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[WARNING] Citeproc: citation eddy not found #202

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celprov opened this issue Sep 19, 2023 · 0 comments
Open

[WARNING] Citeproc: citation eddy not found #202

celprov opened this issue Sep 19, 2023 · 0 comments
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bug Something isn't working

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@celprov
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celprov commented Sep 19, 2023

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

@celprov celprov added the bug Something isn't working label Sep 19, 2023
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