’
+ See ‘/tmp/workdir/AdverseEvents/new/AdverseEvents.Rcheck/00install.out’ for details.
+ ```
+
+# adw
+
+
+
+* Version: 0.4.0
+* GitHub: https://github.com/PanfengZhang/adw
+* Source code: https://github.com/cran/adw
+* Date/Publication: 2024-04-15 19:10:16 UTC
+* Number of recursive dependencies: 62
+
+Run `revdepcheck::cloud_details(, "adw")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘adw-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: adw
+ > ### Title: Angular Distance Weighting Interpolation.
+ > ### Aliases: adw
+ >
+ > ### ** Examples
+ >
+ > set.seed(2)
+ ...
+ 4 111.75 31.25 -0.47570806
+ 5 112.25 31.25 -1.57521787
+ 6 112.75 31.25 -1.10541492
+ >
+ > # example 2
+ > hmap <- cnmap::getMap(code = "410000") |> sf::st_make_valid() # return a 'sf' object.
+ Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, :
+ package tibble not available: install first?
+ Calls: ... st_read -> st_read.character -> process_cpl_read_ogr
+ Execution halted
```
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘Overview.Rmd’
+ when running code in ‘Introduction.Rmd’
...
- > plot_convergence(calibrated_binom_trial$best_sims,
- + metrics = c("size mean", "prob_superior", "prob_equivalence"),
- + n_split = 4)
+ > tavg <- data.frame(lon = runif(100, min = 110, max = 117),
+ + lat = runif(100, min = 31, max = 37), value = runif(100,
+ + min = 20, max .... [TRUNCATED]
- > plot_status(calibrated_binom_trial$best_sims, x_value = "total n")
+ > hmap <- getMap(name = "河南省", returnClass = "sf")
- When sourcing ‘Overview.R’:
- Error: argument is of length zero
+ When sourcing ‘Introduction.R’:
+ Error: package tibble not available: install first?
Execution halted
- ‘Advanced-example.Rmd’ using ‘UTF-8’... OK
- ‘Basic-examples.Rmd’ using ‘UTF-8’... OK
- ‘Overview.Rmd’ using ‘UTF-8’... failed
+ ‘Introduction.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘Advanced-example.Rmd’ using rmarkdown
+ ...
+ --- re-building ‘Introduction.Rmd’ using rmarkdown
+
+ Quitting from lines 48-74 [unnamed-chunk-3] (Introduction.Rmd)
+ Error: processing vignette 'Introduction.Rmd' failed with diagnostics:
+ package tibble not available: install first?
+ --- failed re-building ‘Introduction.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘Introduction.Rmd’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
# AeRobiology
@@ -217,7 +216,7 @@ Run `revdepcheck::cloud_details(, "adaptr")` for more info
* GitHub: NA
* Source code: https://github.com/cran/AeRobiology
* Date/Publication: 2019-06-03 06:20:03 UTC
-* Number of recursive dependencies: 98
+* Number of recursive dependencies: 97
Run `revdepcheck::cloud_details(, "AeRobiology")` for more info
@@ -225,14 +224,6 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info
## Newly broken
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘my-vignette.Rmd’ using rmarkdown
- ```
-
-## In both
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
@@ -252,6 +243,12 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info
‘my-vignette.Rmd’ using ‘UTF-8’... failed
```
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ --- re-building ‘my-vignette.Rmd’ using rmarkdown
+ ```
+
# agricolaeplotr
@@ -260,7 +257,7 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info
* GitHub: https://github.com/jensharbers/agricolaeplotr
* Source code: https://github.com/cran/agricolaeplotr
* Date/Publication: 2024-01-17 16:42:04 UTC
-* Number of recursive dependencies: 144
+* Number of recursive dependencies: 143
Run `revdepcheck::cloud_details(, "agricolaeplotr")` for more info
@@ -293,60 +290,17 @@ Run `revdepcheck::cloud_details(, "agricolaeplotr")` for more info
Execution halted
```
-# alien
-
-
-
-* Version: 1.0.2
-* GitHub: NA
-* Source code: https://github.com/cran/alien
-* Date/Publication: 2024-06-19 16:20:02 UTC
-* Number of recursive dependencies: 91
-
-Run `revdepcheck::cloud_details(, "alien")` for more info
-
-
-
-## Newly broken
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘basic_usage.Rmd’
- ...
- 2 0.3330822 6.848124e-06 1.620061e+04
- 3 0.3377835 1.902532e-07 5.997150e+05
- 4 0.3425512 5.285577e-09 2.220028e+07
-
- > plot_snc(model, cumulative = T) + coord_cartesian(ylim = c(0,
- + 150)) + scale_y_continuous(breaks = seq(0, 150, 50)) + ylab("Cumulative discove ..." ... [TRUNCATED]
-
- When sourcing ‘basic_usage.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
- Execution halted
-
- ‘basic_usage.Rmd’ using ‘UTF-8’... failed
- ‘native_discoveries.Rmd’ using ‘UTF-8’... OK
- ‘simulations.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘basic_usage.Rmd’ using rmarkdown
- ```
-
-# AlphaPart
+# AmpliconDuo
-* Version: 0.9.8
+* Version: 1.1.1
* GitHub: NA
-* Source code: https://github.com/cran/AlphaPart
-* Date/Publication: 2022-11-15 21:40:05 UTC
-* Number of recursive dependencies: 83
+* Source code: https://github.com/cran/AmpliconDuo
+* Date/Publication: 2020-05-25 22:20:02 UTC
+* Number of recursive dependencies: 29
-Run `revdepcheck::cloud_details(, "AlphaPart")` for more info
+Run `revdepcheck::cloud_details(, "AmpliconDuo")` for more info
@@ -354,49 +308,27 @@ Run `revdepcheck::cloud_details(, "AlphaPart")` for more info
* checking examples ... ERROR
```
- Running examples in ‘AlphaPart-Ex.R’ failed
+ Running examples in ‘AmpliconDuo-Ex.R’ failed
The error most likely occurred in:
- > ### Name: print.plotSummaryAlphaPart
- > ### Title: Print a plot generate by the function 'plotSummaryAlphaPart'
- > ### Aliases: print.plotSummaryAlphaPart
+ > ### Name: AmpliconDuo-package
+ > ### Title: Statistical Analysis Of Amplicon Data Of The Same Sample To
+ > ### Identify Spurious Amplicons
+ > ### Aliases: AmpliconDuo-package AmpliconDuo
+ > ### Keywords: package
>
> ### ** Examples
- >
- > ## Partition additive genetic values
...
- 4 4 1 105.00000 66 39.00000
-
- >
- > ## Plot the partitions
- > p <- plot(ret, ylab=c("BV for trait 1", "BV for trait 2"), xlab="Generation")
- > print(p[[1]])
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: print ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-## In both
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘alphapart-variance.Rmd’
- ...
-
- > data <- readRDS("./../inst/extdata/AlphaPartCattleSim.rds") %>%
- + dplyr::mutate(across(generation:mother, as.numeric)) %>%
- + dplyr::rename .... [TRUNCATED]
- Warning in gzfile(file, "rb") :
- cannot open compressed file './../inst/extdata/AlphaPartCattleSim.rds', probable reason 'No such file or directory'
-
- When sourcing ‘alphapart-variance.R’:
- Error: cannot open the connection
+ > ## depending on the size if the data sets, may take some time
+ > ampliconduoset <- ampliconduo(ampliconfreqs[,1:4], sample.names = site.f[1:2])
+ ..>
+ > ## plot amplicon read numbers of sample A vs. amplicon read numbers of sample B,
+ > ## indicating amplicons with significant deviations in their occurence across samples
+ > plotAmpliconduo.set(ampliconduoset, nrow = 3)
+ Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, :
+ unused argument (h.start = 0)
+ Calls: plotAmpliconduo.set -> scale_colour_discrete
Execution halted
-
- ‘alphapart-variance.Rmd’ using ‘UTF-8’... failed
- ‘alphapart-vignette.Rmd’ using ‘UTF-8’... OK
```
# AnalysisLin
@@ -482,7 +414,7 @@ Run `revdepcheck::cloud_details(, "animbook")` for more info
* GitHub: https://github.com/bflammers/ANN2
* Source code: https://github.com/cran/ANN2
* Date/Publication: 2020-12-01 10:00:02 UTC
-* Number of recursive dependencies: 52
+* Number of recursive dependencies: 51
Run `revdepcheck::cloud_details(, "ANN2")` for more info
@@ -524,10 +456,10 @@ Run `revdepcheck::cloud_details(, "ANN2")` for more info
* checking installed package size ... NOTE
```
- installed size is 58.9Mb
+ installed size is 48.8Mb
sub-directories of 1Mb or more:
cereal 1.4Mb
- libs 57.3Mb
+ libs 47.2Mb
```
* checking LazyData ... NOTE
@@ -535,17 +467,17 @@ Run `revdepcheck::cloud_details(, "ANN2")` for more info
'LazyData' is specified without a 'data' directory
```
-# AnnoProbe
+# APCtools
-* Version: 0.1.7
-* GitHub: https://github.com/jmzeng1314/AnnoProbe
-* Source code: https://github.com/cran/AnnoProbe
-* Date/Publication: 2022-11-14 08:30:11 UTC
-* Number of recursive dependencies: 121
+* Version: 1.0.4
+* GitHub: https://github.com/bauer-alex/APCtools
+* Source code: https://github.com/cran/APCtools
+* Date/Publication: 2023-01-13 23:30:02 UTC
+* Number of recursive dependencies: 114
-Run `revdepcheck::cloud_details(, "AnnoProbe")` for more info
+Run `revdepcheck::cloud_details(, "APCtools")` for more info
@@ -553,67 +485,26 @@ Run `revdepcheck::cloud_details(, "AnnoProbe")` for more info
* checking examples ... ERROR
```
- Running examples in ‘AnnoProbe-Ex.R’ failed
+ Running examples in ‘APCtools-Ex.R’ failed
The error most likely occurred in:
- > ### Name: check_diff_genes
- > ### Title: Check a list of genes how they show difference.
- > ### Aliases: check_diff_genes
+ > ### Name: plot_partialAPCeffects
+ > ### Title: Partial APC plots based on an estimated GAM model
+ > ### Aliases: plot_partialAPCeffects
>
> ### ** Examples
>
- > attach(GSE95166)
+ > library(APCtools)
...
- 11. │ └─ggplot2:::`+.gg`(...)
- 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 13. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 16. └─base::.handleSimpleError(...)
- 17. └─purrr (local) h(simpleError(msg, call))
- 18. └─cli::cli_abort(...)
- 19. └─rlang::abort(...)
- Execution halted
- ```
-
-# ANOFA
-
-
-
-* Version: 0.1.3
-* GitHub: https://github.com/dcousin3/ANOFA
-* Source code: https://github.com/cran/ANOFA
-* Date/Publication: 2023-11-18 14:20:08 UTC
-* Number of recursive dependencies: 81
-
-Run `revdepcheck::cloud_details(, "ANOFA")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘ANOFA-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: Gillet1993
- > ### Title: Gillet1993
- > ### Aliases: Gillet1993
- > ### Keywords: datasets
- >
- > ### ** Examples
+ This is mgcv 1.8-42. For overview type 'help("mgcv-package")'.
>
- ...
- > # run the base analysis
- > w <- anofa( Freq ~ species * location * florished, Gillet1993)
+ > data(travel)
+ > model <- gam(mainTrip_distance ~ te(age, period), data = travel)
>
- > # display a plot of the results
- > anofaPlot(w)
- superb::FYI: The variables will be plotted in that order: species, location, florished (use factorOrder to change).
- Error in superb::superbPlot(cdata, BSFactors = bsfact, variables = as.character(w$freqColumn), :
- superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- Calls: anofaPlot ->
+ > plot_partialAPCeffects(model, dat = travel, variable = "age")
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "grey90", high = "grey10")
+ Calls: plot_partialAPCeffects -> scale_color_continuous
Execution halted
```
@@ -623,21 +514,21 @@ Run `revdepcheck::cloud_details(, "ANOFA")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > test_check("ANOFA")
- Loading required package: ANOFA
- [ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Error ('test-ANOFA-2.R:36:5'): TESTS of emFrequencies function (2/3) ────────
+ > library(APCtools)
+ >
+ > test_check("APCtools")
+ Loading required package: nlme
+ This is mgcv 1.8-42. For overview type 'help("mgcv-package")'.
+ Excluding 9565 missing observations of mainTrip_distance...
...
- statistic = "count", errorbar = "CI", gamma = confidenceLevel,
- plotStyle = plotStyle, errorbarParams = errorbarParams, ...)`: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
+ Error in `continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value,
+ ...)`: unused arguments (low = "grey90", high = "grey10")
Backtrace:
▆
- 1. └─ANOFA::anofaPlot(w, Freq ~ B) at test-ANOFA-3.R:46:5
- 2. └─superb::superbPlot(...)
+ 1. └─APCtools::plot_partialAPCeffects(...) at test-plots_APCeffects.R:15:3
+ 2. └─ggplot2::scale_color_continuous(...)
- [ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ]
+ [ FAIL 1 | WARN 58 | SKIP 0 | PASS 75 ]
Error: Test failures
Execution halted
```
@@ -645,452 +536,100 @@ Run `revdepcheck::cloud_details(, "ANOFA")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘ConfidenceIntervals.Rmd’
+ when running code in ‘main_functionality.Rmd’
...
- > library(ANOFA)
-
- > w <- anofa(obsfreq ~ vocation * gender, LightMargolin1971)
+ > plot_jointMarginalAPCeffects(model_list = model_list,
+ + dat = travel, vlines_list = list(cohort = c(1900, 1920, 1939,
+ + 1946, 1966, 19 .... [TRUNCATED]
- > anofaPlot(w)
- superb::FYI: The variables will be plotted in that order: vocation, gender (use factorOrder to change).
+ > plot_partialAPCeffects(model = model_pure, dat = travel,
+ + variable = "period")
- ...
-
- > anofaPlot(w)
-
- When sourcing ‘WhatIsANOFA.R’:
- Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
+ When sourcing ‘main_functionality.R’:
+ Error: unused arguments (low = "grey90", high = "grey10")
Execution halted
- ‘ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed
- ‘DataFormatsForFrequencies.Rmd’ using ‘UTF-8’... OK
- ‘WhatIsANOFA.Rmd’ using ‘UTF-8’... failed
+ ‘main_functionality.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- ...
- --- re-building ‘ConfidenceIntervals.Rmd’ using rmarkdown
-
- Quitting from lines 70-73 [unnamed-chunk-2] (ConfidenceIntervals.Rmd)
- Error: processing vignette 'ConfidenceIntervals.Rmd' failed with diagnostics:
- superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- --- failed re-building ‘ConfidenceIntervals.Rmd’
-
- --- re-building ‘DataFormatsForFrequencies.Rmd’ using rmarkdown
- ...
- Quitting from lines 108-109 [unnamed-chunk-4] (WhatIsANOFA.Rmd)
- Error: processing vignette 'WhatIsANOFA.Rmd' failed with diagnostics:
- superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- --- failed re-building ‘WhatIsANOFA.Rmd’
-
- SUMMARY: processing the following files failed:
- ‘ConfidenceIntervals.Rmd’ ‘WhatIsANOFA.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘main_functionality.Rmd’ using rmarkdown
```
-# ANOPA
+# applicable
-* Version: 0.1.3
-* GitHub: https://github.com/dcousin3/ANOPA
-* Source code: https://github.com/cran/ANOPA
-* Date/Publication: 2024-03-22 19:40:05 UTC
-* Number of recursive dependencies: 81
+* Version: 0.1.1
+* GitHub: https://github.com/tidymodels/applicable
+* Source code: https://github.com/cran/applicable
+* Date/Publication: 2024-04-25 00:00:04 UTC
+* Number of recursive dependencies: 116
-Run `revdepcheck::cloud_details(, "ANOPA")` for more info
+Run `revdepcheck::cloud_details(, "applicable")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘ANOPA-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: ArringtonEtAl2002
- > ### Title: Arrington et al. (2002) dataset
- > ### Aliases: ArringtonEtAl2002
- > ### Keywords: datasets
- >
- > ### ** Examples
- >
- ...
- Africa Nocturnal Omnivore 0 0
- North America Nocturnal Detritivore 0 0
- Warning: ANOPA::warning(1): Some cells have zero over zero data. Imputing...
- >
- > # make a plot with all the factors
- > anopaPlot(w)
- Error in superb::superbPlot(wdata, BSFactors = bsfact, WSFactors = wsfact, :
- superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- Calls: anopaPlot ->
- Execution halted
- ```
-
* checking tests ... ERROR
```
+ Running ‘spelling.R’
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > test_check("ANOPA")
- Loading required package: ANOPA
- ------------------------------------------------------------
- Design is: 2 x ( 3 ) with 2 independent groups.
- ------------------------------------------------------------
- 1.Between-Subject Factors ( 2 groups ) :
- ...
- 1) "UA" else "none"), plotStyle = plotStyle, errorbarParams = errorbarParams,
- ...)`: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- Backtrace:
- ▆
- 1. └─ANOPA::anopaPlot(w) at test-ANOPA-4.R:106:9
- 2. └─superb::superbPlot(...)
+ > library(applicable)
+ Loading required package: ggplot2
+ >
+ > test_check("applicable")
+ Loading required package: dplyr
+ ...
+ `expected` is a character vector ('percentile')
+ ── Failure ('test-plot.R:36:3'): output of autoplot.apd_pca is correct when options=distance are provided ──
+ ad_plot$labels$y (`actual`) not equal to "percentile" (`expected`).
+
+ `actual` is NULL
+ `expected` is a character vector ('percentile')
- [ FAIL 2 | WARN 0 | SKIP 0 | PASS 131 ]
+ [ FAIL 3 | WARN 0 | SKIP 22 | PASS 90 ]
Error: Test failures
Execution halted
```
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘A-WhatIsANOPA.Rmd’
- ...
- > w <- anopa({
- + nSuccess
- + nParticipants
- + } ~ DistractingTask, ArticleExample1)
-
- > anopaPlot(w)
-
- ...
- When sourcing ‘E-ArcsineIsAsinine.R’:
- Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- Execution halted
-
- ‘A-WhatIsANOPA.Rmd’ using ‘UTF-8’... failed
- ‘B-DataFormatsForProportions.Rmd’ using ‘UTF-8’... OK
- ‘C-ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed
- ‘D-ArringtonExample.Rmd’ using ‘UTF-8’... failed
- ‘E-ArcsineIsAsinine.Rmd’ using ‘UTF-8’... failed
- ‘F-TestingTypeIError.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘A-WhatIsANOPA.Rmd’ using rmarkdown
-
- Quitting from lines 182-183 [unnamed-chunk-5] (A-WhatIsANOPA.Rmd)
- Error: processing vignette 'A-WhatIsANOPA.Rmd' failed with diagnostics:
- superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting...
- --- failed re-building ‘A-WhatIsANOPA.Rmd’
-
- --- re-building ‘B-DataFormatsForProportions.Rmd’ using rmarkdown
- --- finished re-building ‘B-DataFormatsForProportions.Rmd’
- ...
-
- --- re-building ‘F-TestingTypeIError.Rmd’ using rmarkdown
- --- finished re-building ‘F-TestingTypeIError.Rmd’
-
- SUMMARY: processing the following files failed:
- ‘A-WhatIsANOPA.Rmd’ ‘C-ConfidenceIntervals.Rmd’
- ‘D-ArringtonExample.Rmd’ ‘E-ArcsineIsAsinine.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
- ```
-
-# AntMAN
-
-
-
-* Version: 1.1.0
-* GitHub: https://github.com/bbodin/AntMAN
-* Source code: https://github.com/cran/AntMAN
-* Date/Publication: 2021-07-23 10:00:02 UTC
-* Number of recursive dependencies: 80
-
-Run `revdepcheck::cloud_details(, "AntMAN")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘AntMAN-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: AM_mix_hyperparams_uninorm
- > ### Title: univariate Normal mixture hyperparameters
- > ### Aliases: AM_mix_hyperparams_uninorm
- >
- > ### ** Examples
- >
- >
- ...
- Press [enter] to continue
- Plotting pmf for M,K
- NULL
- Press [enter] to continue
- Plotting traces from M,K
- Press [enter] to continue
- Plotting values from M,K
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
-* checking tests ... ERROR
- ```
- Running ‘UnitTest_AM_binder.R’
- Running ‘UnitTest_AM_coclustering.R’
- Running ‘UnitTest_AM_demo.R’
- Running ‘UnitTest_AM_extract.R’
- Running ‘UnitTest_AM_mcmc.R’
- Running the tests in ‘tests/UnitTest_AM_mcmc.R’ failed.
- Complete output:
- > #######################################################################################
- > ###############
- > ############### AntMAN Package : Tests and Examples
- ...
- Press [enter] to continue
- Plotting pmf for M,K
- NULL
- Press [enter] to continue
- Plotting traces from M,K
- Press [enter] to continue
- Plotting values from M,K
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
-## In both
-
-* checking C++ specification ... NOTE
- ```
- Specified C++11: please drop specification unless essential
- ```
-
-* checking installed package size ... NOTE
- ```
- installed size is 6.8Mb
- sub-directories of 1Mb or more:
- libs 6.4Mb
- ```
-
-* checking dependencies in R code ... NOTE
- ```
- Namespaces in Imports field not imported from:
- ‘Rdpack’ ‘mcclust’
- All declared Imports should be used.
- ```
-
-# APCI
-
-
-
-* Version: 1.0.8
-* GitHub: NA
-* Source code: https://github.com/cran/APCI
-* Date/Publication: 2024-09-02 20:20:06 UTC
-* Number of recursive dependencies: 73
-
-Run `revdepcheck::cloud_details(, "APCI")` for more info
-
-
-
-## Newly broken
-
-* checking tests ... ERROR
- ```
- Running ‘1_tests.R’
- Running the tests in ‘tests/1_tests.R’ failed.
- Complete output:
- > # install the package and use this script to test the package
- > library("APCI")
- > # or: remotes::install_github("jiahui1902/APCI")
- > test_data <- APCI::women9017
- > test_data$acc <- as.factor(test_data$acc)
- > test_data$pcc <- as.factor(test_data$pcc)
- > test_data$educc <- as.factor(test_data$educc)
- ...
- -0.335818939 0.165402344 0.138957101 -0.357703237 0.229441985
- acc8:pcc3 acc9:pcc3 acc1:pcc4 acc2:pcc4 acc3:pcc4
- -0.147848556 0.146360984 -0.436635793 0.062363971 0.289676120
- acc4:pcc4 acc5:pcc4 acc6:pcc4 acc7:pcc4 acc8:pcc4
- 0.266502847 0.199035811 -0.082410026 -0.140171983 -0.274808726
- acc9:pcc4 acc1:pcc5 acc2:pcc5 acc3:pcc5 acc4:pcc5
- 0.070541348 0.052280642 0.320968547 -0.136111903 -0.102002632
- acc5:pcc5 acc6:pcc5 acc7:pcc5 acc8:pcc5 acc9:pcc5
- -0.553458810 -0.333938836 0.340338956 0.670285259 -0.300340437
- Killed
- ```
-
-# aplot
-
-
-
-* Version: 0.2.3
-* GitHub: https://github.com/YuLab-SMU/aplot
-* Source code: https://github.com/cran/aplot
-* Date/Publication: 2024-06-17 09:50:01 UTC
-* Number of recursive dependencies: 50
-
-Run `revdepcheck::cloud_details(, "aplot")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘aplot-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: insert_left
- > ### Title: plot-insertion
- > ### Aliases: insert_left insert_right insert_top insert_bottom
- >
- > ### ** Examples
- >
- > library(ggplot2)
- ...
- > ap
- > ap[2, 1] <- ap[2, 1] + theme_bw()
- > ap[2, 1] <- ap[2, 1] +
- + aes(color = as.factor(am)) +
- + scale_color_manual(values = c('steelblue', 'darkgreen'))
- > ap[1, 1] <- ap[1, 1] + theme(axis.line.x.bottom=element_line())
- > ap
- Error in identicalUnits(x) : object is not a unit
- Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits
- Execution halted
- ```
-
-# applicable
-
-
-
-* Version: 0.1.1
-* GitHub: https://github.com/tidymodels/applicable
-* Source code: https://github.com/cran/applicable
-* Date/Publication: 2024-04-25 00:00:04 UTC
-* Number of recursive dependencies: 116
-
-Run `revdepcheck::cloud_details(, "applicable")` for more info
-
-
-
-## Newly broken
-
-* checking tests ... ERROR
- ```
- Running ‘spelling.R’
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(applicable)
- Loading required package: ggplot2
- >
- > test_check("applicable")
- Loading required package: dplyr
- ...
- `expected` is a character vector ('percentile')
- ── Failure ('test-plot.R:36:3'): output of autoplot.apd_pca is correct when options=distance are provided ──
- ad_plot$labels$y (`actual`) not equal to "percentile" (`expected`).
-
- `actual` is NULL
- `expected` is a character vector ('percentile')
-
- [ FAIL 3 | WARN 0 | SKIP 22 | PASS 90 ]
- Error: Test failures
- Execution halted
- ```
-
-# ASRgenomics
+# asmbPLS
-* Version: 1.1.4
+* Version: 1.0.0
* GitHub: NA
-* Source code: https://github.com/cran/ASRgenomics
-* Date/Publication: 2024-01-29 21:20:02 UTC
-* Number of recursive dependencies: 136
+* Source code: https://github.com/cran/asmbPLS
+* Date/Publication: 2023-04-17 09:50:05 UTC
+* Number of recursive dependencies: 93
-Run `revdepcheck::cloud_details(, "ASRgenomics")` for more info
+Run `revdepcheck::cloud_details(, "asmbPLS")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘ASRgenomics-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: kinship.pca
- > ### Title: Performs a Principal Component Analysis (PCA) based on a kinship
- > ### matrix K
- > ### Aliases: kinship.pca
- >
- > ### ** Examples
- >
- ...
- 13. │ └─ggplot2:::`+.gg`(...)
- 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 15. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 18. └─base::.handleSimpleError(...)
- 19. └─purrr (local) h(simpleError(msg, call))
- 20. └─cli::cli_abort(...)
- 21. └─rlang::abort(...)
- Execution halted
- ```
-
-* checking tests ... ERROR
+* checking whether package ‘asmbPLS’ can be installed ... WARNING
```
- Running ‘spelling.R’
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > # This file is part of the standard setup for testthat.
- > # It is recommended that you do not modify it.
- > #
- > # Where should you do additional test configuration?
- > # Learn more about the roles of various files in:
- > # * https://r-pkgs.org/tests.html
- ...
- 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 18. └─base::.handleSimpleError(...)
- 19. └─purrr (local) h(simpleError(msg, call))
- 20. └─cli::cli_abort(...)
- 21. └─rlang::abort(...)
-
- [ FAIL 2 | WARN 2 | SKIP 0 | PASS 249 ]
- Error: Test failures
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘asmbPLS’
+ See ‘/tmp/workdir/asmbPLS/new/asmbPLS.Rcheck/00install.out’ for details.
```
## In both
* checking installed package size ... NOTE
```
- installed size is 8.9Mb
+ installed size is 20.5Mb
sub-directories of 1Mb or more:
- data 8.5Mb
+ data 2.5Mb
+ libs 16.9Mb
```
# autocogs
@@ -1101,7 +640,7 @@ Run `revdepcheck::cloud_details(, "ASRgenomics")` for more info
* GitHub: https://github.com/schloerke/autocogs
* Source code: https://github.com/cran/autocogs
* Date/Publication: 2021-05-29 17:00:05 UTC
-* Number of recursive dependencies: 74
+* Number of recursive dependencies: 73
Run `revdepcheck::cloud_details(, "autocogs")` for more info
@@ -1151,7 +690,7 @@ Run `revdepcheck::cloud_details(, "autocogs")` for more info
* GitHub: https://github.com/terrytangyuan/autoplotly
* Source code: https://github.com/cran/autoplotly
* Date/Publication: 2021-04-18 06:50:11 UTC
-* Number of recursive dependencies: 88
+* Number of recursive dependencies: 87
Run `revdepcheck::cloud_details(, "autoplotly")` for more info
@@ -1174,8 +713,8 @@ Run `revdepcheck::cloud_details(, "autoplotly")` for more info
> # Automatically generate interactive plot for results produced by `stats::prcomp`
> p <- autoplotly(prcomp(iris[c(1, 2, 3, 4)]), data = iris,
+ colour = 'Species', label = TRUE, label.size = 3, frame = TRUE)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: autoplotly ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ Error in pm[[2]] : subscript out of bounds
+ Calls: autoplotly ... autoplotly.default -> ggplotly -> ggplotly.ggplot -> gg2list
Execution halted
```
@@ -1192,406 +731,135 @@ Run `revdepcheck::cloud_details(, "autoplotly")` for more info
══ Failed tests ════════════════════════════════════════════════════════════════
...
- 5. └─ggfortify::ggbiplot(...)
- 6. └─ggplot2:::`+.gg`(...)
- 7. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 8. ├─ggplot2::ggplot_add(object, p, objectname)
- 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 10. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ ▆
+ 1. ├─autoplotly::autoplotly(...) at test_all.R:26:3
+ 2. └─autoplotly:::autoplotly.default(...)
+ 3. ├─plotly::ggplotly(...)
+ 4. └─plotly:::ggplotly.ggplot(...)
+ 5. └─plotly::gg2list(...)
[ FAIL 3 | WARN 0 | SKIP 0 | PASS 1 ]
Error: Test failures
Execution halted
```
-# autoReg
+# autoTS
-* Version: 0.3.3
-* GitHub: https://github.com/cardiomoon/autoReg
-* Source code: https://github.com/cran/autoReg
-* Date/Publication: 2023-11-14 05:53:27 UTC
-* Number of recursive dependencies: 214
+* Version: 0.9.11
+* GitHub: https://github.com/vivienroussez/autots
+* Source code: https://github.com/cran/autoTS
+* Date/Publication: 2020-06-05 12:20:06 UTC
+* Number of recursive dependencies: 119
-Run `revdepcheck::cloud_details(, "autoReg")` for more info
+Run `revdepcheck::cloud_details(, "autoTS")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking re-building of vignette outputs ... NOTE
```
- Running examples in ‘autoReg-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: adjustedPlot.survreg
- > ### Title: Draw predicted survival curve with an object survreg
- > ### Aliases: adjustedPlot.survreg
- >
- > ### ** Examples
- >
- > library(survival)
- > x=survreg(Surv(time, status) ~ rx, data=anderson,dist="exponential")
- > adjustedPlot(x)
- > adjustedPlot(x,addCox=TRUE)
- Warning: Removed 42 rows containing missing values or values outside the scale range
- (`geom_line()`).
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
+ Error(s) in re-building vignettes:
+ --- re-building ‘autoTS_vignette.Rmd’ using rmarkdown
```
+## In both
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘Automatic_Regression_Modeling.Rmd’
+ when running code in ‘autoTS_vignette.Rmd’
...
- Species setosa (N=50) Mean ± SD 5.0 ± 0.4
- versicolor (N=50) Mean ± SD 5.9 ± 0.5 1.46 (1.24 to 1.68, p<.001) 1.44 (1.16 to 1.71, p<.001) 1.47 (1.23 to 1.70, p<.001)
- virginica (N=50) Mean ± SD 6.6 ± 0.6 1.95 (1.75 to 2.14, p<.001) 1.87 (1.62 to 2.11, p<.001) 1.97 (1.76 to 2.17, p<.001)
- ————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————
+ Warning in unzip(zipfile = "../inst/extdata/namq_10_gdp.zip", exdir = tmp_dir) :
+ error 1 in extracting from zip file
- > modelPlot(fit1, imputed = TRUE)
-
- ...
+ > dat <- read.csv(paste0(tmp_dir, "/namq_10_gdp_1_Data.csv"))
+ Warning in file(file, "rt") :
+ cannot open file '/tmp/RtmprfZN0t/namq_10_gdp_1_Data.csv': No such file or directory
- When sourcing ‘Survival.R’:
- Error: argument is of length zero
+ When sourcing ‘autoTS_vignette.R’:
+ Error: cannot open the connection
Execution halted
- ‘Automatic_Regression_Modeling.Rmd’ using ‘UTF-8’... failed
- ‘Bootstrap_Prediction.Rmd’ using ‘UTF-8’... OK
- ‘Getting_started.Rmd’ using ‘UTF-8’... failed
- ‘Statiastical_test_in_gaze.Rmd’ using ‘UTF-8’... OK
- ‘Survival.Rmd’ using ‘UTF-8’... failed
+ ‘autoTS_vignette.Rmd’ using ‘UTF-8’... failed
```
-* checking re-building of vignette outputs ... NOTE
+* checking dependencies in R code ... NOTE
```
- Error(s) in re-building vignettes:
- --- re-building ‘Automatic_Regression_Modeling.Rmd’ using rmarkdown
-
- Quitting from lines 142-143 [unnamed-chunk-15] (Automatic_Regression_Modeling.Rmd)
- Error: processing vignette 'Automatic_Regression_Modeling.Rmd' failed with diagnostics:
- object is not a unit
- --- failed re-building ‘Automatic_Regression_Modeling.Rmd’
-
- --- re-building ‘Bootstrap_Prediction.Rmd’ using rmarkdown
+ Namespaces in Imports field not imported from:
+ ‘plotly’ ‘shinycssloaders’
+ All declared Imports should be used.
+ ```
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
```
-# baggr
+# bartMan
-* Version: 0.7.8
-* GitHub: https://github.com/wwiecek/baggr
-* Source code: https://github.com/cran/baggr
-* Date/Publication: 2024-02-12 18:20:02 UTC
-* Number of recursive dependencies: 104
+* Version: 0.1.1
+* GitHub: NA
+* Source code: https://github.com/cran/bartMan
+* Date/Publication: 2024-07-24 12:10:02 UTC
+* Number of recursive dependencies: 135
-Run `revdepcheck::cloud_details(, "baggr")` for more info
+Run `revdepcheck::cloud_details(, "bartMan")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking whether package ‘bartMan’ can be installed ... ERROR
```
- Running examples in ‘baggr-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: baggr_plot
- > ### Title: Plotting method in baggr package
- > ### Aliases: baggr_plot
- >
- > ### ** Examples
- >
- > fit <- baggr(schools, pooling = "none")
- Automatically chose Rubin model with aggregate data based on input data.
- Setting prior for mean in each group using 10 times the max effect :
+ Installation failed.
+ See ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/00install.out’ for details.
```
-* checking tests ... ERROR
- ```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(baggr)
- Loading required package: Rcpp
- This is baggr; see vignette('baggr') for tutorial, ?baggr for basic help.
- For execution on a local, multicore CPU with excess RAM call:
- options(mc.cores = parallel::detectCores())
- >
- ...
- 10. └─bayesplot::mcmc_areas(...)
- 11. └─ggplot2:::`+.gg`(...)
- 12. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 13. ├─ggplot2::ggplot_add(object, p, objectname)
- 14. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 15. └─ggplot2:::new_layer_names(object, names(plot$layers))
-
- [ FAIL 6 | WARN 0 | SKIP 6 | PASS 488 ]
- Error: Test failures
- Execution halted
- ```
+## Installation
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘baggr.Rmd’
- ...
- 2.5% 0.4303903
- mean 0.8619752
- 97.5% 0.9998572
-
-
- > plot(baggr_schools, order = FALSE)
-
- When sourcing ‘baggr.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘baggr.Rmd’ using ‘UTF-8’... failed
- ‘baggr_binary.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘baggr.Rmd’ using rmarkdown
-
- Quitting from lines 272-273 [unnamed-chunk-9] (baggr.Rmd)
- Error: processing vignette 'baggr.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘baggr.Rmd’
-
- --- re-building ‘baggr_binary.Rmd’ using rmarkdown
- --- finished re-building ‘baggr_binary.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘baggr.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 196.3Mb
- sub-directories of 1Mb or more:
- libs 194.5Mb
- ```
-
-* checking for GNU extensions in Makefiles ... NOTE
- ```
- GNU make is a SystemRequirements.
- ```
-
-# banter
-
-
-
-* Version: 0.9.6
-* GitHub: NA
-* Source code: https://github.com/cran/banter
-* Date/Publication: 2023-02-12 21:32:29 UTC
-* Number of recursive dependencies: 95
-
-Run `revdepcheck::cloud_details(, "banter")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘banter-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: plotDetectorTrace
- > ### Title: Plot BANTER Detector Traces
- > ### Aliases: plotDetectorTrace
- >
- > ### ** Examples
- >
- > data(train.data)
- ...
- > bant.mdl <- addBanterDetector(
- + bant.mdl, train.data$detectors,
- + ntree = 50, sampsize = 1, num.cores = 1
- + )
- >
- > plotDetectorTrace(bant.mdl)
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: plotDetectorTrace ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-# bartMan
-
-
-
-* Version: 0.1.1
-* GitHub: NA
-* Source code: https://github.com/cran/bartMan
-* Date/Publication: 2024-07-24 12:10:02 UTC
-* Number of recursive dependencies: 135
-
-Run `revdepcheck::cloud_details(, "bartMan")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘bartMan-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: mdsBart
- > ### Title: mdsBart
- > ### Aliases: mdsBart
- >
- > ### ** Examples
- >
- > if (requireNamespace("dbarts", quietly = TRUE)) {
- ...
- |
- |======================================================================| 100%
- Extracting Observation Data...
-
- Getting proximites...
- Getting MDS...
- Performing procrustes...
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: mdsBart -> suppressMessages -> withCallingHandlers
- Execution halted
- ```
-
-# BasketballAnalyzeR
-
-
-
-* Version: 0.5.0
-* GitHub: https://github.com/sndmrc/BasketballAnalyzeR
-* Source code: https://github.com/cran/BasketballAnalyzeR
-* Date/Publication: 2020-06-26 09:00:11 UTC
-* Number of recursive dependencies: 83
-
-Run `revdepcheck::cloud_details(, "BasketballAnalyzeR")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘BasketballAnalyzeR-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: scatterplot
- > ### Title: Draws a scatter plot or a matrix of scatter plots
- > ### Aliases: scatterplot
- >
- > ### ** Examples
- >
- > # Single scatter plot
- ...
- > X <- data.frame(AST=Pbox.sel$AST/Pbox.sel$MIN,TOV=Pbox.sel$TOV/Pbox.sel$MIN)
- > X$PTSpm <- Pbox.sel$PTS/Pbox.sel$MIN
- > mypal <- colorRampPalette(c("blue","yellow","red"))
- > scatterplot(X, data.var=c("AST","TOV"), z.var="PTSpm", labels=1:nrow(X), palette=mypal)
- > # Matrix of scatter plots
- > data <- Pbox[1:50, c("PTS","P3M","P2M","OREB","Team")]
- > scatterplot(data, data.var=1:4, z.var="Team")
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 6.9Mb
- sub-directories of 1Mb or more:
- data 6.5Mb
- ```
-
-* checking dependencies in R code ... NOTE
- ```
- Namespaces in Imports field not imported from:
- ‘circlize’ ‘hexbin’ ‘scales’ ‘sna’
- All declared Imports should be used.
- ```
-
-# bayefdr
-
-
-
-* Version: 0.2.1
-* GitHub: https://github.com/VallejosGroup/bayefdr
-* Source code: https://github.com/cran/bayefdr
-* Date/Publication: 2022-10-26 19:35:06 UTC
-* Number of recursive dependencies: 96
+### Devel
-Run `revdepcheck::cloud_details(, "bayefdr")` for more info
+```
+* installing *source* package ‘bartMan’ ...
+** package ‘bartMan’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+Error in eval(exprs[i], envir) : object 'justify_grobs' not found
+Error: unable to load R code in package ‘bartMan’
+Execution halted
+ERROR: lazy loading failed for package ‘bartMan’
+* removing ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/bartMan’
-
-## Newly broken
+```
+### CRAN
-* checking examples ... ERROR
- ```
- Running examples in ‘bayefdr-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: traceplot
- > ### Title: Trace, marginal density histogram, and autocorrelation plot of
- > ### MCMC draws.
- > ### Aliases: traceplot
- >
- > ### ** Examples
- >
- > x <- rnorm(1000)
- > traceplot(x)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
+```
+* installing *source* package ‘bartMan’ ...
+** package ‘bartMan’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+** building package indices
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (bartMan)
-* checking tests ... ERROR
- ```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(bayefdr)
- >
- > test_check("bayefdr")
- [ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ...
- 8. └─base::Reduce(`+`, c(list(noGeomPlot), layers))
- 9. └─ggplot2:::`+.gg`(init, x[[i]])
- 10. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 11. ├─ggplot2::ggplot_add(object, p, objectname)
- 12. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 13. └─ggplot2:::new_layer_names(object, names(plot$layers))
-
- [ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ]
- Error: Test failures
- Execution halted
- ```
+```
# bayesAB
@@ -1600,7 +868,7 @@ Run `revdepcheck::cloud_details(, "bayefdr")` for more info
* GitHub: https://github.com/FrankPortman/bayesAB
* Source code: https://github.com/cran/bayesAB
* Date/Publication: 2021-06-25 00:50:02 UTC
-* Number of recursive dependencies: 74
+* Number of recursive dependencies: 73
Run `revdepcheck::cloud_details(, "bayesAB")` for more info
@@ -1658,7 +926,7 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info
When sourcing ‘MCMC-example.R’:
Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 14, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, FALSE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NUL
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL,
Execution halted
‘MCMC-example.Rmd’ using ‘UTF-8’... failed
@@ -1674,10 +942,10 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info
* checking installed package size ... NOTE
```
- installed size is 84.8Mb
+ installed size is 82.3Mb
sub-directories of 1Mb or more:
data 1.5Mb
- libs 82.6Mb
+ libs 80.1Mb
```
* checking for GNU extensions in Makefiles ... NOTE
@@ -1693,7 +961,7 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info
* GitHub: https://github.com/gorkang/BayesianReasoning
* Source code: https://github.com/cran/BayesianReasoning
* Date/Publication: 2023-11-14 11:33:20 UTC
-* Number of recursive dependencies: 107
+* Number of recursive dependencies: 106
Run `revdepcheck::cloud_details(, "BayesianReasoning")` for more info
@@ -1726,41 +994,15 @@ Run `revdepcheck::cloud_details(, "BayesianReasoning")` for more info
Execution halted
```
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘PPV_NPV.Rmd’
- ...
- ℹ Please consider using `annotate()` or provide this layer with data containing
- a single row.
- Warning in ggforce::geom_mark_rect(aes(label = paste0(translated_labels$label_PPV_NPV, :
- All aesthetics have length 1, but the data has 10201 rows.
- ℹ Please consider using `annotate()` or provide this layer with data containing
- a single row.
