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Consolidated feature #3

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tcasstevens and others added 23 commits June 7, 2022 14:01
@tcasstevens
Added bufferedWriter utility
e28cd05
@Gingerroot775
Importing Brandon/Zach's code from Jupyter to adapt the writeBedFile
b3b6591 
function
@Gingerroot775
Initial pass of adapting it to make GFF
d7adca7
@tcasstevens
Moved MakeGffForNewSpecies to gff package
7985c56
@Gingerroot775
Comitting day 2 of hackathon work
e9bbd0b
@Gingerroot775
Merge branch 'feature/makeGFFForNewSpecies' of https://bitbucket.org/…
5c5b949 
…bucklerlab/biokotlin into feature/makeGFFForNewSpecies
@tcasstevens
Adding initial GFF Feature data structures
ee35e44
@tcasstevens
Adding initial GFF Feature data structures
c11c45f
@tcasstevens
Adding initial GFF Feature data structures
40f4c57
@tcasstevens
Adding initial GFF Feature data structures
4657027
@Gingerroot775
First draft of parser
7c6d15f
@Gingerroot775
Added convenience method for converting from string to feature type
039da2d
@tcasstevens
Adding initial GFF Feature data structures
0454d78
@Gingerroot775
Merge branch 'feature/makeGFFForNewSpecies' of https://bitbucket.org/…
4e7c148 
…bucklerlab/biokotlin into feature/makeGFFForNewSpecies
@Gingerroot775
Added toString and lazyEquals methods
ee51523
@Gingerroot775
Added GFF parser, tested to see if it works with scrambled orders (it
3038651 
does but my test is messy)
@Gingerroot775
Corrected bug in Feature toString
748a387
@Gingerroot775
Made parser sort for seqid instead of just start
da41058
@tcasstevens
Merged develop into feature/makeGFFForNewSpecies
6658fe4
@tcasstevens
Merged develop into feature/makeGFFForNewSpecies
f7b95e9
@Gingerroot775
Committing prior to branching to reduce the number of clases in the
d6b35fd 
Feature framework
@Gingerroot775
First draft of unified Feature/FeatureTree framework
33218f5
@Gingerroot775
Changes prior to meeting with Ed, where we decided to go a different
151ff64 
direction
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@tcasstevens @Gingerroot775