FUGUE error (no attribute 'FUGUEvsm2ANTSwarp')
jhauneuro opened this issue · comments
Summary
This issue (#752) was reported previously and closed but I am still getting an error when I run the latest qsiprep on dwi data using gradient echo field maps (2 phases):
Traceback (most recent call last):
File "/opt/conda/envs/qsiprep/lib/python3.10/multiprocessing/process.py", line 314, in _bootstrap
self.run()
File "/opt/conda/envs/qsiprep/lib/python3.10/multiprocessing/process.py", line 108, in run
self._target(*self._args, **self._kwargs)
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/cli/run.py", line 1091, in build_qsiprep_workflow
retval["workflow"] = init_qsiprep_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/base.py", line 237, in init_qsiprep_wf
single_subject_wf = init_single_subject_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/base.py", line 748, in init_single_subject_wf
dwi_preproc_wf = init_dwi_preproc_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/dwi/base.py", line 406, in init_dwi_preproc_wf
hmc_wf = init_fsl_hmc_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/dwi/fsl.py", line 422, in init_fsl_hmc_wf
b0_sdc_wf = init_sdc_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/fieldmap/base.py", line 244, in init_sdc_wf
sdc_unwarp_wf = init_sdc_unwarp_wf(
File "/opt/conda/envs/qsiprep/lib/python3.10/site-packages/qsiprep/workflows/fieldmap/unwarp.py", line 180, in init_sdc_unwarp_wf
vsm2dfm = pe.Node(itk.FUGUEvsm2ANTSwarp(), name="vsm2dfm")
AttributeError: module 'niworkflows.interfaces.itk' has no attribute 'FUGUEvsm2ANTSwarp'
Additional details
- QSIPrep version: 0.22.0
- Docker version: 25.0.4
What were you trying to do?
Preprocess dwi data using the gradient echo field map distortion correction method.
What did you expect to happen?
Completely successfully and output corrected dwi data.
What actually happened?
Got an error (see above).
Reproducing the bug
The command I ran:
docker run --rm -ti -v /usr/local/freesurfer/7.4.1/license.txt:/opt/freesurfer/license.txt:ro -v $bids_dir:/data:ro -v $out_dir:/out -v $out_dir:/scratch pennbbl/qsiprep:latest /data /out participant --output-resolution $res --bids-database-dir $bids_dir -w /scratch --participant_label $subj_id
@tsalo are the gre fieldmap CI tests missing this? I thought we added them
That import is what was changed in #769. @jhauneuro are you 100% sure you are using QSIPrep 0.22.0?
@taslo, @mattcieslak I realized I had both pennbbl/qsiprep:latest and qsiprep:latest and mixed them up. I just tested on 0.22.0 and it completed successfully. Sorry about the confusion. Thank you!