-
- When sourcing ‘PPV_NPV.R’:
- Error: object is not coercible to a unit
- Execution halted
-
- ‘PPV_NPV.Rmd’ using ‘UTF-8’... failed
- ‘introduction.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘PPV_NPV.Rmd’ using rmarkdown
- ```
-
# BayesMallows
-* Version: 2.2.2
+* Version: 2.2.3
* GitHub: https://github.com/ocbe-uio/BayesMallows
* Source code: https://github.com/cran/BayesMallows
-* Date/Publication: 2024-08-17 13:00:03 UTC
-* Number of recursive dependencies: 82
+* Date/Publication: 2025-01-14 11:30:02 UTC
+* Number of recursive dependencies: 81
Run `revdepcheck::cloud_details(, "BayesMallows")` for more info
@@ -1788,7 +1030,7 @@ Run `revdepcheck::cloud_details(, "BayesMallows")` for more info
`actual` is NULL
`expected` is a character vector ('cluster')
- [ FAIL 10 | WARN 0 | SKIP 6 | PASS 435 ]
+ [ FAIL 10 | WARN 0 | SKIP 10 | PASS 363 ]
Error: Test failures
Execution halted
```
@@ -1797,82 +1039,10 @@ Run `revdepcheck::cloud_details(, "BayesMallows")` for more info
* checking installed package size ... NOTE
```
- installed size is 23.7Mb
+ installed size is 23.6Mb
sub-directories of 1Mb or more:
doc 2.7Mb
- libs 20.1Mb
- ```
-
-# bayesplay
-
-
-
-* Version: 0.9.3
-* GitHub: https://github.com/bayesplay/bayesplay
-* Source code: https://github.com/cran/bayesplay
-* Date/Publication: 2023-04-13 12:10:02 UTC
-* Number of recursive dependencies: 84
-
-Run `revdepcheck::cloud_details(, "bayesplay")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘bayesplay-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: visual_compare
- > ### Title: Visually compare two models
- > ### Aliases: visual_compare
- >
- > ### ** Examples
- >
- > # define two models
- ...
- > h1_mod <- prior(family = "normal", mean = 0, sd = 10)
- > m0 <- extract_predictions(data_model * h0_mod)
- > m1 <- extract_predictions(data_model * h1_mod)
- >
- > # visually compare the model
- > visual_compare(m0, m1)
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘advanced.Rmd’
- ...
- > plot(posterior1, add_prior = TRUE) + labs(title = "prior and posterior distribution",
- + subtitle = "for a binomial likelihood and beta prior")
- Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, :
- conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for
- Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, :
- conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for
-
- ...
- > visual_compare(d_model1, d_model2)
-
- When sourcing ‘plots.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
- Execution halted
-
- ‘advanced.Rmd’ using ‘UTF-8’... failed
- ‘basic.Rmd’ using ‘UTF-8’... OK
- ‘default_ttests.Rmd’ using ‘UTF-8’... OK
- ‘plots.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘advanced.Rmd’ using rmarkdown
+ libs 20.0Mb
```
# bayesplot
@@ -1883,7 +1053,7 @@ Run `revdepcheck::cloud_details(, "bayesplay")` for more info
* GitHub: https://github.com/stan-dev/bayesplot
* Source code: https://github.com/cran/bayesplot
* Date/Publication: 2024-02-15 05:30:11 UTC
-* Number of recursive dependencies: 126
+* Number of recursive dependencies: 128
Run `revdepcheck::cloud_details(, "bayesplot")` for more info
@@ -1891,31 +1061,6 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘bayesplot-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: MCMC-intervals
- > ### Title: Plot interval estimates from MCMC draws
- > ### Aliases: MCMC-intervals mcmc_intervals mcmc_areas mcmc_areas_ridges
- > ### mcmc_intervals_data mcmc_areas_data mcmc_areas_ridges_data
- >
- > ### ** Examples
- >
- ...
-
- $Parameter
- [1] "alpha" "sigma" "beta[1]" "beta[2]" "beta[3]" "beta[4]"
-
- >
- > color_scheme_set("brightblue")
- > mcmc_intervals(x)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: mcmc_intervals ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
* checking tests ... ERROR
```
Running ‘testthat.R’
@@ -1929,14 +1074,14 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info
* Does _not_ affect other ggplot2 plots
* See ?bayesplot_theme_set for details on theme setting
...
- 5. └─bayesplot::ppc_violin_grouped(y, yrep, group)
- 6. └─ggplot2:::`+.gg`(...)
- 7. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 8. ├─ggplot2::ggplot_add(object, p, objectname)
- 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 10. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Failure ('test-mcmc-traces.R:55:3'): mcmc_trace options work ────────────────
+ all(c("xmin", "xmax", "ymin", "ymax") %in% names(ll)) is not TRUE
- [ FAIL 6 | WARN 1 | SKIP 73 | PASS 994 ]
+ `actual`: FALSE
+ `expected`: TRUE
+
+ [ FAIL 1 | WARN 1 | SKIP 73 | PASS 1024 ]
Error: Test failures
Execution halted
```
@@ -1946,16 +1091,12 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘plotting-mcmc-draws.Rmd’
+ when running code in ‘visual-mcmc-diagnostics.Rmd’
...
+ > schools_dat <- list(J = 8, y = c(28, 8, -3, 7, -1,
+ + 1, 18, 12), sigma = c(15, 10, 16, 11, 9, 11, 10, 18))
- > color_scheme_set("red")
-
- > mcmc_intervals(posterior, pars = c("cyl", "drat",
- + "am", "sigma"))
-
- ...
> fit_cp <- sampling(schools_mod_cp, data = schools_dat,
+ seed = 803214055, control = list(adapt_delta = 0.9))
@@ -1964,7 +1105,7 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info
Execution halted
‘graphical-ppcs.Rmd’ using ‘UTF-8’... OK
- ‘plotting-mcmc-draws.Rmd’ using ‘UTF-8’... failed
+ ‘plotting-mcmc-draws.Rmd’ using ‘UTF-8’... OK
‘visual-mcmc-diagnostics.Rmd’ using ‘UTF-8’... failed
```
@@ -1976,227 +1117,27 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info
doc 3.8Mb
```
-# bayestestR
-
-
-
-* Version: 0.14.0
-* GitHub: https://github.com/easystats/bayestestR
-* Source code: https://github.com/cran/bayestestR
-* Date/Publication: 2024-07-24 14:10:02 UTC
-* Number of recursive dependencies: 209
-
-Run `revdepcheck::cloud_details(, "bayestestR")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘bayestestR-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: bayesfactor_restricted
- > ### Title: Bayes Factors (BF) for Order Restricted Models
- > ### Aliases: bayesfactor_restricted bf_restricted
- > ### bayesfactor_restricted.stanreg bayesfactor_restricted.brmsfit
- > ### bayesfactor_restricted.blavaan bayesfactor_restricted.emmGrid
- > ### as.logical.bayesfactor_restricted
- >
- ...
- + )
- >
- >
- > (b <- bayesfactor_restricted(posterior, hypothesis = hyps, prior = prior))
- Bayes Factor (Order-Restriction)
-
- Hypothesis P(Prior) P(Posterior) BF
- A > B & B > C 0.16 0.23 1.39
- A > B & A > C 0.36 0.59 1.61
- C > A 0.46 0.34 0.742
- ```
-
-## In both
-
-* checking tests ... ERROR
- ```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(bayestestR)
- >
- > test_check("bayestestR")
- Starting 2 test processes
- [ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ]
-
- ...
- 14. └─brms:::eval2(call, envir = args, enclos = envir)
- 15. └─base::eval(expr, envir, ...)
- 16. └─base::eval(expr, envir, ...)
- 17. └─rstan (local) .fun(model_code = .x1)
- 18. └─rstan:::cxxfunctionplus(...)
- 19. └─base::sink(type = "output")
-
- [ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ]
- Error: Test failures
- Execution halted
- ```
-
-# BCEA
-
-
-
-* Version: 2.4.6
-* GitHub: https://github.com/n8thangreen/BCEA
-* Source code: https://github.com/cran/BCEA
-* Date/Publication: 2024-02-16 15:00:08 UTC
-* Number of recursive dependencies: 125
-
-Run `revdepcheck::cloud_details(, "BCEA")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘BCEA-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: ceac.plot.bcea
- > ### Title: Cost-Effectiveness Acceptability Curve (CEAC) Plot
- > ### Aliases: ceac.plot.bcea ceac.plot
- > ### Keywords: hplot
- >
- > ### ** Examples
- >
- ...
- > he <- BCEA::bcea(eff, cost)
- No reference selected. Defaulting to first intervention.
- > ceac.plot(he)
- >
- > ceac.plot(he, graph = "base")
- > ceac.plot(he, graph = "ggplot2")
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-* checking tests ... ERROR
- ```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(BCEA)
- The BCEA version loaded is: 2.4.6
-
- Attaching package: 'BCEA'
-
- The following object is masked from 'package:graphics':
- ...
- 3. └─BCEA:::eib_plot_ggplot(he, graph_params, ...)
- 4. └─ggplot2:::`+.gg`(...)
- 5. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 6. ├─ggplot2::ggplot_add(object, p, objectname)
- 7. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 8. └─ggplot2:::new_layer_names(object, names(plot$layers))
-
- [ FAIL 1 | WARN 1 | SKIP 7 | PASS 159 ]
- Error: Test failures
- Execution halted
- ```
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘CEriskav.Rmd’
- ...
-
- > CEriskav(bcea_smoke) <- r
-
- > plot(bcea_smoke)
-
- > plot(bcea_smoke, graph = "ggplot")
-
- ...
-
- ‘CEriskav.Rmd’ using ‘UTF-8’... failed
- ‘bcea.Rmd’ using ‘UTF-8’... failed
- ‘ceac.Rmd’ using ‘UTF-8’... failed
- ‘ceef.Rmd’ using ‘UTF-8’... OK
- ‘ceplane.Rmd’ using ‘UTF-8’... failed
- ‘contour.Rmd’ using ‘UTF-8’... failed
- ‘eib.Rmd’ using ‘UTF-8’... failed
- ‘paired_vs_multiple_comps.Rmd’ using ‘UTF-8’... OK
- ‘Set_bcea_parameters.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘CEriskav.Rmd’ using rmarkdown
-
- Quitting from lines 41-46 [unnamed-chunk-3] (CEriskav.Rmd)
- Error: processing vignette 'CEriskav.Rmd' failed with diagnostics:
- invalid line type: must be length 2, 4, 6 or 8
- --- failed re-building ‘CEriskav.Rmd’
-
- --- re-building ‘bcea.Rmd’ using rmarkdown
- ```
-
-# BDgraph
+# bdl
-* Version: 2.73
-* GitHub: NA
-* Source code: https://github.com/cran/BDgraph
-* Date/Publication: 2024-08-23 13:20:02 UTC
-* Number of recursive dependencies: 71
+* Version: 1.0.5
+* GitHub: https://github.com/statisticspoland/R_Package_to_API_BDL
+* Source code: https://github.com/cran/bdl
+* Date/Publication: 2023-02-24 15:00:02 UTC
+* Number of recursive dependencies: 150
-Run `revdepcheck::cloud_details(, "BDgraph")` for more info
+Run `revdepcheck::cloud_details(, "bdl")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘BDgraph-Examples.Rmd’
- ...
- Sensitivity 1 0.714 0.714
- MCC 1 0.827 0.827
-
- > plotroc(list(bdgraph.obj, bdgraph.mpl.obj), data.sim,
- + cut = 200, labels = c("BDgraph", "BDgraph.mpl"), color = c("blue",
- + "red"))
-
- When sourcing ‘BDgraph-Examples.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
- Execution halted
-
- ‘BDgraph-Examples.Rmd’ using ‘UTF-8’... failed
- ‘Introduction-BDgraph.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘BDgraph-Examples.Rmd’ using rmarkdown
- ```
-
-## In both
-
-* checking installed package size ... NOTE
+* checking whether package ‘bdl’ can be installed ... WARNING
```
- installed size is 8.3Mb
- sub-directories of 1Mb or more:
- libs 6.8Mb
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘bdl’
+ See ‘/tmp/workdir/bdl/new/bdl.Rcheck/00install.out’ for details.
```
# BEAMR
@@ -2207,7 +1148,7 @@ Run `revdepcheck::cloud_details(, "BDgraph")` for more info
* GitHub: https://github.com/annaSeffernick/BEAMR
* Source code: https://github.com/cran/BEAMR
* Date/Publication: 2024-07-27 16:00:06 UTC
-* Number of recursive dependencies: 148
+* Number of recursive dependencies: 152
Run `revdepcheck::cloud_details(, "BEAMR")` for more info
@@ -2220,23 +1161,23 @@ Run `revdepcheck::cloud_details(, "BEAMR")` for more info
Running examples in ‘BEAMR-Ex.R’ failed
The error most likely occurred in:
- > ### Name: gen_beam_plot_list
- > ### Title: Generate BEAM Plot List
- > ### Aliases: gen_beam_plot_list
+ > ### Name: plot_beam_clin
+ > ### Title: Plot BEAM Sets
+ > ### Aliases: plot_beam_clin
>
> ### ** Examples
>
> data(beam_stats)
...
- + beam.specs=beam_stats$beam.specs)
- > plot.list <- gen_beam_plot_list(beam.result=beam_stats, beam.specs=plot.specs,
- + beam.feat.pvals=test.feat.pvals,
- + number.pairs=1, set.id="ENSG00000099810",
- + feat.id=NULL, title.size=11,
- + pair.order="omic", endpt.order=NULL)
- Error in if (new_name %in% existing) { : argument is of length zero
- Error in plot.temp$plot : $ operator is invalid for atomic vectors
- Calls: gen_beam_plot_list
+ 20. │ └─plot$guides$assemble(theme)
+ 21. │ └─ggplot2 (local) assemble(..., self = self)
+ 22. │ └─self$package_box(grobs[[i]], position, theme + adjust)
+ 23. │ └─ggplot2 (local) package_box(...)
+ 24. │ └─theme$legend.box %||% direction
+ 25. └─base::.handleSimpleError(...)
+ 26. └─purrr (local) h(simpleError(msg, call))
+ 27. └─cli::cli_abort(...)
+ 28. └─rlang::abort(...)
Execution halted
```
@@ -2248,7 +1189,7 @@ Run `revdepcheck::cloud_details(, "BEAMR")` for more info
* GitHub: https://github.com/GSK-Biostatistics/beastt
* Source code: https://github.com/cran/beastt
* Date/Publication: 2024-06-20 15:50:16 UTC
-* Number of recursive dependencies: 100
+* Number of recursive dependencies: 99
Run `revdepcheck::cloud_details(, "beastt")` for more info
@@ -2299,7 +1240,7 @@ Run `revdepcheck::cloud_details(, "beastt")` for more info
ℹ Error occurred in the 1st layer.
Caused by error in `use_defaults()`:
! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0,
Execution halted
‘binary.Rmd’ using ‘UTF-8’... failed
@@ -2312,219 +1253,205 @@ Run `revdepcheck::cloud_details(, "beastt")` for more info
--- re-building ‘binary.Rmd’ using rmarkdown
```
-# BeeGUTS
+# biclustermd
-* Version: 1.1.3
-* GitHub: https://github.com/bgoussen/BeeGUTS
-* Source code: https://github.com/cran/BeeGUTS
-* Date/Publication: 2023-09-18 15:40:02 UTC
-* Number of recursive dependencies: 86
+* Version: 0.2.3
+* GitHub: https://github.com/jreisner/biclustermd
+* Source code: https://github.com/cran/biclustermd
+* Date/Publication: 2021-06-17 15:10:06 UTC
+* Number of recursive dependencies: 83
-Run `revdepcheck::cloud_details(, "BeeGUTS")` for more info
+Run `revdepcheck::cloud_details(, "biclustermd")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking tests ... ERROR
```
- Running examples in ‘BeeGUTS-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: traceplot
- > ### Title: Plotting method for traces and densities for 'beeSurvFit'
- > ### objects
- > ### Aliases: traceplot traceplot.beeSurvFit
- >
- > ### ** Examples
- >
- > data(fitBetacyfluthrin_Chronic)
- > traceplot(fitBetacyfluthrin_Chronic)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(biclustermd)
+ Loading required package: ggplot2
+ Loading required package: tidyr
+
+ Attaching package: 'tidyr'
+
+ ...
+ ── Failure ('test-autoplot_biclustermd.R:6:3'): autoplot_biclustermd() correctly plots cluster lines ──
+ ap$data[[3]]$xintercept[-1] not equal to cumsum(colSums(sbc$P)) + 0.5.
+ Classes differ: 'mapped_discrete'/'numeric' is not 'numeric'
+ ── Failure ('test-autoplot_biclustermd.R:7:3'): autoplot_biclustermd() correctly plots cluster lines ──
+ ap$data[[4]]$yintercept[-1] not equal to cumsum(colSums(sbc$Q)) + 0.5.
+ Classes differ: 'mapped_discrete'/'numeric' is not 'numeric'
+
+ [ FAIL 2 | WARN 0 | SKIP 0 | PASS 66 ]
+ Error: Test failures
+ Execution halted
```
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘Tutorial.Rmd’
- ...
- Chain 1: Elapsed Time: 137.867 seconds (Warm-up)
- Chain 1: 75.093 seconds (Sampling)
- Chain 1: 212.96 seconds (Total)
- Chain 1:
-
- > traceplot(fit)
-
- When sourcing ‘Tutorial.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘Tutorial.Rmd’ using ‘UTF-8’... failed
- ```
+## In both
-* checking re-building of vignette outputs ... NOTE
+* checking dependencies in R code ... NOTE
```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘Tutorial.Rmd’ using rmarkdown
-
- Quitting from lines 45-58 [example] (Tutorial.Rmd)
- Error: processing vignette 'Tutorial.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘Tutorial.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘Tutorial.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
+ Namespace in Imports field not imported from: ‘nycflights13’
+ All declared Imports should be used.
```
-## In both
+# biodosetools
-* checking installed package size ... NOTE
- ```
- installed size is 78.9Mb
- sub-directories of 1Mb or more:
- data 4.0Mb
- libs 74.3Mb
- ```
+
-* checking for GNU extensions in Makefiles ... NOTE
+* Version: 3.6.1
+* GitHub: https://github.com/biodosetools-team/biodosetools
+* Source code: https://github.com/cran/biodosetools
+* Date/Publication: 2022-11-16 16:00:02 UTC
+* Number of recursive dependencies: 118
+
+Run `revdepcheck::cloud_details(, "biodosetools")` for more info
+
+
+
+## Newly broken
+
+* checking tests ... ERROR
```
- GNU make is a SystemRequirements.
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(biodosetools)
+ >
+ > test_check("biodosetools")
+ ! Problem with `glm()` -> constraint ML optimization will be used instead
+ ! Problem with `glm()` -> constraint ML optimization will be used instead
+ number of iterations= 43
+ ...
+ actual | expected
+ [2] "Estimation" | "Estimation" [2]
+ [3] "Dose (Gy)" | "Dose (Gy)" [3]
+ [4] "Translocations/cells" | "Translocations/cells" [4]
+ - "yield_low" [5]
+ - "yield_upp" [6]
+
+ [ FAIL 4 | WARN 0 | SKIP 1 | PASS 232 ]
+ Error: Test failures
+ Execution halted
```
-# besthr
+# BioM2
-* Version: 0.3.2
+* Version: 1.1.0
* GitHub: NA
-* Source code: https://github.com/cran/besthr
-* Date/Publication: 2023-04-14 08:50:08 UTC
-* Number of recursive dependencies: 67
+* Source code: https://github.com/cran/BioM2
+* Date/Publication: 2024-09-20 12:10:21 UTC
+* Number of recursive dependencies: 272
-Run `revdepcheck::cloud_details(, "besthr")` for more info
+Run `revdepcheck::cloud_details(, "BioM2")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking whether package ‘BioM2’ can be installed ... WARNING
```
- Running examples in ‘besthr-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: plot.hrest
- > ### Title: plots the 'hrest' object
- > ### Aliases: plot.hrest
- >
- > ### ** Examples
- >
- >
- > d1 <- make_data()
- > hr_est <- estimate(d1, score, group)
- > plot(hr_est)
- Picking joint bandwidth of 0.68
- Error in as.unit(value) : object is not coercible to a unit
- Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘BioM2’
+ See ‘/tmp/workdir/BioM2/new/BioM2.Rcheck/00install.out’ for details.
```
-* checking running R code from vignettes ... ERROR
+## In both
+
+* checking installed package size ... NOTE
```
- Errors in running code in vignettes:
- when running code in ‘basic-use.Rmd’
- ...
- Confidence Intervals (0.025, 0.975)
- 3.7475, 8.2525
-
- 100 bootstrap resamples.
- > plot(hr_est_1)
- Picking joint bandwidth of 0.381
-
- When sourcing ‘basic-use.R’:
- Error: object is not coercible to a unit
- Execution halted
-
- ‘basic-use.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘basic-use.Rmd’ using rmarkdown
-
- Quitting from lines 34-44 [unnamed-chunk-2] (basic-use.Rmd)
- Error: processing vignette 'basic-use.Rmd' failed with diagnostics:
- object is not coercible to a unit
- --- failed re-building ‘basic-use.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘basic-use.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
+ installed size is 12.8Mb
+ sub-directories of 1Mb or more:
+ data 12.5Mb
```
-# betaclust
+# BioPred
-* Version: 1.0.3
+* Version: 1.0.2
* GitHub: NA
-* Source code: https://github.com/cran/betaclust
-* Date/Publication: 2023-09-29 10:20:02 UTC
-* Number of recursive dependencies: 76
+* Source code: https://github.com/cran/BioPred
+* Date/Publication: 2024-11-04 08:30:13 UTC
+* Number of recursive dependencies: 122
-Run `revdepcheck::cloud_details(, "betaclust")` for more info
+Run `revdepcheck::cloud_details(, "BioPred")` for more info
## Newly broken
+* checking examples ... ERROR
+ ```
+ Running examples in ‘BioPred-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: subgrp_perf
+ > ### Title: Subgroup Performance Evaluation for Prognostic Cases
+ > ### Aliases: subgrp_perf
+ >
+ > ### ** Examples
+ >
+ > # Load a sample dataset
+ ...
+ Risk Group = Medium 13.2 (10.23 , NA)
+ Risk Group = High 11.73 (5.66 , 15.84)
+
+ $fig
+ Warning: Ignoring unknown labels:
+ • `fill = "Risk Group"`
+ • `linetype = "1"`
+ Error in theme + adjust : non-numeric argument to binary operator
+ Calls: ... -> assemble -> -> package_box -> %||%
+ Execution halted
+ ```
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘vignettes.Rmd’
+ when running code in ‘Tutorial.Rmd’
...
- + data = pca.methylation.data[, 2:5], patient_number = 1, plot_type = "ggplot")
-
- > plot(threshold_out, what = "kernel density", threshold = TRUE,
- + data = pca.methylation.data[, 2:5], plot_type = "ggplot")
-
- > plot(threshold_out, what = "uncertainty")
+
+
+ > res$fig
+ Warning: Ignoring unknown labels:
+ • `fill = "treatment_categorical , biogroup"`
+ • `linetype = "1"`
- When sourcing ‘vignettes.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘Tutorial.R’:
+ Error: non-numeric argument to binary operator
Execution halted
- ‘vignettes.Rmd’ using ‘UTF-8’... failed
+ ‘Tutorial.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘vignettes.Rmd’ using rmarkdown
+ --- re-building ‘Tutorial.Rmd’ using rmarkdown
```
-# biclustermd
+# boxly
-* Version: 0.2.3
-* GitHub: https://github.com/jreisner/biclustermd
-* Source code: https://github.com/cran/biclustermd
-* Date/Publication: 2021-06-17 15:10:06 UTC
-* Number of recursive dependencies: 84
+* Version: 0.1.1
+* GitHub: https://github.com/Merck/boxly
+* Source code: https://github.com/cran/boxly
+* Date/Publication: 2023-10-24 02:40:02 UTC
+* Number of recursive dependencies: 90
-Run `revdepcheck::cloud_details(, "biclustermd")` for more info
+Run `revdepcheck::cloud_details(, "boxly")` for more info
@@ -2535,265 +1462,212 @@ Run `revdepcheck::cloud_details(, "biclustermd")` for more info
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > library(testthat)
- > library(biclustermd)
- Loading required package: ggplot2
- Loading required package: tidyr
-
- Attaching package: 'tidyr'
-
+ > # This file is part of the standard setup for testthat.
+ > # It is recommended that you do not modify it.
+ > #
+ > # Where should you do additional test configuration?
+ > # Learn more about the roles of various files in:
+ > # * https://r-pkgs.org/tests.html
+ > # * https://testthat.r-lib.org/reference/test_package.html#special-files
...
- ── Failure ('test-autoplot_biclustermd.R:6:3'): autoplot_biclustermd() correctly plots cluster lines ──
- ap$data[[3]]$xintercept[-1] not equal to cumsum(colSums(sbc$P)) + 0.5.
- Classes differ: 'mapped_discrete'/'numeric' is not 'numeric'
- ── Failure ('test-autoplot_biclustermd.R:7:3'): autoplot_biclustermd() correctly plots cluster lines ──
- ap$data[[4]]$yintercept[-1] not equal to cumsum(colSums(sbc$Q)) + 0.5.
- Classes differ: 'mapped_discrete'/'numeric' is not 'numeric'
+ 16. ├─plotly::add_trace(...)
+ 17. │ └─plotly::add_data(p, data)
+ 18. │ └─plotly:::is.plotly(p)
+ 19. ├─plotly::ggplotly(p, tooltip = "text", dynamicTicks = TRUE)
+ 20. └─plotly:::ggplotly.ggplot(p, tooltip = "text", dynamicTicks = TRUE)
+ 21. └─plotly::gg2list(...)
- [ FAIL 2 | WARN 0 | SKIP 0 | PASS 66 ]
+ [ FAIL 2 | WARN 0 | SKIP 0 | PASS 25 ]
Error: Test failures
Execution halted
```
-## In both
-
-* checking dependencies in R code ... NOTE
- ```
- Namespace in Imports field not imported from: ‘nycflights13’
- All declared Imports should be used.
- ```
-
-# biodosetools
+# brolgar
-* Version: 3.6.1
-* GitHub: https://github.com/biodosetools-team/biodosetools
-* Source code: https://github.com/cran/biodosetools
-* Date/Publication: 2022-11-16 16:00:02 UTC
-* Number of recursive dependencies: 121
+* Version: 1.0.1
+* GitHub: https://github.com/njtierney/brolgar
+* Source code: https://github.com/cran/brolgar
+* Date/Publication: 2024-05-10 14:50:34 UTC
+* Number of recursive dependencies: 103
-Run `revdepcheck::cloud_details(, "biodosetools")` for more info
+Run `revdepcheck::cloud_details(, "brolgar")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(biodosetools)
- >
- > test_check("biodosetools")
- ! Problem with `glm()` -> constraint ML optimization will be used instead
- ! Problem with `glm()` -> constraint ML optimization will be used instead
- number of iterations= 43
- ...
- actual | expected
- [2] "Estimation" | "Estimation" [2]
- [3] "Dose (Gy)" | "Dose (Gy)" [3]
- [4] "Translocations/cells" | "Translocations/cells" [4]
- - "yield_low" [5]
- - "yield_upp" [6]
-
- [ FAIL 4 | WARN 0 | SKIP 1 | PASS 232 ]
- Error: Test failures
- Execution halted
+ Running examples in ‘brolgar-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: facet_sample
+ > ### Title: Facet data into groups to facilitate exploration
+ > ### Aliases: facet_sample
+ >
+ > ### ** Examples
+ >
+ > library(ggplot2)
+ > ggplot(heights,
+ + aes(x = year,
+ + y = height_cm,
+ + group = country)) +
+ + geom_line() +
+ + facet_sample()
+ Error in if (params$as.table) { : argument is of length zero
+ Calls: ... -> setup -> -> compute_layout
+ Execution halted
```
-# BioPred
-
-
-
-* Version: 1.0.1
-* GitHub: NA
-* Source code: https://github.com/cran/BioPred
-* Date/Publication: 2024-06-06 16:50:09 UTC
-* Number of recursive dependencies: 118
-
-Run `revdepcheck::cloud_details(, "BioPred")` for more info
-
-
-
-## Newly broken
+## In both
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘Tutorial.Rmd’
+ when running code in ‘exploratory-modelling.Rmd’
...
-
- > tutorial_data$biogroup = ifelse(tutorial_data$x2 <=
- + 0.5, "biomarker_positive", "biomarker_negative")
-
- > res = subgrp_perf_pred(yvar = "y.time", censorvar = "y.event",
- + grpvar = "biogroup", grpname = c("biomarker_positive", "biomarker_negative"), .... [TRUNCATED]
+ Warning in is.na(non_null_default_aes[[aes_param_name]]) :
+ is.na() applied to non-(list or vector) of type 'language'
- When sourcing ‘Tutorial.R’:
+ When sourcing ‘exploratory-modelling.R’:
+ Error: ℹ In index: 1.
+ ℹ With name: geom_line.
+ Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[
+ ...
Error: argument is of length zero
Execution halted
- ‘Tutorial.Rmd’ using ‘UTF-8’... failed
+ ‘exploratory-modelling.Rmd’ using ‘UTF-8’... failed
+ ‘finding-features.Rmd’ using ‘UTF-8’... failed
+ ‘getting-started.Rmd’ using ‘UTF-8’... failed
+ ‘id-interesting-obs.Rmd’ using ‘UTF-8’... OK
+ ‘longitudinal-data-structures.Rmd’ using ‘UTF-8’... OK
+ ‘mixed-effects-models.Rmd’ using ‘UTF-8’... failed
+ ‘visualisation-gallery.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘Tutorial.Rmd’ using rmarkdown
+ --- re-building ‘exploratory-modelling.Rmd’ using rmarkdown
+
+ Quitting from lines 47-56 [use-gg-highlight] (exploratory-modelling.Rmd)
+ Error: processing vignette 'exploratory-modelling.Rmd' failed with diagnostics:
+ ℹ In index: 1.
+ ℹ With name: geom_line.
+ Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[
+ aes_param_name]])`:
+ ! 'length = 2' in coercion to 'logical(1)'
+ --- failed re-building ‘exploratory-modelling.Rmd’
+
+ --- re-building ‘finding-features.Rmd’ using rmarkdown
```
-# BlandAltmanLeh
+# bruneimap
* Version: 0.3.1
-* GitHub: NA
-* Source code: https://github.com/cran/BlandAltmanLeh
-* Date/Publication: 2015-12-23 23:32:17
-* Number of recursive dependencies: 63
+* GitHub: https://github.com/Bruneiverse/bruneimap
+* Source code: https://github.com/cran/bruneimap
+* Date/Publication: 2024-12-20 10:40:09 UTC
+* Number of recursive dependencies: 116
-Run `revdepcheck::cloud_details(, "BlandAltmanLeh")` for more info
+Run `revdepcheck::cloud_details(, "bruneimap")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking installed package size ... NOTE
```
- Errors in running code in vignettes:
- when running code in ‘Intro.Rmd’
- ...
- > b <- 0.02 * a + 0.3 * rnorm(150)
-
- > library(ggExtra)
-
- > print(ggMarginal(bland.altman.plot(a, b, graph.sys = "ggplot2"),
- + type = "histogram", size = 4))
-
- When sourcing ‘Intro.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘Intro.Rmd’... failed
+ installed size is 6.8Mb
+ sub-directories of 1Mb or more:
+ data 6.5Mb
```
-# bmggum
+# bSi
-* Version: 0.1.0
-* GitHub: https://github.com/Naidantu/bmggum
-* Source code: https://github.com/cran/bmggum
-* Date/Publication: 2021-04-09 08:50:06 UTC
-* Number of recursive dependencies: 85
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/bSi
+* Date/Publication: 2024-01-24 15:52:57 UTC
+* Number of recursive dependencies: 105
-Run `revdepcheck::cloud_details(, "bmggum")` for more info
+Run `revdepcheck::cloud_details(, "bSi")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking whether package ‘bSi’ can be installed ... WARNING
```
- Running examples in ‘bmggum-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: bayesplot
- > ### Title: bayesian convergence diagnosis plotting function
- > ### Aliases: bayesplot
- >
- > ### ** Examples
- >
- > Data <- c(1,4,2,3)
- ...
- Chain 1:
- Warning: There were 3 divergent transitions after warmup. See
- https://mc-stan.org/misc/warnings.html#divergent-transitions-after-warmup
- to find out why this is a problem and how to eliminate them.
- Warning: Examine the pairs() plot to diagnose sampling problems
-
- > bayesplot(mod, 'alpha', 'density', inc_warmup=FALSE)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: bayesplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘bSi’
+ See ‘/tmp/workdir/bSi/new/bSi.Rcheck/00install.out’ for details.
```
-## In both
+# calendR
-* checking installed package size ... NOTE
- ```
- installed size is 206.7Mb
- sub-directories of 1Mb or more:
- libs 206.1Mb
- ```
+
-* checking dependencies in R code ... NOTE
- ```
- Namespaces in Imports field not imported from:
- ‘RcppParallel’ ‘rstantools’
- All declared Imports should be used.
- ```
+* Version: 1.2
+* GitHub: NA
+* Source code: https://github.com/cran/calendR
+* Date/Publication: 2023-10-05 17:30:02 UTC
+* Number of recursive dependencies: 49
-* checking for GNU extensions in Makefiles ... NOTE
+Run `revdepcheck::cloud_details(, "calendR")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘calendR’ can be installed ... WARNING
```
- GNU make is a SystemRequirements.
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggimage::theme_transparent’ by ‘ggplot2::theme_transparent’ when loading ‘calendR’
+ See ‘/tmp/workdir/calendR/new/calendR.Rcheck/00install.out’ for details.
```
-# boxly
+# calendRio
-* Version: 0.1.1
-* GitHub: https://github.com/Merck/boxly
-* Source code: https://github.com/cran/boxly
-* Date/Publication: 2023-10-24 02:40:02 UTC
-* Number of recursive dependencies: 91
+* Version: 0.2.1
+* GitHub: NA
+* Source code: https://github.com/cran/calendRio
+* Date/Publication: 2024-12-21 10:10:02 UTC
+* Number of recursive dependencies: 49
-Run `revdepcheck::cloud_details(, "boxly")` for more info
+Run `revdepcheck::cloud_details(, "calendRio")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking whether package ‘calendRio’ can be installed ... WARNING
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > # This file is part of the standard setup for testthat.
- > # It is recommended that you do not modify it.
- > #
- > # Where should you do additional test configuration?
- > # Learn more about the roles of various files in:
- > # * https://r-pkgs.org/tests.html
- > # * https://testthat.r-lib.org/reference/test_package.html#special-files
- ...
- 16. ├─plotly::add_trace(...)
- 17. │ └─plotly::add_data(p, data)
- 18. │ └─plotly:::is.plotly(p)
- 19. ├─plotly::ggplotly(p, tooltip = "text", dynamicTicks = TRUE)
- 20. └─plotly:::ggplotly.ggplot(p, tooltip = "text", dynamicTicks = TRUE)
- 21. └─plotly::gg2list(...)
-
- [ FAIL 2 | WARN 0 | SKIP 0 | PASS 25 ]
- Error: Test failures
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggimage::theme_transparent’ by ‘ggplot2::theme_transparent’ when loading ‘calendRio’
+ See ‘/tmp/workdir/calendRio/new/calendRio.Rcheck/00install.out’ for details.
```
-# braidReports
+# cartograflow
-* Version: 0.5.4
-* GitHub: NA
-* Source code: https://github.com/cran/braidReports
-* Date/Publication: 2021-01-05 18:20:09 UTC
-* Number of recursive dependencies: 30
+* Version: 1.0.5
+* GitHub: https://github.com/fbahoken/cartogRaflow
+* Source code: https://github.com/cran/cartograflow
+* Date/Publication: 2023-10-17 22:40:21 UTC
+* Number of recursive dependencies: 101
-Run `revdepcheck::cloud_details(, "braidReports")` for more info
+Run `revdepcheck::cloud_details(, "cartograflow")` for more info
@@ -2801,40 +1675,40 @@ Run `revdepcheck::cloud_details(, "braidReports")` for more info
* checking examples ... ERROR
```
- Running examples in ‘braidReports-Ex.R’ failed
+ Running examples in ‘cartograflow-Ex.R’ failed
The error most likely occurred in:
- > ### Name: makeBRAIDreport
- > ### Title: Make a BRAID Report Page
- > ### Aliases: makeBRAIDreport
- > ### Keywords: hplot
+ > ### Name: flowgini
+ > ### Title: Analysis of flow concentration (Gini coefficient)
+ > ### Aliases: flowgini
>
> ### ** Examples
>
+ > library(cartograflow)
...
- 22. │ └─grid::convertUnit(short, "cm", valueOnly = TRUE)
- 23. │ ├─grid:::upgradeUnit(x)
- 24. │ └─grid:::upgradeUnit.default(x)
- 25. │ └─base::stop("Not a unit object")
- 26. └─base::.handleSimpleError(``, "Not a unit object", base::quote(upgradeUnit.default(x)))
- 27. └─rlang (local) h(simpleError(msg, call))
- 28. └─handlers[[1L]](cnd)
- 29. └─cli::cli_abort(...)
- 30. └─rlang::abort(...)
+ ℹ Use `flowcum` instead.
+ Warning: Use of `x$linkcum` is discouraged.
+ ℹ Use `linkcum` instead.
+ Warning: Use of `x$flowcum` is discouraged.
+ ℹ Use `flowcum` instead.
+ Warning: Use of `x$flowcum` is discouraged.
+ ℹ Use `flowcum` instead.
+ Error in pm[[2]] : subscript out of bounds
+ Calls: flowgini ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list
Execution halted
```
-# BRcal
+# cats
-* Version: 0.0.4
-* GitHub: https://github.com/apguthrie/BRcal
-* Source code: https://github.com/cran/BRcal
-* Date/Publication: 2024-06-25 11:30:08 UTC
-* Number of recursive dependencies: 116
+* Version: 1.0.2
+* GitHub: NA
+* Source code: https://github.com/cran/cats
+* Date/Publication: 2022-03-11 10:20:07 UTC
+* Number of recursive dependencies: 83
-Run `revdepcheck::cloud_details(, "BRcal")` for more info
+Run `revdepcheck::cloud_details(, "cats")` for more info
@@ -2842,77 +1716,84 @@ Run `revdepcheck::cloud_details(, "BRcal")` for more info
* checking examples ... ERROR
```
- Running examples in ‘BRcal-Ex.R’ failed
+ Running examples in ‘cats-Ex.R’ failed
The error most likely occurred in:
- > ### Name: lineplot
- > ### Title: Lineplot for LLO-adjusted Probability Predictions
- > ### Aliases: lineplot
+ > ### Name: trial_ocs
+ > ### Title: Calculates the operating characteristics of the cohort trial
+ > ### Aliases: trial_ocs
>
> ### ** Examples
>
>
...
- > # Simulated 100 binary event outcomes using x
- > y <- rbinom(100, 1, x) # By construction, x is well calibrated.
- >
- > # Lineplot show change in probabilities from original to MLE-recalibration to
- > # specified Levels of Boldness-Recalibration via t_levels
- > # Return a list with dataframe used to construct plot with return_df=TRUE
- > lp1 <- lineplot(x, y, t_levels=c(0.98, 0.95), return_df=TRUE)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: lineplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ + safety_prob = safety_prob, Bayes_Sup1 = Bayes_Sup1, Bayes_Sup2 = Bayes_Sup2,
+ + cohort_offset = cohort_offset, sr_first_pos = sr_first_pos,
+ + missing_prob = missing_prob, cohort_fixed = cohort_fixed, accrual_type = accrual_type,
+ + accrual_param = accrual_param, hist_lag = hist_lag, analysis_times = analysis_times,
+ + time_trend = time_trend, cohorts_start = cohorts_start, cohorts_sim = cohorts_sim,
+ + iter = 2, coresnum = 1, save = FALSE, ret_list = TRUE, plot_ocs = TRUE
+ + )
+ Error in pm[[2]] : subscript out of bounds
+ Calls: trial_ocs -> -> ggplotly.ggplot -> gg2list
Execution halted
```
-* checking running R code from vignettes ... ERROR
+## In both
+
+* checking dependencies in R code ... NOTE
```
- Errors in running code in vignettes:
- when running code in ‘hockey_vignette.Rmd’
- ...
- [841] 0.4804441 0.7670617 0.4668403 0.4104682 0.6058493 0.4249086 0.6581869
- [848] 0.7194199 0.4534938 0.7421488 0.6726924 0.3255808 0.5005185 0.6483056
- [855] 0.7210362 0.6593455 0.4586214 0.7750603 0.5841900 0.4826292 0.4080026
- [862] 0.6701504 0.6561462 0.4814185 0.7421488 0.6786381 0.3255808 0.4814569
-
- > lineplot(hockey$x, hockey$y)
-
- When sourcing ‘hockey_vignette.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘hockey_vignette.Rmd’ using ‘UTF-8’... failed
+ Namespaces in Imports field not imported from:
+ ‘epitools’ ‘forcats’ ‘purrr’
+ All declared Imports should be used.
```
-* checking re-building of vignette outputs ... NOTE
+# cellularautomata
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/cellularautomata
+* Date/Publication: 2024-11-20 19:10:06 UTC
+* Number of recursive dependencies: 72
+
+Run `revdepcheck::cloud_details(, "cellularautomata")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ... ERROR
```
- Error(s) in re-building vignettes:
+ Errors in running code in vignettes:
+ when running code in ‘basic-usage.Rmd’
...
- --- re-building ‘hockey_vignette.Rmd’ using rmarkdown
- Quitting from lines 180-181 [unnamed-chunk-11] (hockey_vignette.Rmd)
- Error: processing vignette 'hockey_vignette.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘hockey_vignette.Rmd’
+ > plot(ca(45))
- SUMMARY: processing the following file failed:
- ‘hockey_vignette.Rmd’
+ > plot(ca(195))
- Error: Vignette re-building failed.
+ > plot(ca(30, ncols = 20, steps = 30), animate = TRUE)
+
+ When sourcing ‘basic-usage.R’:
+ Error: argument "theme" is missing, with no default
Execution halted
+
+ ‘basic-usage.Rmd’ using ‘UTF-8’... failed
```
-# breathtestcore
+# cheem
-* Version: 0.8.7
-* GitHub: https://github.com/dmenne/breathtestcore
-* Source code: https://github.com/cran/breathtestcore
-* Date/Publication: 2024-01-24 15:02:47 UTC
-* Number of recursive dependencies: 130
+* Version: 0.4.0.0
+* GitHub: https://github.com/nspyrison/cheem
+* Source code: https://github.com/cran/cheem
+* Date/Publication: 2023-11-08 21:30:02 UTC
+* Number of recursive dependencies: 151
-Run `revdepcheck::cloud_details(, "breathtestcore")` for more info
+Run `revdepcheck::cloud_details(, "cheem")` for more info
@@ -2920,40 +1801,61 @@ Run `revdepcheck::cloud_details(, "breathtestcore")` for more info
* checking tests ... ERROR
```
- Running ‘test-all.R’
- Running the tests in ‘tests/test-all.R’ failed.
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- >
- > options(Ncpus = parallelly::availableCores(omit = 1))
- > test_check("breathtestcore")
- Loading required package: breathtestcore
- Starting 1 test process
- [ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ]
- ...
