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ds000116-fmriprep: The specified MELODIC directory does not contain the required files to run ICA-AROMA #22

Open jbwexler opened 2 years ago

jbwexler commented 2 years ago

Just for sub-04:

Node: fmriprep_wf.single_subject_04_wf.func_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf.ica_aroma_wf.ica_aroma Working directory: /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/func_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/ica_aroma_wf/ica_aroma

Node inputs:

TR = 2.0 args = -np compress_report = auto denoise_type = nonaggr dim = environ = {} feat_dir = fnirt_warp_file = in_file = mask = mat_file = melodic_dir = motion_parameters = out_dir = out out_report = ica_aroma_reportlet.svg report_mask =

Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 516, in run result = self._run_interface(execute=True) File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_interface return self._run_command(execute) File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 741, in _run_command result = self._interface.run(cwd=outdir) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 428, in run runtime = self._run_interface(runtime) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 822, in _run_interface self.raise_exception(runtime) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 749, in raise_ex ception raise RuntimeError( RuntimeError: Command: ICA_AROMA.py -tr 2.000 -np -den nonaggr -i /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04 /fmriprep_wf/single_subject_04_wf/func_preproc_taskauditoryoddballwithbuttonresponsetotargetstimuli run_02_wf/ica_aroma_wf/smooth/vol0000_xform-00000_clipped_merged_cut_smooth.nii.gz -m /scratch1/03201 /jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/func_preproc_task_audito ryoddballwithbuttonresponsetotargetstimuli_run_02_wf/bold_std_trans_wf/_std_target_MNI152NLin6Asym.re s2/mask_std_tfm/vol0000_xform-00000_clipped_merged_average_corrected_brain_mask_maths_trans.nii.gz -m eldir /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/fun c_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/ica_aroma_wf/melodic -mc /s cratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/func_prepro c_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/bold_hmc_wf/normalize_motion/motion _params.txt -o /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/singlesubject 04_wf/func_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/ica_aroma_wf/ica_a roma/out Standard output:

------------------------------- RUNNING ICA-AROMA ------------------------------- --------------- 'ICA-based Automatic Removal Of Motion Artifacts' ---------------

Step 1) MELODIC

  • The specified MELODIC directory does not contain the required files to run ICA-AROMA. MELODIC wil l be run seperately. Standard error: No convergence after 500 steps Traceback (most recent call last): File "/opt/ICA-AROMA/ICA_AROMA.py", line 204, in aromafunc.runICA(fslDir, inFile, outDir, melDir, mask, dim, TR) File "/opt/ICA-AROMA/ICA_AROMA_functions.py", line 94, in runICA nrICs = int(float(subprocess.getoutput(cmd))) ValueError: could not convert string to float: 'Image Exception : #63 :: No image files match: /scrat ch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/func_preproc_ta sk_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/ica_aroma_wf/ica_aroma/out/melodic.ica/ melodic_IC\nNo image files match: /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep _wf/single_subject_04_wf/func_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf /ica_aroma_wf/ica_aroma/out/melodic.ica/melodic_IC' Return code: 1 (END)
effigies commented 2 years ago

Likely a filesystem sync issue. I would retry. Does /scratch1/03201/jbwexler/work_dir/fmriprep/ds000116_sub-04/fmriprep_wf/single_subject_04_wf/func_preproc_task_auditoryoddballwithbuttonresponsetotargetstimuli_run_02_wf/ica_aroma_wf/ica_aroma/out/melodic.ica/melodic_IC exist?