dmriprep
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[WARNING] Citeproc: citation eddy not found
What happened?
Everytime I run dMRIPrep this warning appears.
What command did you use?
singularity run -e
-B $DATADIR/inputs:/data:ro \
-B ${WORKDIR}:/work \
-B ${OUTDIR}:/out \
-B `pwd`/license.txt:/opt/freesurfer/license.txt \
-B `pwd`/filter_file_$SES.json:/filter_file_$SES.json \
-B ${HOME}/.cache/templateflow/tpl-MNI152NLin6Asym/:${HOME}/.cache/templateflow/tpl-MNI152NLin6Asym/
$PATCHES \
-B /oak/stanford/groups/russpold/inprocess/cprovins/hcph-pilot/code/dmriprep/dmriprep:/usr/local/miniconda/lib/python3.7/site-packages/dmriprep/ \
/users/cprovins/singularity_images/dmriprep-0.5.0.simg /data /out/dmriprep-0.5.0 participant \
-w /work --bids-filter-file /filter_file_$SES.json --skip-bids-validation \
--nprocs 4 --mem 45G --omp-nthreads 2 --ignore fieldmaps \
--anat-only -vv
What version of the software are you running?
0.5.0
How are you running this software?
Singularity
Is your data BIDS valid?
Yes
Are you reusing any previously computed results?
No
Please copy and paste any relevant log output.
--- Logging error ---
Traceback (most recent call last):
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 1034, in emit
msg = self.format(record)
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 880, in format
return fmt.format(record)
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 619, in format
record.message = record.getMessage()
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 380, in getMessage
msg = msg % self.args
TypeError: not all arguments converted during string formatting
Call stack:
File "/usr/local/miniconda/bin/dmriprep", line 8, in <module>
sys.exit(main())
File "/usr/local/miniconda/lib/python3.7/site-packages/dmriprep/cli/run.py", line 25, in main
"To opt out, call dmriprep with a `--notrack` flag",
Message: 'Your usage of dmriprep is being recorded using popylar (https://popylar.github.io/). '
Arguments: ('For details, see https://nipreps.github.io/dmriprep/usage.html. ', 'To opt out, call dmriprep with a `--notrack` flag')
--- Logging error ---
Traceback (most recent call last):
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 1034, in emit
msg = self.format(record)
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 880, in format
return fmt.format(record)
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 619, in format
record.message = record.getMessage()
File "/usr/local/miniconda/lib/python3.7/logging/__init__.py", line 380, in getMessage
msg = msg % self.args
TypeError: not all arguments converted during string formatting
Call stack:
File "/usr/local/miniconda/bin/dmriprep", line 8, in <module>
sys.exit(main())
File "/usr/local/miniconda/lib/python3.7/site-packages/dmriprep/cli/run.py", line 25, in main
"To opt out, call dmriprep with a `--notrack` flag",
Message: 'Your usage of dmriprep is being recorded using popylar (https://popylar.github.io/). '
Arguments: ('For details, see https://nipreps.github.io/dmriprep/usage.html. ', 'To opt out, call dmriprep with a `--notrack` flag')
[WARNING] Citeproc: citation eddy not found
Additional information / screenshots
No response