- `expected`: 10
- ── Failure ('test_plot_breathtestfit.R:81:3'): Plot multiple groups data only (no fit) ──
- length(p) (`actual`) not equal to length(ggplot()) (`expected`).
-
- `actual`: 11
- `expected`: 10
+ > library(cheem)
+ --------------------------------------------------------
+ cheem --- version 0.4.0.0
+ Please share bugs, suggestions, and feature requests at:
+ https://github.com/nspyrison/cheem/issues/
+ --------------------------------------------------------
+ ...
+ 13. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...)
+ 14. │ │ └─base::stopifnot(is.list(x), is.list(val))
+ 15. │ └─x %||% list()
+ 16. ├─plotly::ggplotly(...)
+ 17. └─plotly:::ggplotly.ggplot(...)
+ 18. └─plotly::gg2list(...)
- [ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ]
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ]
Error: Test failures
Execution halted
```
-# brolgar
+## In both
+
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘getting-started-with-cheem.Rmd’
+ ...
+
+ > knitr::opts_chunk$set(echo = TRUE, include = TRUE,
+ + results = "show", eval = FALSE, message = FALSE, warning = FALSE,
+ + error = FALSE, co .... [TRUNCATED]
+
+ > knitr::include_graphics("../inst/shiny_apps/cheem/www/lime_nonlinear.png")
+
+ When sourcing ‘getting-started-with-cheem.R’:
+ Error: Cannot find the file(s): "../inst/shiny_apps/cheem/www/lime_nonlinear.png"
+ Execution halted
+
+ ‘getting-started-with-cheem.Rmd’ using ‘UTF-8’... failed
+ ```
+
+# CHOIRBM
-* Version: 1.0.1
-* GitHub: https://github.com/njtierney/brolgar
-* Source code: https://github.com/cran/brolgar
-* Date/Publication: 2024-05-10 14:50:34 UTC
-* Number of recursive dependencies: 101
+* Version: 0.0.2
+* GitHub: https://github.com/emcramer/CHOIRBM
+* Source code: https://github.com/cran/CHOIRBM
+* Date/Publication: 2021-02-15 16:50:11 UTC
+* Number of recursive dependencies: 64
-Run `revdepcheck::cloud_details(, "brolgar")` for more info
+Run `revdepcheck::cloud_details(, "CHOIRBM")` for more info
@@ -2961,82 +1863,71 @@ Run `revdepcheck::cloud_details(, "brolgar")` for more info
* checking examples ... ERROR
```
- Running examples in ‘brolgar-Ex.R’ failed
+ Running examples in ‘CHOIRBM-Ex.R’ failed
The error most likely occurred in:
- > ### Name: facet_sample
- > ### Title: Facet data into groups to facilitate exploration
- > ### Aliases: facet_sample
+ > ### Name: plot_female_choirbm
+ > ### Title: Plot the male CHOIR Body Map
+ > ### Aliases: plot_female_choirbm
>
> ### ** Examples
>
- > library(ggplot2)
- > ggplot(heights,
- + aes(x = year,
- + y = height_cm,
- + group = country)) +
- + geom_line() +
- + facet_sample()
- Error in if (params$as.table) { : argument is of length zero
- Calls: ... -> setup -> -> compute_layout
+ > cbm_df <- gen_example_data()
+ > plot_female_choirbm(cbm_df, "value")
+ Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", :
+ EXPR must be a length 1 vector
+ Calls: ... -> assemble -> -> package_box -> %||%
Execution halted
```
-## In both
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘exploratory-modelling.Rmd’
+ when running code in ‘plot-one-patient.Rmd’
...
- Warning in is.na(non_null_default_aes[[aes_param_name]]) :
- is.na() applied to non-(list or vector) of type 'language'
+ 3 103 Front 1
+ 4 104 Front 1
+ 5 105 Front 0
+ 6 106 Front 0
- When sourcing ‘exploratory-modelling.R’:
- Error: ℹ In index: 1.
- ℹ With name: geom_line.
- Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[
- ...
- Error: argument is of length zero
+ > plot_male_choirbm(cbm_df, "value")
+
+ When sourcing ‘plot-one-patient.R’:
+ Error: EXPR must be a length 1 vector
Execution halted
- ‘exploratory-modelling.Rmd’ using ‘UTF-8’... failed
- ‘finding-features.Rmd’ using ‘UTF-8’... failed
- ‘getting-started.Rmd’ using ‘UTF-8’... failed
- ‘id-interesting-obs.Rmd’ using ‘UTF-8’... OK
- ‘longitudinal-data-structures.Rmd’ using ‘UTF-8’... OK
- ‘mixed-effects-models.Rmd’ using ‘UTF-8’... failed
- ‘visualisation-gallery.Rmd’ using ‘UTF-8’... failed
+ ‘plot-one-patient.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘exploratory-modelling.Rmd’ using rmarkdown
+ ...
+ --- re-building ‘plot-one-patient.Rmd’ using rmarkdown
- Quitting from lines 47-56 [use-gg-highlight] (exploratory-modelling.Rmd)
- Error: processing vignette 'exploratory-modelling.Rmd' failed with diagnostics:
- ℹ In index: 1.
- ℹ With name: geom_line.
- Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[
- aes_param_name]])`:
- ! 'length = 2' in coercion to 'logical(1)'
- --- failed re-building ‘exploratory-modelling.Rmd’
+ Quitting from lines 36-37 [plot1] (plot-one-patient.Rmd)
+ Error: processing vignette 'plot-one-patient.Rmd' failed with diagnostics:
+ EXPR must be a length 1 vector
+ --- failed re-building ‘plot-one-patient.Rmd’
- --- re-building ‘finding-features.Rmd’ using rmarkdown
+ SUMMARY: processing the following file failed:
+ ‘plot-one-patient.Rmd’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
-# calibrationband
+# choroplethr
-* Version: 0.2.1
-* GitHub: https://github.com/marius-cp/calibrationband
-* Source code: https://github.com/cran/calibrationband
-* Date/Publication: 2022-08-09 14:40:02 UTC
-* Number of recursive dependencies: 38
+* Version: 3.7.3
+* GitHub: NA
+* Source code: https://github.com/cran/choroplethr
+* Date/Publication: 2024-03-02 00:52:36 UTC
+* Number of recursive dependencies: 126
-Run `revdepcheck::cloud_details(, "calibrationband")` for more info
+Run `revdepcheck::cloud_details(, "choroplethr")` for more info
@@ -3044,40 +1935,47 @@ Run `revdepcheck::cloud_details(, "calibrationband")` for more info
* checking examples ... ERROR
```
- Running examples in ‘calibrationband-Ex.R’ failed
+ Running examples in ‘choroplethr-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot.calibrationband
- > ### Title: Plotting monotone confidence bands
- > ### Aliases: plot.calibrationband autoplot.calibrationband
- > ### autolayer.calibrationband
+ > ### Name: country_choropleth
+ > ### Title: Create a country-level choropleth
+ > ### Aliases: country_choropleth
>
> ### ** Examples
>
+ > # demonstrate default options
...
- > p <- function(x,s){p = 1/(1+((1/x*(1-x))^(s+1)));return(p)}
- > dat <- data.frame(pr=x, y=rbinom(n,1,p(x,s)))
+ The following regions were missing and are being set to NA: namibia, western sahara, taiwan, antarctica, kosovo
>
- > cb <- calibration_bands(x=dat$pr, y=dat$y,alpha=0.05, method="round", digits =3)
- >
- > #simple plotting
- > plot(cb)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > # demonstrate continuous scale
+ > country_choropleth(df_pop_country, "2012 World Bank Populate Estimates", num_colors=1)
+ Warning in self$bind() :
+ The following regions were missing and are being set to NA: namibia, western sahara, taiwan, antarctica, kosovo
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "#eff3ff", high = "#084594")
+ Calls: country_choropleth ... -> -> scale_fill_continuous
Execution halted
```
-# cartograflow
+## In both
+
+* checking data for non-ASCII characters ... NOTE
+ ```
+ Note: found 10 marked UTF-8 strings
+ ```
+
+# chronicle
-* Version: 1.0.5
-* GitHub: https://github.com/fbahoken/cartogRaflow
-* Source code: https://github.com/cran/cartograflow
-* Date/Publication: 2023-10-17 22:40:21 UTC
-* Number of recursive dependencies: 102
+* Version: 0.3
+* GitHub: NA
+* Source code: https://github.com/cran/chronicle
+* Date/Publication: 2021-06-25 05:00:02 UTC
+* Number of recursive dependencies: 145
-Run `revdepcheck::cloud_details(, "cartograflow")` for more info
+Run `revdepcheck::cloud_details(, "chronicle")` for more info
@@ -3085,106 +1983,80 @@ Run `revdepcheck::cloud_details(, "cartograflow")` for more info
* checking examples ... ERROR
```
- Running examples in ‘cartograflow-Ex.R’ failed
+ Running examples in ‘chronicle-Ex.R’ failed
The error most likely occurred in:
- > ### Name: flowgini
- > ### Title: Analysis of flow concentration (Gini coefficient)
- > ### Aliases: flowgini
+ > ### Name: make_barplot
+ > ### Title: Create a bar plot from a data frame through ggplotly
+ > ### Aliases: make_barplot
>
> ### ** Examples
>
- > library(cartograflow)
- ...
- ℹ Use `flowcum` instead.
- Warning: Use of `x$linkcum` is discouraged.
- ℹ Use `linkcum` instead.
- Warning: Use of `x$flowcum` is discouraged.
- ℹ Use `flowcum` instead.
- Warning: Use of `x$flowcum` is discouraged.
- ℹ Use `flowcum` instead.
+ > make_barplot(dt = iris, bars = 'Species', value = 'Sepal.Length')
Error in pm[[2]] : subscript out of bounds
- Calls: flowgini ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list
+ Calls: make_barplot -> -> ggplotly.ggplot -> gg2list
Execution halted
```
-# cases
-
-
-
-* Version: 0.1.1
-* GitHub: https://github.com/maxwestphal/cases
-* Source code: https://github.com/cran/cases
-* Date/Publication: 2023-05-18 08:30:02 UTC
-* Number of recursive dependencies: 129
-
-Run `revdepcheck::cloud_details(, "cases")` for more info
-
-
-
-## Newly broken
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘example_wdbc.Rmd’
+ when running code in ‘chronicle.Rmd’
...
- 13 TRUE FALSE
- 14 FALSE FALSE
- 15 FALSE FALSE
-
-
- > visualize(results_bm)
-
- ...
- + regu = TRU .... [TRUNCATED]
+ + filename = "quick_demo", title = "A quick chronicle demo",
+ + author = .... [TRUNCATED]
- > visualize(results_comp)
+ Quitting from lines 34-46 [unnamed-chunk-3] (quick_demo.Rmd)
- When sourcing ‘package_overview.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘chronicle.R’:
+ Error: ℹ In index: 1.
+ Caused by error in `pm[[2]]`:
+ ! subscript out of bounds
Execution halted
- ‘example_wdbc.Rmd’ using ‘UTF-8’... failed
- ‘package_overview.Rmd’ using ‘UTF-8’... failed
+ ‘chronicle.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘example_wdbc.Rmd’ using rmarkdown
- data_wdbc package:cases R Documentation
-
- _B_r_e_a_s_t _C_a_n_c_e_r _W_i_s_c_o_n_s_i_n (_D_i_a_g_n_o_s_t_i_c) _D_a_t_a _S_e_t
-
- _D_e_s_c_r_i_p_t_i_o_n:
+ ...
+ --- re-building ‘chronicle.Rmd’ using rmarkdown
- Dataset documentation can be found at the source website and
- references below.
- ...
- Quitting from lines 160-168 [viz_comp] (package_overview.Rmd)
- Error: processing vignette 'package_overview.Rmd' failed with diagnostics:
- invalid line type: must be length 2, 4, 6 or 8
- --- failed re-building ‘package_overview.Rmd’
+ Quitting from lines 38-67 [unnamed-chunk-3] (chronicle.Rmd)
+ Error: processing vignette 'chronicle.Rmd' failed with diagnostics:
+ ℹ In index: 1.
+ Caused by error in `pm[[2]]`:
+ ! subscript out of bounds
+ --- failed re-building ‘chronicle.Rmd’
- SUMMARY: processing the following files failed:
- ‘example_wdbc.Rmd’ ‘package_overview.Rmd’
+ SUMMARY: processing the following file failed:
+ ‘chronicle.Rmd’
Error: Vignette re-building failed.
Execution halted
```
-# cats
+## In both
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’
+ All declared Imports should be used.
+ ```
+
+# clinDataReview
-* Version: 1.0.2
-* GitHub: NA
-* Source code: https://github.com/cran/cats
-* Date/Publication: 2022-03-11 10:20:07 UTC
-* Number of recursive dependencies: 83
+* Version: 1.6.1
+* GitHub: https://github.com/openanalytics/clinDataReview
+* Source code: https://github.com/cran/clinDataReview
+* Date/Publication: 2024-06-18 09:10:05 UTC
+* Number of recursive dependencies: 120
-Run `revdepcheck::cloud_details(, "cats")` for more info
+Run `revdepcheck::cloud_details(, "clinDataReview")` for more info
@@ -3192,297 +2064,269 @@ Run `revdepcheck::cloud_details(, "cats")` for more info
* checking examples ... ERROR
```
- Running examples in ‘cats-Ex.R’ failed
+ Running examples in ‘clinDataReview-Ex.R’ failed
The error most likely occurred in:
- > ### Name: trial_ocs
- > ### Title: Calculates the operating characteristics of the cohort trial
- > ### Aliases: trial_ocs
+ > ### Name: scatterplotClinData
+ > ### Title: Scatterplot of variables of interest for clinical data
+ > ### visualization.
+ > ### Aliases: scatterplotClinData
>
> ### ** Examples
>
- >
...
- + safety_prob = safety_prob, Bayes_Sup1 = Bayes_Sup1, Bayes_Sup2 = Bayes_Sup2,
- + cohort_offset = cohort_offset, sr_first_pos = sr_first_pos,
- + missing_prob = missing_prob, cohort_fixed = cohort_fixed, accrual_type = accrual_type,
- + accrual_param = accrual_param, hist_lag = hist_lag, analysis_times = analysis_times,
- + time_trend = time_trend, cohorts_start = cohorts_start, cohorts_sim = cohorts_sim,
- + iter = 2, coresnum = 1, save = FALSE, ret_list = TRUE, plot_ocs = TRUE
+ + data = dataPlot,
+ + xVar = "ADY",
+ + yVar = "LBSTRESN",
+ + aesPointVar = list(color = "TRTP", fill = "TRTP"),
+ + aesLineVar = list(group = "USUBJID", color = "TRTP"),
+ + labelVars = labelVars
+ )
Error in pm[[2]] : subscript out of bounds
- Calls: trial_ocs -> -> ggplotly.ggplot -> gg2list
+ Calls: scatterplotClinData -> ggplotly -> ggplotly.ggplot -> gg2list
Execution halted
```
-## In both
-
-* checking dependencies in R code ... NOTE
- ```
- Namespaces in Imports field not imported from:
- ‘epitools’ ‘forcats’ ‘purrr’
- All declared Imports should be used.
- ```
-
-# ceterisParibus
-
-
-
-* Version: 0.4.2
-* GitHub: https://github.com/pbiecek/ceterisParibus
-* Source code: https://github.com/cran/ceterisParibus
-* Date/Publication: 2020-03-28 03:10:02 UTC
-* Number of recursive dependencies: 80
-
-Run `revdepcheck::cloud_details(, "ceterisParibus")` for more info
-
-
-
-## Newly broken
-
* checking tests ... ERROR
```
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(ceterisParibus)
- Loading required package: ggplot2
- Loading required package: gower
+ > library(clinDataReview)
>
- > test_check("ceterisParibus")
- Welcome to DALEX (version: 2.4.3).
+ > test_check("clinDataReview")
+ adding: report.html (deflated 63%)
+ adding: report_dependencies199d5ce3be09/ (stored 0%)
+ adding: report_dependencies199d5ce3be09/file199d49e80eed.html (deflated 8%)
...
- 5. └─ceterisParibus:::plot_interactive.what_if_explainer(wi_rf_all)
- 6. └─ggplot2:::`+.gg`(...)
- 7. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 8. ├─ggplot2::ggplot_add(object, p, objectname)
- 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 10. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ Backtrace:
+ ▆
+ 1. └─clinDataReview::scatterplotClinData(...) at test_scatterplotClinData.R:1001:3
+ 2. ├─plotly::ggplotly(p = gg, width = width, height = height, tooltip = if (!is.null(hoverVars)) "text")
+ 3. └─plotly:::ggplotly.ggplot(...)
+ 4. └─plotly::gg2list(...)
- [ FAIL 1 | WARN 3 | SKIP 0 | PASS 29 ]
+ [ FAIL 31 | WARN 0 | SKIP 31 | PASS 466 ]
Error: Test failures
Execution halted
```
-## In both
-
-* checking dependencies in R code ... NOTE
+* checking re-building of vignette outputs ... NOTE
```
- Namespace in Imports field not imported from: ‘knitr’
- All declared Imports should be used.
+ Error(s) in re-building vignettes:
+ ...
+ --- re-building ‘clinDataReview-dataPreprocessing.Rmd’ using rmarkdown
+ --- finished re-building ‘clinDataReview-dataPreprocessing.Rmd’
+
+ --- re-building ‘clinDataReview-dataVisualization.Rmd’ using rmarkdown
+
+ Quitting from lines 167-208 [timeProfiles] (clinDataReview-dataVisualization.Rmd)
+ Error: processing vignette 'clinDataReview-dataVisualization.Rmd' failed with diagnostics:
+ subscript out of bounds
+ ...
+ --- failed re-building ‘clinDataReview-dataVisualization.Rmd’
+
+ --- re-building ‘clinDataReview-reporting.Rmd’ using rmarkdown
+ --- finished re-building ‘clinDataReview-reporting.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘clinDataReview-dataVisualization.Rmd’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
-* checking LazyData ... NOTE
+## In both
+
+* checking installed package size ... NOTE
```
- 'LazyData' is specified without a 'data' directory
+ installed size is 5.8Mb
+ sub-directories of 1Mb or more:
+ doc 4.3Mb
```
-# cfda
+# clinUtils
-* Version: 0.11.0
-* GitHub: https://github.com/modal-inria/cfda
-* Source code: https://github.com/cran/cfda
-* Date/Publication: 2023-10-07 15:50:05 UTC
-* Number of recursive dependencies: 98
+* Version: 0.2.0
+* GitHub: https://github.com/openanalytics/clinUtils
+* Source code: https://github.com/cran/clinUtils
+* Date/Publication: 2024-05-17 14:50:06 UTC
+* Number of recursive dependencies: 110
-Run `revdepcheck::cloud_details(, "cfda")` for more info
+Run `revdepcheck::cloud_details(, "clinUtils")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking running R code from vignettes ... ERROR
```
- Running examples in ‘cfda-Ex.R’ failed
- The error most likely occurred in:
+ Errors in running code in vignettes:
+ when running code in ‘clinUtils-vignette.Rmd’
+ ...
- > ### Name: compute_duration
- > ### Title: Compute duration of individuals
- > ### Aliases: compute_duration
- >
- > ### ** Examples
- >
- > # Simulate the Jukes-Cantor model of nucleotide replacement
- ...
- > d_JK <- generate_Markov(n = 10, K = K, P = PJK, lambda = lambda_PJK, Tmax = 10)
- >
- >
- > # compute duration of each individual
- > duration <- compute_duration(d_JK)
- >
- > hist(duration)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: hist ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ layout
+
+
+ > listPlotsInteractiveLB <- sapply(listPlotsLB, function(ggplot) ggplotly(ggplot) %>%
+ + partial_bundle(), simplify = FALSE)
+
+ When sourcing ‘clinUtils-vignette.R’:
+ Error: subscript out of bounds
Execution halted
+
+ ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed
```
-* checking tests ... ERROR
+* checking re-building of vignette outputs ... NOTE
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(cfda)
- Loading required package: fda
- Loading required package: splines
- Loading required package: fds
- Loading required package: rainbow
- Loading required package: MASS
- ...
- 7. └─cfda:::hist.njump(njump)
- 8. └─ggplot2:::`+.gg`(...)
- 9. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 10. ├─ggplot2::ggplot_add(object, p, objectname)
- 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 12. └─ggplot2:::new_layer_names(object, names(plot$layers))
-
- [ FAIL 2 | WARN 1 | SKIP 12 | PASS 351 ]
- Error: Test failures
- Execution halted
+ Error(s) in re-building vignettes:
+ --- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown
```
-* checking running R code from vignettes ... ERROR
+## Newly fixed
+
+* checking running R code from vignettes ... WARNING
```
Errors in running code in vignettes:
- when running code in ‘cfda.Rmd’
+ when running code in ‘clinUtils-vignette.Rmd’
...
- > head(nJump)
- 1 2 3 4 5 6
- 17 9 3 13 10 13
- > hist(nJump)
- When sourcing ‘cfda.R’:
- Error: argument is of length zero
+
+
+ Quitting from lines 2-4 [lab-hist-interactive1]
+
+ When sourcing ‘clinUtils-vignette.R’:
+ Error: there is no package called 'webshot'
Execution halted
- ‘cfda.Rmd’ using ‘UTF-8’... failed
+ ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed
```
-* checking re-building of vignette outputs ... NOTE
+## In both
+
+* checking installed package size ... NOTE
```
- Error(s) in re-building vignettes:
- --- re-building ‘cfda.Rmd’ using rmarkdown
+ installed size is 7.7Mb
+ sub-directories of 1Mb or more:
+ doc 6.5Mb
```
-# cheem
+# ClusROC
-* Version: 0.4.0.0
-* GitHub: https://github.com/nspyrison/cheem
-* Source code: https://github.com/cran/cheem
-* Date/Publication: 2023-11-08 21:30:02 UTC
-* Number of recursive dependencies: 153
+* Version: 1.0.2
+* GitHub: https://github.com/toduckhanh/ClusROC
+* Source code: https://github.com/cran/ClusROC
+* Date/Publication: 2022-11-17 15:00:02 UTC
+* Number of recursive dependencies: 113
-Run `revdepcheck::cloud_details(, "cheem")` for more info
+Run `revdepcheck::cloud_details(, "ClusROC")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking whether package ‘ClusROC’ can be installed ... WARNING
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(cheem)
- --------------------------------------------------------
- cheem --- version 0.4.0.0
- Please share bugs, suggestions, and feature requests at:
- https://github.com/nspyrison/cheem/issues/
- --------------------------------------------------------
- ...
- 13. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...)
- 14. │ │ └─base::stopifnot(is.list(x), is.list(val))
- 15. │ └─x %||% list()
- 16. ├─plotly::ggplotly(...)
- 17. └─plotly:::ggplotly.ggplot(...)
- 18. └─plotly::gg2list(...)
-
- [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ]
- Error: Test failures
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘ClusROC’
+ See ‘/tmp/workdir/ClusROC/new/ClusROC.Rcheck/00install.out’ for details.
```
-## In both
+# clustcurv
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘getting-started-with-cheem.Rmd’
+
+
+* Version: 2.0.2
+* GitHub: https://github.com/noramvillanueva/clustcurv
+* Source code: https://github.com/cran/clustcurv
+* Date/Publication: 2024-10-25 08:20:07 UTC
+* Number of recursive dependencies: 109
+
+Run `revdepcheck::cloud_details(, "clustcurv")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘clustcurv.Rmd’
...
+ 2 2 7.480014 0.29
- > knitr::opts_chunk$set(echo = TRUE, include = TRUE,
- + results = "show", eval = FALSE, message = FALSE, warning = FALSE,
- + error = FALSE, co .... [TRUNCATED]
+ Available components:
+ [1] "num_groups" "table" "levels" "cluster" "centers" "curves" "method" "data" "algorithm" "call"
- > knitr::include_graphics("../inst/shiny_apps/cheem/www/lime_nonlinear.png")
+ > autoplot(res, groups_by_colour = FALSE, interactive = TRUE)
- When sourcing ‘getting-started-with-cheem.R’:
- Error: Cannot find the file(s): "../inst/shiny_apps/cheem/www/lime_nonlinear.png"
+ When sourcing ‘clustcurv.R’:
+ Error: subscript out of bounds
Execution halted
- ‘getting-started-with-cheem.Rmd’ using ‘UTF-8’... failed
+ ‘clustcurv.Rmd’ using ‘UTF-8’... failed
+ ```
+
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ ...
+ --- re-building ‘clustcurv.Rmd’ using rmarkdown
+
+ Quitting from lines 93-94 [unnamed-chunk-5] (clustcurv.Rmd)
+ Error: processing vignette 'clustcurv.Rmd' failed with diagnostics:
+ subscript out of bounds
+ --- failed re-building ‘clustcurv.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘clustcurv.Rmd’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
-# chillR
+# clustEff
-* Version: 0.75
+* Version: 0.3.1
* GitHub: NA
-* Source code: https://github.com/cran/chillR
-* Date/Publication: 2023-11-27 22:20:02 UTC
-* Number of recursive dependencies: 138
+* Source code: https://github.com/cran/clustEff
+* Date/Publication: 2024-01-23 08:52:55 UTC
+* Number of recursive dependencies: 128
-Run `revdepcheck::cloud_details(, "chillR")` for more info
+Run `revdepcheck::cloud_details(, "clustEff")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking whether package ‘clustEff’ can be installed ... WARNING
```
- Running examples in ‘chillR-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: plot_scenarios
- > ### Title: Plot historic and future scenarios for climate-related metrics
- > ### ('ggplot2' version)
- > ### Aliases: plot_scenarios
- >
- > ### ** Examples
- >
- ...
- >
- > # Plot the climate scenarios
- >
- > plot_scenarios(climate_scenario_list, metric = 'Chill_Portions',
- + add_historic = TRUE, size = 2, shape = 3, color = 'blue',
- + outlier_shape = 12, historic_color = 'skyblue',
- + group_by = c("Year", "Scenario"))
- Error in identicalUnits(x) : object is not a unit
- Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘clustEff’
+ See ‘/tmp/workdir/clustEff/new/clustEff.Rcheck/00install.out’ for details.
```
-# chronicle
+# cnmap
-* Version: 0.3
-* GitHub: NA
-* Source code: https://github.com/cran/chronicle
-* Date/Publication: 2021-06-25 05:00:02 UTC
-* Number of recursive dependencies: 146
+* Version: 0.1.0
+* GitHub: https://github.com/PanfengZhang/cnmap
+* Source code: https://github.com/cran/cnmap
+* Date/Publication: 2024-04-02 12:42:06 UTC
+* Number of recursive dependencies: 61
-Run `revdepcheck::cloud_details(, "chronicle")` for more info
+Run `revdepcheck::cloud_details(, "cnmap")` for more info
@@ -3490,80 +2334,120 @@ Run `revdepcheck::cloud_details(, "chronicle")` for more info
* checking examples ... ERROR
```
- Running examples in ‘chronicle-Ex.R’ failed
+ Running examples in ‘cnmap-Ex.R’ failed
The error most likely occurred in:
- > ### Name: make_barplot
- > ### Title: Create a bar plot from a data frame through ggplotly
- > ### Aliases: make_barplot
+ > ### Name: getMap
+ > ### Title: China Map Data from AutoNavi Map
+ > ### Aliases: getMap
>
> ### ** Examples
>
- > make_barplot(dt = iris, bars = 'Species', value = 'Sepal.Length')
- Error in pm[[2]] : subscript out of bounds
- Calls: make_barplot -> -> ggplotly.ggplot -> gg2list
+ > library(cnmap)
+ >
+ > map1 <- getMap(code = "110000") # get the map data of Beijing City
+ Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, :
+ package tibble not available: install first?
+ Calls: getMap ... st_read -> st_read.character -> process_cpl_read_ogr
Execution halted
```
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘chronicle.Rmd’
+ when running code in ‘Introduction.Rmd’
...
- + filename = "quick_demo", title = "A quick chronicle demo",
- + author = .... [TRUNCATED]
+ > library(sf)
+ Linking to GEOS 3.12.1, GDAL 3.8.4, PROJ 9.4.0; sf_use_s2() is TRUE
- Quitting from lines 34-46 [unnamed-chunk-3] (quick_demo.Rmd)
+ > library(cnmap)
- When sourcing ‘chronicle.R’:
- Error: ℹ In index: 1.
- Caused by error in `pm[[2]]`:
- ! subscript out of bounds
+ > map1 <- getMap(name = "中国")
+
+ When sourcing ‘Introduction.R’:
+ Error: package tibble not available: install first?
Execution halted
- ‘chronicle.Rmd’ using ‘UTF-8’... failed
+ ‘Introduction.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
...
- --- re-building ‘chronicle.Rmd’ using rmarkdown
+ --- re-building ‘Introduction.Rmd’ using rmarkdown
- Quitting from lines 38-67 [unnamed-chunk-3] (chronicle.Rmd)
- Error: processing vignette 'chronicle.Rmd' failed with diagnostics:
- ℹ In index: 1.
- Caused by error in `pm[[2]]`:
- ! subscript out of bounds
- --- failed re-building ‘chronicle.Rmd’
+ Quitting from lines 29-35 [unnamed-chunk-3] (Introduction.Rmd)
+ Error: processing vignette 'Introduction.Rmd' failed with diagnostics:
+ package tibble not available: install first?
+ --- failed re-building ‘Introduction.Rmd’
SUMMARY: processing the following file failed:
- ‘chronicle.Rmd’
+ ‘Introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
```
-## In both
+# coda4microbiome
-* checking dependencies in R code ... NOTE
+
+
+* Version: 0.2.4
+* GitHub: https://github.com/malucalle/coda4microbiome
+* Source code: https://github.com/cran/coda4microbiome
+* Date/Publication: 2024-07-17 15:50:02 UTC
+* Number of recursive dependencies: 130
+
+Run `revdepcheck::cloud_details(, "coda4microbiome")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
```
- Namespaces in Imports field not imported from:
- ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’
- All declared Imports should be used.
+ Running examples in ‘coda4microbiome-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: plot_survcurves
+ > ### Title: plot_survcurves
+ > ### Aliases: plot_survcurves
+ >
+ > ### ** Examples
+ >
+ >
+ ...
+ + time,
+ + status,
+ + strata.quantile = 0.5)
+ Warning: Ignoring unknown labels:
+ • `linetype = "1"`
+ Warning: Ignoring unknown labels:
+ • `linetype = "1"`
+ Error in theme + adjust : non-numeric argument to binary operator
+ Calls: ... -> assemble -> -> package_box -> %||%
+ Execution halted
+ ```
+
+* checking whether package ‘coda4microbiome’ can be installed ... WARNING
+ ```
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘coda4microbiome’
+ See ‘/tmp/workdir/coda4microbiome/new/coda4microbiome.Rcheck/00install.out’ for details.
```
-# CINNA
+# codaredistlm
-* Version: 1.2.2
-* GitHub: NA
-* Source code: https://github.com/cran/CINNA
-* Date/Publication: 2023-08-08 16:40:02 UTC
-* Number of recursive dependencies: 140
+* Version: 0.1.0
+* GitHub: https://github.com/tystan/codaredistlm
+* Source code: https://github.com/cran/codaredistlm
+* Date/Publication: 2022-12-22 19:50:06 UTC
+* Number of recursive dependencies: 66
-Run `revdepcheck::cloud_details(, "CINNA")` for more info
+Run `revdepcheck::cloud_details(, "codaredistlm")` for more info
@@ -3571,89 +2455,152 @@ Run `revdepcheck::cloud_details(, "CINNA")` for more info
* checking examples ... ERROR
```
- Running examples in ‘CINNA-Ex.R’ failed
+ Running examples in ‘codaredistlm-Ex.R’ failed
The error most likely occurred in:
- > ### Name: pca_centralities
- > ### Title: PCA Centrality Measures
- > ### Aliases: pca_centralities
+ > ### Name: plot_delta_comp
+ > ### Title: Plot redistributed time-use predictions from compositional ilr
+ > ### multiple linear regression model fit
+ > ### Aliases: plot_delta_comp
>
> ### ** Examples
>
- > # Create a data frame with multiple observations
...
- 13. │ └─e1 %+% e2
- 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 15. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 18. └─base::.handleSimpleError(...)
- 19. └─purrr (local) h(simpleError(msg, call))
- 20. └─cli::cli_abort(...)
- 21. └─rlang::abort(...)
- Execution halted
+ | | x|
+ |:----|------:|
+ |0% | 1439.9|
+ |25% | 1440.0|
+ |50% | 1440.0|
+ |75% | 1440.0|
+ |100% | 1440.1|
+ ---
+
+ ---
```
-* checking running R code from vignettes ... ERROR
+# codez
+
+
+
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/codez
+* Date/Publication: 2022-09-23 15:10:02 UTC
+* Number of recursive dependencies: 136
+
+Run `revdepcheck::cloud_details(, "codez")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘codez’ can be installed ... WARNING
```
- Errors in running code in vignettes:
- when running code in ‘CINNA.Rmd’
- ...
- > calc_cent <- calculate_centralities(zachary, include = pr_cent[1:10])
-
- > pca_centralities(calc_cent)
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘codez’
+ See ‘/tmp/workdir/codez/new/codez.Rcheck/00install.out’ for details.
+ ```
+
+# cogmapr
+
+
+
+* Version: 0.9.3
+* GitHub: NA
+* Source code: https://github.com/cran/cogmapr
+* Date/Publication: 2022-01-04 15:40:07 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::cloud_details(, "cogmapr")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘cogmapr-Ex.R’ failed
+ The error most likely occurred in:
- When sourcing ‘CINNA.R’:
- Error: ℹ In index: 1.
- ℹ With name: contrib.
- Caused by error in `if (new_name %in% existing) ...`:
- ! argument is of length zero
+ > ### Name: ggCMap
+ > ### Title: Plot a social cognitive map using ggplot2
+ > ### Aliases: ggCMap
+ >
+ > ### ** Examples
+ >
+ > project_name <- "a_new_project"
+ > main_path <- paste0(system.file("testdata", package = "cogmapr"), '/')
+ > my.project <- ProjectCMap(main_path, project_name)
+ >
+ > df.scm <- data.ggCMap(my.project, edge.filter = "4")
+ > ggCMap(df.scm)
+ Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, :
+ argument 4 matches multiple formal arguments
+ Calls: ggCMap -> scale_colour_discrete
Execution halted
-
- ‘CINNA.Rmd’ using ‘UTF-8’... failed
```
-* checking re-building of vignette outputs ... NOTE
+# CohortConstructor
+
+
+
+* Version: 0.3.4
+* GitHub: https://github.com/OHDSI/CohortConstructor
+* Source code: https://github.com/cran/CohortConstructor
+* Date/Publication: 2025-01-17 14:40:08 UTC
+* Number of recursive dependencies: 160
+
+Run `revdepcheck::cloud_details(, "CohortConstructor")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ... ERROR
```
- Error(s) in re-building vignettes:
+ Errors in running code in vignettes:
+ when running code in ‘a09_combine_cohorts.Rmd’
...
- --- re-building ‘CINNA.Rmd’ using rmarkdown
-
- Quitting from lines 231-234 [unnamed-chunk-11] (CINNA.Rmd)
- Error: processing vignette 'CINNA.Rmd' failed with diagnostics:
- ℹ In index: 1.
- ℹ With name: contrib.
- Caused by error in `if (new_name %in% existing) ...`:
- ! argument is of length zero
- --- failed re-building ‘CINNA.Rmd’
+ downloaded 4.9 MB
- SUMMARY: processing the following file failed:
- ‘CINNA.Rmd’
+ Warning in utils::download.file(url = url, destfile = file.path(pathToData, :
+ downloaded length 0 != reported length 0
+ Warning in utils::download.file(url = url, destfile = file.path(pathToData, :
+ URL 'https://example-data.ohdsi.dev/GiBleed.zip': status was 'Stream error in the HTTP/2 framing layer'
- Error: Vignette re-building failed.
- Execution halted
+ ...
+ ‘a02_cohort_table_requirements.Rmd’ using ‘UTF-8’... OK
+ ‘a03_require_demographics.Rmd’ using ‘UTF-8’... OK
+ ‘a04_require_intersections.Rmd’ using ‘UTF-8’... OK
+ ‘a05_update_cohort_start_end.Rmd’ using ‘UTF-8’... OK
+ ‘a06_concatanate_cohorts.Rmd’ using ‘UTF-8’... OK
+ ‘a07_filter_cohorts.Rmd’ using ‘UTF-8’... OK
+ ‘a08_split_cohorts.Rmd’ using ‘UTF-8’... OK
+ ‘a09_combine_cohorts.Rmd’ using ‘UTF-8’... failed
+ ‘a10_match_cohorts.Rmd’ using ‘UTF-8’... OK
+ ‘a11_benchmark.Rmd’ using ‘UTF-8’... OK
```
## In both
-* checking dependencies in R code ... NOTE
+* checking installed package size ... NOTE
```
- Namespaces in Imports field not imported from:
- ‘circlize’ ‘utils’
- All declared Imports should be used.
+ installed size is 10.1Mb
+ sub-directories of 1Mb or more:
+ doc 9.4Mb
```
-# circhelp
+# CohortPlat
-* Version: 1.1
-* GitHub: https://github.com/achetverikov/circhelp
-* Source code: https://github.com/cran/circhelp
-* Date/Publication: 2024-07-04 17:10:02 UTC
-* Number of recursive dependencies: 106
+* Version: 1.0.5
+* GitHub: NA
+* Source code: https://github.com/cran/CohortPlat
+* Date/Publication: 2022-02-14 09:30:02 UTC
+* Number of recursive dependencies: 82
-Run `revdepcheck::cloud_details(, "circhelp")` for more info
+Run `revdepcheck::cloud_details(, "CohortPlat")` for more info
@@ -3661,103 +2608,137 @@ Run `revdepcheck::cloud_details(, "circhelp")` for more info
* checking examples ... ERROR
```
- Running examples in ‘circhelp-Ex.R’ failed
+ Running examples in ‘CohortPlat-Ex.R’ failed
The error most likely occurred in:
- > ### Name: remove_cardinal_biases
- > ### Title: Remove cardinal biases
- > ### Aliases: remove_cardinal_biases
+ > ### Name: plot_trial
+ > ### Title: Plots the cohort trial study overview given stage data.
+ > ### Aliases: plot_trial
>
> ### ** Examples
>
>
- > # Data in orientation domain from Pascucci et al. (2019, PLOS Bio),
- > # https://doi.org/10.5281/zenodo.2544946
+ ...
+ + stage_data = stage_data, cohort_random = cohort_random, cohorts_max = cohorts_max,
+ + sr_drugs_pos = sr_drugs_pos, target_rr = target_rr, sharing_type = sharing_type,
+ + safety_prob = safety_prob, Bayes_Sup = Bayes_Sup, prob_rr_transform = prob_rr_transform,
+ + cohort_offset = cohort_offset, Bayes_Fut = Bayes_Fut, sr_first_pos = sr_first_pos
+ + )
>
- > ex_data <- Pascucci_et_al_2019_data[observer == 4, ]
- > remove_cardinal_biases(ex_data$err, ex_data$orientation, plots = "show")
- Error in as.unit(value) : object is not coercible to a unit
- Calls: remove_cardinal_biases ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit
+ > plot_trial(res_list, unit = "n")
+ Error in pm[[2]] : subscript out of bounds
+ Calls: plot_trial -> -> ggplotly.ggplot -> gg2list
Execution halted
```
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘cardinal_biases.Rmd’
+ when running code in ‘my-vignette.Rmd’
...
- + 90)) + .... [TRUNCATED]
- > ex_subj_data <- data[observer == 4, ]
+ > set.seed(50)
- > res <- remove_cardinal_biases(ex_subj_data$err, ex_subj_data$orientation,
- + plots = "show")
+ > ocs1 <- trial_ocs(n_int = n_int, n_fin = n_fin, rr_comb = rr_comb,
+ + rr_mono = rr_mono, rr_back = rr_back, rr_plac = rr_plac,
+ + rr_transfo .... [TRUNCATED]
- When sourcing ‘cardinal_biases.R’:
- Error: object is not coercible to a unit
+ When sourcing ‘my-vignette.R’:
+ Error: subscript out of bounds
Execution halted
- ‘cardinal_biases.Rmd’ using ‘UTF-8’... failed
+ ‘my-vignette.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘cardinal_biases.Rmd’ using rmarkdown
+ ...
+ --- re-building ‘my-vignette.Rmd’ using rmarkdown
+
+ Quitting from lines 1043-1073 [unnamed-chunk-20] (my-vignette.Rmd)
+ Error: processing vignette 'my-vignette.Rmd' failed with diagnostics:
+ subscript out of bounds
+ --- failed re-building ‘my-vignette.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘my-vignette.Rmd’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
-# clifro
+# colorrepel
-* Version: 3.2-5
-* GitHub: https://github.com/ropensci/clifro
-* Source code: https://github.com/cran/clifro
-* Date/Publication: 2021-05-24 05:50:02 UTC
-* Number of recursive dependencies: 84
+* Version: 0.4.1
+* GitHub: https://github.com/raysinensis/color_repel
+* Source code: https://github.com/cran/colorrepel
+* Date/Publication: 2025-01-19 04:50:02 UTC
+* Number of recursive dependencies: 89
-Run `revdepcheck::cloud_details(, "clifro")` for more info
+Run `revdepcheck::cloud_details(, "colorrepel")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘spelling.R’
- Running ‘test-all.R’
- Running the tests in ‘tests/test-all.R’ failed.
- Complete output:
- > library(testthat)
- > library(clifro)
- >
- > test_check("clifro")
- [ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ]
-
- ...
- • On CRAN (4): 'test-cf_find_station.R:4:3', 'test-cf_last_query.R:4:3',
- 'test-cf_query.R:4:3', 'test-cf_station.R:4:3'
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Failure ('test-windrose.R:15:3'): windrose ──────────────────────────────────
- tt$labels inherits from `'NULL'` not `'character'`.
-
- [ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ]
- Error: Test failures
- Execution halted
+ Running examples in ‘colorrepel-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: ggplotly_background
+ > ### Title: Prepare ggplot object to ggplotly-compatible layer and image
+ > ### layer
+ > ### Aliases: ggplotly_background
+ >
+ > ### ** Examples
+ >
+ > a <- ggplot2::ggplot(ggplot2::mpg, ggplot2::aes(displ, hwy)) +
+ + ggplot2::geom_point(ggplot2::aes(color = as.factor(cyl)))
+ > new_colors <- color_repel(a)
+ > b <- ggplotly_background(a, filename = NULL)
+ Error in pm[[2]] : subscript out of bounds
+ Calls: ggplotly_background -> -> ggplotly.ggplot -> gg2list
+ Execution halted
```
-# clinDataReview
+# CompAREdesign
-* Version: 1.6.1
-* GitHub: https://github.com/openanalytics/clinDataReview
-* Source code: https://github.com/cran/clinDataReview
-* Date/Publication: 2024-06-18 09:10:05 UTC
-* Number of recursive dependencies: 121
+* Version: 2.3.1
+* GitHub: NA
+* Source code: https://github.com/cran/CompAREdesign
+* Date/Publication: 2024-02-15 13:00:02 UTC
+* Number of recursive dependencies: 79
-Run `revdepcheck::cloud_details(, "clinDataReview")` for more info
+Run `revdepcheck::cloud_details(, "CompAREdesign")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘CompAREdesign’ can be installed ... WARNING
+ ```
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘CompAREdesign’
+ See ‘/tmp/workdir/CompAREdesign/new/CompAREdesign.Rcheck/00install.out’ for details.
