"Shape_tables.a1 failed to run on host" error running on mindboggle_input_example #188
Description
Downloaded docker container 10/4/2019.
Downloaded mindboggle_input_example.zip and expanded to home directory.
Ran these commands:
CLI:
HOST=/home/jling
DOCK=/home/jovyan/work
docker run --rm -ti -v $HOST:$DOCK -p 5000:5000 nipy/mindboggle
DOCKER CLI:
root@95c8ebfc8045:/# DOCK=/home/jovyan/work
EXAMPLE=$DOCK/mindboggle_input_example
FREESURFER_SUBJECT=$EXAMPLE/freesurfer/subjects/arno
ANTS_SUBJECT=$EXAMPLE/ants/subjects/arno
OUT=$DOCK/mindboggled
mindboggle $FREESURFER_SUBJECT --out $OUT --roygbiv --ants $ANTS_SUBJECT/antsBrainSegmentation.nii.gz --no_volumes --no_sulci --no_moments --no_spectra
Always fails at Shape_tables:
191007-21:44:55,399 nipype.workflow INFO:
[Node] Setting-up "Mindboggle.Shape_tables" in "/home/jovyan/work/mindboggled/working/arno/Mindboggle/_hemi_rh/Shape_tables".
191007-21:44:55,860 nipype.workflow INFO:
[Node] Running "Shape_tables" ("nipype.interfaces.utility.wrappers.Function")
191007-21:46:04,985 nipype.workflow ERROR:
Node Shape_tables.a1 failed to run on host 95c8ebfc8045.
191007-21:46:04,987 nipype.workflow ERROR:
Saving crash info to /opt/crash-20191007-214604-root-Shape_tables.a1-a3ba1825-c9f0-48df-8e48-e29dd9d1afa7.txt
Traceback (most recent call last):
File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 48, in run
node.run(updatehash=updatehash)
File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 493, in run
write_node_report(self, result=result, is_mapnode=isinstance(self, MapNode))
File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/pipeline/engine/utils.py", line 214, in write_node_report
report_file.write_text('\n'.join(lines))
File "/opt/miniconda-latest/envs/mb/lib/python3.6/pathlib.py", line 1216, in write_text
return f.write(data)
UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 1717: ordinal not in range(128)