+ ```
+
+# CoreMicrobiomeR
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/CoreMicrobiomeR
+* Date/Publication: 2024-04-03 20:03:02 UTC
+* Number of recursive dependencies: 91
+
+Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info
@@ -3765,227 +2746,217 @@ Run `revdepcheck::cloud_details(, "clinDataReview")` for more info
* checking examples ... ERROR
```
- Running examples in ‘clinDataReview-Ex.R’ failed
+ Running examples in ‘CoreMicrobiomeR-Ex.R’ failed
The error most likely occurred in:
- > ### Name: scatterplotClinData
- > ### Title: Scatterplot of variables of interest for clinical data
- > ### visualization.
- > ### Aliases: scatterplotClinData
+ > ### Name: group_bar_plots
+ > ### Title: Grouped Bar Plots Based on Sample Size
+ > ### Aliases: group_bar_plots
>
> ### ** Examples
>
+ > #To run input data
...
- + data = dataPlot,
- + xVar = "ADY",
- + yVar = "LBSTRESN",
- + aesPointVar = list(color = "TRTP", fill = "TRTP"),
- + aesLineVar = list(group = "USUBJID", color = "TRTP"),
- + labelVars = labelVars
+ + top_percentage = 10 # Adjust the percentage as needed for core/non-core OTUs
+ )
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: scatterplotClinData ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ Warning encountered during diversity analysis:you have empty rows: their dissimilarities may be
+ meaningless in method “bray”
+ > #To run grouped bar plot function
+ > plot_group_bar <- group_bar_plots(core_1$final_otu_table_bef_filter,
+ + core_1$final_otu_aft_filter, 10)
+ Error in pm[[2]] : subscript out of bounds
+ Calls: group_bar_plots -> -> ggplotly.ggplot -> gg2list
Execution halted
```
+# correlationfunnel
+
+
+
+* Version: 0.2.0
+* GitHub: https://github.com/business-science/correlationfunnel
+* Source code: https://github.com/cran/correlationfunnel
+* Date/Publication: 2020-06-09 04:40:03 UTC
+* Number of recursive dependencies: 115
+
+Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info
+
+
+
+## Newly broken
+
* checking tests ... ERROR
```
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(clinDataReview)
- >
- > test_check("clinDataReview")
- adding: report.html (deflated 63%)
- adding: report_dependencies169f5c7b66d/ (stored 0%)
- adding: report_dependencies169f5c7b66d/file169f105f2e2e.html (deflated 8%)
- ...
- 11. ├─base::withCallingHandlers(...)
- 12. └─ggplot2:::`+.gg`(gg, do.call(layerFunction, argsGeom))
- 13. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 14. ├─ggplot2::ggplot_add(object, p, objectname)
- 15. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 16. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ > library(dplyr)
+
+ Attaching package: 'dplyr'
+
+ The following object is masked from 'package:testthat':
- [ FAIL 35 | WARN 0 | SKIP 31 | PASS 453 ]
+ ...
+ ▆
+ 1. ├─correlationfunnel::plot_correlation_funnel(...) at test-plot_correlation_funnel.R:23:1
+ 2. └─correlationfunnel:::plot_correlation_funnel.data.frame(...)
+ 3. ├─plotly::ggplotly(g, tooltip = "text")
+ 4. └─plotly:::ggplotly.ggplot(g, tooltip = "text")
+ 5. └─plotly::gg2list(...)
+
+ [ FAIL 1 | WARN 3 | SKIP 0 | PASS 17 ]
Error: Test failures
Execution halted
```
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘clinDataReview-dataPreprocessing.Rmd’ using rmarkdown
- --- finished re-building ‘clinDataReview-dataPreprocessing.Rmd’
-
- --- re-building ‘clinDataReview-dataVisualization.Rmd’ using rmarkdown
-
- Quitting from lines 167-208 [timeProfiles] (clinDataReview-dataVisualization.Rmd)
- Error: processing vignette 'clinDataReview-dataVisualization.Rmd' failed with diagnostics:
- argument is of length zero
- ...
- --- failed re-building ‘clinDataReview-dataVisualization.Rmd’
-
- --- re-building ‘clinDataReview-reporting.Rmd’ using rmarkdown
- --- finished re-building ‘clinDataReview-reporting.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘clinDataReview-dataVisualization.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
- ```
-
## In both
-* checking installed package size ... NOTE
+* checking dependencies in R code ... NOTE
```
- installed size is 5.8Mb
- sub-directories of 1Mb or more:
- doc 4.3Mb
+ Namespace in Imports field not imported from: ‘utils’
+ All declared Imports should be used.
```
-# clinUtils
+# corrViz
-* Version: 0.2.0
-* GitHub: https://github.com/openanalytics/clinUtils
-* Source code: https://github.com/cran/clinUtils
-* Date/Publication: 2024-05-17 14:50:06 UTC
-* Number of recursive dependencies: 111
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/corrViz
+* Date/Publication: 2023-06-30 11:40:07 UTC
+* Number of recursive dependencies: 128
-Run `revdepcheck::cloud_details(, "clinUtils")` for more info
+Run `revdepcheck::cloud_details(, "corrViz")` for more info
## Newly broken
+* checking examples ... ERROR
+ ```
+ Running examples in ‘corrViz-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: animSolar
+ > ### Title: animSolar
+ > ### Aliases: animSolar
+ >
+ > ### ** Examples
+ >
+ > cm <- cor(mtcars)
+ ...
+ All aesthetics have length 1, but the data has 250 rows.
+ ℹ Please consider using `annotate()` or provide this layer with data containing
+ a single row.
+ Warning in geom_text(data = solar_system, aes(x = 0, y = 0, label = sun), :
+ All aesthetics have length 1, but the data has 250 rows.
+ ℹ Please consider using `annotate()` or provide this layer with data containing
+ a single row.
+ Error in pm[[2]] : subscript out of bounds
+ Calls: animSolar -> ggplotly -> ggplotly.ggplot -> gg2list
+ Execution halted
+ ```
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘clinUtils-vignette.Rmd’
+ when running code in ‘corrViz.Rmd’
...
+ > library(corrViz)
- layout
-
+ > cm <- cor(mtcars)
- > listPlotsInteractiveLB <- sapply(listPlotsLB, function(ggplot) ggplotly(ggplot) %>%
- + partial_bundle(), simplify = FALSE)
+ > corrHeatmap(mat = cm, display = "all", reorder = TRUE,
+ + pal = colorRampPalette(c("darkblue", "white", "darkred"))(100))
- When sourcing ‘clinUtils-vignette.R’:
+ When sourcing ‘corrViz.R’:
Error: subscript out of bounds
Execution halted
- ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed
+ ‘corrViz.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown
- ```
-
-## Newly fixed
-
-* checking running R code from vignettes ... WARNING
- ```
- Errors in running code in vignettes:
- when running code in ‘clinUtils-vignette.Rmd’
...
+ --- re-building ‘corrViz.Rmd’ using rmarkdown
+ Quitting from lines 76-81 [heatmap] (corrViz.Rmd)
+ Error: processing vignette 'corrViz.Rmd' failed with diagnostics:
+ subscript out of bounds
+ --- failed re-building ‘corrViz.Rmd’
+ SUMMARY: processing the following file failed:
+ ‘corrViz.Rmd’
-
-
- Quitting from lines 2-4 [lab-hist-interactive1]
-
- When sourcing ‘clinUtils-vignette.R’:
- Error: there is no package called 'webshot'
+ Error: Vignette re-building failed.
Execution halted
-
- ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed
```
## In both
* checking installed package size ... NOTE
```
- installed size is 7.7Mb
+ installed size is 7.2Mb
sub-directories of 1Mb or more:
- doc 6.5Mb
+ doc 6.7Mb
```
-# cloneRate
+# countfitteR
-* Version: 0.2.3
-* GitHub: https://github.com/bdj34/cloneRate
-* Source code: https://github.com/cran/cloneRate
-* Date/Publication: 2023-09-22 15:40:02 UTC
-* Number of recursive dependencies: 121
+* Version: 1.4
+* GitHub: https://github.com/BioGenies/countfitteR
+* Source code: https://github.com/cran/countfitteR
+* Date/Publication: 2020-09-30 21:30:02 UTC
+* Number of recursive dependencies: 90
-Run `revdepcheck::cloud_details(, "cloneRate")` for more info
+Run `revdepcheck::cloud_details(, "countfitteR")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking tests ... ERROR
```
- Errors in running code in vignettes:
- when running code in ‘cloneRate-dataAnalysis.Rmd’
- ...
-
- > fitColor <- colorPal[6]
-
- > ggplot(PD9478_long, aes(x = Age, y = VAF)) + theme_bw() +
- + coord_cartesian(xlim = c(min(x), max(x)), ylim = c(-0.01,
- + 0.52), expand .... [TRUNCATED]
-
- When sourcing ‘cloneRate-dataAnalysis.R’:
- Error: `expand` must be a logical vector, not the number 0.
- Execution halted
-
- ‘cloneRate-dataAnalysis.Rmd’ using ‘UTF-8’... failed
- ‘cloneRate-simulate.Rmd’ using ‘UTF-8’... OK
+ Running ‘spelling.R’
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(countfitteR)
+ >
+ > test_check("countfitteR")
+ [ FAIL 1 | WARN 6 | SKIP 0 | PASS 32 ]
+
+ ...
+ Error in `p$labels[[1]]`: subscript out of bounds
+ Backtrace:
+ ▆
+ 1. └─testthat::expect_equal(p$labels[[1]], "x") at testing.R:45:3
+ 2. └─testthat::quasi_label(enquo(object), label, arg = "object")
+ 3. └─rlang::eval_bare(expr, quo_get_env(quo))
+
+ [ FAIL 1 | WARN 6 | SKIP 0 | PASS 32 ]
+ Error: Test failures
+ Execution halted
```
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘cloneRate-dataAnalysis.Rmd’ using rmarkdown
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 47.4Mb
- sub-directories of 1Mb or more:
- doc 1.0Mb
- libs 45.2Mb
- ```
-
-* checking for GNU extensions in Makefiles ... NOTE
- ```
- GNU make is a SystemRequirements.
- ```
-
-# clustEff
+# coursekata
-* Version: 0.3.1
-* GitHub: NA
-* Source code: https://github.com/cran/clustEff
-* Date/Publication: 2024-01-23 08:52:55 UTC
-* Number of recursive dependencies: 125
+* Version: 0.18.1
+* GitHub: https://github.com/coursekata/coursekata-r
+* Source code: https://github.com/cran/coursekata
+* Date/Publication: 2024-12-12 17:10:02 UTC
+* Number of recursive dependencies: 118
-Run `revdepcheck::cloud_details(, "clustEff")` for more info
+Run `revdepcheck::cloud_details(, "coursekata")` for more info
@@ -3993,201 +2964,207 @@ Run `revdepcheck::cloud_details(, "clustEff")` for more info
* checking examples ... ERROR
```
- Running examples in ‘clustEff-Ex.R’ failed
+ Running examples in ‘coursekata-Ex.R’ failed
The error most likely occurred in:
- > ### Name: clustEff-package
- > ### Title: Clusters of effects curves
- > ### Aliases: clustEff-package
- > ### Keywords: package
+ > ### Name: theme_coursekata
+ > ### Title: A simple theme built on top of 'ggplot2::theme_bw'
+ > ### Aliases: theme_coursekata
>
> ### ** Examples
>
- ...
- 13. │ └─ggplot2:::`+.gg`(p, do.call(geom_line, option))
- 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 15. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 18. └─base::.handleSimpleError(...)
- 19. └─purrr (local) h(simpleError(msg, call))
- 20. └─cli::cli_abort(...)
- 21. └─rlang::abort(...)
+ > gf_boxplot(Thumb ~ RaceEthnic, data = Fingers, fill = ~RaceEthnic)
+ Error in unit(x, default.units) : 'x' and 'units' must have length > 0
+ Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit
Execution halted
```
-# ClustImpute
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(coursekata)
+ Loading required package: dslabs
+ Loading required package: fivethirtyeight
+ Some larger datasets need to be installed separately, like senators and
+ house_district_forecast. To install these, we recommend you install the
+ fivethirtyeightdata package by running:
+ ...
+ • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-color.svg
+ • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-facet.svg
+ • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-color.svg
+ • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-facet.svg
+ • gf_model-visual/gf-violin-cond-mod-y-on-y.svg
+ • gf_model-visual/gf-violin-horizontal-mull-mod-y-on-x.svg
+ • gf_model-visual/gf-violin-mull-mod-y-on-x-2.svg
+ • gf_model-visual/gf-violin-null-mod-y-on-y.svg
+ Error: Test failures
+ Execution halted
+ ```
+
+# covidcast
-* Version: 0.2.4
-* GitHub: NA
-* Source code: https://github.com/cran/ClustImpute
-* Date/Publication: 2021-05-31 07:40:11 UTC
-* Number of recursive dependencies: 121
+* Version: 0.5.2
+* GitHub: https://github.com/cmu-delphi/covidcast
+* Source code: https://github.com/cran/covidcast
+* Date/Publication: 2023-07-12 23:40:06 UTC
+* Number of recursive dependencies: 92
-Run `revdepcheck::cloud_details(, "ClustImpute")` for more info
+Run `revdepcheck::cloud_details(, "covidcast")` for more info
## Newly broken
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(covidcast)
+ We encourage COVIDcast API users to register on our mailing list:
+ https://lists.andrew.cmu.edu/mailman/listinfo/delphi-covidcast-api
+ We'll send announcements about new data sources, package updates,
+ server maintenance, and new features.
+ >
+ ...
+ • plot/default-county-choropleth.svg
+ • plot/default-hrr-choropleth-with-include.svg
+ • plot/default-msa-choropleth-with-include.svg
+ • plot/default-state-choropleth-with-include.svg
+ • plot/default-state-choropleth-with-range.svg
+ • plot/state-choropleth-with-no-metadata.svg
+ • plot/state-line-graph-with-range.svg
+ • plot/state-line-graph-with-stderrs.svg
+ Error: Test failures
+ Execution halted
+ ```
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘Example_on_simulated_data.Rmd’
+ when running code in ‘plotting-signals.Rmd’
...
- > dat4plot$true_clust_fct <- factor(true_clust)
-
- > p_base <- ggplot(dat4plot, aes(x = x, y = y, color = true_clust_fct)) +
- + geom_point()
-
- > ggExtra::ggMarginal(p_base, groupColour = TRUE, groupFill = TRUE)
+ • horizontal = TRUE
+ ℹ Did you misspell an argument name?
- When sourcing ‘Example_on_simulated_data.R’:
- Error: argument is of length zero
+ When sourcing ‘plotting-signals.R’:
+ Error: Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 5th layer.
+ Caused by error in `check_aesthetics()`:
+ ! Aesthetics must be either length 1 or the same as the data (3078).
+ ✖ Fix the following mappings: `fill`.
Execution halted
- ‘Example_on_simulated_data.Rmd’ using ‘UTF-8’... failed
- ‘description_of_algorithm.Rnw’ using ‘UTF-8’... OK
+ ‘correlation-utils.Rmd’ using ‘UTF-8’... OK
+ ‘covidcast.Rmd’ using ‘UTF-8’... OK
+ ‘external-data.Rmd’ using ‘UTF-8’... OK
+ ‘multi-signals.Rmd’ using ‘UTF-8’... OK
+ ‘plotting-signals.Rmd’ using ‘UTF-8’... failed
```
-## In both
-
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘Example_on_simulated_data.Rmd’ using rmarkdown
-
- Quitting from lines 49-53 [unnamed-chunk-3] (Example_on_simulated_data.Rmd)
- Error: processing vignette 'Example_on_simulated_data.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘Example_on_simulated_data.Rmd’
-
- --- re-building ‘description_of_algorithm.Rnw’ using Sweave
- Error: processing vignette 'description_of_algorithm.Rnw' failed with diagnostics:
- ...
- l.6 \usepackage
- {Sweave}^^M
- ! ==> Fatal error occurred, no output PDF file produced!
- --- failed re-building ‘description_of_algorithm.Rnw’
-
- SUMMARY: processing the following files failed:
- ‘Example_on_simulated_data.Rmd’ ‘description_of_algorithm.Rnw’
+ --- re-building ‘correlation-utils.Rmd’ using rmarkdown
+ --- finished re-building ‘correlation-utils.Rmd’
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘covidcast.Rmd’ using rmarkdown
```
-# cmstatr
+## In both
+
+* checking data for non-ASCII characters ... NOTE
+ ```
+ Note: found 20 marked UTF-8 strings
+ ```
+
+# Coxmos
-* Version: 0.9.3
-* GitHub: https://github.com/cmstatr/cmstatr
-* Source code: https://github.com/cran/cmstatr
-* Date/Publication: 2024-03-14 14:30:02 UTC
-* Number of recursive dependencies: 87
+* Version: 1.1.0
+* GitHub: https://github.com/BiostatOmics/Coxmos
+* Source code: https://github.com/cran/Coxmos
+* Date/Publication: 2025-01-18 11:30:02 UTC
+* Number of recursive dependencies: 200
-Run `revdepcheck::cloud_details(, "cmstatr")` for more info
+Run `revdepcheck::cloud_details(, "Coxmos")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking Rd files ... WARNING
```
- Running examples in ‘cmstatr-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: nested_data_plot
- > ### Title: Create a plot of nested sources of variation
- > ### Aliases: nested_data_plot
- >
- > ### ** Examples
- >
- > library(dplyr)
- ...
-
- intersect, setdiff, setequal, union
-
- > carbon.fabric.2 %>%
- + filter(test == "WT" & condition == "RTD") %>%
- + nested_data_plot(strength,
- + groups = c(batch, panel))
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
+ prepare_Rd: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘survminer’
```
-* checking tests ... ERROR
+## In both
+
+* checking installed package size ... NOTE
```
- Running ‘spelling.R’
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(cmstatr)
- >
- > test_check("cmstatr")
- Starting 2 test processes
- [ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ]
- ...
- 6. └─cmstatr:::draw_vert_lines_to_labels(g, elm_list, vline_args)
- 7. └─ggplot2:::`+.gg`(...)
- 8. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 9. ├─ggplot2::ggplot_add(object, p, objectname)
- 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 11. └─ggplot2:::new_layer_names(object, names(plot$layers))
-
- [ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ]
- Error: Test failures
- Execution halted
+ installed size is 7.4Mb
+ sub-directories of 1Mb or more:
+ R 1.5Mb
+ data 2.5Mb
+ doc 2.8Mb
```
+# cpsvote
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/Reed-EVIC/cpsvote
+* Source code: https://github.com/cran/cpsvote
+* Date/Publication: 2020-11-05 16:00:02 UTC
+* Number of recursive dependencies: 90
+
+Run `revdepcheck::cloud_details(, "cpsvote")` for more info
+
+
+
+## Newly broken
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘cmstatr_Graphing.Rmd’
+ when running code in ‘voting.Rmd’
...
- + by = "condition") %>% inner_join(a_basis_pooled_results,
- + by = "condition") .... [TRUNCATED]
+ + .... [TRUNCATED]
- > carbon.fabric.2 %>% mutate(panel = as.character(panel)) %>%
- + filter(test == "WT") %>% nested_data_plot(strength, groups = c(batch,
- + pane .... [TRUNCATED]
+ > library(usmap)
- When sourcing ‘cmstatr_Graphing.R’:
- Error: argument is of length zero
- Execution halted
+ > cps16 %>% as_survey_design(weights = turnout_weight) %>%
+ + mutate(state = STATE) %>% group_by(state) %>% summarize(turnout = survey_mean(hurach .... [TRUNCATED]
- ‘adktest.Rmd’ using ‘UTF-8’... OK
- ‘cmstatr_Graphing.Rmd’ using ‘UTF-8’... failed
- ‘cmstatr_Tutorial.Rmd’ using ‘UTF-8’... OK
- ‘cmstatr_Validation.Rmd’ using ‘UTF-8’... OK
- ‘hk_ext.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘adktest.Rmd’ using rmarkdown
- --- finished re-building ‘adktest.Rmd’
+ When sourcing ‘voting.R’:
+ Error: unused arguments (low = "white", high = "blue")
+ Execution halted
- --- re-building ‘cmstatr_Graphing.Rmd’ using rmarkdown
+ ‘add-variables.Rmd’ using ‘UTF-8’... OK
+ ‘background.Rmd’ using ‘UTF-8’... OK
+ ‘basics.Rmd’ using ‘UTF-8’... OK
+ ‘voting.Rmd’ using ‘UTF-8’... failed
```
-# codaredistlm
+# CRABS
-* Version: 0.1.0
-* GitHub: https://github.com/tystan/codaredistlm
-* Source code: https://github.com/cran/codaredistlm
-* Date/Publication: 2022-12-22 19:50:06 UTC
-* Number of recursive dependencies: 67
+* Version: 1.2.0
+* GitHub: https://github.com/afmagee/CRABS
+* Source code: https://github.com/cran/CRABS
+* Date/Publication: 2023-10-24 10:20:07 UTC
+* Number of recursive dependencies: 63
-Run `revdepcheck::cloud_details(, "codaredistlm")` for more info
+Run `revdepcheck::cloud_details(, "CRABS")` for more info
@@ -4195,40 +3172,40 @@ Run `revdepcheck::cloud_details(, "codaredistlm")` for more info
* checking examples ... ERROR
```
- Running examples in ‘codaredistlm-Ex.R’ failed
+ Running examples in ‘CRABS-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot_delta_comp
- > ### Title: Plot redistributed time-use predictions from compositional ilr
- > ### multiple linear regression model fit
- > ### Aliases: plot_delta_comp
+ > ### Name: congruent.models
+ > ### Title: Create a set of congruent models
+ > ### Aliases: congruent.models
>
> ### ** Examples
>
+ >
...
- | | x|
- |:----|------:|
- |0% | 1439.9|
- |25% | 1440.0|
- |50% | 1440.0|
- |75% | 1440.0|
- |100% | 1440.1|
- ---
-
- ---
+ >
+ > model_set1
+ A congruent set of piecewise-linear birth-death models
+ Knots: 500
+ Delta-tau: 0.1304443
+ n_models: 4
+ Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", :
+ EXPR must be a length 1 vector
+ Calls: ... -> assemble -> -> package_box -> %||%
+ Execution halted
```
-# coefplot
+# crosshap
-* Version: 1.2.8
-* GitHub: NA
-* Source code: https://github.com/cran/coefplot
-* Date/Publication: 2022-01-14 09:42:47 UTC
-* Number of recursive dependencies: 110
+* Version: 1.4.0
+* GitHub: https://github.com/jacobimarsh/crosshap
+* Source code: https://github.com/cran/crosshap
+* Date/Publication: 2024-03-31 15:40:02 UTC
+* Number of recursive dependencies: 116
-Run `revdepcheck::cloud_details(, "coefplot")` for more info
+Run `revdepcheck::cloud_details(, "crosshap")` for more info
@@ -4236,118 +3213,177 @@ Run `revdepcheck::cloud_details(, "coefplot")` for more info
* checking examples ... ERROR
```
- Running examples in ‘coefplot-Ex.R’ failed
+ Running examples in ‘crosshap-Ex.R’ failed
The error most likely occurred in:
- > ### Name: buildModelCI
- > ### Title: buildModelCI
- > ### Aliases: buildModelCI
+ > ### Name: build_bot_halfeyeplot
+ > ### Title: Bot hap-pheno raincloud plot
+ > ### Aliases: build_bot_halfeyeplot
>
> ### ** Examples
>
>
...
- cut.C 327.4816 model1
- cut.Q -574.8626 model1
- cut.L 1187.6004 model1
- carat 7843.1229 model1
- (Intercept) -2732.2382 model1
- > coefplot(model1)
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
+ 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. └─base::.handleSimpleError(...)
+ 17. └─rlang (local) h(simpleError(msg, call))
+ 18. └─handlers[[1L]](cnd)
+ 19. └─cli::cli_abort(...)
+ 20. └─rlang::abort(...)
Execution halted
```
-# CohortPlat
+# csa
-* Version: 1.0.5
-* GitHub: NA
-* Source code: https://github.com/cran/CohortPlat
-* Date/Publication: 2022-02-14 09:30:02 UTC
-* Number of recursive dependencies: 82
+* Version: 0.7.1
+* GitHub: https://github.com/imarkonis/csa
+* Source code: https://github.com/cran/csa
+* Date/Publication: 2023-10-24 13:40:11 UTC
+* Number of recursive dependencies: 101
-Run `revdepcheck::cloud_details(, "CohortPlat")` for more info
+Run `revdepcheck::cloud_details(, "csa")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking whether package ‘csa’ can be installed ... WARNING
```
- Running examples in ‘CohortPlat-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: plot_trial
- > ### Title: Plots the cohort trial study overview given stage data.
- > ### Aliases: plot_trial
- >
- > ### ** Examples
- >
- >
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘csa’
+ See ‘/tmp/workdir/csa/new/csa.Rcheck/00install.out’ for details.
+ ```
+
+# ctrialsgov
+
+
+
+* Version: 0.2.5
+* GitHub: NA
+* Source code: https://github.com/cran/ctrialsgov
+* Date/Publication: 2021-10-18 16:00:02 UTC
+* Number of recursive dependencies: 99
+
+Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info
+
+
+
+## Newly broken
+
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(ctrialsgov)
+ >
+ > test_check("ctrialsgov")
+ [NCT04553939] ible Local Advanved |Bladder| Cancer
+ [NCT03517995] of Sulforaphane in |Bladder| Cancer Chemoprevent
+ [NCT04210479] Comparison of |Bladder| Filling vs. Non-Fil
...
- + stage_data = stage_data, cohort_random = cohort_random, cohorts_max = cohorts_max,
- + sr_drugs_pos = sr_drugs_pos, target_rr = target_rr, sharing_type = sharing_type,
- + safety_prob = safety_prob, Bayes_Sup = Bayes_Sup, prob_rr_transform = prob_rr_transform,
- + cohort_offset = cohort_offset, Bayes_Fut = Bayes_Fut, sr_first_pos = sr_first_pos
- + )
- >
- > plot_trial(res_list, unit = "n")
- Error in pm[[2]] : subscript out of bounds
- Calls: plot_trial -> -> ggplotly.ggplot -> gg2list
- Execution halted
+ ▆
+ 1. ├─ctrialsgov::ctgov_to_plotly(p) at test-plot.R:12:3
+ 2. └─ctrialsgov:::ctgov_to_plotly.ctgov_bar_plot(p)
+ 3. ├─plotly::ggplotly(p, tooltip = "text")
+ 4. └─plotly:::ggplotly.ggplot(p, tooltip = "text")
+ 5. └─plotly::gg2list(...)
+
+ [ FAIL 1 | WARN 6 | SKIP 0 | PASS 43 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+## In both
+
+* checking data for non-ASCII characters ... NOTE
```
+ Note: found 1350 marked UTF-8 strings
+ ```
+
+# cubble
+
+
+
+* Version: 1.0.0
+* GitHub: https://github.com/huizezhang-sherry/cubble
+* Source code: https://github.com/cran/cubble
+* Date/Publication: 2024-08-27 15:20:02 UTC
+* Number of recursive dependencies: 132
+
+Run `revdepcheck::cloud_details(, "cubble")` for more info
+
+
+
+## Newly broken
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘my-vignette.Rmd’
+ when running code in ‘cb6interactive.Rmd’
...
+ + ymax .... [TRUNCATED]
+ Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
+ ℹ Please use `linewidth` instead.
- > set.seed(50)
-
- > ocs1 <- trial_ocs(n_int = n_int, n_fin = n_fin, rr_comb = rr_comb,
- + rr_mono = rr_mono, rr_back = rr_back, rr_plac = rr_plac,
- + rr_transfo .... [TRUNCATED]
+ > ts_interactive <- highlight(ggplotly(ts_static, width = 600,
+ + height = 300), on = "plotly_selected", opacityDim = 0.012)
- When sourcing ‘my-vignette.R’:
+ ...
Error: subscript out of bounds
Execution halted
- ‘my-vignette.Rmd’ using ‘UTF-8’... failed
+ ‘cb1class.Rmd’ using ‘UTF-8’... OK
+ ‘cb2create.Rmd’ using ‘UTF-8’... OK
+ ‘cb3tsibblesf.Rmd’ using ‘UTF-8’... OK
+ ‘cb4glyph.Rmd’ using ‘UTF-8’... OK
+ ‘cb5match.Rmd’ using ‘UTF-8’... OK
+ ‘cb6interactive.Rmd’ using ‘UTF-8’... failed
+ ‘cb7misc.Rmd’ using ‘UTF-8’... OK
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- ...
- --- re-building ‘my-vignette.Rmd’ using rmarkdown
+ --- re-building ‘cb1class.Rmd’ using rmarkdown
+ --- finished re-building ‘cb1class.Rmd’
- Quitting from lines 1043-1073 [unnamed-chunk-20] (my-vignette.Rmd)
- Error: processing vignette 'my-vignette.Rmd' failed with diagnostics:
- subscript out of bounds
- --- failed re-building ‘my-vignette.Rmd’
+ --- re-building ‘cb2create.Rmd’ using rmarkdown
+ --- finished re-building ‘cb2create.Rmd’
- SUMMARY: processing the following file failed:
- ‘my-vignette.Rmd’
+ --- re-building ‘cb3tsibblesf.Rmd’ using rmarkdown
+ --- finished re-building ‘cb3tsibblesf.Rmd’
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘cb4glyph.Rmd’ using rmarkdown
```
-# complmrob
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.6Mb
+ sub-directories of 1Mb or more:
+ data 3.0Mb
+ doc 1.4Mb
+ ```
+
+# cylcop
-* Version: 0.7.0
-* GitHub: https://github.com/dakep/complmrob
-* Source code: https://github.com/cran/complmrob
-* Date/Publication: 2019-09-17 18:10:02 UTC
-* Number of recursive dependencies: 31
+* Version: 0.2.0
+* GitHub: https://github.com/r-lib/devtools
+* Source code: https://github.com/cran/cylcop
+* Date/Publication: 2022-10-29 22:00:21 UTC
+* Number of recursive dependencies: 97
-Run `revdepcheck::cloud_details(, "complmrob")` for more info
+Run `revdepcheck::cloud_details(, "cylcop")` for more info
@@ -4355,35 +3391,81 @@ Run `revdepcheck::cloud_details(, "complmrob")` for more info
* checking examples ... ERROR
```
- Running examples in ‘complmrob-Ex.R’ failed
+ Running examples in ‘cylcop-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot.complmrob
- > ### Title: Diagnostic plots for the robust regression model with
- > ### compositional covariates
- > ### Aliases: plot.complmrob
+ > ### Name: plot_circ_hist
+ > ### Title: Circular Histogram of Turn Angles
+ > ### Aliases: plot_circ_hist
>
> ### ** Examples
>
- > data <- data.frame(lifeExp = state.x77[, "Life Exp"], USArrests[ , -3])
- > mUSArr <- complmrob(lifeExp ~ ., data = data)
- > plot(mUSArr)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > set.seed(123)
+ ...
+ 22. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 23. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 24. │ └─self$geom$use_defaults(...)
+ 25. │ └─ggplot2 (local) use_defaults(..., self = self)
+ 26. │ └─ggplot2:::check_aesthetics(new_params, nrow(data))
+ 27. │ └─vctrs::list_sizes(x)
+ 28. └─vctrs:::stop_scalar_type(``(``), "x$label", ``)
+ 29. └─vctrs:::stop_vctrs(...)
+ 30. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call)
Execution halted
```
-# conjoint
+# D2MCS
-* Version: 1.41
-* GitHub: NA
-* Source code: https://github.com/cran/conjoint
-* Date/Publication: 2018-07-26 13:00:03 UTC
-* Number of recursive dependencies: 53
+* Version: 1.0.1
+* GitHub: https://github.com/drordas/D2MCS
+* Source code: https://github.com/cran/D2MCS
+* Date/Publication: 2022-08-23 11:40:02 UTC
+* Number of recursive dependencies: 179
+
+Run `revdepcheck::cloud_details(, "D2MCS")` for more info
+
+
+
+## Newly broken
+
+* checking tests ... ERROR
+ ```
+ Running ‘test_all.R’
+ Running the tests in ‘tests/test_all.R’ failed.
+ Complete output:
+ > testthat::test_check("D2MCS")
+ Loading required package: D2MCS
+ [ FAIL 6 | WARN 5 | SKIP 15 | PASS 702 ]
+
+ ══ Skipped tests (15) ══════════════════════════════════════════════════════════
+ • On CRAN (2): 'test_D2MCS.R:129:3', 'test_D2MCS.R:213:3'
+ • {ranger} is not installed (13): 'test_D2MCS.R:411:3',
+ ...
+ 2. │ └─testthat::quasi_label(enquo(expected), expected.label, arg = "expected")
+ 3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
+ 4. └─strategyNoReal$plot()
+ 5. └─BinaryPlot$new()$plot(binary.summary)
+ 6. └─super$plot(summary)
+ 7. └─ggplot2::scale_color_continuous(...)
+
+ [ FAIL 6 | WARN 5 | SKIP 15 | PASS 702 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+# dafishr
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/CBMC-GCMP/dafishr
+* Source code: https://github.com/cran/dafishr
+* Date/Publication: 2024-07-22 22:10:09 UTC
+* Number of recursive dependencies: 113
-Run `revdepcheck::cloud_details(, "conjoint")` for more info
+Run `revdepcheck::cloud_details(, "dafishr")` for more info
@@ -4391,90 +3473,120 @@ Run `revdepcheck::cloud_details(, "conjoint")` for more info
* checking examples ... ERROR
```
- Running examples in ‘conjoint-Ex.R’ failed
+ Running examples in ‘dafishr-Ex.R’ failed
The error most likely occurred in:
- > ### Name: caSegmentation
- > ### Title: Function caSegmentation divides respondents on clusters
- > ### Aliases: caSegmentation
- > ### Keywords: multivariate
+ > ### Name: join_mpa_data
+ > ### Title: Detect fishing vessel presence within Marine Protected Areas
+ > ### polygons in Mexico
+ > ### Aliases: join_mpa_data
>
> ### ** Examples
>
...
- Available components:
-
- [1] "cluster" "centers" "totss" "withinss" "tot.withinss"
- [6] "betweenss" "size" "iter" "ifault"
- > util<-as.data.frame(segments$util)
- > set.seed(123)
- > ggplot2::autoplot(kmeans(util,3),data=util,label=TRUE,label.size=4,frame=TRUE)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ + theme(legend.position = "")
+ Warning in fortify(data, ...) :
+ Arguments in `...` must be used.
+ ✖ Problematic argument:
+ • col = "gray90"
+ ℹ Did you misspell an argument name?
+ Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", :
+ EXPR must be a length 1 vector
+ Calls: ... -> assemble -> -> package_box -> %||%
Execution halted
```
-# conquestr
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 8.2Mb
+ sub-directories of 1Mb or more:
+ data 8.0Mb
+ ```
+
+* checking data for non-ASCII characters ... NOTE
+ ```
+ Note: found 2020 marked UTF-8 strings
+ ```
+
+# daiquiri
-* Version: 1.3.4
-* GitHub: NA
-* Source code: https://github.com/cran/conquestr
-* Date/Publication: 2024-07-24 06:00:01 UTC
-* Number of recursive dependencies: 80
+* Version: 1.1.1
+* GitHub: https://github.com/ropensci/daiquiri
+* Source code: https://github.com/cran/daiquiri
+* Date/Publication: 2023-07-18 16:50:09 UTC
+* Number of recursive dependencies: 107
-Run `revdepcheck::cloud_details(, "conquestr")` for more info
+Run `revdepcheck::cloud_details(, "daiquiri")` for more info
## Newly broken
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(daiquiri)
+ >
+ > test_check("daiquiri")
+
+ Quitting from lines 467-528 [daiquiri-individual-fields] (report_htmldoc.Rmd)
+
+ ...
+ 36. └─rlang::abort(message, ..., call = call, arg = arg)
+
+ [ FAIL 4 | WARN 0 | SKIP 8 | PASS 472 ]
+ Deleting unused snapshots:
+ • aggregate_data/test_[ALL_FIELDS_COMBINED].csv
+ • aggregate_data/test_[DUPLICATES].csv
+ • aggregate_data/test_col1.csv
+ • aggregate_data/test_col2.csv
+ Error: Test failures
+ Execution halted
+ ```
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘plotting.Rmd’
+ when running code in ‘daiquiri.Rmd’
...
- > myRout <- ConQuestRout()
- no rout file provided, loading the example rout file instead
- > myPlot <- plotRout(myRout)
+ > daiq_obj <- daiquiri_report(df = example_prescriptions,
+ + field_types = fts, override_column_names = FALSE, na = c("",
+ + "NULL"), data .... [TRUNCATED]
- > myPlot
+ Quitting from lines 467-528 [daiquiri-individual-fields] (report_htmldoc.Rmd)
- ...
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘daiquiri.R’:
+ Error: `limits` must be a vector, not a object.
Execution halted
- ‘data-cleaning-functions-in-conquestr.Rmd’ using ‘UTF-8’... OK
- ‘generateResponses.Rmd’ using ‘UTF-8’... OK
- ‘intro-to-conquestr.Rmd’ using ‘UTF-8’... OK
- ‘itanal-in-conquestr.Rmd’ using ‘UTF-8’... OK
- ‘plotting.Rmd’ using ‘UTF-8’... failed
- ‘responseProbs.Rmd’ using ‘UTF-8’... OK
- ‘test_item_review_sheet_markdown.Rmd’ using ‘UTF-8’... failed
+ ‘daiquiri.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘data-cleaning-functions-in-conquestr.Rmd’ using rmarkdown
- --- finished re-building ‘data-cleaning-functions-in-conquestr.Rmd’
-
- --- re-building ‘generateResponses.Rmd’ using rmarkdown
+ --- re-building ‘daiquiri.Rmd’ using rmarkdown
```
-# CoreMicrobiomeR
+# DAISIE
-* Version: 0.1.0
-* GitHub: NA
-* Source code: https://github.com/cran/CoreMicrobiomeR
-* Date/Publication: 2024-04-03 20:03:02 UTC
-* Number of recursive dependencies: 91
+* Version: 4.4.1
+* GitHub: https://github.com/rsetienne/DAISIE
+* Source code: https://github.com/cran/DAISIE
+* Date/Publication: 2023-10-21 23:10:10 UTC
+* Number of recursive dependencies: 118
-Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info
+Run `revdepcheck::cloud_details(, "DAISIE")` for more info
@@ -4482,40 +3594,54 @@ Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info
* checking examples ... ERROR
```
- Running examples in ‘CoreMicrobiomeR-Ex.R’ failed
+ Running examples in ‘DAISIE-Ex.R’ failed
The error most likely occurred in:
- > ### Name: group_bar_plots
- > ### Title: Grouped Bar Plots Based on Sample Size
- > ### Aliases: group_bar_plots
+ > ### Name: DAISIE_plot_input
+ > ### Title: DAISIE tree plot
+ > ### Aliases: DAISIE_plot_input
>
> ### ** Examples
>
- > #To run input data
+ >
...
- + top_percentage = 10 # Adjust the percentage as needed for core/non-core OTUs
- + )
- Warning encountered during diversity analysis:you have empty rows: their dissimilarities may be
- meaningless in method “bray”
- > #To run grouped bar plot function
- > plot_group_bar <- group_bar_plots(core_1$final_otu_table_bef_filter,
- + core_1$final_otu_aft_filter, 10)
- Error in pm[[2]] : subscript out of bounds
- Calls: group_bar_plots -> -> ggplotly.ggplot -> gg2list
+ ℹ Did you misspell an argument name?
+ Scale for y is already present.
+ Adding another scale for y, which will replace the existing scale.
+ Joining with `by = join_by(label)`
+ Warning: Removed 1 row containing missing values or values outside the scale range
+ (`geom_point()`).
+ Error in grid.Call.graphics(C_rect, x$x, x$y, x$width, x$height, resolveHJust(x$just, :
+ invalid hex digit in 'color' or 'lty'
+ Calls: ... drawDetails -> drawDetails.rect -> grid.Call.graphics
Execution halted
```
-# correlationfunnel
+## In both
+
+* checking package dependencies ... NOTE
+ ```
+ Package which this enhances but not available for checking: ‘doMC’
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 37.6Mb
+ sub-directories of 1Mb or more:
+ libs 35.5Mb
+ ```
+
+# DAISIEprep
-* Version: 0.2.0
-* GitHub: https://github.com/business-science/correlationfunnel
-* Source code: https://github.com/cran/correlationfunnel
-* Date/Publication: 2020-06-09 04:40:03 UTC
-* Number of recursive dependencies: 116
+* Version: 1.0.0
+* GitHub: https://github.com/joshwlambert/DAISIEprep
+* Source code: https://github.com/cran/DAISIEprep
+* Date/Publication: 2024-12-18 00:20:02 UTC
+* Number of recursive dependencies: 148
-Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info
+Run `revdepcheck::cloud_details(, "DAISIEprep")` for more info
@@ -4527,44 +3653,36 @@ Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(dplyr)
-
- Attaching package: 'dplyr'
-
- The following object is masked from 'package:testthat':
+ > library(DAISIEprep)
+ >
+ > test_check("DAISIEprep")
+ [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2235 ]
+ ══ Skipped tests (14) ══════════════════════════════════════════════════════════
...
- ▆
- 1. ├─correlationfunnel::plot_correlation_funnel(...) at test-plot_correlation_funnel.R:23:1
- 2. └─correlationfunnel:::plot_correlation_funnel.data.frame(...)
- 3. ├─plotly::ggplotly(g, tooltip = "text")
- 4. └─plotly:::ggplotly.ggplot(g, tooltip = "text")
- 5. └─plotly::gg2list(...)
+ ── Failure ('test-plot_phylod.R:8:3'): plot_phylod runs silent without error ───
+ `plot_phylod(phylod = phylod, node_pies = FALSE)` produced warnings.
+ ── Failure ('test-plot_phylod.R:13:3'): plot_phylod runs silent without error ──
+ `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings.
+ ── Failure ('test-plot_phylod.R:18:3'): plot_phylod runs silent without error ──
+ `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings.
- [ FAIL 1 | WARN 3 | SKIP 0 | PASS 17 ]
+ [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2235 ]
Error: Test failures
Execution halted
```
-## In both
-
-* checking dependencies in R code ... NOTE
- ```
- Namespace in Imports field not imported from: ‘utils’
- All declared Imports should be used.
- ```
-
-# corrViz
+# dampack
-* Version: 0.1.0
-* GitHub: NA
-* Source code: https://github.com/cran/corrViz
-* Date/Publication: 2023-06-30 11:40:07 UTC
-* Number of recursive dependencies: 140
+* Version: 1.0.2.1000
+* GitHub: https://github.com/DARTH-git/dampack
+* Source code: https://github.com/cran/dampack
+* Date/Publication: 2024-09-30 17:00:06 UTC
+* Number of recursive dependencies: 89
-Run `revdepcheck::cloud_details(, "corrViz")` for more info
+Run `revdepcheck::cloud_details(, "dampack")` for more info
@@ -4572,127 +3690,216 @@ Run `revdepcheck::cloud_details(, "corrViz")` for more info
* checking examples ... ERROR
```
- Running examples in ‘corrViz-Ex.R’ failed
+ Running examples in ‘dampack-Ex.R’ failed
The error most likely occurred in:
- > ### Name: animSolar
- > ### Title: animSolar
- > ### Aliases: animSolar
+ > ### Name: calc_exp_loss
+ > ### Title: Calculate the expected loss at a range of willingness-to-pay
+ > ### thresholds
+ > ### Aliases: calc_exp_loss
>
> ### ** Examples
>
- > cm <- cor(mtcars)
...
- All aesthetics have length 1, but the data has 250 rows.
- ℹ Please consider using `annotate()` or provide this layer with data containing
- a single row.
- Warning in geom_text(data = solar_system, aes(x = 0, y = 0, label = sun), :
- All aesthetics have length 1, but the data has 250 rows.
- ℹ Please consider using `annotate()` or provide this layer with data containing
- a single row.
- Error in pm[[2]] : subscript out of bounds
- Calls: animSolar -> ggplotly -> ggplotly.ggplot -> gg2list
+ 4 20000 Chemo 12502.981 FALSE
+ 5 20000 Radio 5406.398 TRUE
+ 6 20000 Surgery 10462.064 FALSE
+ >
+ > # plot an expected loss curve (ELC)
+ > plot(exp_loss)
+ Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, :
+ argument 5 matches multiple formal arguments
+ Calls: plot ... plot.exp_loss -> add_common_aes -> scale_color_discrete
Execution halted
```
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(dampack)
+ Loading required package: ggplot2
+ >
+ > test_check("dampack")
+ [ FAIL 12 | WARN 0 | SKIP 1 | PASS 122 ]
+
+ ...
+ Backtrace:
+ ▆
+ 1. ├─base::plot(t, basecase = list(pFailChemo = 0.37, muDieCancer = 0.09)) at test_twsa.R:44:3
+ 2. └─dampack:::plot.twsa(t, basecase = list(pFailChemo = 0.37, muDieCancer = 0.09))
+ 3. └─dampack:::add_common_aes(...)
+ 4. └─ggplot2::scale_fill_discrete(...)
+
+ [ FAIL 12 | WARN 0 | SKIP 1 | PASS 122 ]
+ Error: Test failures
+ Execution halted
+ ```
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘corrViz.Rmd’
+ when running code in ‘dsa_generation.Rmd’
...
- > library(corrViz)
+ > l_owsa_det <- run_owsa_det(params_range = my_owsa_params_range,
+ + params_basecase = my_params_basecase, nsamp = 100, FUN = simulate_strategies, .... [TRUNCATED]
- > cm <- cor(mtcars)
+ > my_owsa_NMB <- l_owsa_det$owsa_NMB
- > corrHeatmap(mat = cm, display = "all", reorder = TRUE,
- + pal = colorRampPalette(c("darkblue", "white", "darkred"))(100))
+ > plot(my_owsa_NMB, n_x_ticks = 3)
- When sourcing ‘corrViz.R’:
- Error: subscript out of bounds
+ ...
+
+ When sourcing ‘psa_analysis.R’:
+ Error: argument 5 matches multiple formal arguments
Execution halted
- ‘corrViz.Rmd’ using ‘UTF-8’... failed
+ ‘basic_cea.Rmd’ using ‘UTF-8’... OK
+ ‘dsa_generation.Rmd’ using ‘UTF-8’... failed
+ ‘psa_analysis.Rmd’ using ‘UTF-8’... failed
+ ‘psa_generation.Rmd’ using ‘UTF-8’... OK
+ ‘voi.Rmd’ using ‘UTF-8’... OK
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- ...
- --- re-building ‘corrViz.Rmd’ using rmarkdown
-
- Quitting from lines 76-81 [heatmap] (corrViz.Rmd)
- Error: processing vignette 'corrViz.Rmd' failed with diagnostics:
- subscript out of bounds
- --- failed re-building ‘corrViz.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘corrViz.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘basic_cea.Rmd’ using rmarkdown
```
## In both
* checking installed package size ... NOTE
```
- installed size is 7.2Mb
+ installed size is 5.2Mb
sub-directories of 1Mb or more:
- doc 6.7Mb
+ data 3.0Mb
+ doc 1.8Mb
```
-# corx
+# DeductiveR
-* Version: 1.0.7.2
-* GitHub: https://github.com/conig/corx
-* Source code: https://github.com/cran/corx
-* Date/Publication: 2023-06-16 04:10:02 UTC
-* Number of recursive dependencies: 125
+* Version: 1.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/DeductiveR
+* Date/Publication: 2024-12-17 14:20:01 UTC
+* Number of recursive dependencies: 99
-Run `revdepcheck::cloud_details(, "corx")` for more info
+Run `revdepcheck::cloud_details(, "DeductiveR")` for more info
## Newly broken
+* checking whether package ‘DeductiveR’ can be installed ... WARNING
+ ```
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘DeductiveR’
+ See ‘/tmp/workdir/DeductiveR/new/DeductiveR.Rcheck/00install.out’ for details.
+ ```
+
+# deeptime
+
+
+
+* Version: 2.1.0
+* GitHub: https://github.com/willgearty/deeptime
+* Source code: https://github.com/cran/deeptime
+* Date/Publication: 2024-10-25 23:30:02 UTC
+* Number of recursive dependencies: 197
+
+Run `revdepcheck::cloud_details(, "deeptime")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘deeptime-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: facet_wrap_color
+ > ### Title: Wrap a 1d ribbon of panels into 2d with colored strips
+ > ### Aliases: facet_wrap_color FacetWrapColor
+ > ### Keywords: datasets
+ >
+ > ### ** Examples
+ >
+ > library(ggplot2)
+ > df <- data.frame(x = 1:10, y = 1:10, period = c("Permian", "Triassic"))
+ > ggplot(df) +
+ + geom_point(aes(x, y)) +
+ + facet_wrap_color(vars(period), colors = periods)
+ Error in asNamespace("ggplot2")$wrap_as_facets_list(...) :
+ attempt to apply non-function
+ Calls: facet_wrap_color -> wrap_as_facets_list
+ Execution halted
+ ```
+
* checking tests ... ERROR
```
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(corx)
+ > library(deeptime)
>
- > test_check("corx")
- [ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
+ > test_check("deeptime")
+ Scale for y is already present.
+ Adding another scale for y, which will replace the existing scale.
+ Scale for y is already present.
...
- 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 16. └─base::.handleSimpleError(...)
- 17. └─purrr (local) h(simpleError(msg, call))
- 18. └─cli::cli_abort(...)
- 19. └─rlang::abort(...)
-
- [ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ]
+ • patterns/geo-pattern2-new.svg
+ • patterns/scale-fill-geopattern-labels-new.svg
+ • patterns/scale-fill-geopattern-limits-new.svg
+ • patterns/scale-fill-geopattern-na-new.svg
+ • patterns/scale-fill-geopattern-na2-new.svg
+ • points_range/geom-points-range-aes-new.svg
+ • points_range/geom-points-range-bg-new.svg
+ • points_range/geom-points-range-h-new.svg
Error: Test failures
Execution halted
```
-# cosinor2
+# DEGRE
-* Version: 0.2.1
-* GitHub: https://github.com/amutak/cosinor2
-* Source code: https://github.com/cran/cosinor2
-* Date/Publication: 2018-10-15 16:10:03 UTC
-* Number of recursive dependencies: 78
+* Version: 0.2.0
+* GitHub: NA
+* Source code: https://github.com/cran/DEGRE
+* Date/Publication: 2022-11-02 09:32:57 UTC
+* Number of recursive dependencies: 95
+
+Run `revdepcheck::cloud_details(, "DEGRE")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘DEGRE’ can be installed ... WARNING
+ ```
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘DEGRE’
+ See ‘/tmp/workdir/DEGRE/new/DEGRE.Rcheck/00install.out’ for details.
+ ```
+
+# Dforest
+
+
-Run `revdepcheck::cloud_details(, "cosinor2")` for more info
+* Version: 0.4.2
+* GitHub: NA
+* Source code: https://github.com/cran/Dforest
+* Date/Publication: 2017-11-28 22:03:57 UTC
+* Number of recursive dependencies: 29
+
+Run `revdepcheck::cloud_details(, "Dforest")` for more info
@@ -4700,77 +3907,90 @@ Run `revdepcheck::cloud_details(, "cosinor2")` for more info
* checking examples ... ERROR
```
- Running examples in ‘cosinor2-Ex.R’ failed
+ Running examples in ‘Dforest-Ex.R’ failed
The error most likely occurred in:
- > ### Name: cosinor.PR
- > ### Title: Percent Rhythm
- > ### Aliases: cosinor.PR
+ > ### Name: DF_easy
+ > ### Title: Simple pre-defined pipeline for Decision forest
+ > ### Aliases: DF_easy
>
> ### ** Examples
>
- > fit.temperature<-cosinor.lm(Temperature~time(Time), period = 24, data = temperature_zg)
+ > # data(demo_simple)
...
- 1 0.9838823 0.9680243 0
+ > Train_X = X[-random_seq[split_sample[[1]]],]
+ > Train_Y = Y[-random_seq[split_sample[[1]]]]
+ > Test_X = X[random_seq[split_sample[[1]]],]
+ > Test_Y = Y[random_seq[split_sample[[1]]]]
>
- > fit.november<-population.cosinor.lm(data = PANAS_november, time = PANAS_time,
- + period = 7)
- MESOR Amplitude Acrophase
- 1 1.435419 0.2662682 -5.544496
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: population.cosinor.lm ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
+ > Result = DF_easy(Train_X, Train_Y, Test_X, Test_Y)
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "blue", high = "darkblue")
+ Calls: DF_easy -> DF_ConfPlot -> scale_color_continuous
Execution halted
```
-* checking running R code from vignettes ... ERROR
+# did
+
+
+
+* Version: 2.1.2
+* GitHub: https://github.com/bcallaway11/did
+* Source code: https://github.com/cran/did
+* Date/Publication: 2022-07-20 16:00:05 UTC
+* Number of recursive dependencies: 155
+
+Run `revdepcheck::cloud_details(, "did")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘did’ can be installed ... WARNING
```
- Errors in running code in vignettes:
- when running code in ‘cosinor2.Rmd’
- ...
- Loading required package: cosinor
-
- > fit.panas.cosinor <- population.cosinor.lm(data = PANAS_november,
- + time = PANAS_time, period = 7)
- MESOR Amplitude Acrophase
- 1 1.435419 0.2662682 -5.544496
-
- When sourcing ‘cosinor2.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
- Execution halted
-
- ‘cosinor2.Rmd’ using ‘UTF-8’... failed
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘did’
+ See ‘/tmp/workdir/did/new/did.Rcheck/00install.out’ for details.
```
-* checking re-building of vignette outputs ... NOTE
+## In both
+
+* checking running R code from vignettes ... WARNING
```
- Error(s) in re-building vignettes:
+ Errors in running code in vignettes:
+ when running code in ‘TWFE.Rmd’
...
- --- re-building ‘cosinor2.Rmd’ using rmarkdown
- Quitting from lines 47-48 [unnamed-chunk-2] (cosinor2.Rmd)
- Error: processing vignette 'cosinor2.Rmd' failed with diagnostics:
- invalid line type: must be length 2, 4, 6 or 8
- --- failed re-building ‘cosinor2.Rmd’
+ > knitr::opts_chunk$set(collapse = TRUE, comment = "#>",
+ + echo = TRUE, eval = FALSE)
- SUMMARY: processing the following file failed:
- ‘cosinor2.Rmd’
+ > library(tidyverse)
- Error: Vignette re-building failed.
+ When sourcing ‘TWFE.R’:
+ ...
+
+ When sourcing ‘pre-testing.R’:
+ Error: cannot open the connection
Execution halted
+
+ ‘TWFE.Rmd’ using ‘UTF-8’... failed
+ ‘did-basics.Rmd’ using ‘UTF-8’... OK
+ ‘extensions.Rmd’ using ‘UTF-8’... failed
+ ‘multi-period-did.Rmd’ using ‘UTF-8’... OK
+ ‘pre-testing.Rmd’ using ‘UTF-8’... failed
```
-# CoSMoS
+# directlabels
-* Version: 2.1.0
-* GitHub: https://github.com/TycheLab/CoSMoS
-* Source code: https://github.com/cran/CoSMoS
-* Date/Publication: 2021-05-29 23:20:08 UTC
+* Version: 2024.1.21
+* GitHub: https://github.com/tdhock/directlabels
+* Source code: https://github.com/cran/directlabels
+* Date/Publication: 2024-01-24 19:20:07 UTC
* Number of recursive dependencies: 81
-Run `revdepcheck::cloud_details(, "CoSMoS")` for more info
+Run `revdepcheck::cloud_details(, "directlabels")` for more info
@@ -4779,77 +3999,121 @@ Run `revdepcheck::cloud_details(, "CoSMoS")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘vignette.Rmd’
+ when running code in ‘examples.Rmd’
...
- `stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
-
- > precip_ggamma <- analyzeTS(TS = precip, season = "month",
- + dist = "ggamma", acsID = "weibull", lag.max = 12)
-
- > reportTS(aTS = precip_ggamma, method = "dist") + theme_light()
+ Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
+ ℹ Please use `linewidth` instead.
+ `geom_smooth()` using method = 'loess' and formula = 'y ~ x'
- When sourcing ‘vignette.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘examples.R’:
+ Error: Problem while computing stat.
+ ℹ Error occurred in the 3rd layer.
+ Caused by error in `get()`:
+ ! object 'last.qp' of mode 'function' was not found
Execution halted
- ‘vignette.Rmd’ using ‘UTF-8’... failed
+ ‘examples.Rmd’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘vignette.Rmd’ using rmarkdown
+ --- re-building ‘examples.Rmd’ using knitr
```
-# countfitteR
+# distributional
-* Version: 1.4
-* GitHub: https://github.com/BioGenies/countfitteR
-* Source code: https://github.com/cran/countfitteR
-* Date/Publication: 2020-09-30 21:30:02 UTC
-* Number of recursive dependencies: 93
+* Version: 0.5.0
+* GitHub: https://github.com/mitchelloharawild/distributional
+* Source code: https://github.com/cran/distributional
+* Date/Publication: 2024-09-17 06:20:02 UTC
+* Number of recursive dependencies: 120
-Run `revdepcheck::cloud_details(, "countfitteR")` for more info
+Run `revdepcheck::cloud_details(, "distributional")` for more info
## Newly broken
-* checking tests ... ERROR
- ```
- Running ‘spelling.R’
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(countfitteR)
- >
- > test_check("countfitteR")
- [ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Failure ('testing.R:45:3'): plot_fit ────────────────────────────────────────
- p$labels[[1]] not equal to "x".
- target is NULL, current is character
-
- [ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ]
- Error: Test failures
- Execution halted
+* checking examples ... ERROR
+ ```
+ Running examples in ‘distributional-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: dist_truncated
+ > ### Title: Truncate a distribution
+ > ### Aliases: dist_truncated
+ >
+ > ### ** Examples
+ >
+ > dist <- dist_truncated(dist_normal(2,1), lower = 0)
+ ...
+ 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. └─base::.handleSimpleError(...)
+ 17. └─rlang (local) h(simpleError(msg, call))
+ 18. └─handlers[[1L]](cnd)
+ 19. └─cli::cli_abort(...)
+ 20. └─rlang::abort(...)
+ Execution halted
```
-# coursekata
-
-
-
-* Version: 0.18.0
-* GitHub: https://github.com/coursekata/coursekata-r
-* Source code: https://github.com/cran/coursekata
-* Date/Publication: 2024-08-16 20:20:02 UTC
-* Number of recursive dependencies: 119
+# distributions3
-Run `revdepcheck::cloud_details(, "coursekata")` for more info
+
+
+* Version: 0.2.2
+* GitHub: https://github.com/alexpghayes/distributions3
+* Source code: https://github.com/cran/distributions3
+* Date/Publication: 2024-09-16 16:20:02 UTC
+* Number of recursive dependencies: 88
+
+Run `revdepcheck::cloud_details(, "distributions3")` for more info
+
+
+
+## Newly broken
+
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(distributions3)
+
+ Attaching package: 'distributions3'
+
+ The following object is masked from 'package:stats':
+
+ ...
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Failure ('test-plot.R:50:3'): ggplot2 implementation works ──────────────────
+ `print(gg1)` produced warnings.
+ ── Failure ('test-plot.R:56:3'): ggplot2 implementation works ──────────────────
+ `print(gg3)` produced warnings.
+
+ [ FAIL 2 | WARN 4 | SKIP 0 | PASS 2766 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+# dittoViz
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/dtm2451/dittoViz
+* Source code: https://github.com/cran/dittoViz
+* Date/Publication: 2024-02-02 00:00:12 UTC
+* Number of recursive dependencies: 98
+
+Run `revdepcheck::cloud_details(, "dittoViz")` for more info
@@ -4857,26 +4121,26 @@ Run `revdepcheck::cloud_details(, "coursekata")` for more info
* checking examples ... ERROR
```
- Running examples in ‘coursekata-Ex.R’ failed
+ Running examples in ‘dittoViz-Ex.R’ failed
The error most likely occurred in:
- > ### Name: middle
- > ### Title: Find a percentage of a distribution
- > ### Aliases: middle tails lower upper
+ > ### Name: barPlot
+ > ### Title: Outputs a stacked bar plot to show the percent composition of
+ > ### samples, groups, clusters, or other groupings
+ > ### Aliases: barPlot
>
> ### ** Examples
>
- >
...
- > tails(1:10, .5)
- [1] TRUE TRUE FALSE FALSE FALSE FALSE FALSE FALSE TRUE TRUE
- >
- > sampling_distribution <- do(1000) * mean(rnorm(100, 5, 10))
- > sampling_distribution %>%
- + gf_histogram(~mean, data = sampling_distribution, fill = ~ middle(mean, .68)) %>%
- + gf_refine(scale_fill_manual(values = c("blue", "coral")))
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ 15 3 D 12 32 0.3750000
+ 16 4 D 8 32 0.2500000
+ > # through hovering the cursor over the relevant parts of the plot
+ > if (requireNamespace("plotly", quietly = TRUE)) {
+ + barPlot(example_df, "clustering", group.by = "groups",
+ + do.hover = TRUE)
+ + }
+ Error in pm[[2]] : subscript out of bounds
+ Calls: barPlot -> -> ggplotly.ggplot -> gg2list
Execution halted
```
@@ -4886,111 +4150,101 @@ Run `revdepcheck::cloud_details(, "coursekata")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(coursekata)
- Loading required package: dslabs
- Loading required package: fivethirtyeight
- Some larger datasets need to be installed separately, like senators and
- house_district_forecast. To install these, we recommend you install the
- fivethirtyeightdata package by running:
+ > library(dittoViz)
+ Loading required package: ggplot2
+ > test_check("dittoViz")
+ [ FAIL 29 | WARN 0 | SKIP 0 | PASS 252 ]
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
...
- • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-color.svg
- • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-facet.svg
- • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-color.svg
- • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-facet.svg
- • gf_model-visual/gf-violin-cond-mod-y-on-y.svg
- • gf_model-visual/gf-violin-horizontal-mull-mod-y-on-x.svg
- • gf_model-visual/gf-violin-mull-mod-y-on-x-2.svg
- • gf_model-visual/gf-violin-null-mod-y-on-y.svg
+ 2. └─dittoViz::freqPlot(...)
+ 3. └─dittoViz::yPlot(...)
+ 4. └─dittoViz:::.warn_or_apply_plotly(p, plots)
+ 5. ├─plotly::ggplotly(p, tooltip = "text")
+ 6. └─plotly:::ggplotly.ggplot(p, tooltip = "text")
+ 7. └─plotly::gg2list(...)
+
+ [ FAIL 29 | WARN 0 | SKIP 0 | PASS 252 ]
Error: Test failures
Execution halted
```
-# covidcast
+# divent
-* Version: 0.5.2
-* GitHub: https://github.com/cmu-delphi/covidcast
-* Source code: https://github.com/cran/covidcast
-* Date/Publication: 2023-07-12 23:40:06 UTC
-* Number of recursive dependencies: 93
+* Version: 0.4-4
+* GitHub: https://github.com/EricMarcon/divent
+* Source code: https://github.com/cran/divent
+* Date/Publication: 2024-11-06 16:10:08 UTC
+* Number of recursive dependencies: 95
-Run `revdepcheck::cloud_details(, "covidcast")` for more info
+Run `revdepcheck::cloud_details(, "divent")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(covidcast)
- We encourage COVIDcast API users to register on our mailing list:
- https://lists.andrew.cmu.edu/mailman/listinfo/delphi-covidcast-api
- We'll send announcements about new data sources, package updates,
- server maintenance, and new features.
- >
+ Running examples in ‘divent-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: accum_div_phylo
+ > ### Title: Phylogenetic Diversity Accumulation of a Community
+ > ### Aliases: accum_div_phylo accum_ent_phylo accum_ent_phylo.numeric
+ > ### accum_ent_phylo.abundances accum_div_phylo.numeric
+ > ### accum_div_phylo.abundances
+ >
+ > ### ** Examples
...
- • plot/default-county-choropleth.svg
- • plot/default-hrr-choropleth-with-include.svg
- • plot/default-msa-choropleth-with-include.svg
- • plot/default-state-choropleth-with-include.svg
- • plot/default-state-choropleth-with-range.svg
- • plot/state-choropleth-with-no-metadata.svg
- • plot/state-line-graph-with-range.svg
- • plot/state-line-graph-with-stderrs.svg
- Error: Test failures
- Execution halted
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. │ └─ggplot2 (local) use_defaults(..., self = self)
+ 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data))
+ 18. │ └─vctrs::list_sizes(x)
+ 19. └─vctrs:::stop_scalar_type(...)
+ 20. └─vctrs:::stop_vctrs(...)
+ 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call)
+ Execution halted
```
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘external-data.Rmd’
+ when running code in ‘divent.Rmd’
...
- Warning: Metadata for signal mean and standard deviation not available; defaulting to observed mean and standard deviation to set plot range.
- Warning in ggplot2::guide_colorbar(title = NULL, horizontal = TRUE, barheight = legend_height, :
- Arguments in `...` must be used.
- ✖ Problematic argument:
- • horizontal = TRUE
- ℹ Did you misspell an argument name?
+ 4 subplot_4 1.56 798
- ...
- Error: Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the `covidcast_signal()` documentation for information on registering for an API key.
- ℹ Message from server:
- ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form
+ > autoplot(paracou_6_abd[1, ])
+
+ When sourcing ‘divent.R’:
+ Error: Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 1st layer.
+ Caused by error in `list_sizes()`:
+ ! `x$shape` must be a vector, not a object.
Execution halted
- ‘correlation-utils.Rmd’ using ‘UTF-8’... OK
- ‘covidcast.Rmd’ using ‘UTF-8’... OK
- ‘external-data.Rmd’ using ‘UTF-8’... failed
- ‘multi-signals.Rmd’ using ‘UTF-8’... OK
- ‘plotting-signals.Rmd’ using ‘UTF-8’... failed
+ ‘divent.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘correlation-utils.Rmd’ using rmarkdown
- --- finished re-building ‘correlation-utils.Rmd’
-
- --- re-building ‘covidcast.Rmd’ using rmarkdown
+ ...
+ --- re-building ‘divent.Rmd’ using rmarkdown
- Quitting from lines 38-45 [unnamed-chunk-1] (covidcast.Rmd)
- Error: processing vignette 'covidcast.Rmd' failed with diagnostics:
- Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the `covidcast_signal()` documentation for information on registering for an API key.
- ℹ Message from server:
- ...
- ℹ Message from server:
- ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form
- --- failed re-building ‘plotting-signals.Rmd’
+ Quitting from lines 59-60 [plot_paracou6] (divent.Rmd)
+ Error: processing vignette 'divent.Rmd' failed with diagnostics:
+ Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 1st layer.
+ Caused by error in `list_sizes()`:
+ ! `x$shape` must be a vector, not a object.
+ --- failed re-building ‘divent.Rmd’
- SUMMARY: processing the following files failed:
- ‘covidcast.Rmd’ ‘external-data.Rmd’ ‘multi-signals.Rmd’
- ‘plotting-signals.Rmd’
+ SUMMARY: processing the following file failed:
+ ‘divent.Rmd’
Error: Vignette re-building failed.
Execution halted
@@ -4998,22 +4252,22 @@ Run `revdepcheck::cloud_details(, "covidcast")` for more info
## In both
-* checking data for non-ASCII characters ... NOTE
+* checking Rd cross-references ... NOTE
```
- Note: found 20 marked UTF-8 strings
+ Package unavailable to check Rd xrefs: ‘dbmss’
```
-# Coxmos
+# dotsViolin
-* Version: 1.0.2
-* GitHub: https://github.com/BiostatOmics/Coxmos
-* Source code: https://github.com/cran/Coxmos
-* Date/Publication: 2024-03-25 20:32:38 UTC
-* Number of recursive dependencies: 194
+* Version: 0.0.1
+* GitHub: NA
+* Source code: https://github.com/cran/dotsViolin
+* Date/Publication: 2023-10-30 13:20:02 UTC
+* Number of recursive dependencies: 39
-Run `revdepcheck::cloud_details(, "Coxmos")` for more info
+Run `revdepcheck::cloud_details(, "dotsViolin")` for more info
@@ -5021,191 +4275,134 @@ Run `revdepcheck::cloud_details(, "Coxmos")` for more info
* checking examples ... ERROR
```
- Running examples in ‘Coxmos-Ex.R’ failed
+ Running examples in ‘dotsViolin-Ex.R’ failed
The error most likely occurred in:
- > ### Name: getAutoKM
- > ### Title: getAutoKM
- > ### Aliases: getAutoKM
+ > ### Name: dots_and_violin
+ > ### Title: Makes a composite dot-plot and violin-plot
+ > ### Aliases: dots_and_violin
+ > ### Keywords: dot-plot violin-plot
>
> ### ** Examples
>
- > data("X_proteomic")
...
- > X_train <- X_proteomic[index_train,1:50]
- > Y_train <- Y_proteomic[index_train,]
- > X_test <- X_proteomic[-index_train,1:50]
- > Y_test <- Y_proteomic[-index_train,]
- > splsicox.model <- splsicox(X_train, Y_train, n.comp = 2, penalty = 0.5, x.center = TRUE,
- + x.scale = TRUE)
- > getAutoKM(type = "LP", model = splsicox.model)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: getAutoKM ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ 29. │ └─ggplot2 (local) draw_group(...)
+ 30. │ ├─ggplot2:::ggname(...)
+ 31. │ │ └─grid::grobName(grob, prefix)
+ 32. │ └─ggplot2:::dotstackGrob(...)
+ 33. └─base::.handleSimpleError(...)
+ 34. └─rlang (local) h(simpleError(msg, call))
+ 35. └─handlers[[1L]](cnd)
+ 36. └─cli::cli_abort(...)
+ 37. └─rlang::abort(...)
Execution halted
```
## In both
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘Coxmos-MO-pipeline.Rmd’
- ...
-
- $proteomic
-
-
- > LST_KM_RES_LP <- getAutoKM(type = "LP", model = lst_models$`SB.sPLS-DRCOX`,
- + comp = 1:4, top = 10, ori_data = T, BREAKTIME = NULL, only_sig = .... [TRUNCATED]
-
- ...
- Warning in data("Y_proteomic") : data set ‘Y_proteomic’ not found
-
- > X <- X_proteomic
-
- When sourcing ‘Coxmos-pipeline.R’:
- Error: object 'X_proteomic' not found
- Execution halted
-
- ‘Coxmos-MO-pipeline.Rmd’ using ‘UTF-8’... failed
- ‘Coxmos-pipeline.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking installed package size ... NOTE
+* checking data for non-ASCII characters ... NOTE
```
- installed size is 7.4Mb
- sub-directories of 1Mb or more:
- R 1.5Mb
- data 2.5Mb
- doc 2.9Mb
+ Note: found 2 marked UTF-8 strings
```
-# cpr
+# drugsens
-* Version: 0.4.0
-* GitHub: https://github.com/dewittpe/cpr
-* Source code: https://github.com/cran/cpr
-* Date/Publication: 2024-02-15 15:40:02 UTC
-* Number of recursive dependencies: 95
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/drugsens
+* Date/Publication: 2025-01-16 15:10:02 UTC
+* Number of recursive dependencies: 96
-Run `revdepcheck::cloud_details(, "cpr")` for more info
+Run `revdepcheck::cloud_details(, "drugsens")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking whether package ‘drugsens’ can be installed ... WARNING
```
- Errors in running code in vignettes:
- when running code in ‘cpr.Rmd’
- ...
- Warning: Removed 25 rows containing missing values or values outside the scale range
- (`geom_rug()`).
- Warning: Removed 26 rows containing missing values or values outside the scale range
- (`geom_rug()`).
- Warning: Removed 38 rows containing missing values or values outside the scale range
- (`geom_rug()`).
-
- When sourcing ‘cpr.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
- Execution halted
-
- ‘cnr.Rmd’ using ‘UTF-8’... OK
- ‘cpr.Rmd’ using ‘UTF-8’... failed
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘drugsens’
+ See ‘/tmp/workdir/drugsens/new/drugsens.Rcheck/00install.out’ for details.
```
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘cnr.Rmd’ using rmarkdown
- ```
+# duke
-## In both
+
+
+* Version: 0.0.3
+* GitHub: https://github.com/aidangildea/duke
+* Source code: https://github.com/cran/duke
+* Date/Publication: 2023-12-15 21:50:16 UTC
+* Number of recursive dependencies: 88
+
+Run `revdepcheck::cloud_details(, "duke")` for more info
+
+
+
+## Newly broken
* checking tests ... ERROR
```
- Running ‘test-bsplineD.R’
- Running ‘test-bsplines.R’
- Running ‘test-btensor.R’
- Running ‘test-build_tensor.R’
- Running ‘test-cn.R’
- Running ‘test-cnr.R’
- Running ‘test-coef_vcov.R’
- Running the tests in ‘tests/test-coef_vcov.R’ failed.
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > # Tests for extracting coefficients and vcov matrix from regression fits
- ...
- + stopifnot(identical(names(COEF_VCOV), c("theta", "coef", "vcov_theta", "vcov")))
- + stopifnot(identical(COEF_VCOV$theta, numeric(0)))
- + stopifnot(identical(COEF_VCOV$coef, fixef(fit)))
- + stopifnot(identical(COEF_VCOV$vcov_theta, matrix(0)[FALSE, FALSE]))
- + stopifnot(identical(COEF_VCOV$vcov, as.matrix(vcov(fit))))
- + })
- Error in initializePtr() :
- function 'cholmod_factor_ldetA' not provided by package 'Matrix'
- Calls: with ... initialize -> -> initializePtr -> .Call
+ > # This file is part of the standard setup for testthat.
+ > # It is recommended that you do not modify it.
+ > #
+ > # Where should you do additional test configuration?
+ > # Learn more about the roles of various files in:
+ > # * https://r-pkgs.org/tests.html
+ > # * https://testthat.r-lib.org/reference/test_package.html#special-files
+ ...
+ 2. │ └─testthat:::expect_condition_matching(...)
+ 3. │ └─testthat:::quasi_capture(...)
+ 4. │ ├─testthat (local) .capture(...)
+ 5. │ │ └─base::withCallingHandlers(...)
+ 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
+ 7. └─testthat::expect_equal(ggplot2::layer_data(p3)$fill[9], "#B5B5B5")
+
+ [ FAIL 1 | WARN 9 | SKIP 0 | PASS 27 ]
+ Error: Test failures
Execution halted
```
-* checking installed package size ... NOTE
- ```
- installed size is 6.6Mb
- sub-directories of 1Mb or more:
- doc 1.6Mb
- libs 4.1Mb
- ```
-
-# cpsvote
+# dymo
-* Version: 0.1.0
-* GitHub: https://github.com/Reed-EVIC/cpsvote
-* Source code: https://github.com/cran/cpsvote
-* Date/Publication: 2020-11-05 16:00:02 UTC
-* Number of recursive dependencies: 90
+* Version: 1.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/dymo
+* Date/Publication: 2022-05-05 08:00:02 UTC
+* Number of recursive dependencies: 147
-Run `revdepcheck::cloud_details(, "cpsvote")` for more info
+Run `revdepcheck::cloud_details(, "dymo")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking whether package ‘dymo’ can be installed ... WARNING
```
- Errors in running code in vignettes:
- when running code in ‘voting.Rmd’
- ...
- + .... [TRUNCATED]
-
- > library(usmap)
-
- > cps16 %>% as_survey_design(weights = turnout_weight) %>%
- + mutate(state = STATE) %>% group_by(state) %>% summarize(turnout = survey_mean(hurach .... [TRUNCATED]
-
- When sourcing ‘voting.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘add-variables.Rmd’ using ‘UTF-8’... OK
- ‘background.Rmd’ using ‘UTF-8’... OK
- ‘basics.Rmd’ using ‘UTF-8’... OK
- ‘voting.Rmd’ using ‘UTF-8’... failed
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘dymo’
+ See ‘/tmp/workdir/dymo/new/dymo.Rcheck/00install.out’ for details.
```
-# crimeutils
+# easysurv
-* Version: 0.5.1
-* GitHub: https://github.com/jacobkap/crimeutils
-* Source code: https://github.com/cran/crimeutils
-* Date/Publication: 2022-12-07 15:10:07 UTC
-* Number of recursive dependencies: 103
+* Version: 2.0.1
+* GitHub: https://github.com/Maple-Health-Group/easysurv
+* Source code: https://github.com/cran/easysurv
+* Date/Publication: 2024-06-21 10:30:06 UTC
+* Number of recursive dependencies: 155
-Run `revdepcheck::cloud_details(, "crimeutils")` for more info
+Run `revdepcheck::cloud_details(, "easysurv")` for more info
@@ -5213,126 +4410,118 @@ Run `revdepcheck::cloud_details(, "crimeutils")` for more info
* checking examples ... ERROR
```
- Running examples in ‘crimeutils-Ex.R’ failed
+ Running examples in ‘easysurv-Ex.R’ failed
The error most likely occurred in:
- > ### Name: scale_linetype_crim
- > ### Title: A set of linetypes
- > ### Aliases: scale_linetype_crim
+ > ### Name: get_km
+ > ### Title: Generate Kaplan-Meier estimates
+ > ### Aliases: get_km
>
> ### ** Examples
>
- > ggplot2::ggplot(mtcars, ggplot2::aes(x = mpg, y = hp, linetype = as.character(cyl))) +
- + ggplot2::geom_line(size = 1) +
- + scale_linetype_crim() +
- + theme_crim()
- Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
- ℹ Please use `linewidth` instead.
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
+ > km_results <- get_km(
+ ...
+ Poor Poor 228 145 3.101736 0.1772520 2.183562 1.978082 2.619178
+ Median follow-up
+ Good 4.452055
+ Medium 4.712329
+ Poor 4.115068
+
+ Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = "{n.risk}", :
+ argument "risktable_height" is missing, with no default
+ Calls: ... ggsurvfit_build -> -> .construct_risktable
+ Execution halted
+ ```
+
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘easysurv.Rmd’
+ ...
+ Median follow-up
+ Tab+Vis 2.217659
+ Tab->Vis 2.220397
+ Tab 2.308008
+ Vis 2.198494
+
+
+ When sourcing ‘easysurv.R’:
+ Error: argument "risktable_height" is missing, with no default
+ Execution halted
+
+ ‘easysurv.Rmd’ using ‘UTF-8’... failed
+ ```
+
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ ...
+ --- re-building ‘easysurv.Rmd’ using rmarkdown
+
+ Quitting from lines 149-157 [km] (easysurv.Rmd)
+ Error: processing vignette 'easysurv.Rmd' failed with diagnostics:
+ argument "risktable_height" is missing, with no default
+ --- failed re-building ‘easysurv.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘easysurv.Rmd’
+
+ Error: Vignette re-building failed.
Execution halted
```
-# crmPack
+# EbayesThresh
-* Version: 1.0.6
-* GitHub: https://github.com/openpharma/crmPack
-* Source code: https://github.com/cran/crmPack
-* Date/Publication: 2024-06-26 15:00:14 UTC
-* Number of recursive dependencies: 70
+* Version: 1.4-12
+* GitHub: https://github.com/stephenslab/EbayesThresh
+* Source code: https://github.com/cran/EbayesThresh
+* Date/Publication: 2017-08-08 04:02:13 UTC
+* Number of recursive dependencies: 66
-Run `revdepcheck::cloud_details(, "crmPack")` for more info
+Run `revdepcheck::cloud_details(, "EbayesThresh")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘crmPack-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: DataMixture-class
- > ### Title: Class for the data with mixture sharing
- > ### Aliases: DataMixture-class .DataMixture
- > ### Keywords: classes
- >
- > ### ** Examples
- >
- ...
- + refDose = 50)
- >
- > nodata <- Data(doseGrid=doseGrid)
- >
- > priorSamples <- mcmc(nodata, model, options)
- > plot(priorSamples, model, nodata)
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘example.Rnw’
+ when running code in ‘ebayesthresh.Rmd’
...
- [1] -5.070681
-
- > newDLTmodel@phi2
- [1] 1.125107
+ + t(error_mat.mean_mse)), nzeros = rep(nzeros/nobs, 3 * 2),
+ + method = rep(rep( .... [TRUNCATED]
- > print(plot(samples, model, data))
+ > ggplot(data = data.error_plot) + facet_grid(. ~ error_post) +
+ + geom_line(aes(x = nzeros, y = mse, col = method), size = 1) +
+ + scale_colo .... [TRUNCATED]
- When sourcing ‘example.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘ebayesthresh.R’:
+ Error: unused argument (h = c(0, 270))
Execution halted
- ‘guidelines.Rmd’ using ‘UTF-8’... OK
- ‘example.Rnw’ using ‘UTF-8’... failed
+ ‘ebayesthresh.Rmd’ using ‘UTF-8’... failed
```
-## In both
-
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘guidelines.Rmd’ using rmarkdown
- --- finished re-building ‘guidelines.Rmd’
-
- --- re-building ‘example.Rnw’ using Sweave
- Loading required package: ggplot2
- Registered S3 method overwritten by 'crmPack':
- method from
- print.gtable gtable
- Type crmPackHelp() to open help browser
- ...
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
-
- --- failed re-building ‘example.Rnw’
-
- SUMMARY: processing the following file failed:
- ‘example.Rnw’
-
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘ebayesthresh.Rmd’ using rmarkdown
```
-# crosshap
+# ecolRxC
-* Version: 1.4.0
-* GitHub: https://github.com/jacobimarsh/crosshap
-* Source code: https://github.com/cran/crosshap
-* Date/Publication: 2024-03-31 15:40:02 UTC
-* Number of recursive dependencies: 117
+* Version: 0.1.1-10
+* GitHub: NA
+* Source code: https://github.com/cran/ecolRxC
+* Date/Publication: 2023-03-31 07:50:02 UTC
+* Number of recursive dependencies: 28
-Run `revdepcheck::cloud_details(, "crosshap")` for more info
+Run `revdepcheck::cloud_details(, "ecolRxC")` for more info
@@ -5340,40 +4529,40 @@ Run `revdepcheck::cloud_details(, "crosshap")` for more info
* checking examples ... ERROR
```
- Running examples in ‘crosshap-Ex.R’ failed
+ Running examples in ‘ecolRxC-Ex.R’ failed
The error most likely occurred in:
- > ### Name: build_bot_halfeyeplot
- > ### Title: Bot hap-pheno raincloud plot
- > ### Aliases: build_bot_halfeyeplot
+ > ### Name: plot.ecolRxC
+ > ### Title: Graphical representation of a RxC ecological inference (vote
+ > ### transfer) matrix
+ > ### Aliases: plot.ecolRxC
>
> ### ** Examples
>
- >
...
- 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
- 13. │ └─l$compute_geom_2(d, theme = plot$theme)
- 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
- 15. │ └─self$geom$use_defaults(...)
- 16. └─base::.handleSimpleError(...)
- 17. └─rlang (local) h(simpleError(msg, call))
- 18. └─handlers[[1L]](cnd)
- 19. └─cli::cli_abort(...)
- 20. └─rlang::abort(...)
+ + C3 = c(78L, 7L, 28L, 42L, 28L, 84L, 49L, 85L, 260L, 100L),
+ + C4 = c(56L, 14L, 20L, 7L, 19L, 54L, 22L, 50L, 330L, 91L),
+ + C5 = c(14L, 3L, 6L, 2L, 3L, 14L, 8L, 8L, 45L, 7L)),
+ + row.names = c(NA, 10L), class = "data.frame")
+ > example <- ecolRxC(votes1, votes2, method = "IPF")
+ > p <- plot(example, show.plot = FALSE)
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (high = "#008B8B80", low = "white")
+ Calls: plot -> plot.ecolRxC ->
Execution halted
```
-# ctrialsgov
+# EGM
-* Version: 0.2.5
-* GitHub: NA
-* Source code: https://github.com/cran/ctrialsgov
-* Date/Publication: 2021-10-18 16:00:02 UTC
-* Number of recursive dependencies: 100
+* Version: 0.1.0
+* GitHub: https://github.com/shah-in-boots/EGM
+* Source code: https://github.com/cran/EGM
+* Date/Publication: 2024-05-23 16:10:05 UTC
+* Number of recursive dependencies: 76
-Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info
+Run `revdepcheck::cloud_details(, "EGM")` for more info
@@ -5385,109 +4574,77 @@ Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(ctrialsgov)
+ > library(EGM)
+ Loading required package: vctrs
+ Loading required package: data.table
+ > EGM::set_wfdb_path("/usr/local/bin")
>
- > test_check("ctrialsgov")
- [NCT04553939] ible Local Advanved |Bladder| Cancer
- [NCT03517995] of Sulforaphane in |Bladder| Cancer Chemoprevent
- [NCT04210479] Comparison of |Bladder| Filling vs. Non-Fil
+ > test_check("EGM")
...
- ▆
- 1. ├─ctrialsgov::ctgov_to_plotly(p) at test-plot.R:12:3
- 2. └─ctrialsgov:::ctgov_to_plotly.ctgov_bar_plot(p)
- 3. ├─plotly::ggplotly(p, tooltip = "text")
- 4. └─plotly:::ggplotly.ggplot(p, tooltip = "text")
- 5. └─plotly::gg2list(...)
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Failure ('test-ggm.R:63:2'): theming works ──────────────────────────────────
+ g$labels$x (`actual`) not equal to "sample" (`expected`).
- [ FAIL 1 | WARN 6 | SKIP 0 | PASS 43 ]
+ `actual` is NULL
+ `expected` is a character vector ('sample')
+
+ [ FAIL 1 | WARN 0 | SKIP 19 | PASS 43 ]
Error: Test failures
Execution halted
```
-## In both
-
-* checking data for non-ASCII characters ... NOTE
- ```
- Note: found 1350 marked UTF-8 strings
- ```
-
-# cubble
+# eiCircles
-* Version: 1.0.0
-* GitHub: https://github.com/huizezhang-sherry/cubble
-* Source code: https://github.com/cran/cubble
-* Date/Publication: 2024-08-27 15:20:02 UTC
-* Number of recursive dependencies: 145
+* Version: 0.0.1-7
+* GitHub: NA
+* Source code: https://github.com/cran/eiCircles
+* Date/Publication: 2024-03-24 19:10:02 UTC
+* Number of recursive dependencies: 30
-Run `revdepcheck::cloud_details(, "cubble")` for more info
+Run `revdepcheck::cloud_details(, "eiCircles")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking examples ... ERROR
```
- Errors in running code in vignettes:
- when running code in ‘cb5match.Rmd’
- ...
- > p2 <- ggplot(res_tm_long, aes(x = date, y = matched,
- + group = type, color = type)) + geom_line() + facet_wrap(vars(group)) +
- + scale_colo .... [TRUNCATED]
-
- > (p1 | p2) + patchwork::plot_layout(guides = "collect") +
- + plot_annotation(tag_levels = "a") & theme(legend.position = "bottom")
+ Running examples in ‘eiCircles-Ex.R’ failed
+ The error most likely occurred in:
+ > ### Name: plot.BPF
+ > ### Title: Graphical representation of a RxC ecological inference (vote
+ > ### transfer) matrix
+ > ### Aliases: plot.BPF
+ >
+ > ### ** Examples
+ >
...
- Error: subscript out of bounds
+ + C3 = c(78L, 7L, 28L, 42L, 28L, 84L, 49L, 85L, 260L, 100L),
+ + C4 = c(56L, 14L, 20L, 7L, 19L, 54L, 22L, 50L, 330L, 91L),
+ + C5 = c(14L, 3L, 6L, 2L, 3L, 14L, 8L, 8L, 45L, 7L)),
+ + row.names = c(NA, 10L), class = "data.frame")
+ > example <- BPF(votes1, votes2)
+ > p <- plot(example, show.plot = FALSE)
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (high = "#A2CD5A80", low = "white")
+ Calls: plot -> plot.BPF ->
Execution halted
-
- ‘cb1class.Rmd’ using ‘UTF-8’... OK
- ‘cb2create.Rmd’ using ‘UTF-8’... OK
- ‘cb3tsibblesf.Rmd’ using ‘UTF-8’... OK
- ‘cb4glyph.Rmd’ using ‘UTF-8’... OK
- ‘cb5match.Rmd’ using ‘UTF-8’... failed
- ‘cb6interactive.Rmd’ using ‘UTF-8’... failed
- ‘cb7misc.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘cb1class.Rmd’ using rmarkdown
- --- finished re-building ‘cb1class.Rmd’
-
- --- re-building ‘cb2create.Rmd’ using rmarkdown
- --- finished re-building ‘cb2create.Rmd’
-
- --- re-building ‘cb3tsibblesf.Rmd’ using rmarkdown
- --- finished re-building ‘cb3tsibblesf.Rmd’
-
- --- re-building ‘cb4glyph.Rmd’ using rmarkdown
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 5.6Mb
- sub-directories of 1Mb or more:
- data 3.0Mb
- doc 1.4Mb
```
-# curtailment
+# entropart
-* Version: 0.2.6
-* GitHub: https://github.com/martinlaw/curtailment
-* Source code: https://github.com/cran/curtailment
-* Date/Publication: 2023-10-25 15:50:04 UTC
-* Number of recursive dependencies: 36
+* Version: 1.6-15
+* GitHub: https://github.com/EricMarcon/entropart
+* Source code: https://github.com/cran/entropart
+* Date/Publication: 2024-08-26 19:30:09 UTC
+* Number of recursive dependencies: 128
-Run `revdepcheck::cloud_details(, "curtailment")` for more info
+Run `revdepcheck::cloud_details(, "entropart")` for more info
@@ -5495,131 +4652,131 @@ Run `revdepcheck::cloud_details(, "curtailment")` for more info
* checking examples ... ERROR
```
- Running examples in ‘curtailment-Ex.R’ failed
+ Running examples in ‘entropart-Ex.R’ failed
The error most likely occurred in:
- > ### Name: drawDiagramGeneric
- > ### Title: drawDiagramGeneric
- > ### Aliases: drawDiagramGeneric
+ > ### Name: Accumulation
+ > ### Title: Diversity accumulation.
+ > ### Aliases: DivAC EntAC as.AccumCurve is.AccumCurve autoplot.AccumCurve
+ > ### plot.AccumCurve
>
> ### ** Examples
>
- > go <- cbind(6:8, rep(8,3))
...
- 4. └─ggplot2:::ggplot_build.ggplot(x)
- 5. └─layout$setup(data, plot$data, plot$plot_env)
- 6. └─ggplot2 (local) setup(..., self = self)
- 7. └─self$coord$setup_params(data)
- 8. └─ggplot2 (local) setup_params(..., self = self)
- 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE)
- 10. └─ggplot2:::check_logical(expand)
- 11. └─ggplot2:::stop_input_type(...)
- 12. └─rlang::abort(message, ..., call = call, arg = arg)
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. │ └─ggplot2 (local) use_defaults(..., self = self)
+ 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data))
+ 18. │ └─vctrs::list_sizes(x)
+ 19. └─vctrs:::stop_scalar_type(...)
+ 20. └─vctrs:::stop_vctrs(...)
+ 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call)
Execution halted
```
-# dabestr
-
-
-
-* Version: 2023.9.12
-* GitHub: https://github.com/ACCLAB/dabestr
-* Source code: https://github.com/cran/dabestr
-* Date/Publication: 2023-10-13 11:50:06 UTC
-* Number of recursive dependencies: 85
-
-Run `revdepcheck::cloud_details(, "dabestr")` for more info
-
-
-
-## Newly broken
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘tutorial_deltadelta.Rmd’
+ when running code in ‘entropart.Rmd’
...
- > paired_delta2.mean_diff <- load(df, x = Treatment,
- + y = Measurement, experiment = Genotype, colour = Rep, delta2 = TRUE,
- + idx = list(c(" ..." ... [TRUNCATED]
+ > Abd18 <- as.AbdVector(N18)
- > dabest_plot(paired_delta2.mean_diff, raw_marker_size = 0.5,
- + raw_marker_alpha = 0.3)
+ > autoplot(Abd18, Distribution = "lnorm")
- ...
- Error: argument is of length zero
+ When sourcing ‘entropart.R’:
+ Error: Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 1st layer.
+ Caused by error in `list_sizes()`:
+ ! `x$shape` must be a vector, not a object.
Execution halted
- ‘datasets.Rmd’ using ‘UTF-8’... OK
- ‘plot_aesthetics.Rmd’ using ‘UTF-8’... OK
- ‘tutorial_basics.Rmd’ using ‘UTF-8’... OK
- ‘tutorial_deltadelta.Rmd’ using ‘UTF-8’... failed
- ‘tutorial_minimeta.Rmd’ using ‘UTF-8’... failed
- ‘tutorial_proportion_plots.Rmd’ using ‘UTF-8’... OK
- ‘tutorial_repeated_measures.Rmd’ using ‘UTF-8’... failed
+ ‘entropart.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘datasets.Rmd’ using rmarkdown
- --- finished re-building ‘datasets.Rmd’
+ ...
+ --- re-building ‘entropart.Rmd’ using rmarkdown
+
+ Quitting from lines 53-55 [PlotN18] (entropart.Rmd)
+ Error: processing vignette 'entropart.Rmd' failed with diagnostics:
+ Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 1st layer.
+ Caused by error in `list_sizes()`:
+ ! `x$shape` must be a vector, not a object.
+ --- failed re-building ‘entropart.Rmd’
+
+ SUMMARY: processing the following file failed:
+ ‘entropart.Rmd’
- --- re-building ‘plot_aesthetics.Rmd’ using rmarkdown
+ Error: Vignette re-building failed.
+ Execution halted
```
-# DAISIEprep
+# epiCleanr
-* Version: 0.4.0
-* GitHub: https://github.com/joshwlambert/DAISIEprep
-* Source code: https://github.com/cran/DAISIEprep
-* Date/Publication: 2024-04-02 11:30:06 UTC
-* Number of recursive dependencies: 149
+* Version: 0.2.0
+* GitHub: https://github.com/truenomad/epiCleanr
+* Source code: https://github.com/cran/epiCleanr
+* Date/Publication: 2023-09-28 12:20:05 UTC
+* Number of recursive dependencies: 129
-Run `revdepcheck::cloud_details(, "DAISIEprep")` for more info
+Run `revdepcheck::cloud_details(, "epiCleanr")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(DAISIEprep)
- >
- > test_check("DAISIEprep")
- [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ]
-
- ══ Skipped tests (14) ══════════════════════════════════════════════════════════
+ Running examples in ‘epiCleanr-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: handle_outliers
+ > ### Title: Detect and Handle Outliers in Dataset
+ > ### Aliases: handle_outliers
+ >
+ > ### ** Examples
+ >
+ >
...
- ── Failure ('test-plot_phylod.R:8:3'): plot_phylod runs silent without error ───
- `plot_phylod(phylod = phylod, node_pies = FALSE)` produced warnings.
- ── Failure ('test-plot_phylod.R:13:3'): plot_phylod runs silent without error ──
- `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings.
- ── Failure ('test-plot_phylod.R:18:3'): plot_phylod runs silent without error ──
- `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings.
-
- [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ]
- Error: Test failures
- Execution halted
+ 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. └─base::.handleSimpleError(...)
+ 17. └─rlang (local) h(simpleError(msg, call))
+ 18. └─handlers[[1L]](cnd)
+ 19. └─cli::cli_abort(...)
+ 20. └─rlang::abort(...)
+ Execution halted
+ ```
+
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.6Mb
+ sub-directories of 1Mb or more:
+ doc 2.9Mb
+ help 2.5Mb
```
-# dbmss
+# epiphy
-* Version: 2.9-2
-* GitHub: https://github.com/EricMarcon/dbmss
-* Source code: https://github.com/cran/dbmss
-* Date/Publication: 2024-08-24 11:00:02 UTC
-* Number of recursive dependencies: 96
+* Version: 0.5.0
+* GitHub: https://github.com/chgigot/epiphy
+* Source code: https://github.com/cran/epiphy
+* Date/Publication: 2023-11-16 11:20:10 UTC
+* Number of recursive dependencies: 91
-Run `revdepcheck::cloud_details(, "dbmss")` for more info
+Run `revdepcheck::cloud_details(, "epiphy")` for more info
@@ -5627,148 +4784,84 @@ Run `revdepcheck::cloud_details(, "dbmss")` for more info
* checking examples ... ERROR
```
- Running examples in ‘dbmss-Ex.R’ failed
+ Running examples in ‘epiphy-Ex.R’ failed
The error most likely occurred in:
- > ### Name: DEnvelope
- > ### Title: Estimation of the confidence envelope of the D function under
- > ### its null hypothesis
- > ### Aliases: DEnvelope
+ > ### Name: clump
+ > ### Title: Regroup observational data into even clumps of individuals.
+ > ### Aliases: clump clump.intensity
>
> ### ** Examples
>
+ > my_incidence <- incidence(tomato_tswv$field_1929)
...
- > r <- 0:30
- > NumberOfSimulations <- 20
- > Alpha <- .05
- > # Plot the envelope (after normalization by pi.r^2)
- > autoplot(DEnvelope(X, r, NumberOfSimulations, Alpha,
- + "V. Americana", "Q. Rosea", Intertype = TRUE), ./(pi*r^2) ~ r)
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘dbmss.Rmd’
- ...
-
- > autoplot(paracou16, labelSize = expression("Basal area (" ~
- + cm^2 ~ ")"), labelColor = "Species")
-
- > autoplot(Mhat(paracou16, ReferenceType = "V. Americana",
- + NeighborType = "Q. Rosea"), main = "")
-
- When sourcing ‘dbmss.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ 18. │ └─ggplot2 (local) setup_params(...)
+ 19. │ └─ggplot2:::make_summary_fun(...)
+ 20. │ └─rlang::as_function(fun.data)
+ 21. │ └─base::get(x, envir = env, mode = "function")
+ 22. └─base::.handleSimpleError(...)
+ 23. └─rlang (local) h(simpleError(msg, call))
+ 24. └─handlers[[1L]](cnd)
+ 25. └─cli::cli_abort(...)
+ 26. └─rlang::abort(...)
Execution halted
-
- ‘dbmss.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘dbmss.Rmd’ using rmarkdown
```
-# deeptime
+# episensr
-* Version: 2.0.0
-* GitHub: https://github.com/willgearty/deeptime
-* Source code: https://github.com/cran/deeptime
-* Date/Publication: 2024-08-19 07:00:43 UTC
-* Number of recursive dependencies: 197
+* Version: 1.3.0
+* GitHub: https://github.com/dhaine/episensr
+* Source code: https://github.com/cran/episensr
+* Date/Publication: 2023-08-30 09:20:05 UTC
+* Number of recursive dependencies: 105
-Run `revdepcheck::cloud_details(, "deeptime")` for more info
+Run `revdepcheck::cloud_details(, "episensr")` for more info
## Newly broken
-* checking tests ... ERROR
- ```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(deeptime)
- >
- > test_check("deeptime")
- Scale for y is already present.
- Adding another scale for y, which will replace the existing scale.
- Scale for y is already present.
- ...
- • patterns/geo-pattern2-new.svg
- • patterns/scale-fill-geopattern-labels-new.svg
- • patterns/scale-fill-geopattern-limits-new.svg
- • patterns/scale-fill-geopattern-na-new.svg
- • patterns/scale-fill-geopattern-na2-new.svg
- • points_range/geom-points-range-aes-new.svg
- • points_range/geom-points-range-bg-new.svg
- • points_range/geom-points-range-h-new.svg
- Error: Test failures
- Execution halted
- ```
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘coord_geo.Rmd’
+ when running code in ‘d_other_sens.Rmd’
...
- + y = n)) + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") +
- + coord_geo(xlim = .... [TRUNCATED]
+ Warning: A numeric `legend.position` argument in `theme()` was deprecated in ggplot2
+ 3.5.0.
+ ℹ Please use the `legend.position.inside` argument of `theme()` instead.
- > ggplot(coral_div) + geom_line(aes(x = stage_age, y = n)) +
- + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") + coord_geo(dat = "periods",
- + .... [TRUNCATED]
-
- ...
- Error: argument is of length zero
+ When sourcing ‘d_other_sens.R’:
+ Error: Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 3rd layer.
+ Caused by error in `list_sizes()`:
+ ! `x$label` must be a vector, not an expression vector.
Execution halted
- ‘coord.Rmd’ using ‘UTF-8’... OK
- ‘coord_geo.Rmd’ using ‘UTF-8’... failed
- ‘geo.Rmd’ using ‘UTF-8’... OK
- ‘ggarrange2.Rmd’ using ‘UTF-8’... OK
- ‘phylogenies.Rmd’ using ‘UTF-8’... OK
- ‘time.Rmd’ using ‘UTF-8’... failed
- ‘traits.Rmd’ using ‘UTF-8’... OK
+ ‘b_probabilistic.Rmd’ using ‘UTF-8’... OK
+ ‘c_multiple_bias.Rmd’ using ‘UTF-8’... OK
+ ‘d_other_sens.Rmd’ using ‘UTF-8’... failed
+ ‘episensr.Rmd’ using ‘UTF-8’... OK
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘coord.Rmd’ using rmarkdown
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 5.9Mb
- sub-directories of 1Mb or more:
- R 2.8Mb
- doc 1.8Mb
- help 1.1Mb
+ --- re-building ‘b_probabilistic.Rmd’ using rmarkdown
```
-# descriptio
+# EQUALSTATS
-* Version: 1.3
-* GitHub: https://github.com/nicolas-robette/descriptio
-* Source code: https://github.com/cran/descriptio
-* Date/Publication: 2024-03-07 11:00:02 UTC
-* Number of recursive dependencies: 98
+* Version: 0.5.0
+* GitHub: NA
+* Source code: https://github.com/cran/EQUALSTATS
+* Date/Publication: 2024-09-23 08:30:02 UTC
+* Number of recursive dependencies: 131
-Run `revdepcheck::cloud_details(, "descriptio")` for more info
+Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info
@@ -5776,20 +4869,26 @@ Run `revdepcheck::cloud_details(, "descriptio")` for more info
* checking examples ... ERROR
```
- Running examples in ‘descriptio-Ex.R’ failed
+ Running examples in ‘EQUALSTATS-Ex.R’ failed
The error most likely occurred in:
- > ### Name: ggassoc_crosstab
- > ### Title: Proportional area plot
- > ### Aliases: ggassoc_crosstab
- > ### Keywords: multivariate aplot
+ > ### Name: function.Survival_Analysis
+ > ### Title: Perform Survival Analysis
+ > ### Aliases: function.Survival_Analysis
>
> ### ** Examples
>
- > data(Movies)
- > ggassoc_crosstab(data=Movies, mapping=ggplot2::aes(Genre, Country))
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: ggassoc_crosstab ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > # Create simulated data ####
+ ...
+ > rv$second_menu_choice <- NA
+ > rv$entry[[1]] <- "Admission to care home"
+ > rv$entry[[2]] <- "Follow-up"
+ > rv$entry[[3]] <- "Treatment"
+ > # Final function ####
+ > Results <- function.Survival_Analysis(Predefined_lists, rv)
+ Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = c("{n.risk}", :
+ argument "risktable_height" is missing, with no default
+ Calls: function.Survival_Analysis
Execution halted
```
@@ -5797,61 +4896,20 @@ Run `revdepcheck::cloud_details(, "descriptio")` for more info
* checking Rd cross-references ... NOTE
```
- Packages unavailable to check Rd xrefs: ‘FactoMineR’, ‘vcd’
- ```
-
-# directlabels
-
-
-
-* Version: 2024.1.21
-* GitHub: https://github.com/tdhock/directlabels
-* Source code: https://github.com/cran/directlabels
-* Date/Publication: 2024-01-24 19:20:07 UTC
-* Number of recursive dependencies: 82
-
-Run `revdepcheck::cloud_details(, "directlabels")` for more info
-
-
-
-## Newly broken
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘examples.Rmd’
- ...
- Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
- ℹ Please use `linewidth` instead.
- `geom_smooth()` using method = 'loess' and formula = 'y ~ x'
-
- When sourcing ‘examples.R’:
- Error: Problem while computing stat.
- ℹ Error occurred in the 3rd layer.
- Caused by error in `get()`:
- ! object 'last.qp' of mode 'function' was not found
- Execution halted
-
- ‘examples.Rmd’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘examples.Rmd’ using knitr
+ Package unavailable to check Rd xrefs: ‘lmerTest’
```
-# disto
+# errors
-* Version: 0.2.0
-* GitHub: https://github.com/talegari/disto
-* Source code: https://github.com/cran/disto
-* Date/Publication: 2018-08-02 12:50:02 UTC
-* Number of recursive dependencies: 115
+* Version: 0.4.3
+* GitHub: https://github.com/r-quantities/errors
+* Source code: https://github.com/cran/errors
+* Date/Publication: 2025-01-18 18:10:05 UTC
+* Number of recursive dependencies: 68
-Run `revdepcheck::cloud_details(, "disto")` for more info
+Run `revdepcheck::cloud_details(, "errors")` for more info
@@ -5859,193 +4917,121 @@ Run `revdepcheck::cloud_details(, "disto")` for more info
* checking examples ... ERROR
```
- Running examples in ‘disto-Ex.R’ failed
+ Running examples in ‘errors-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot.disto
- > ### Title: Plot a disto object
- > ### Aliases: plot.disto
+ > ### Name: geom_errors
+ > ### Title: Errorbars for 'errors' objects
+ > ### Aliases: geom_errors
>
> ### ** Examples
>
- > temp <- stats::dist(iris[,1:4])
+ > if (requireNamespace("ggplot2", quietly=TRUE)) {
...
- > dio <- disto(objectname = "temp")
- > plot(dio, type = "heatmap")
- > plot(dio, type = "dendrogram")
- Warning: The `` argument of `guides()` cannot be `FALSE`. Use "none" instead as
- of ggplot2 3.3.4.
- ℹ The deprecated feature was likely used in the factoextra package.
- Please report the issue at .
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ 20. │ └─self$draw_panel(data, panel_params, coord, width = 0.05, height = 0.05)
+ 21. │ └─errors (local) draw_panel(...)
+ 22. │ ├─base::append(...)
+ 23. │ └─ggplot2::GeomErrorbarh$draw_panel(...)
+ 24. └─base::.handleSimpleError(...)
+ 25. └─rlang (local) h(simpleError(msg, call))
+ 26. └─handlers[[1L]](cnd)
+ 27. └─cli::cli_abort(...)
+ 28. └─rlang::abort(...)
Execution halted
```
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘vignette_disto.Rmd’
+ when running code in ‘rjournal.Rmd’
...
- > plot(dio, type = "dendrogram")
- Warning: The `` argument of `guides()` cannot be `FALSE`. Use "none" instead as
- of ggplot2 3.3.4.
- ℹ The deprecated feature was likely used in the factoextra package.
- Please report the issue at .
+ > print(p, vp = vp1)
+ Warning: In '<' : boolean operators not defined for 'errors' objects, uncertainty dropped
- When sourcing ‘vignette_disto.R’:
- Error: argument is of length zero
+ When sourcing ‘rjournal.R’:
+ Error: Problem while converting geom to grob.
+ ℹ Error occurred in the 2nd layer.
+ Caused by error in `draw_panel()`:
+ ! unused argument (height = NULL)
Execution halted
- ‘vignette_disto.Rmd’ using ‘UTF-8’... failed
+ ‘rjournal.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
...
- --- re-building ‘vignette_disto.Rmd’ using rmarkdown
+ --- re-building ‘rjournal.Rmd’ using rmarkdown
- Quitting from lines 42-72 [unnamed-chunk-1] (vignette_disto.Rmd)
- Error: processing vignette 'vignette_disto.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘vignette_disto.Rmd’
+ Quitting from lines 253-272 [plot] (rjournal.Rmd)
+ Error: processing vignette 'rjournal.Rmd' failed with diagnostics:
+ Problem while converting geom to grob.
+ ℹ Error occurred in the 2nd layer.
+ Caused by error in `draw_panel()`:
+ ! unused argument (height = NULL)
+ --- failed re-building ‘rjournal.Rmd’
SUMMARY: processing the following file failed:
- ‘vignette_disto.Rmd’
+ ‘rjournal.Rmd’
Error: Vignette re-building failed.
Execution halted
```
-## In both
-
-* checking dependencies in R code ... NOTE
- ```
- Namespaces in Imports field not imported from:
- ‘dplyr’ ‘proxy’
- All declared Imports should be used.
- ```
-
-# distributional
-
-
-
-* Version: 0.4.0
-* GitHub: https://github.com/mitchelloharawild/distributional
-* Source code: https://github.com/cran/distributional
-* Date/Publication: 2024-02-07 13:30:02 UTC
-* Number of recursive dependencies: 64
-
-Run `revdepcheck::cloud_details(, "distributional")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘distributional-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: dist_truncated
- > ### Title: Truncate a distribution
- > ### Aliases: dist_truncated
- >
- > ### ** Examples
- >
- > dist <- dist_truncated(dist_normal(2,1), lower = 0)
- ...
- 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
- 13. │ └─l$compute_geom_2(d, theme = plot$theme)
- 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
- 15. │ └─self$geom$use_defaults(...)
- 16. └─base::.handleSimpleError(...)
- 17. └─rlang (local) h(simpleError(msg, call))
- 18. └─handlers[[1L]](cnd)
- 19. └─cli::cli_abort(...)
- 20. └─rlang::abort(...)
- Execution halted
- ```
-
-# dittoViz
+# eRTG3D
-* Version: 1.0.1
-* GitHub: https://github.com/dtm2451/dittoViz
-* Source code: https://github.com/cran/dittoViz
-* Date/Publication: 2024-02-02 00:00:12 UTC
-* Number of recursive dependencies: 99
+* Version: 0.7.0
+* GitHub: https://github.com/munterfi/eRTG3D
+* Source code: https://github.com/cran/eRTG3D
+* Date/Publication: 2022-02-25 12:10:05 UTC
+* Number of recursive dependencies: 114
-Run `revdepcheck::cloud_details(, "dittoViz")` for more info
+Run `revdepcheck::cloud_details(, "eRTG3D")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘dittoViz-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: barPlot
- > ### Title: Outputs a stacked bar plot to show the percent composition of
- > ### samples, groups, clusters, or other groupings
- > ### Aliases: barPlot
- >
- > ### ** Examples
- >
- ...
- 15 3 D 12 32 0.3750000
- 16 4 D 8 32 0.2500000
- > # through hovering the cursor over the relevant parts of the plot
- > if (requireNamespace("plotly", quietly = TRUE)) {
- + barPlot(example_df, "clustering", group.by = "groups",
- + do.hover = TRUE)
- + }
- Error in pm[[2]] : subscript out of bounds
- Calls: barPlot -> -> ggplotly.ggplot -> gg2list
- Execution halted
- ```
-
* checking tests ... ERROR
```
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(dittoViz)
- Loading required package: ggplot2
- > test_check("dittoViz")
- [ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ]
+ > library(eRTG3D)
+ >
+ > test_check("eRTG3D")
+ [ FAIL 1 | WARN 3 | SKIP 0 | PASS 103 ]
══ Failed tests ════════════════════════════════════════════════════════════════
...
- 6. └─dittoViz:::.yPlot_add_data_y_direction(...)
- 7. └─ggplot2:::`+.gg`(p, do.call(geom_boxplot, boxplot.args))
- 8. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 9. ├─ggplot2::ggplot_add(object, p, objectname)
- 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 11. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ 18. └─base::serialize(data, node$con, xdr = FALSE)
- [ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ]
+ [ FAIL 1 | WARN 3 | SKIP 0 | PASS 103 ]
Error: Test failures
+ In addition: Warning messages:
+ 1: In for (i in seq_len(differences)) r <- r[i1] - r[-length(r):-(length(r) - :
+ closing unused connection 7 (<-localhost:11153)
+ 2: In for (i in seq_len(differences)) r <- r[i1] - r[-length(r):-(length(r) - :
+ closing unused connection 6 (<-localhost:11153)
Execution halted
```
-# dotwhisker
+# esci
-* Version: 0.8.2
-* GitHub: https://github.com/fsolt/dotwhisker
-* Source code: https://github.com/cran/dotwhisker
-* Date/Publication: 2024-06-07 12:20:06 UTC
-* Number of recursive dependencies: 72
+* Version: 1.0.6
+* GitHub: https://github.com/rcalinjageman/esci
+* Source code: https://github.com/cran/esci
+* Date/Publication: 2024-12-21 16:00:02 UTC
+* Number of recursive dependencies: 92
-Run `revdepcheck::cloud_details(, "dotwhisker")` for more info
+Run `revdepcheck::cloud_details(, "esci")` for more info
@@ -6053,105 +5039,74 @@ Run `revdepcheck::cloud_details(, "dotwhisker")` for more info
* checking examples ... ERROR
```
- Running examples in ‘dotwhisker-Ex.R’ failed
+ Running examples in ‘esci-Ex.R’ failed
The error most likely occurred in:
- > ### Name: small_multiple
- > ### Title: Generate a 'Small Multiple' Plot of Regression Results
- > ### Aliases: small_multiple
+ > ### Name: estimate_mdiff_2x2_between
+ > ### Title: Estimates for a 2x2 between-subjects design with a continuous
+ > ### outcome variable
+ > ### Aliases: estimate_mdiff_2x2_between
>
> ### ** Examples
>
- > library(broom)
...
- + m[[i]] <- update(m[[i-1]], paste(". ~ . +", ordered_vars[i]))
- + m123456_df <- rbind(m123456_df, m[[i]] %>% tidy %>% by_2sd(mtcars) %>%
- + mutate(model = paste("Model", i)))
- + }
- >
- > # Generate a 'small multiple' plot
- > small_multiple(m123456_df)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: small_multiple ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ + estimates_from_summary$interaction,
+ + effect_size = "mean"
+ + )
+ Warning: Using size for a discrete variable is not advised.
+ Warning: Using alpha for a discrete variable is not advised.
+ Error in use_defaults(..., self = self) :
+ unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL,
+ Calls: ... -> -> compute_geom_2 ->
Execution halted
```
-* checking running R code from vignettes ... ERROR
+* checking tests ... ERROR
```
- Errors in running code in vignettes:
- when running code in ‘dotwhisker-vignette.Rmd’
- ...
- + wt = "Weight", cyl = "Cylinders", disp = "Displacement",
- + .... [TRUNCATED]
-
- > small_multiple(m123456_df) + theme_bw(base_size = 4) +
- + ylab("Coefficient Estimate") + geom_hline(yintercept = 0,
- + colour = "grey60", li .... [TRUNCATED]
-
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(esci)
+ >
+ > test_check("esci")
+ [1] "WARNING: ratio-scale scores cannot be negative"
+ [1] "WARNING: ratio-scale scores cannot be negative"
+ [1] "WARNING: ratio-scale scores cannot be negative"
...
-
- > small_multiple(results_df, show_stats = FALSE) + scale_x_discrete(limits = model_names) +
- + theme_bw() + ylab("Coefficient Estimate") + geom_hl .... [TRUNCATED]
-
- When sourcing ‘kl2007_examples.R’:
- Error: argument is of length zero
- Execution halted
-
- ‘dotwhisker-vignette.Rmd’ using ‘UTF-8’... failed
- ‘kl2007_examples.Rmd’ using ‘ASCII’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘dotwhisker-vignette.Rmd’ using rmarkdown
+ 17. │ └─self$geom$use_defaults(...)
+ 18. └─base::.handleSimpleError(...)
+ 19. └─rlang (local) h(simpleError(msg, call))
+ 20. └─handlers[[1L]](cnd)
+ 21. └─cli::cli_abort(...)
+ 22. └─rlang::abort(...)
+
+ [ FAIL 3 | WARN 0 | SKIP 52 | PASS 2889 ]
+ Error: Test failures
+ Execution halted
```
-# DRomics
+# evalITR
-* Version: 2.5-2
-* GitHub: https://github.com/aursiber/DRomics
-* Source code: https://github.com/cran/DRomics
-* Date/Publication: 2024-01-31 09:30:02 UTC
-* Number of recursive dependencies: 153
+* Version: 1.0.0
+* GitHub: https://github.com/MichaelLLi/evalITR
+* Source code: https://github.com/cran/evalITR
+* Date/Publication: 2023-08-25 23:10:06 UTC
+* Number of recursive dependencies: 166
-Run `revdepcheck::cloud_details(, "DRomics")` for more info
+Run `revdepcheck::cloud_details(, "evalITR")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘DRomics-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: PCAdataplot
- > ### Title: Performs and plots the results of a PCA on omic data
- > ### Aliases: PCAdataplot
- >
- > ### ** Examples
- >
- >
- ...
- Number of items: 100
- Identifiers of the first 20 items:
- [1] "1" "2" "3" "4" "5.1" "6.1" "7.1" "8.1" "9.1" "10.1"
- [11] "11.1" "12.1" "13.1" "14.1" "15" "16.1" "17.1" "18.1" "19.1" "20.1"
- Data were normalized between arrays using the following method: cyclicloess
- > plot(o)
- > PCAdataplot(o)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: PCAdataplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘DRomics_vignette.Rmd’ using rmarkdown
+ --- re-building ‘cv_multiple_alg.Rmd’ using rmarkdown
```
## In both
@@ -6159,40 +5114,46 @@ Run `revdepcheck::cloud_details(, "DRomics")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘DRomics_vignette.Rmd’
+ when running code in ‘cv_multiple_alg.Rmd’
...
- [16] "ENSDARG00000100660" "ENSDARG00000113107" "ENSDARG00000099787"
- [19] "ENSDARG00000112451" "ENSDARG00000070546"
- Data were normalized with respect to library size and tranformed using
- the following method: rlog
+ intersect, setdiff, setequal, union
- > PCAdataplot(o, batch = zebraf$batch) + theme_bw()
- When sourcing ‘DRomics_vignette.R’:
- Error: argument is of length zero
+ > load("../data/star.rda")
+ Warning in readChar(con, 5L, useBytes = TRUE) :
+ cannot open compressed file '../data/star.rda', probable reason 'No such file or directory'
+
+ ...
Execution halted
- ‘DRomics_vignette.Rmd’ using ‘UTF-8’... failed
+ ‘cv_multiple_alg.Rmd’ using ‘UTF-8’... failed
+ ‘cv_single_alg.Rmd’ using ‘UTF-8’... failed
+ ‘install.Rmd’ using ‘UTF-8’... OK
+ ‘paper_alg1.Rmd’ using ‘UTF-8’... OK
+ ‘sample_split.Rmd’ using ‘UTF-8’... failed
+ ‘sample_split_caret.Rmd’ using ‘UTF-8’... failed
+ ‘user_itr.Rmd’ using ‘UTF-8’... failed
+ ‘user_itr_algs.Rmd’ using ‘UTF-8’... failed
```
-* checking installed package size ... NOTE
+* checking dependencies in R code ... NOTE
```
- installed size is 6.2Mb
- sub-directories of 1Mb or more:
- doc 2.9Mb
+ Namespaces in Imports field not imported from:
+ ‘forcats’ ‘rqPen’ ‘utils’
+ All declared Imports should be used.
```
-# dtwclust
+# eventstudyr
-* Version: 6.0.0
-* GitHub: https://github.com/asardaes/dtwclust
-* Source code: https://github.com/cran/dtwclust
-* Date/Publication: 2024-07-23 08:50:02 UTC
-* Number of recursive dependencies: 96
+* Version: 1.1.3
+* GitHub: https://github.com/JMSLab/eventstudyr
+* Source code: https://github.com/cran/eventstudyr
+* Date/Publication: 2024-03-04 15:00:02 UTC
+* Number of recursive dependencies: 100
-Run `revdepcheck::cloud_details(, "dtwclust")` for more info
+Run `revdepcheck::cloud_details(, "eventstudyr")` for more info
@@ -6203,62 +5164,37 @@ Run `revdepcheck::cloud_details(, "dtwclust")` for more info
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > library(dtwclust)
- Loading required package: proxy
-
- Attaching package: 'proxy'
-
- The following objects are masked from 'package:stats':
-
+ > library(testthat)
+ > library(eventstudyr)
+ >
+ > test_check("eventstudyr")
+ Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
+ Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
+ Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
...
- 7. └─dtwclust (local) .local(x, y = y, ...)
- 8. └─ggplot2:::`+.gg`(gg, do_call(ggrepel::geom_label_repel, labels))
- 9. └─ggplot2:::add_ggplot(e1, e2, e2name)
- 10. ├─ggplot2::ggplot_add(object, p, objectname)
- 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 12. └─ggplot2:::new_layer_names(object, names(plot$layers))
+ `expected` is a character vector ('ci_lower')
+ ── Failure ('test-EventStudyPlot.R:128:5'): confidence intervals are appropriately present or absent ──
+ p_ci$labels$ymax (`actual`) not equal to "ci_upper" (`expected`).
- [ FAIL 1 | WARN 0 | SKIP 15 | PASS 1930 ]
+ `actual` is NULL
+ `expected` is a character vector ('ci_upper')
+
+ [ FAIL 6 | WARN 0 | SKIP 0 | PASS 258 ]
Error: Test failures
Execution halted
```
-## In both
-
-* checking re-building of vignette outputs ... WARNING
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘parallelization-considerations.Rmd’ using rmarkdown_notangle
- --- finished re-building ‘parallelization-considerations.Rmd’
-
- --- re-building ‘timing-experiments.Rmd’ using rmarkdown_notangle
- ```
-
-* checking installed package size ... NOTE
- ```
- installed size is 15.5Mb
- sub-directories of 1Mb or more:
- R 1.5Mb
- doc 2.1Mb
- libs 11.1Mb
- ```
-
-* checking for GNU extensions in Makefiles ... NOTE
- ```
- GNU make is a SystemRequirements.
- ```
-
-# duke
+# expirest
-* Version: 0.0.3
-* GitHub: https://github.com/aidangildea/duke
-* Source code: https://github.com/cran/duke
-* Date/Publication: 2023-12-15 21:50:16 UTC
-* Number of recursive dependencies: 89
+* Version: 0.1.6
+* GitHub: https://github.com/piusdahinden/expirest
+* Source code: https://github.com/cran/expirest
+* Date/Publication: 2024-03-25 16:30:02 UTC
+* Number of recursive dependencies: 45
-Run `revdepcheck::cloud_details(, "duke")` for more info
+Run `revdepcheck::cloud_details(, "expirest")` for more info
@@ -6269,115 +5205,37 @@ Run `revdepcheck::cloud_details(, "duke")` for more info
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > # This file is part of the standard setup for testthat.
- > # It is recommended that you do not modify it.
- > #
- > # Where should you do additional test configuration?
- > # Learn more about the roles of various files in:
- > # * https://r-pkgs.org/tests.html
- > # * https://testthat.r-lib.org/reference/test_package.html#special-files
- ...
- 2. │ └─testthat:::expect_condition_matching(...)
- 3. │ └─testthat:::quasi_capture(...)
- 4. │ ├─testthat (local) .capture(...)
- 5. │ │ └─base::withCallingHandlers(...)
- 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
- 7. └─testthat::expect_equal(ggplot2::layer_data(p3)$fill[9], "#B5B5B5")
+ > library(testthat)
+ > library(expirest)
+ >
+ > test_check("expirest")
+ [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ]
- [ FAIL 1 | WARN 9 | SKIP 0 | PASS 27 ]
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ...
+ ── Failure ('test-plot_expirest_wisle.R:260:3'): plot_expirest_wisle_succeeds ──
+ tmp4l2[["Graph"]]$labels has length 0, not length 8.
+ ── Failure ('test-plot_expirest_wisle.R:264:3'): plot_expirest_wisle_succeeds ──
+ tmp4b1[["Graph"]]$labels has length 0, not length 5.
+ ── Failure ('test-plot_expirest_wisle.R:269:3'): plot_expirest_wisle_succeeds ──
+ tmp4b2[["Graph"]]$labels has length 0, not length 5.
+
+ [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ]
Error: Test failures
Execution halted
```
-# easysurv
-
-
-
-* Version: 2.0.1
-* GitHub: https://github.com/Maple-Health-Group/easysurv
-* Source code: https://github.com/cran/easysurv
-* Date/Publication: 2024-06-21 10:30:06 UTC
-* Number of recursive dependencies: 156
-
-Run `revdepcheck::cloud_details(, "easysurv")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘easysurv-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: get_km
- > ### Title: Generate Kaplan-Meier estimates
- > ### Aliases: get_km
- >
- > ### ** Examples
- >
- > km_results <- get_km(
- ...
- Poor Poor 228 145 3.101736 0.1772520 2.183562 1.978082 2.619178
- Median follow-up
- Good 4.452055
- Medium 4.712329
- Poor 4.115068
-
- Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = "{n.risk}", :
- argument "risktable_height" is missing, with no default
- Calls: ... ggsurvfit_build -> -> .construct_risktable
- Execution halted
- ```
-
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘easysurv.Rmd’
- ...
- Median follow-up
- Tab+Vis 2.217659
- Tab->Vis 2.220397
- Tab 2.308008
- Vis 2.198494
-
-
- When sourcing ‘easysurv.R’:
- Error: argument "risktable_height" is missing, with no default
- Execution halted
-
- ‘easysurv.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘easysurv.Rmd’ using rmarkdown
-
- Quitting from lines 149-157 [km] (easysurv.Rmd)
- Error: processing vignette 'easysurv.Rmd' failed with diagnostics:
- argument "risktable_height" is missing, with no default
- --- failed re-building ‘easysurv.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘easysurv.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
- ```
-
-# EGAnet
+# explainer
-* Version: 2.0.7
-* GitHub: https://github.com/hfgolino/EGAnet
-* Source code: https://github.com/cran/EGAnet
-* Date/Publication: 2024-09-02 20:00:01 UTC
-* Number of recursive dependencies: 190
+* Version: 1.0.2
+* GitHub: https://github.com/PERSIMUNE/explainer
+* Source code: https://github.com/cran/explainer
+* Date/Publication: 2024-09-30 17:30:02 UTC
+* Number of recursive dependencies: 186
-Run `revdepcheck::cloud_details(, "EGAnet")` for more info
+Run `revdepcheck::cloud_details(, "explainer")` for more info
@@ -6385,50 +5243,48 @@ Run `revdepcheck::cloud_details(, "EGAnet")` for more info
* checking examples ... ERROR
```
- Running examples in ‘EGAnet-Ex.R’ failed
+ Running examples in ‘explainer-Ex.R’ failed
The error most likely occurred in:
- > ### Name: dimensionStability
- > ### Title: Dimension Stability Statistics from 'bootEGA'
- > ### Aliases: dimensionStability
+ > ### Name: eDecisionCurve
+ > ### Title: Decision Curve Plot
+ > ### Aliases: eDecisionCurve
>
> ### ** Examples
>
- > # Load data
+ > library("explainer")
...
- 16. │ └─e1 %+% e2
- 17. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 18. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 19. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 20. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 21. └─base::.handleSimpleError(...)
- 22. └─purrr (local) h(simpleError(msg, call))
- 23. └─cli::cli_abort(...)
- 24. └─rlang::abort(...)
+ > mylrn$train(maintask, splits$train)
+ > myplot <- eDecisionCurve(
+ + task = maintask,
+ + trained_model = mylrn,
+ + splits = splits,
+ + seed = seed
+ + )
+ Error in pm[[2]] : subscript out of bounds
+ Calls: eDecisionCurve -> ggplotly -> ggplotly.ggplot -> gg2list
Execution halted
```
## In both
-* checking installed package size ... NOTE
+* checking dependencies in R code ... NOTE
```
- installed size is 5.6Mb
- sub-directories of 1Mb or more:
- R 1.5Mb
- data 3.5Mb
+ Namespace in Imports field not imported from: ‘ggpmisc’
+ All declared Imports should be used.
```
-# EGM
+# ezEDA
-* Version: 0.1.0
-* GitHub: https://github.com/shah-in-boots/EGM
-* Source code: https://github.com/cran/EGM
-* Date/Publication: 2024-05-23 16:10:05 UTC
-* Number of recursive dependencies: 77
+* Version: 0.1.1
+* GitHub: https://github.com/kviswana/ezEDA
+* Source code: https://github.com/cran/ezEDA
+* Date/Publication: 2021-06-29 04:40:10 UTC
+* Number of recursive dependencies: 79
-Run `revdepcheck::cloud_details(, "EGM")` for more info
+Run `revdepcheck::cloud_details(, "ezEDA")` for more info
@@ -6440,168 +5296,84 @@ Run `revdepcheck::cloud_details(, "EGM")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(EGM)
- Loading required package: vctrs
- Loading required package: data.table
- > EGM::set_wfdb_path("/usr/local/bin")
+ > library(ezEDA)
>
- > test_check("EGM")
- ...
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Failure ('test-ggm.R:63:2'): theming works ──────────────────────────────────
- g$labels$x (`actual`) not equal to "sample" (`expected`).
+ > test_check("ezEDA")
+ [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ]
- `actual` is NULL
- `expected` is a character vector ('sample')
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ...
+ ── Error ('test_two_measures_relationship.R:19:3'): y axis is labeled 'hwy' ────
+ Error in `expect_match(p$labels$y, "hwy")`: is.character(act$val) is not TRUE
+ Backtrace:
+ ▆
+ 1. └─testthat::expect_match(p$labels$y, "hwy") at test_two_measures_relationship.R:19:3
+ 2. └─base::stopifnot(is.character(act$val))
- [ FAIL 1 | WARN 0 | SKIP 19 | PASS 43 ]
+ [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ]
Error: Test failures
Execution halted
```
-# emmeans
+# fable.prophet
-* Version: 1.10.4
-* GitHub: https://github.com/rvlenth/emmeans
-* Source code: https://github.com/cran/emmeans
-* Date/Publication: 2024-08-21 03:00:01 UTC
-* Number of recursive dependencies: 159
+* Version: 0.1.0
+* GitHub: https://github.com/mitchelloharawild/fable.prophet
+* Source code: https://github.com/cran/fable.prophet
+* Date/Publication: 2020-08-20 09:30:03 UTC
+* Number of recursive dependencies: 113
-Run `revdepcheck::cloud_details(, "emmeans")` for more info
+Run `revdepcheck::cloud_details(, "fable.prophet")` for more info
## Newly broken
-* checking examples ... ERROR
- ```
- Running examples in ‘emmeans-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: auto.noise
- > ### Title: Auto Pollution Filter Noise
- > ### Aliases: auto.noise
- > ### Keywords: datasets
- >
- > ### ** Examples
- >
- > # (Based on belief that noise/10 is in decibel units)
- > noise.lm <- lm(noise/10 ~ size * type * side, data = auto.noise)
- >
- > # Interaction plot of predictions
- > emmip(noise.lm, type ~ size | side)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: emmip ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
- ```
-
-## In both
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘basics.Rmd’
+ when running code in ‘intro.Rmd’
...
- 'emmGrid' object with variables:
- source = fish, soy, skim
- percent = 9, 12, 15, 18
- Transformation: “inverse”
+ 9 Domestic mdl 2019 Dec sample[5000] 5335490.
+ 10 Domestic mdl 2020 Jan sample[5000] 4889716.
+ # ℹ 62 more rows
- > emmip(RG4, source ~ percent, style = "factor")
+ > fc %>% autoplot(lax_passengers)
- ...
- ‘messy-data.Rmd’ using ‘UTF-8’... failed
- ‘models.Rmd’ using ‘UTF-8’... OK
- ‘predictions.Rmd’ using ‘UTF-8’... failed
- ‘re-engineering-clds.rmd’ using ‘UTF-8’... OK
- ‘sophisticated.Rmd’ using ‘UTF-8’... failed
- ‘transformations.Rmd’ using ‘UTF-8’... failed
- ‘utilities.Rmd’ using ‘UTF-8’... OK
- ‘vignette-topics.Rmd’ using ‘UTF-8’... OK
- ‘xplanations.Rmd’ using ‘UTF-8’... failed
- ‘xtending.Rmd’ using ‘UTF-8’... OK
- ```
-
-* checking package dependencies ... NOTE
- ```
- Packages which this enhances but not available for checking:
- 'CARBayes', 'coxme', 'gee', 'geepack', 'MCMCglmm', 'MCMCpack',
- 'mice', 'pscl', 'rstanarm', 'sommer'
+ When sourcing ‘intro.R’:
+ Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, N
+ Execution halted
+
+ ‘intro.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘AQuickStart.Rmd’ using rmarkdown
- --- finished re-building ‘AQuickStart.Rmd’
-
- --- re-building ‘FAQs.Rmd’ using rmarkdown
- --- finished re-building ‘FAQs.Rmd’
-
- --- re-building ‘basics.Rmd’ using rmarkdown
-
- Quitting from lines 260-262 [unnamed-chunk-13] (basics.Rmd)
- Error: processing vignette 'basics.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘basics.Rmd’
-
- --- re-building ‘comparisons.Rmd’ using rmarkdown
+ --- re-building ‘intro.Rmd’ using rmarkdown
```
-# EMMIXmfa
-
-
-
-* Version: 2.0.14
-* GitHub: https://github.com/suren-rathnayake/EMMIXmfa
-* Source code: https://github.com/cran/EMMIXmfa
-* Date/Publication: 2024-01-25 20:30:02 UTC
-* Number of recursive dependencies: 59
-
-Run `revdepcheck::cloud_details(, "EMMIXmfa")` for more info
-
-
-
-## Newly broken
+## In both
-* checking examples ... ERROR
+* checking LazyData ... NOTE
```
- Running examples in ‘EMMIXmfa-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: factor_scores
- > ### Title: Computes Factor Scores
- > ### Aliases: factor_scores factor_scores.mcfa factor_scores.mctfa
- > ### plot.emmix
- > ### Keywords: cluster multivariate models
- >
- > ### ** Examples
- ...
- > Y <- iris[-c(sel_subset), -5]
- > Y <- as.matrix(Y)
- > clust <- predict(model, Y)
- >
- > fa_scores <- factor_scores(model, Y)
- > # Visualizing new data in factor space
- > plot_factors(fa_scores, type = "Umean", clust = clust)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: plot_factors ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
- Execution halted
+ 'LazyData' is specified without a 'data' directory
```
-# entropart
+# fabletools
-* Version: 1.6-15
-* GitHub: https://github.com/EricMarcon/entropart
-* Source code: https://github.com/cran/entropart
-* Date/Publication: 2024-08-26 19:30:09 UTC
-* Number of recursive dependencies: 125
+* Version: 0.5.0
+* GitHub: https://github.com/tidyverts/fabletools
+* Source code: https://github.com/cran/fabletools
+* Date/Publication: 2024-09-17 07:30:02 UTC
+* Number of recursive dependencies: 107
-Run `revdepcheck::cloud_details(, "entropart")` for more info
+Run `revdepcheck::cloud_details(, "fabletools")` for more info
@@ -6609,183 +5381,198 @@ Run `revdepcheck::cloud_details(, "entropart")` for more info
* checking examples ... ERROR
```
- Running examples in ‘entropart-Ex.R’ failed
+ Running examples in ‘fabletools-Ex.R’ failed
The error most likely occurred in:
- > ### Name: Accumulation
- > ### Title: Diversity accumulation.
- > ### Aliases: DivAC EntAC as.AccumCurve is.AccumCurve autoplot.AccumCurve
- > ### plot.AccumCurve
+ > ### Name: autoplot.fbl_ts
+ > ### Title: Plot a set of forecasts
+ > ### Aliases: autoplot.fbl_ts autolayer.fbl_ts
>
> ### ** Examples
>
+ > ## Don't show:
...
- 11. │ └─base::withCallingHandlers(...)
- 12. └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
- 13. └─l$compute_geom_2(d, theme = plot$theme)
- 14. └─ggplot2 (local) compute_geom_2(..., self = self)
- 15. └─self$geom$use_defaults(...)
- 16. └─ggplot2 (local) use_defaults(..., self = self)
- 17. └─ggplot2:::check_aesthetics(new_params, nrow(data))
- 18. └─cli::cli_abort(...)
- 19. └─rlang::abort(...)
+ > library(fable)
+ > library(tsibbledata)
+ > fc <- aus_production %>% model(ets = ETS(log(Beer) ~ error("M") + trend("Ad") +
+ + season("A"))) %>% forecast(h = "3 years")
+ > fc %>% autoplot(aus_production)
+ Error in use_defaults(..., self = self) :
+ unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL,
+ Calls: ... -> -> compute_geom_2 ->
Execution halted
```
-* checking running R code from vignettes ... ERROR
+* checking tests ... ERROR
```
- Errors in running code in vignettes:
- when running code in ‘entropart.Rmd’
- ...
-
- > autoplot(Abd18, Distribution = "lnorm")
-
- When sourcing ‘entropart.R’:
- Error: Problem while setting up geom aesthetics.
- ℹ Error occurred in the 1st layer.
- Caused by error in `check_aesthetics()`:
- ! Aesthetics must be either length 1 or the same as the data (149).
- ✖ Fix the following mappings: `shape`, `colour`, and `size`.
- Execution halted
-
- ‘entropart.Rmd’ using ‘UTF-8’... failed
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(dplyr)
+
+ Attaching package: 'dplyr'
+
+ The following object is masked from 'package:testthat':
+
+ ...
+ 28. └─ggplot2 (local) compute_geom_2(..., self = self)
+ 29. └─self$geom$use_defaults(...)
+ ── Failure ('test-graphics.R:327:3'): autoplot_dcmp_ts() ───────────────────────
+ `print(p)` produced warnings.
+ ── Failure ('test-graphics.R:346:3'): autoplot_dcmp_ts() ───────────────────────
+ `print(p)` produced warnings.
+
+ [ FAIL 4 | WARN 5 | SKIP 1 | PASS 266 ]
+ Error: Test failures
+ Execution halted
```
-* checking re-building of vignette outputs ... NOTE
+# fairmodels
+
+
+
+* Version: 1.2.1
+* GitHub: https://github.com/ModelOriented/fairmodels
+* Source code: https://github.com/cran/fairmodels
+* Date/Publication: 2022-08-23 19:50:06 UTC
+* Number of recursive dependencies: 86
+
+Run `revdepcheck::cloud_details(, "fairmodels")` for more info
+
+
+
+## Newly broken
+
+* checking tests ... ERROR
```
- Error(s) in re-building vignettes:
- ...
- --- re-building ‘entropart.Rmd’ using rmarkdown
-
- Quitting from lines 53-55 [PlotN18] (entropart.Rmd)
- Error: processing vignette 'entropart.Rmd' failed with diagnostics:
- Problem while setting up geom aesthetics.
- ℹ Error occurred in the 1st layer.
- Caused by error in `check_aesthetics()`:
- ! Aesthetics must be either length 1 or the same as the data (149).
- ✖ Fix the following mappings: `shape`, `colour`, and `size`.
- --- failed re-building ‘entropart.Rmd’
-
- SUMMARY: processing the following file failed:
- ‘entropart.Rmd’
-
- Error: Vignette re-building failed.
- Execution halted
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(fairmodels)
+ >
+ >
+ > test_check("fairmodels")
+ Welcome to DALEX (version: 2.4.3).
+ Find examples and detailed introduction at: http://ema.drwhy.ai/
+ ...
+ [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ]
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Failure ('test_plot_density.R:14:3'): Test plot_density ─────────────────────
+ plt$labels$x not equal to "probability".
+ target is NULL, current is character
+
+ [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ]
+ Error: Test failures
+ Execution halted
```
-# EnvStats
+# fddm
-* Version: 3.0.0
-* GitHub: https://github.com/alexkowa/EnvStats
-* Source code: https://github.com/cran/EnvStats
-* Date/Publication: 2024-08-24 23:10:05 UTC
-* Number of recursive dependencies: 79
+* Version: 1.0-2
+* GitHub: https://github.com/rtdists/fddm
+* Source code: https://github.com/cran/fddm
+* Date/Publication: 2024-07-02 16:00:07 UTC
+* Number of recursive dependencies: 92
-Run `revdepcheck::cloud_details(, "EnvStats")` for more info
+Run `revdepcheck::cloud_details(, "fddm")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking running R code from vignettes ... ERROR
```
- Running examples in ‘EnvStats-Ex.R’ failed
- The error most likely occurred in:
+ Errors in running code in vignettes:
+ when running code in ‘benchmark.Rmd’
+ ...
+ > mi <- min(bm_vec[, -seq_len(t_idx)])
+
+ > ma <- max(bm_vec[, (t_idx + 1):(ncol(bm_vec) - 4)])
+
+ > ggplot(mbm_vec, aes(x = factor(FuncName, levels = Names_vec),
+ + y = time, color = factor(FuncName, levels = Names_vec), fill = factor(FuncName, .... [TRUNCATED]
- > ### Name: geom_stripchart
- > ### Title: 1-D Scatter Plots with Confidence Intervals Using ggplot2
- > ### Aliases: geom_stripchart
- > ### Keywords: hplot htest
- >
- > ### ** Examples
- >
...
- >
- > p + geom_stripchart() +
- + labs(x = "Number of Cylinders", y = "Miles per Gallon")
- Warning: The `fun.y` argument of `stat_summary()` is deprecated as of ggplot2 3.3.0.
- ℹ Please use the `fun` argument instead.
- ℹ The deprecated feature was likely used in the EnvStats package.
- Please report the issue to the authors.
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+
+ When sourcing ‘pfddm.R’:
+ Error: Not a unit object
Execution halted
+
+ ‘benchmark.Rmd’ using ‘UTF-8’... failed
+ ‘example.Rmd’ using ‘UTF-8’... OK
+ ‘math.Rmd’ using ‘UTF-8’... OK
+ ‘pfddm.Rmd’ using ‘UTF-8’... failed
+ ‘validity.Rmd’ using ‘UTF-8’... OK
```
## In both
* checking installed package size ... NOTE
```
- installed size is 7.8Mb
+ installed size is 16.6Mb
sub-directories of 1Mb or more:
- R 3.5Mb
- help 3.5Mb
+ doc 1.6Mb
+ libs 14.1Mb
```
-# epiCleanr
+# feasts
-* Version: 0.2.0
-* GitHub: https://github.com/truenomad/epiCleanr
-* Source code: https://github.com/cran/epiCleanr
-* Date/Publication: 2023-09-28 12:20:05 UTC
-* Number of recursive dependencies: 130
+* Version: 0.4.1
+* GitHub: https://github.com/tidyverts/feasts
+* Source code: https://github.com/cran/feasts
+* Date/Publication: 2024-09-25 23:40:02 UTC
+* Number of recursive dependencies: 100
-Run `revdepcheck::cloud_details(, "epiCleanr")` for more info
+Run `revdepcheck::cloud_details(, "feasts")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking tests ... ERROR
```
- Running examples in ‘epiCleanr-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: handle_outliers
- > ### Title: Detect and Handle Outliers in Dataset
- > ### Aliases: handle_outliers
- >
- > ### ** Examples
- >
- >
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(feasts)
+ Loading required package: fabletools
+ >
+ > test_check("feasts")
+ [ FAIL 2 | WARN 1 | SKIP 0 | PASS 100 ]
+
...
- 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])
- 13. │ └─l$compute_geom_2(d, theme = plot$theme)
- 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
- 15. │ └─self$geom$use_defaults(...)
- 16. └─base::.handleSimpleError(...)
- 17. └─rlang (local) h(simpleError(msg, call))
- 18. └─handlers[[1L]](cnd)
- 19. └─cli::cli_abort(...)
- 20. └─rlang::abort(...)
- Execution halted
- ```
-
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 5.6Mb
- sub-directories of 1Mb or more:
- doc 2.9Mb
- help 2.5Mb
+ ── Error ('test-graphics.R:192:3'): gg_tsdisplay() plots ───────────────────────
+ Error in `p + ggplot2::labs(x = "x", y = "y", title = "title")`: non-numeric argument to binary operator
+ ── Failure ('test-graphics.R:273:3'): gg_arma() plots ──────────────────────────
+ p_built$plot$labels[c("x", "y")] not equivalent to list(x = "Re(1/root)", y = "Im(1/root)").
+ Component "x": 1 string mismatch
+ Component "y": 1 string mismatch
+
+ [ FAIL 2 | WARN 1 | SKIP 0 | PASS 100 ]
+ Error: Test failures
+ Execution halted
```
-# epiphy
+# ffp
-* Version: 0.5.0
-* GitHub: https://github.com/chgigot/epiphy
-* Source code: https://github.com/cran/epiphy
-* Date/Publication: 2023-11-16 11:20:10 UTC
-* Number of recursive dependencies: 91
+* Version: 0.2.2
+* GitHub: https://github.com/Reckziegel/FFP
+* Source code: https://github.com/cran/ffp
+* Date/Publication: 2022-09-29 15:10:06 UTC
+* Number of recursive dependencies: 106
-Run `revdepcheck::cloud_details(, "epiphy")` for more info
+Run `revdepcheck::cloud_details(, "ffp")` for more info
@@ -6793,40 +5580,37 @@ Run `revdepcheck::cloud_details(, "epiphy")` for more info
* checking examples ... ERROR
```
- Running examples in ‘epiphy-Ex.R’ failed
+ Running examples in ‘ffp-Ex.R’ failed
The error most likely occurred in:
- > ### Name: clump
- > ### Title: Regroup observational data into even clumps of individuals.
- > ### Aliases: clump clump.intensity
+ > ### Name: scenario_density
+ > ### Title: Plot Scenarios
+ > ### Aliases: scenario_density scenario_histogram
>
> ### ** Examples
>
- > my_incidence <- incidence(tomato_tswv$field_1929)
- ...
- 18. │ └─ggplot2 (local) setup_params(...)
- 19. │ └─ggplot2:::make_summary_fun(...)
- 20. │ └─rlang::as_function(fun.data)
- 21. │ └─base::get(x, envir = env, mode = "function")
- 22. └─base::.handleSimpleError(...)
- 23. └─rlang (local) h(simpleError(msg, call))
- 24. └─handlers[[1L]](cnd)
- 25. └─cli::cli_abort(...)
- 26. └─rlang::abort(...)
+ > x <- diff(log(EuStockMarkets))[, 1]
+ > p <- exp_decay(x, 0.005)
+ >
+ > scenario_density(x, p, 500)
+ Error in use_defaults(..., self = self) :
+ unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NU
+ Calls: ... -> -> compute_geom_2 ->
Execution halted
```
-# EQUALSTATS
+# fgeo.plot
-* Version: 0.4.0
-* GitHub: NA
-* Source code: https://github.com/cran/EQUALSTATS
-* Date/Publication: 2024-09-06 16:10:15 UTC
-* Number of recursive dependencies: 120
+* Version: 1.1.11
+* GitHub: https://github.com/forestgeo/fgeo.plot
+* Source code: https://github.com/cran/fgeo.plot
+* Date/Publication: 2022-09-03 18:30:02 UTC
+* Number of recursive dependencies: 99
-Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info
+Run `revdepcheck::cloud_details(, "fgeo.plot")` for more info
@@ -6834,47 +5618,65 @@ Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info
* checking examples ... ERROR
```
- Running examples in ‘EQUALSTATS-Ex.R’ failed
+ Running examples in ‘fgeo.plot-Ex.R’ failed
The error most likely occurred in:
- > ### Name: function.Survival_Analysis
- > ### Title: Perform Survival Analysis
- > ### Aliases: function.Survival_Analysis
+ > ### Name: autoplot_by_species.sp_elev
+ > ### Title: List plots of species distribution and topography (good for pdf
+ > ### output).
+ > ### Aliases: autoplot_by_species.sp_elev autoplot_by_species.sp
>
> ### ** Examples
>
- > # Create simulated data ####
...
- > rv$second_menu_choice <- NA
- > rv$entry[[1]] <- "Admission to care home"
- > rv$entry[[2]] <- "Follow-up"
- > rv$entry[[3]] <- "Treatment"
- > # Final function ####
- > Results <- function.Survival_Analysis(Predefined_lists, rv)
- Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = c("{n.risk}", :
- argument "risktable_height" is missing, with no default
- Calls: function.Survival_Analysis
+ >
+ > # Species and elevation (optional) ---------------------------------------
+ >
+ > # Species and elevation
+ > elevation <- fgeo.x::elevation
+ > autoplot_by_species(sp_elev(census, elevation))
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "blue", high = "red")
+ Calls: autoplot_by_species ... best_elev_legend -> add_elevation_contours -> scale_colour_continuous
Execution halted
```
-## In both
-
-* checking Rd cross-references ... NOTE
+* checking tests ... ERROR
```
- Package unavailable to check Rd xrefs: ‘lmerTest’
+ Running ‘spelling.R’
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(fgeo.plot)
+ >
+ > test_check("fgeo.plot")
+ [ FAIL 6 | WARN 5 | SKIP 0 | PASS 114 ]
+
+ ...
+ 6. ├─fgeo.plot:::plot_elev(elevation, xlim = 0)
+ 7. │ └─fgeo.plot:::map_pure_elev(...)
+ 8. │ └─... %>% ...
+ 9. ├─fgeo.plot:::best_elev_legend(., hide_color_legend = hide_color_legend)
+ 10. └─fgeo.plot:::add_elevation_contours(...)
+ 11. └─ggplot2::scale_colour_continuous(low = low, high = high)
+
+ [ FAIL 6 | WARN 5 | SKIP 0 | PASS 114 ]
+ Error: Test failures
+ Execution halted
```
-# ergm.multi
+# fido
-* Version: 0.2.1
-* GitHub: https://github.com/statnet/ergm.multi
-* Source code: https://github.com/cran/ergm.multi
-* Date/Publication: 2024-02-20 23:20:05 UTC
-* Number of recursive dependencies: 82
+* Version: 1.1.1
+* GitHub: https://github.com/jsilve24/fido
+* Source code: https://github.com/cran/fido
+* Date/Publication: 2024-06-05 21:30:06 UTC
+* Number of recursive dependencies: 133
-Run `revdepcheck::cloud_details(, "ergm.multi")` for more info
+Run `revdepcheck::cloud_details(, "fido")` for more info
@@ -6882,143 +5684,183 @@ Run `revdepcheck::cloud_details(, "ergm.multi")` for more info
* checking examples ... ERROR
```
- Running examples in ‘ergm.multi-Ex.R’ failed
+ Running examples in ‘fido-Ex.R’ failed
The error most likely occurred in:
- > ### Name: gofN
- > ### Title: Linear model diagnostics for multinetwork linear models
- > ### Aliases: gofN [.gofN augment.gofN summary.gofN
+ > ### Name: plot.pibblefit
+ > ### Title: Plot Summaries of Posterior Distribution of pibblefit Parameters
+ > ### Aliases: plot.pibblefit
>
> ### ** Examples
>
- > data(samplk)
- ...
- >
- > ### If 'ggplot2' and 'ggrepel' are installed, illustrate the autoplot() method.
- > if(require("ggplot2") && requireNamespace("ggrepel")){
- + autoplot(fit.gof)
- + }
- Loading required package: ggplot2
- Loading required namespace: ggrepel
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > sim <- pibble_sim(N=10, D=4, Q=3)
+ > fit <- pibble(sim$Y, sim$X)
+ > plot(fit, par="Lambda")
+ Scale for colour is already present.
+ Adding another scale for colour, which will replace the existing scale.
+ Error in use_defaults(..., self = self) :
+ unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 4.95, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(4.95, 0, 0, 0), NULL, TRUE),
+ Calls: ... -> -> compute_geom_2 ->
Execution halted
```
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(fido)
+ >
+ > #Sys.setenv(KMP_DUPLICATE_LIB_OK="TRUE")
+ > test_check("fido")
+ [1] 0.27980164 -0.69169550 -0.53205652 0.11488451 -0.42419872 2.20261388
+ [7] -1.62190133 -0.90893172 0.07891428 0.75060681 0.43593605 0.26819442
+ ...
+ 21. └─base::Map(...)
+ 22. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
+ 23. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]])
+ 24. └─layer$compute_geom_2(key, single_params, theme)
+ 25. └─ggplot2 (local) compute_geom_2(..., self = self)
+ 26. └─self$geom$use_defaults(...)
+
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 114 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+## In both
+
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘Goeyvaerts_reproduction.Rmd’
+ when running code in ‘non-linear-models.Rmd’
...
- [1] 0.9763295
+ The following object is masked from ‘package:dplyr’:
+ select
- > autoplot(gof.wd)
- Loading required namespace: ggrepel
- When sourcing ‘Goeyvaerts_reproduction.R’:
- Error: argument is of length zero
+ When sourcing ‘non-linear-models.R’:
+ Error: package or namespace load failed for ‘MCMCpack’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required
Execution halted
- ‘Goeyvaerts_reproduction.Rmd’ using ‘UTF-8’... failed
+ ‘introduction-to-fido.Rmd’ using ‘UTF-8’... OK
+ ‘mitigating-pcrbias.Rmd’ using ‘UTF-8’... OK
+ ‘non-linear-models.Rmd’ using ‘UTF-8’... failed
+ ‘orthus.Rmd’ using ‘UTF-8’... OK
+ ‘picking_priors.Rmd’ using ‘UTF-8’... OK
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 106.6Mb
+ sub-directories of 1Mb or more:
+ data 4.0Mb
+ libs 100.8Mb
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- ...
- --- re-building ‘Goeyvaerts_reproduction.Rmd’ using rmarkdown
-
- Quitting from lines 157-158 [unnamed-chunk-16] (Goeyvaerts_reproduction.Rmd)
- Error: processing vignette 'Goeyvaerts_reproduction.Rmd' failed with diagnostics:
- argument is of length zero
- --- failed re-building ‘Goeyvaerts_reproduction.Rmd’
+ --- re-building ‘introduction-to-fido.Rmd’ using rmarkdown
+ --- finished re-building ‘introduction-to-fido.Rmd’
- SUMMARY: processing the following file failed:
- ‘Goeyvaerts_reproduction.Rmd’
+ --- re-building ‘mitigating-pcrbias.Rmd’ using rmarkdown
+ --- finished re-building ‘mitigating-pcrbias.Rmd’
- Error: Vignette re-building failed.
- Execution halted
+ --- re-building ‘non-linear-models.Rmd’ using rmarkdown
```
-# esci
+# flexsurv
-* Version: 1.0.3
-* GitHub: https://github.com/rcalinjageman/esci
-* Source code: https://github.com/cran/esci
-* Date/Publication: 2024-07-08 21:40:10 UTC
-* Number of recursive dependencies: 93
+* Version: 2.3.2
+* GitHub: https://github.com/chjackson/flexsurv
+* Source code: https://github.com/cran/flexsurv
+* Date/Publication: 2024-08-17 05:50:02 UTC
+* Number of recursive dependencies: 150
-Run `revdepcheck::cloud_details(, "esci")` for more info
+Run `revdepcheck::cloud_details(, "flexsurv")` for more info
## Newly broken
-* checking examples ... ERROR
+* checking running R code from vignettes ... ERROR
```
- Running examples in ‘esci-Ex.R’ failed
- The error most likely occurred in:
+ Errors in running code in vignettes:
+ when running code in ‘standsurv.Rmd’
+ ...
- > ### Name: estimate_mdiff_2x2_between
- > ### Title: Estimates for a 2x2 between-subjects design with a continuous
- > ### outcome variable
- > ### Aliases: estimate_mdiff_2x2_between
- >
- > ### ** Examples
- >
- ...
- + estimates_from_summary$interaction,
- + effect_size = "mean"
- + )
- Warning: Using size for a discrete variable is not advised.
- Warning: Using alpha for a discrete variable is not advised.
- Error in use_defaults(..., self = self) :
- unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL,
- Calls: ... -> -> compute_geom_2 ->
+ > kmsurvplot <- ggsurvplot(km)
+
+ > kmsurvplot + xlab("Time from diagnosis (years)")
+ Warning in eval(ei, envir) :
+ Incompatible methods ("+.ggsurv", "+.gg") for "+"
+
+ When sourcing ‘standsurv.R’:
+ Error: non-numeric argument to binary operator
Execution halted
+
+ ‘standsurv.Rmd’ using ‘UTF-8’... failed
+ ‘flexsurv.Rnw’ using ‘UTF-8’... OK
+ ‘multistate.Rnw’ using ‘UTF-8’... OK
+ ‘distributions.Rnw’ using ‘UTF-8’... OK
+ ‘flexsurv-examples.Rnw’ using ‘UTF-8’... OK
```
-* checking tests ... ERROR
+## In both
+
+* checking installed package size ... NOTE
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(esci)
- >
- > test_check("esci")
- Loading required package: Matrix
- Loading required package: metadat
- Loading required package: numDeriv
+ installed size is 7.4Mb
+ sub-directories of 1Mb or more:
+ R 1.5Mb
+ doc 1.9Mb
+ libs 3.4Mb
+ ```
+
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ --- re-building ‘standsurv.Rmd’ using rmarkdown
+
+ Quitting from lines 113-116 [unnamed-chunk-4] (standsurv.Rmd)
+ Error: processing vignette 'standsurv.Rmd' failed with diagnostics:
+ non-numeric argument to binary operator
+ --- failed re-building ‘standsurv.Rmd’
+
+ --- re-building ‘flexsurv.Rnw’ using knitr
+ --- finished re-building ‘flexsurv.Rnw’
...
- 17. │ └─self$geom$use_defaults(...)
- 18. └─base::.handleSimpleError(...)
- 19. └─rlang (local) h(simpleError(msg, call))
- 20. └─handlers[[1L]](cnd)
- 21. └─cli::cli_abort(...)
- 22. └─rlang::abort(...)
-
- [ FAIL 14 | WARN 0 | SKIP 0 | PASS 3182 ]
- Error: Test failures
- Execution halted
+ ^^M
+ ! ==> Fatal error occurred, no output PDF file produced!
+ --- failed re-building ‘flexsurv-examples.Rnw’
+
+ SUMMARY: processing the following files failed:
+ ‘standsurv.Rmd’ ‘multistate.Rnw’ ‘distributions.Rnw’
+ ‘flexsurv-examples.Rnw’
+
+ Error: Vignette re-building failed.
+ Execution halted
```
-# evalITR
+# flipr
-* Version: 1.0.0
-* GitHub: https://github.com/MichaelLLi/evalITR
-* Source code: https://github.com/cran/evalITR
-* Date/Publication: 2023-08-25 23:10:06 UTC
-* Number of recursive dependencies: 167
+* Version: 0.3.3
+* GitHub: https://github.com/LMJL-Alea/flipr
+* Source code: https://github.com/cran/flipr
+* Date/Publication: 2023-08-23 09:00:02 UTC
+* Number of recursive dependencies: 106
-Run `revdepcheck::cloud_details(, "evalITR")` for more info
+Run `revdepcheck::cloud_details(, "flipr")` for more info
@@ -7027,7 +5869,17 @@ Run `revdepcheck::cloud_details(, "evalITR")` for more info
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘cv_multiple_alg.Rmd’ using rmarkdown
+ --- re-building ‘alternative.Rmd’ using rmarkdown
+ --- finished re-building ‘alternative.Rmd’
+
+ --- re-building ‘exactness.Rmd’ using rmarkdown
+
+ Quitting from lines 142-177 [unnamed-chunk-1] (exactness.Rmd)
+ Error: processing vignette 'exactness.Rmd' failed with diagnostics:
+ subscript out of bounds
+ --- failed re-building ‘exactness.Rmd’
+
+ --- re-building ‘flipr.Rmd’ using rmarkdown
```
## In both
@@ -7035,87 +5887,97 @@ Run `revdepcheck::cloud_details(, "evalITR")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘cv_multiple_alg.Rmd’
+ when running code in ‘exactness.Rmd’
...
- intersect, setdiff, setequal, union
+ > library(flipr)
- > load("../data/star.rda")
+ > load("../R/sysdata.rda")
Warning in readChar(con, 5L, useBytes = TRUE) :
- cannot open compressed file '../data/star.rda', probable reason 'No such file or directory'
+ cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory'
...
+ cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory'
+
+ When sourcing ‘plausibility.R’:
+ Error: cannot open the connection
Execution halted
- ‘cv_multiple_alg.Rmd’ using ‘UTF-8’... failed
- ‘cv_single_alg.Rmd’ using ‘UTF-8’... failed
- ‘install.Rmd’ using ‘UTF-8’... OK
- ‘paper_alg1.Rmd’ using ‘UTF-8’... OK
- ‘sample_split.Rmd’ using ‘UTF-8’... failed
- ‘sample_split_caret.Rmd’ using ‘UTF-8’... failed
- ‘user_itr.Rmd’ using ‘UTF-8’... failed
- ‘user_itr_algs.Rmd’ using ‘UTF-8’... failed
+ ‘alternative.Rmd’ using ‘UTF-8’... OK
+ ‘exactness.Rmd’ using ‘UTF-8’... failed
+ ‘flipr.Rmd’ using ‘UTF-8’... failed
+ ‘plausibility.Rmd’ using ‘UTF-8’... failed
```
-* checking dependencies in R code ... NOTE
+* checking installed package size ... NOTE
```
- Namespaces in Imports field not imported from:
- ‘forcats’ ‘rqPen’ ‘utils’
- All declared Imports should be used.
+ installed size is 11.2Mb
+ sub-directories of 1Mb or more:
+ doc 9.1Mb
+ libs 1.4Mb
```
-# eventstudyr
+# forestPSD
-* Version: 1.1.3
-* GitHub: https://github.com/JMSLab/eventstudyr
-* Source code: https://github.com/cran/eventstudyr
-* Date/Publication: 2024-03-04 15:00:02 UTC
-* Number of recursive dependencies: 98
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/forestPSD
+* Date/Publication: 2024-11-11 16:50:05 UTC
+* Number of recursive dependencies: 47
-Run `revdepcheck::cloud_details(, "eventstudyr")` for more info
+Run `revdepcheck::cloud_details(, "forestPSD")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(eventstudyr)
- >
- > test_check("eventstudyr")
- Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
- Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
- Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument.
+ Running examples in ‘forestPSD-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: psdfun
+ > ### Title: Regression analysis for survival curves.
+ > ### Aliases: psdfun
+ >
+ > ### ** Examples
+ >
+ > data(Npop)
...
- `expected` is a character vector ('ci_lower')
- ── Failure ('test-EventStudyPlot.R:128:5'): confidence intervals are appropriately present or absent ──
- p_ci$labels$ymax (`actual`) not equal to "ci_upper" (`expected`).
-
- `actual` is NULL
- `expected` is a character vector ('ci_upper')
-
- [ FAIL 6 | WARN 0 | SKIP 0 | PASS 258 ]
- Error: Test failures
- Execution halted
+ 13. │ └─l$compute_geom_2(d, theme = plot$theme)
+ 14. │ └─ggplot2 (local) compute_geom_2(..., self = self)
+ 15. │ └─self$geom$use_defaults(...)
+ 16. │ └─ggplot2 (local) use_defaults(..., self = self)
+ 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data))
+ 18. │ └─vctrs::list_sizes(x)
+ 19. └─vctrs:::stop_scalar_type(``(``), "x$label", ``)
+ 20. └─vctrs:::stop_vctrs(...)
+ 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call)
+ Execution halted
+ ```
+
+## In both
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘ggplot2’ ‘reshape2’
+ All declared Imports should be used.
```
-# EvoPhylo
+# frailtyEM
-* Version: 0.3.2
-* GitHub: https://github.com/tiago-simoes/EvoPhylo
-* Source code: https://github.com/cran/EvoPhylo
-* Date/Publication: 2022-11-03 17:00:02 UTC
-* Number of recursive dependencies: 145
+* Version: 1.0.1
+* GitHub: https://github.com/tbalan/frailtyEM
+* Source code: https://github.com/cran/frailtyEM
+* Date/Publication: 2019-09-22 13:00:10 UTC
+* Number of recursive dependencies: 78
-Run `revdepcheck::cloud_details(, "EvoPhylo")` for more info
+Run `revdepcheck::cloud_details(, "frailtyEM")` for more info
@@ -7123,123 +5985,141 @@ Run `revdepcheck::cloud_details(, "EvoPhylo")` for more info
* checking examples ... ERROR
```
- Running examples in ‘EvoPhylo-Ex.R’ failed
+ Running examples in ‘frailtyEM-Ex.R’ failed
The error most likely occurred in:
- > ### Name: make_clusters
- > ### Title: Estimate and plot character partitions
- > ### Aliases: make_clusters plot.cluster_df
+ > ### Name: summary.emfrail
+ > ### Title: Summary for 'emfrail' objects
+ > ### Aliases: summary.emfrail
>
> ### ** Examples
>
- > # See vignette("char-part") for how to use this
+ > data("bladder")
...
- > # tSNE (3 dimensions; default is 2)
- > cluster_df_tsne <- make_clusters(Dmatrix, k = 3, tsne = TRUE,
- + tsne_dim = 2)
- >
- > # Plot clusters, plots divided into 2 rows, and increasing
- > # overlap of text labels (default = 10)
- > plot(cluster_df_tsne, nrow = 2, max.overlaps = 20)
- Error in identicalUnits(x) : object is not a unit
- Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits
+ filter
+
+ The following object is masked from ‘package:graphics’:
+
+ layout
+
+ > ggplotly(pl2)
+ Error in pm[[2]] : subscript out of bounds
+ Calls: ggplotly -> ggplotly.ggplot -> gg2list
Execution halted
```
-* checking re-building of vignette outputs ... NOTE
+## In both
+
+* checking LazyData ... NOTE
```
- Error(s) in re-building vignettes:
- --- re-building ‘char-part.Rmd’ using rmarkdown
+ 'LazyData' is specified without a 'data' directory
```
-## In both
-
-* checking running R code from vignettes ... ERROR
+* checking re-building of vignette outputs ... NOTE
```
- Errors in running code in vignettes:
- when running code in ‘char-part.Rmd’
- ...
- + collapse = TRUE, dpi = 300)
+ Error(s) in re-building vignettes:
+ --- re-building ‘frailtyEM_manual.Rnw’ using Sweave
+ Loading required package: survival
+ Loading required package: gridExtra
+ Warning: The `` argument of `guides()` cannot be `FALSE`. Use
+ "none" instead as of ggplot2 3.3.4.
+ Warning: Removed 2 rows containing missing values or values outside
+ the scale range (`geom_path()`).
+ Warning in data("kidney") : data set ‘kidney’ not found
+ Warning in emfrail(Surv(time, status) ~ age + sex + cluster(id), data = kidney, :
+ ...
+ l.179 \RequirePackage{grfext}\relax
+ ^^M
+ ! ==> Fatal error occurred, no output PDF file produced!
+ --- failed re-building ‘frailtyEM_manual.Rnw’
- > devtools::load_all(".")
+ SUMMARY: processing the following file failed:
+ ‘frailtyEM_manual.Rnw’
- When sourcing ‘char-part.R’:
- Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in
- '/tmp/Rtmp6FtfyP/file1a7972246c9b/vignettes'.
- ...
- ℹ Are you in your project directory and does your project have a 'DESCRIPTION'
- file?
+ Error: Vignette re-building failed.
Execution halted
-
- ‘char-part.Rmd’ using ‘UTF-8’... failed
- ‘data_treatment.Rmd’ using ‘UTF-8’... OK
- ‘fbd-params.Rmd’ using ‘UTF-8’... failed
- ‘offset_handling.Rmd’ using ‘UTF-8’... failed
- ‘rates-selection_BEAST2.Rmd’ using ‘UTF-8’... failed
- ‘rates-selection_MrBayes.Rmd’ using ‘UTF-8’... failed
```
-* checking installed package size ... NOTE
+# func2vis
+
+
+
+* Version: 1.0-3
+* GitHub: NA
+* Source code: https://github.com/cran/func2vis
+* Date/Publication: 2023-03-16 17:30:02 UTC
+* Number of recursive dependencies: 115
+
+Run `revdepcheck::cloud_details(, "func2vis")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
```
- installed size is 6.8Mb
- sub-directories of 1Mb or more:
- data 2.5Mb
- doc 1.6Mb
- extdata 2.4Mb
+ Running examples in ‘func2vis-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: plot_pathways
+ > ### Title: Plot clean enriched pathways as a bubble plot
+ > ### Aliases: plot_pathways
+ >
+ > ### ** Examples
+ >
+ > data("t.tests.treatment.sign")
+ > data("enriched_pathways")
+ > revised_pathway <- clean_pathways(df_case_vs_ctrl=t.tests.treatment.sign,
+ + df_pathway = enriched_pathways)
+ > p <- plot_pathways(revised_pathway)
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "blue", high = "red")
+ Calls: plot_pathways -> scale_color_continuous
+ Execution halted
```
-# expirest
+# FuncNN
-* Version: 0.1.6
-* GitHub: https://github.com/piusdahinden/expirest
-* Source code: https://github.com/cran/expirest
-* Date/Publication: 2024-03-25 16:30:02 UTC
-* Number of recursive dependencies: 46
+* Version: 1.0
+* GitHub: https://github.com/b-thi/FuncNN
+* Source code: https://github.com/cran/FuncNN
+* Date/Publication: 2020-09-15 09:40:15 UTC
+* Number of recursive dependencies: 166
-Run `revdepcheck::cloud_details(, "expirest")` for more info
+Run `revdepcheck::cloud_details(, "FuncNN")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking whether package ‘FuncNN’ can be installed ... WARNING
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(expirest)
- >
- > test_check("expirest")
- [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ...
- ── Failure ('test-plot_expirest_wisle.R:260:3'): plot_expirest_wisle_succeeds ──
- tmp4l2[["Graph"]]$labels has length 0, not length 8.
- ── Failure ('test-plot_expirest_wisle.R:264:3'): plot_expirest_wisle_succeeds ──
- tmp4b1[["Graph"]]$labels has length 0, not length 5.
- ── Failure ('test-plot_expirest_wisle.R:269:3'): plot_expirest_wisle_succeeds ──
- tmp4b2[["Graph"]]$labels has length 0, not length 5.
-
- [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ]
- Error: Test failures
- Execution halted
+ Found the following significant warnings:
+ Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘FuncNN’
+ See ‘/tmp/workdir/FuncNN/new/FuncNN.Rcheck/00install.out’ for details.
```
-# explainer
+## In both
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespace in Imports field not imported from: ‘foreach’
+ All declared Imports should be used.
+ ```
+
+# GCalignR
-* Version: 1.0.1
-* GitHub: https://github.com/PERSIMUNE/explainer
-* Source code: https://github.com/cran/explainer
-* Date/Publication: 2024-04-18 09:00:02 UTC
-* Number of recursive dependencies: 183
+* Version: 1.0.7
+* GitHub: https://github.com/mottensmann/GCalignR
+* Source code: https://github.com/cran/GCalignR
+* Date/Publication: 2024-07-03 18:00:01 UTC
+* Number of recursive dependencies: 83
-Run `revdepcheck::cloud_details(, "explainer")` for more info
+Run `revdepcheck::cloud_details(, "GCalignR")` for more info
@@ -7247,48 +6127,88 @@ Run `revdepcheck::cloud_details(, "explainer")` for more info
* checking examples ... ERROR
```
- Running examples in ‘explainer-Ex.R’ failed
+ Running examples in ‘GCalignR-Ex.R’ failed
The error most likely occurred in:
- > ### Name: eDecisionCurve
- > ### Title: Decision Curve Plot
- > ### Aliases: eDecisionCurve
+ > ### Name: gc_heatmap
+ > ### Title: Visualises peak alignments in form of a heatmap
+ > ### Aliases: gc_heatmap
>
> ### ** Examples
>
- > library("explainer")
- ...
- > mylrn$train(maintask, splits$train)
- > myplot <- eDecisionCurve(
- + task = maintask,
- + trained_model = mylrn,
- + splits = splits,
- + seed = seed
- + )
- Error in pm[[2]] : subscript out of bounds
- Calls: eDecisionCurve -> ggplotly -> ggplotly.ggplot -> gg2list
+ >
+ > ## aligned gc-dataset
+ > data("aligned_peak_data")
+ > ## Default settings: The final output is plotted
+ > gc_heatmap(aligned_peak_data, algorithm_step = "aligned")
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "blue", high = "red")
+ Calls: gc_heatmap -> scale_fill_continuous
Execution halted
```
-## In both
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(GCalignR)
+ >
+ > test_check("GCalignR")
+ Run GCalignR
+ Start: 2025-01-21 13:02:50
+
+ ...
+ Error in `continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value,
+ ...)`: unused arguments (low = "blue", high = "red")
+ Backtrace:
+ ▆
+ 1. └─GCalignR::gc_heatmap(x) at test-gc_heatmap.R:6:1
+ 2. └─ggplot2::scale_fill_continuous(...)
+
+ [ FAIL 1 | WARN 2 | SKIP 1 | PASS 32 ]
+ Error: Test failures
+ Execution halted
+ ```
-* checking dependencies in R code ... NOTE
+* checking running R code from vignettes ... ERROR
```
- Namespace in Imports field not imported from: ‘ggpmisc’
- All declared Imports should be used.
+ Errors in running code in vignettes:
+ when running code in ‘GCalignR_step_by_step.Rmd’
+ ...
+ 0.03
+
+
+ > data("aligned_peak_data")
+
+ > gc_heatmap(aligned_peak_data, threshold = 0.03)
+
+ When sourcing ‘GCalignR_step_by_step.R’:
+ Error: unused arguments (low = "blue", high = "red")
+ Execution halted
+
+ ‘GCalignR_How_does_the_Algorithm_work.Rmd’ using ‘UTF-8’... OK
+ ‘GCalignR_step_by_step.Rmd’ using ‘UTF-8’... failed
+ ```
+
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ --- re-building ‘GCalignR_How_does_the_Algorithm_work.Rmd’ using rmarkdown
```
-# exuber
+# geoheatmap
-* Version: 1.0.2
-* GitHub: https://github.com/kvasilopoulos/exuber
-* Source code: https://github.com/cran/exuber
-* Date/Publication: 2023-03-22 23:10:02 UTC
-* Number of recursive dependencies: 101
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/geoheatmap
+* Date/Publication: 2024-09-05 15:40:02 UTC
+* Number of recursive dependencies: 105
-Run `revdepcheck::cloud_details(, "exuber")` for more info
+Run `revdepcheck::cloud_details(, "geoheatmap")` for more info
@@ -7297,184 +6217,165 @@ Run `revdepcheck::cloud_details(, "exuber")` for more info
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘exuber.Rmd’
+ when running code in ‘geoheatmap.Rmd’
...
- 370 1 1 1 0
- 371 1 1 0 0
- 372 1 1 0 0
-
- > autoplot(est_stocks)
- Using `radf_crit` for `cv`.
-
- ...
+ > internet_2015 <- subset(internet, year == 2015)
- > autoplot(estimation, crit_values)
+ > geoheatmap(facet_data = internet_2015, grid_data = europe_countries_grid1,
+ + facet_col = "country", value_col = "users", low = "#56B1F7",
+ + .... [TRUNCATED]
+ Data contains facets that are not in the grid. Consider checking dataset.
- When sourcing ‘plotting.R’:
- Error: invalid line type: must be length 2, 4, 6 or 8
+ When sourcing ‘geoheatmap.R’:
+ Error: unused arguments (low = "#56B1F7", high = "#132B43")
Execution halted
- ‘exuber.Rmd’ using ‘UTF-8’... failed
- ‘plotting.Rmd’ using ‘UTF-8’... failed
- ‘simulation.Rmd’ using ‘UTF-8’... OK
+ ‘geoheatmap.Rmd’ using ‘UTF-8’... failed
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘exuber.Rmd’ using rmarkdown
-
- Quitting from lines 73-74 [plot-radf] (exuber.Rmd)
- Error: processing vignette 'exuber.Rmd' failed with diagnostics:
- invalid line type: must be length 2, 4, 6 or 8
- --- failed re-building ‘exuber.Rmd’
+ ...
+ --- re-building ‘geoheatmap.Rmd’ using rmarkdown
- --- re-building ‘plotting.Rmd’ using rmarkdown
+ Quitting from lines 76-81 [unnamed-chunk-5] (geoheatmap.Rmd)
+ Error: processing vignette 'geoheatmap.Rmd' failed with diagnostics:
+ unused arguments (low = "#56B1F7", high = "#132B43")
+ --- failed re-building ‘geoheatmap.Rmd’
- Quitting from lines 58-59 [autoplot-basic] (plotting.Rmd)
- Error: processing vignette 'plotting.Rmd' failed with diagnostics:
- invalid line type: must be length 2, 4, 6 or 8
- --- failed re-building ‘plotting.Rmd’
+ SUMMARY: processing the following file failed:
+ ‘geoheatmap.Rmd’
- --- re-building ‘simulation.Rmd’ using rmarkdown
+ Error: Vignette re-building failed.
+ Execution halted
```
-# ezEDA
+# geomtextpath
-* Version: 0.1.1
-* GitHub: https://github.com/kviswana/ezEDA
-* Source code: https://github.com/cran/ezEDA
-* Date/Publication: 2021-06-29 04:40:10 UTC
-* Number of recursive dependencies: 92
+* Version: 0.1.5
+* GitHub: https://github.com/AllanCameron/geomtextpath
+* Source code: https://github.com/cran/geomtextpath
+* Date/Publication: 2025-01-14 17:40:02 UTC
+* Number of recursive dependencies: 93
-Run `revdepcheck::cloud_details(, "ezEDA")` for more info
+Run `revdepcheck::cloud_details(, "geomtextpath")` for more info
## Newly broken
-* checking tests ... ERROR
+* checking examples ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
- Complete output:
- > library(testthat)
- > library(ezEDA)
+ Running examples in ‘geomtextpath-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: geom_textsf
+ > ### Title: Visualise sf objects with labels
+ > ### Aliases: geom_textsf geom_labelsf
+ >
+ > ### ** Examples
+ >
+ > ggplot(waterways) +
+ ...
+ 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params))
+ 20. │ └─self$draw_panel(...)
+ 21. │ └─geomtextpath (local) draw_panel(...)
+ 22. │ └─geomtextpath:::sf_textgrob(...)
+ 23. └─base::.handleSimpleError(...)
+ 24. └─rlang (local) h(simpleError(msg, call))
+ 25. └─handlers[[1L]](cnd)
+ 26. └─cli::cli_abort(...)
+ 27. └─rlang::abort(...)
+ Execution halted
+ ```
+
+* checking tests ... ERROR
+ ```
+ Running ‘testthat.R’
+ Running the tests in ‘tests/testthat.R’ failed.
+ Complete output:
+ > library(testthat)
+ > library(geomtextpath)
+ Loading required package: ggplot2
>
- > test_check("ezEDA")
- [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ]
+ > test_check("geomtextpath")
+ [ FAIL 2 | WARN 0 | SKIP 4 | PASS 462 ]
- ══ Failed tests ════════════════════════════════════════════════════════════════
...
- ── Error ('test_two_measures_relationship.R:19:3'): y axis is labeled 'hwy' ────
- Error in `expect_match(p$labels$y, "hwy")`: is.character(act$val) is not TRUE
+ `expected` is an expression vector
+ ── Error ('test-sf.R:91:3'): We can make grobs from sf features ────────────────
+ Error in `(x$boxlinewidth %||% defaults$linewidth[type_ind]) * 3.779528`: non-numeric argument to binary operator
Backtrace:
▆
- 1. └─testthat::expect_match(p$labels$y, "hwy") at test_two_measures_relationship.R:19:3
- 2. └─base::stopifnot(is.character(act$val))
+ 1. └─geomtextpath:::sf_textgrob(river, as_textbox = TRUE) at test-sf.R:91:3
- [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ]
+ [ FAIL 2 | WARN 0 | SKIP 4 | PASS 462 ]
Error: Test failures
Execution halted
```
-# ezplot
-
-
-
-* Version: 0.7.13
-* GitHub: NA
-* Source code: https://github.com/cran/ezplot
-* Date/Publication: 2024-01-28 11:30:05 UTC
-* Number of recursive dependencies: 109
-
-Run `revdepcheck::cloud_details(, "ezplot")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘ezplot-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: model_plot
- > ### Title: model_plot
- > ### Aliases: model_plot
- >
- > ### ** Examples
- >
- > y = rnorm(26)
- > df = data.frame(ID = 1:26, actual = y + rnorm(26), fitted = y, id = letters)
- > model_plot(df, "ID", "actual", "fitted")
- Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) :
- invalid line type: must be length 2, 4, 6 or 8
- Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics
- Execution halted
- ```
-
-# fable.prophet
+# ggalign
-* Version: 0.1.0
-* GitHub: https://github.com/mitchelloharawild/fable.prophet
-* Source code: https://github.com/cran/fable.prophet
-* Date/Publication: 2020-08-20 09:30:03 UTC
-* Number of recursive dependencies: 114
+* Version: 0.0.5
+* GitHub: https://github.com/Yunuuuu/ggalign
+* Source code: https://github.com/cran/ggalign
+* Date/Publication: 2024-11-14 08:00:02 UTC
+* Number of recursive dependencies: 78
-Run `revdepcheck::cloud_details(, "fable.prophet")` for more info
+Run `revdepcheck::cloud_details(, "ggalign")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
- ```
- Errors in running code in vignettes:
- when running code in ‘intro.Rmd’
- ...
- 9 Domestic mdl 2019 Dec sample[5000] 5338093.
- 10 Domestic mdl 2020 Jan sample[5000] 4888643.
- # ℹ 62 more rows
-
- > fc %>% autoplot(lax_passengers)
-
- When sourcing ‘intro.R’:
- Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL
- Execution halted
-
- ‘intro.Rmd’ using ‘UTF-8’... failed
- ```
-
-* checking re-building of vignette outputs ... NOTE
+* checking for code/documentation mismatches ... WARNING
```
- Error(s) in re-building vignettes:
- --- re-building ‘intro.Rmd’ using rmarkdown
+ Codoc mismatches from documentation object 'plot_theme':
+ plot_theme
+ Code: function(..., line, rect, text, title, geom, spacing, margins,
+ aspect.ratio, axis.title, axis.title.x,
+ axis.title.x.top, axis.title.x.bottom, axis.title.y,
+ axis.title.y.left, axis.title.y.right, axis.text,
+ axis.text.x, axis.text.x.top, axis.text.x.bottom,
+ axis.text.y, axis.text.y.left, axis.text.y.right,
+ axis.text.theta, axis.text.r, axis.ticks,
+ axis.ticks.x, axis.ticks.x.top, axis.ticks.x.bottom,
+ ...
+ strip.text.x.top, strip.text.y, strip.text.y.left,
+ strip.text.y.right, strip.switch.pad.grid,
+ strip.switch.pad.wrap, complete = FALSE, validate =
+ TRUE)
+ Argument names in code not in docs:
+ geom spacing margins panel.widths panel.heights
+ Mismatches in argument names (first 3):
+ Position: 6 Code: geom Docs: aspect.ratio
+ Position: 7 Code: spacing Docs: axis.title
+ Position: 8 Code: margins Docs: axis.title.x
```
## In both
-* checking LazyData ... NOTE
+* checking Rd cross-references ... NOTE
```
- 'LazyData' is specified without a 'data' directory
+ Packages unavailable to check Rd xrefs: ‘ComplexHeatmap’, ‘pheatmap’
```
-# fabletools
+# GGally
-* Version: 0.4.2
-* GitHub: https://github.com/tidyverts/fabletools
-* Source code: https://github.com/cran/fabletools
-* Date/Publication: 2024-04-22 11:22:41 UTC
-* Number of recursive dependencies: 106
+* Version: 2.2.1
+* GitHub: https://github.com/ggobi/ggally
+* Source code: https://github.com/cran/GGally
+* Date/Publication: 2024-02-14 00:53:32 UTC
+* Number of recursive dependencies: 145
-Run `revdepcheck::cloud_details(, "fabletools")` for more info
+Run `revdepcheck::cloud_details(, "GGally")` for more info
@@ -7482,106 +6383,65 @@ Run `revdepcheck::cloud_details(, "fabletools")` for more info
* checking examples ... ERROR
```
- Running examples in ‘fabletools-Ex.R’ failed
+ Running examples in ‘GGally-Ex.R’ failed
The error most likely occurred in:
- > ### Name: autoplot.fbl_ts
- > ### Title: Plot a set of forecasts
- > ### Aliases: autoplot.fbl_ts autolayer.fbl_ts
+ > ### Name: ggpairs
+ > ### Title: ggplot2 generalized pairs plot
+ > ### Aliases: ggpairs
+ > ### Keywords: hplot
>
> ### ** Examples
>
- > ## Don't show:
...
- > library(fable)
- > library(tsibbledata)
- > fc <- aus_production %>% model(ets = ETS(log(Beer) ~ error("M") + trend("Ad") +
- + season("A"))) %>% forecast(h = "3 years")
- > fc %>% autoplot(aus_production)
- Error in use_defaults(..., self = self) :
- unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU
- Calls: ... -> -> compute_geom_2 ->
+ > custom_car <- ggpairs(mtcars[, c("mpg", "wt", "cyl")], upper = "blank", title = "Custom Example")
+ > # ggplot example taken from example(geom_text)
+ > plot <- ggplot2::ggplot(mtcars, ggplot2::aes(x = wt, y = mpg, label = rownames(mtcars)))
+ > plot <- plot +
+ + ggplot2::geom_text(ggplot2::aes(colour = factor(cyl)), size = 3) +
+ + ggplot2::scale_colour_discrete(l = 40)
+ Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, :
+ argument 4 matches multiple formal arguments
+ Calls:
Execution halted
```
* checking tests ... ERROR
```
+ Running ‘spelling.R’
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > library(testthat)
- > library(dplyr)
-
- Attaching package: 'dplyr'
-
- The following object is masked from 'package:testthat':
-
+ > if (requireNamespace("testthat", quietly = TRUE)) {
+ + library(testthat)
+ + library(GGally)
+ +
+ + test_check("GGally")
+ + }
...
- 28. └─ggplot2 (local) compute_geom_2(..., self = self)
- 29. └─self$geom$use_defaults(...)
- ── Failure ('test-graphics.R:327:3'): autoplot_dcmp_ts() ───────────────────────
- `print(p)` produced warnings.
- ── Failure ('test-graphics.R:346:3'): autoplot_dcmp_ts() ───────────────────────
- `print(p)` produced warnings.
+ `expected` is a character vector ('tip')
+ ── Failure ('test-ggsurv.R:26:3'): multiple ────────────────────────────────────
+ !is.null(a$labels$group) is not TRUE
- [ FAIL 4 | WARN 5 | SKIP 1 | PASS 267 ]
+ `actual`: FALSE
+ `expected`: TRUE
+
+ [ FAIL 3 | WARN 5 | SKIP 26 | PASS 477 ]
Error: Test failures
Execution halted
```
-# factoextra
-
-
-
-* Version: 1.0.7
-* GitHub: https://github.com/kassambara/factoextra
-* Source code: https://github.com/cran/factoextra
-* Date/Publication: 2020-04-01 21:20:02 UTC
-* Number of recursive dependencies: 116
-
-Run `revdepcheck::cloud_details(, "factoextra")` for more info
-
-
-
-## Newly broken
-
-* checking examples ... ERROR
- ```
- Running examples in ‘factoextra-Ex.R’ failed
- The error most likely occurred in:
-
- > ### Name: eclust
- > ### Title: Visual enhancement of clustering analysis
- > ### Aliases: eclust
- >
- > ### ** Examples
- >
- > # Load and scale data
- ...
- 12. │ └─ggplot2:::`+.gg`(...)
- 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name)
- 14. │ ├─ggplot2::ggplot_add(object, p, objectname)
- 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname)
- 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers))
- 17. └─base::.handleSimpleError(...)
- 18. └─purrr (local) h(simpleError(msg, call))
- 19. └─cli::cli_abort(...)
- 20. └─rlang::abort(...)
- Execution halted
- ```
-
-# fairmodels
+# gganimate
-* Version: 1.2.1
-* GitHub: https://github.com/ModelOriented/fairmodels
-* Source code: https://github.com/cran/fairmodels
-* Date/Publication: 2022-08-23 19:50:06 UTC
-* Number of recursive dependencies: 87
+* Version: 1.0.9
+* GitHub: https://github.com/thomasp85/gganimate
+* Source code: https://github.com/cran/gganimate
+* Date/Publication: 2024-02-27 14:00:03 UTC
+* Number of recursive dependencies: 96
-Run `revdepcheck::cloud_details(, "fairmodels")` for more info
+Run `revdepcheck::cloud_details(, "gganimate")` for more info
@@ -7593,36 +6453,61 @@ Run `revdepcheck::cloud_details(, "fairmodels")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(fairmodels)
- >
+ > library(gganimate)
+ Loading required package: ggplot2
>
- > test_check("fairmodels")
- Welcome to DALEX (version: 2.4.3).
- Find examples and detailed introduction at: http://ema.drwhy.ai/
- ...
- [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ]
+ > test_check("gganimate")
+ [ FAIL 2 | WARN 3 | SKIP 1 | PASS 4 ]
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Failure ('test_plot_density.R:14:3'): Test plot_density ─────────────────────
- plt$labels$x not equal to "probability".
- target is NULL, current is character
+ ...
+ 22. └─self$extract_key(...)
+ 23. └─ggplot2 (local) extract_key(...)
+ 24. └─Guide$extract_key(scale, aesthetic, ...)
+ 25. └─ggplot2 (local) extract_key(...)
+ 26. └─scale$map(breaks)
+ 27. └─ggplot2 (local) map(..., self = self)
- [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ]
+ [ FAIL 2 | WARN 3 | SKIP 1 | PASS 4 ]
Error: Test failures
Execution halted
```
-# fastR2
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘gganimate.Rmd’
+ ...
+ Theme element `panel.grid.major.x` is missing
+ Theme element `panel.background` is missing
+ Warning: Failed to plot frame
+ Caused by error in `UseMethod()`:
+ ! no applicable method for 'element_grob' applied to an object of class "NULL"
+
+ When sourcing ‘gganimate.R’:
+ Error: Provided file (/tmp/Rtmp3dHdpP/20956cec4984/gganim_plot0001.png) does
+ not exist
+ Execution halted
+
+ ‘gganimate.Rmd’ using ‘UTF-8’... failed
+ ```
+
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ --- re-building ‘gganimate.Rmd’ using rmarkdown
+ ```
+
+# ggblanket
-* Version: 1.2.4
-* GitHub: https://github.com/rpruim/fastR2
-* Source code: https://github.com/cran/fastR2
-* Date/Publication: 2023-11-09 06:30:03 UTC
-* Number of recursive dependencies: 165
+* Version: 11.1.0
+* GitHub: https://github.com/davidhodge931/ggblanket
+* Source code: https://github.com/cran/ggblanket
+* Date/Publication: 2024-12-17 22:40:02 UTC
+* Number of recursive dependencies: 111
-Run `revdepcheck::cloud_details(, "fastR2")` for more info
+Run `revdepcheck::cloud_details(, "ggblanket")` for more info
@@ -7630,80 +6515,67 @@ Run `revdepcheck::cloud_details(, "fastR2")` for more info
* checking examples ... ERROR
```
- Running examples in ‘fastR2-Ex.R’ failed
+ Running examples in ‘ggblanket-Ex.R’ failed
The error most likely occurred in:
- > ### Name: ACTgpa
- > ### Title: ACT scores and GPA
- > ### Aliases: ACTgpa
- > ### Keywords: datasets
+ > ### Name: gg_boxplot
+ > ### Title: Boxplot ggplot
+ > ### Aliases: gg_boxplot
>
> ### ** Examples
>
- >
- > gf_point(GPA ~ ACT, data = ACTgpa)
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: gf_point ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > library(ggplot2)
+ ...
+ • `shape = "NULL"`
+ • `size = "NULL"`
+ • `linewidth = "NULL"`
+ • `linetype = "NULL"`
+ • `pattern = "NULL"`
+ Warning: Removed 2 rows containing non-finite outside the scale range
+ (`stat_boxplot()`).
+ Error in unit(y, default.units) : 'x' and 'units' must have length > 0
+ Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit
Execution halted
```
-## In both
-
-* checking installed package size ... NOTE
- ```
- installed size is 6.1Mb
- sub-directories of 1Mb or more:
- data 2.0Mb
- snippet 3.7Mb
- ```
-
-# faux
+# ggdark
-* Version: 1.2.1
-* GitHub: https://github.com/debruine/faux
-* Source code: https://github.com/cran/faux
-* Date/Publication: 2023-04-20 07:00:11 UTC
-* Number of recursive dependencies: 132
+* Version: 0.2.1
+* GitHub: NA
+* Source code: https://github.com/cran/ggdark
+* Date/Publication: 2019-01-11 17:30:06 UTC
+* Number of recursive dependencies: 45
-Run `revdepcheck::cloud_details(, "faux")` for more info
+Run `revdepcheck::cloud_details(, "ggdark")` for more info
## Newly broken
-* checking re-building of vignette outputs ... NOTE
- ```
- Error(s) in re-building vignettes:
- --- re-building ‘codebook.Rmd’ using rmarkdown
- --- finished re-building ‘codebook.Rmd’
-
- --- re-building ‘continuous.Rmd’ using rmarkdown
- ```
-
-## In both
-
* checking examples ... ERROR
```
- Running examples in ‘faux-Ex.R’ failed
+ Running examples in ‘ggdark-Ex.R’ failed
The error most likely occurred in:
- > ### Name: beta2norm
- > ### Title: Convert beta to normal
- > ### Aliases: beta2norm
+ > ### Name: dark_mode
+ > ### Title: Activate dark mode on a 'ggplot2' theme
+ > ### Aliases: dark_mode
>
> ### ** Examples
>
+ > library(ggplot2)
+ ...
+ >
+ > p1 <- ggplot(iris, aes(Sepal.Width, Sepal.Length, color = Species)) +
+ + geom_point()
>
- > x <- rbeta(10000, 2, 3)
- > y <- beta2norm(x)
- [32mshape1 was set to 1.96704823352025[39m
- [32mshape2 was set to 2.94110338061547[39m
- > g <- ggplot2::ggplot() + ggplot2::geom_point(ggplot2::aes(x, y))
- > ggExtra::ggMarginal(g, type = "histogram")
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > p1 # theme returned by theme_get()
+ > p1 + dark_mode() # activate dark mode on theme returned by theme_get()
+ Error in match(x, table, nomatch = 0L) :
+ 'match' requires vector arguments
+ Calls: dark_mode -> %in%
Execution halted
```
@@ -7713,153 +6585,170 @@ Run `revdepcheck::cloud_details(, "faux")` for more info
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
- > library(faux)
+ > library(ggdark)
+ >
+ > test_check("ggdark")
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ]
- ************
- Welcome to faux. For support and examples visit:
- https://debruine.github.io/faux/
- - Get and set global package options with: faux_options()
- ...
- 6. └─methods (local) ``(...)
- 7. └─methods::new(def, ...)
- 8. ├─methods::initialize(value, ...)
- 9. └─methods::initialize(value, ...)
- 10. └─.Object$initialize(...)
- 11. └─lme4 (local) initializePtr()
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ...
+ ── Error ('test_dark_mode.R:10:1'): (code run outside of `test_that()`) ────────
+ Error in `match(x, table, nomatch = 0L)`: 'match' requires vector arguments
+ Backtrace:
+ ▆
+ 1. └─ggdark::dark_mode(light_theme) at test_dark_mode.R:10:1
+ 2. └─geoms[["GeomPoint"]]$default_aes$colour %in% ...
- [ FAIL 20 | WARN 6 | SKIP 14 | PASS 1331 ]
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ]
Error: Test failures
Execution halted
```
-* checking running R code from vignettes ... ERROR
+## In both
+
+* checking LazyData ... NOTE
```
- Errors in running code in vignettes:
- when running code in ‘norta.Rmd’
- ...
-
- > p <- ggplot(dat, aes(uniform_var, poisson_var)) +
- + geom_point() + geom_smooth()
-
- > ggMarginal(p, type = "histogram")
- `geom_smooth()` using method = 'gam' and formula = 'y ~ s(x, bs = "cs")'
-
- ...
- Error: argument is of length zero
- Execution halted
-
- ‘codebook.Rmd’ using ‘UTF-8’... OK
- ‘continuous.Rmd’ using ‘UTF-8’... OK
- ‘contrasts.Rmd’ using ‘UTF-8’... OK
- ‘norta.Rmd’ using ‘UTF-8’... failed
- ‘rnorm_multi.Rmd’ using ‘UTF-8’... OK
- ‘sim_design.Rmd’ using ‘UTF-8’... OK
- ‘sim_df.Rmd’ using ‘UTF-8’... OK
+ 'LazyData' is specified without a 'data' directory
```
-# fddm
+# ggdist
-* Version: 1.0-2
-* GitHub: https://github.com/rtdists/fddm
-* Source code: https://github.com/cran/fddm
-* Date/Publication: 2024-07-02 16:00:07 UTC
-* Number of recursive dependencies: 93
+* Version: 3.3.2
+* GitHub: https://github.com/mjskay/ggdist
+* Source code: https://github.com/cran/ggdist
+* Date/Publication: 2024-03-05 05:30:23 UTC
+* Number of recursive dependencies: 126
-Run `revdepcheck::cloud_details(, "fddm")` for more info
+Run `revdepcheck::cloud_details(, "ggdist")` for more info
## Newly broken
-* checking running R code from vignettes ... ERROR
+* checking examples ... ERROR
```
- Errors in running code in vignettes:
- when running code in ‘benchmark.Rmd’
- ...
- > mi <- min(bm_vec[, -seq_len(t_idx)])
-
- > ma <- max(bm_vec[, (t_idx + 1):(ncol(bm_vec) - 4)])
-
- > ggplot(mbm_vec, aes(x = factor(FuncName, levels = Names_vec),
- + y = time, color = factor(FuncName, levels = Names_vec), fill = factor(FuncName, .... [TRUNCATED]
+ Running examples in ‘ggdist-Ex.R’ failed
+ The error most likely occurred in:
+ > ### Name: Pr_
+ > ### Title: Probability expressions in ggdist aesthetics
+ > ### Aliases: Pr_ p_
+ >
+ > ### ** Examples
+ >
+ > library(ggplot2)
...
-
- When sourcing ‘pfddm.R’:
- Error: Not a unit object
+ + )
+ >
+ > # map density onto alpha of the fill
+ > ggplot(df, aes(y = name, xdist = d)) +
+ + stat_slabinterval(aes(alpha = !!p_(x)))
+ Error in use_defaults(..., self = self) :
+ unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
+ NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL,
+ Calls: ... -> -> compute_geom_2 ->
Execution halted
-
- ‘benchmark.Rmd’ using ‘UTF-8’... failed
- ‘example.Rmd’ using ‘UTF-8’... OK
- ‘math.Rmd’ using ‘UTF-8’... OK
- ‘pfddm.Rmd’ using ‘UTF-8’... failed
- ‘validity.Rmd’ using ‘UTF-8’... OK
- ```
-
-## In both
-
-* checking installed package size ... NOTE
```
- installed size is 16.6Mb
- sub-directories of 1Mb or more:
- doc 1.6Mb
- libs 14.1Mb
- ```
-
-# feasts
-
-
-
-* Version: 0.3.2
-* GitHub: https://github.com/tidyverts/feasts
-* Source code: https://github.com/cran/feasts
-* Date/Publication: 2024-03-15 09:10:02 UTC
-* Number of recursive dependencies: 101
-
-Run `revdepcheck::cloud_details(, "feasts")` for more info
-
-
-
-## Newly broken
* checking tests ... ERROR
```
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
- > library(testthat)
- > library(feasts)
- Loading required package: fabletools
- >
- > test_check("feasts")
- [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]
-
+ > # This file is part of the standard setup for testthat.
+ > # It is recommended that you do not modify it.
+ > #
+ > # Where should you do additional test configuration?
+ > # Learn more about the roles of various files in:
+ > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
+ > # * https://testthat.r-lib.org/articles/special-files.html
...
- ── Error ('test-graphics.R:192:3'): gg_tsdisplay() plots ───────────────────────
- Error in `p + ggplot2::labs(x = "x", y = "y", title = "title")`: non-numeric argument to binary operator
- ── Failure ('test-graphics.R:273:3'): gg_arma() plots ──────────────────────────
- p_built$plot$labels[c("x", "y")] not equivalent to list(x = "Re(1/root)", y = "Im(1/root)").
- Component "x": 1 string mismatch
- Component "y": 1 string mismatch
-
- [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]
+ • test.stat_sample_slabinterval/nas-with-na-rm-true.svg
+ • test.subguide/dots-subguide-with-side-vertical.svg
+ • test.subguide/integer-subguide-with-zero-range.svg
+ • test.subguide/slab-subguide-with-inside-labels-vertical.svg
+ • test.subguide/slab-subguide-with-outside-labels-vert.svg
+ • test.subguide/slab-subguide-with-outside-labels.svg
+ • test.subguide/slab-subguide-with-side-vertical.svg
+ • test.theme_ggdist/facet-titles-on-left.svg
Error: Test failures
Execution halted
```
-# fergm
+* checking re-building of vignette outputs ... NOTE
+ ```
+ Error(s) in re-building vignettes:
+ --- re-building ‘dotsinterval.Rmd’ using rmarkdown
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+
+ Quitting from lines 49-161 [dotsinterval_components] (dotsinterval.Rmd)
+ Error: processing vignette 'dotsinterval.Rmd' failed with diagnostics:
+ Problem while setting up geom aesthetics.
+ ...
+
+ --- re-building ‘freq-uncertainty-vis.Rmd’ using rmarkdown
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+ Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { :
+ cannot find pngquant; please install and put it in PATH
+ ```
+
+## In both
+
+* checking running R code from vignettes ... ERROR
+ ```
+ Errors in running code in vignettes:
+ when running code in ‘dotsinterval.Rmd’
+ ...
+ + xdist = dist)) + geom_hline(yintercept = 0:1, color = "gray95") +
+ + stat_dotsin .... [TRUNCATED]
+
+ When sourcing ‘dotsinterval.R’:
+ Error: Problem while setting up geom aesthetics.
+ ℹ Error occurred in the 2nd layer.
+ Caused by error in `use_defaults()`:
+ ...
+ ℹ Error occurred in the 1st layer.
+ Caused by error in `use_defaults()`:
+ ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL,
+ 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0
+ Execution halted
+
+ ‘dotsinterval.Rmd’ using ‘UTF-8’... failed
+ ‘freq-uncertainty-vis.Rmd’ using ‘UTF-8’... failed
+ ‘lineribbon.Rmd’ using ‘UTF-8’... failed
+ ‘slabinterval.Rmd’ using ‘UTF-8’... failed
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.6Mb
+ sub-directories of 1Mb or more:
+ R 1.5Mb
+ doc 1.3Mb
+ help 1.5Mb
+ ```
+
+# ggedit
-* Version: 1.1.4
-* GitHub: https://github.com/benjamin-w-campbell/fergm
-* Source code: https://github.com/cran/fergm
-* Date/Publication: 2018-10-17 22:20:11 UTC
-* Number of recursive dependencies: 101
+* Version: 0.4.1
+* GitHub: https://github.com/yonicd/ggedit
+* Source code: https://github.com/cran/ggedit
+* Date/Publication: 2024-03-04 14:40:02 UTC
+* Number of recursive dependencies: 94
-Run `revdepcheck::cloud_details(, "fergm")` for more info
+Run `revdepcheck::cloud_details(, "ggedit")` for more info
@@ -7867,40 +6756,36 @@ Run `revdepcheck::cloud_details(, "fergm")` for more info
* checking examples ... ERROR
```
- Running examples in ‘fergm-Ex.R’ failed
+ Running examples in ‘ggedit-Ex.R’ failed
The error most likely occurred in:
- > ### Name: coef_posterior_density
- > ### Title: Plots the posterior density for FERGM model terms.
- > ### Aliases: coef_posterior_density
- > ### Keywords: FERGM interpret summary
+ > ### Name: compare
+ > ### Title: compare
+ > ### Aliases: compare
>
> ### ** Examples
>
- ...
- > data("ergm.fit")
- > data("fergm.fit")
- > data("mesa")
- >
- > # rstan functions
- > # Histogram of the posterior
- > rstan::stan_hist(fergm.fit$stan.fit, par = "beta")
- Error in if (new_name %in% existing) { : argument is of length zero
- Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names
+ > compare(ggplot2::theme_bw(),ggplot2::theme_get())
+ [1] "theme(panel.background=element_rect(fill='white'),panel.grid=element_line(arrow.fill=''#'*EBEBEBFF',colour=''#'*EBEBEBFF'),strip.background=element_rect(colour=''#'*333333FF'))"
+ > compare(ggplot2::theme_bw(),ggplot2::theme_get(),verbose=FALSE)
+ Error in parse(text = out) : :2:0: unexpected end of input
+ 1: theme(panel.background=element_rect(fill='white'),panel.grid=element_line(arrow.fill=''#'*EBEBEBFF',colour=''#'*EBEBEBFF'),strip.background=element_rect(colour=''#'*333333FF'))
+ ^
+ Calls: compare -> eval -> parse
Execution halted
```
-# ffp
+# ggenealogy
-* Version: 0.2.2
-* GitHub: https://github.com/Reckziegel/FFP
-* Source code: https://github.com/cran/ffp
-* Date/Publication: 2022-09-29 15:10:06 UTC
-* Number of recursive dependencies: 107
+* Version: 1.0.3
+* GitHub: NA
+* Source code: https://github.com/cran/ggenealogy
+* Date/Publication: 2024-02-21 16:00:02 UTC
+* Number of recursive dependencies: 84
-Run `revdepcheck::cloud_details(, "ffp")` for more info
+Run `revdepcheck::cloud_details(, "ggenealogy")` for more info
@@ -7908,111 +6793,89 @@ Run `revdepcheck::cloud_details(, "ffp")` for more info
* checking examples ... ERROR
```
- Running examples in ‘ffp-Ex.R’ failed
+ Running examples in ‘ggenealogy-Ex.R’ failed
The error most likely occurred in:
- > ### Name: scenario_density
- > ### Title: Plot Scenarios
- > ### Aliases: scenario_density scenario_histogram
+ > ### Name: plotDegMatrix
+ > ### Title: Returns the image object to show the heat map of degrees between
+ > ### the inputted set of vertices
+ > ### Aliases: plotDegMatrix
>
> ### ** Examples
>
- > x <- diff(log(EuStockMarkets))[, 1]
- > p <- exp_decay(x, 0.005)
- >
- > scenario_density(x, p, 500)
- Error in use_defaults(..., self = self) :
- unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL,
- Calls: ... -> -> compute_geom_2 ->
+ > data(sbGeneal)
+ > ig <- dfToIG(sbGeneal)
+ > varieties <- c("Bedford", "Calland", "Narow", "Pella", "Tokyo", "Young", "Zane")
+ > p <- plotDegMatrix(varieties, ig, sbGeneal)
+ > p + ggplot2::scale_fill_continuous(low = "white", high = "darkgreen")
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "white", high = "darkgreen")
+ Calls:
Execution halted
```
-# fic
-
-
-
-* Version: 1.0.0
-* GitHub: https://github.com/chjackson/fic
-* Source code: https://github.com/cran/fic
-* Date/Publication: 2019-04-13 08:32:39 UTC
-* Number of recursive dependencies: 119
-
-Run `revdepcheck::cloud_details(, "fic")` for more info
-
-
-
-## Newly broken
-
* checking running R code from vignettes ... ERROR
```
Errors in running code in vignettes:
- when running code in ‘linear.Rnw’
+ when running code in ‘ggenealogy.Rnw’
...
- > library(ggplot2)
+ > p = plotDegMatrix(varieties, ig, sbGeneal)
- > if (requireNamespace("GGally", quietly = TRUE)) {
- + GGally::ggpairs(mtcars[, c("mpg", "am", "wt", "qsec", "disp",
- + "hp")], aes(colour .... [TRUNCATED]
+ > p + ggplot2::scale_fill_continuous(low = "white",
+ + high = "darkgreen") + ggplot2::theme(legend.title = ggplot2::element_text(size = 15),
+ + .... [TRUNCATED]
- ...
- When sourcing 'linear.R':
- Error: argument is of length zero
+ When sourcing ‘ggenealogy.R’:
+ Error: unused arguments (low = "white", high = "darkgreen")
Execution halted
- ‘fic.Rnw’ using ‘UTF-8’... OK
- ‘linear.Rnw’ using ‘UTF-8’... failed
- ‘loss.Rnw’ using ‘UTF-8’... OK
- ‘multistate.Rnw’ using ‘UTF-8’... OK
- ‘skewnormal.Rnw’ using ‘UTF-8’... OK
- ‘survival.Rnw’ using ‘UTF-8’... OK
+ ‘ggenealogy.Rnw’ using ‘UTF-8’... failed
```
## In both
-* checking dependencies in R code ... NOTE
+* checking data for non-ASCII characters ... NOTE
```
- Namespace in Imports field not imported from: ‘numDeriv’
- All declared Imports should be used.
+ Note: found 2356 marked UTF-8 strings
```
* checking re-building of vignette outputs ... NOTE
```
Error(s) in re-building vignettes:
- --- re-building ‘fic.Rnw’ using knitr
- Error: processing vignette 'fic.Rnw' failed with diagnostics:
- Running 'texi2dvi' on 'fic.tex' failed.
- LaTeX errors:
- ! LaTeX Error: File `grfext.sty' not found.
-
- Type X to quit or to proceed,
- or enter new name. (Default extension: sty)
-
+ ...
+ --- re-building ‘ggenealogy.Rnw’ using Sweave
+ Warning: Removed 1 row containing missing values or values outside
+ the scale range (`geom_segment()`).
+ Warning: Removed 1 row containing missing values or values outside
+ the scale range (`geom_segment()`).
+ Warning: Removed 1 row containing missing values or values outside
+ the scale range (`geom_segment()`).
+ Warning: Removed 1 row containing missing values or values outside
...
- --- finished re-building ‘skewnormal.Rnw’
+ Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, :
+ unused arguments (low = "white", high = "darkgreen")
- --- re-building ‘survival.Rnw’ using knitr
- --- finished re-building ‘survival.Rnw’
+ --- failed re-building ‘ggenealogy.Rnw’
- SUMMARY: processing the following files failed:
- ‘fic.Rnw’ ‘linear.Rnw’ ‘multistate.Rnw’
+ SUMMARY: processing the following file failed:
+ ‘ggenealogy.Rnw’
Error: Vignette re-building failed.
Execution halted
```
-# fido
+# ggESDA
-* Version: 1.1.1
-* GitHub: https://github.com/jsilve24/fido
-* Source code: https://github.com/cran/fido
-* Date/Publication: 2024-06-05 21:30:06 UTC
-* Number of recursive dependencies: 134
+* Version: 0.2.0
+* GitHub: https://github.com/kiangkiangkiang/ggESDA
+* Source code: https://github.com/cran/ggESDA
+* Date/Publication: 2022-08-19 08:40:10 UTC
+* Number of recursive dependencies: 218
-Run `revdepcheck::cloud_details(, "fido")` for more info
+Run `revdepcheck::cloud_details(, "ggESDA")` for more info
@@ -8020,108 +6883,133 @@ Run `revdepcheck::cloud_details(, "fido")` for more info
* checking examples ... ERROR
```
- Running examples in ‘fido-Ex.R’ failed
+ Running examples in ‘ggESDA-Ex.R’ failed
The error most likely occurred in:
- > ### Name: plot.pibblefit
- > ### Title: Plot Summaries of Posterior Distribution of pibblefit Parameters
- > ### Aliases: plot.pibblefit
+ > ### Name: ggInterval_scaMatrix
+ > ### Title: scatter plot for all variable by interval data.
+ > ### Aliases: ggInterval_scaMatrix
>
> ### ** Examples
>
- > sim <- pibble_sim(N=10, D=4, Q=3)
- > fit <- pibble(sim$Y, sim$X)
- > plot(fit, par="Lambda")
- Scale for colour is already present.
- Adding another scale for colour, which will replace the existing scale.
- Error in use_defaults(..., self = self) :
- unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL,
- NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL
- Calls: ... -> -> compute_geom_2 ->
+ > a<-rnorm(1000,0,5)
+ ...
+ > b<-runif(1000,-20,-10)
+ > c<-rgamma(1000,10,5)
+ > d<-as.data.frame(cbind(norm=a,unif=b,gamma_10_5=c))
+ > ggInterval_scaMatrix(d)
+ Warning in testData(data) :
+ Automatically transform a classical data to symbolic data
+ Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", :
+ EXPR must be a length 1 vector
+ Calls: ... -> assemble -> -> package_box -> %||%
Execution halted
```
+# ggfixest
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/grantmcdermott/ggfixest
+* Source code: https://github.com/cran/ggfixest
+* Date/Publication: 2023-12-14 08:00:06 UTC
+* Number of recursive dependencies: 78
+
+Run `revdepcheck::cloud_details(, "ggfixest")` for more info
+
+
+
+## Newly broken
+
* checking tests ... ERROR
```
- Running ‘testthat.R’
- Running the tests in ‘tests/testthat.R’ failed.
+ Running ‘tinytest.R’
+ Running the tests in ‘tests/tinytest.R’ failed.
Complete output:
- > library(testthat)
- > library(fido)
+ > ## Throttle CPU threads if R CMD check (for CRAN)
>
- > #Sys.setenv(KMP_DUPLICATE_LIB_OK="TRUE")
- > test_check("fido")
- [1] 0.27980164 -0.69169550 -0.53205652 0.11488451 -0.42419872 2.20261388
- [7] -1.62190133 -0.90893172 0.07891428 0.75060681 0.43593605 0.26819442
+ > if (any(grepl("_R_CHECK", names(Sys.getenv()), fixed = TRUE))) {
+ + # fixest
+ + if (requireNamespace("fixest", quietly = TRUE)) {
+ + library(fixest)
+ + setFixest_nthreads(1)
...
- 21. └─base::Map(...)
- 22. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE)
- 23. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]])
- 24. └─layer$compute_geom_2(key, single_params, theme)
- 25. └─ggplot2 (local) compute_geom_2(..., self = self)
- 26. └─self$geom$use_defaults(...)
-
- [ FAIL 1 | WARN 0 | SKIP 0 | PASS 114 ]
- Error: Test failures
+ diff| 1774
+ info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png
+ Error: 16 out of 101 tests failed
+ In addition: Warning message:
+ `guide_axis_nested()` was deprecated in ggh4x 0.3.0.
+ ℹ Please use `legendry::guide_axis_nested()` instead.
+ ℹ The deprecated feature was likely used in the ggfixest package.
+ Please report the issue at
+ .
Execution halted
```
-## In both
+# ggforce
-* checking running R code from vignettes ... ERROR
+