190925-03:32:43,251 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 190925-03:32:43,256 nipype.utils ERROR: No metadata was found in the pkl file. Make sure you are currently using the same Nipype version from the generated pkl. 190925-03:32:43,295 nipype.workflow WARNING: Error while checking node hash, forcing re-run. Although this error may not prevent the workflow from running, it could indicate a major problem. Please report a new issue at https://github.com/nipy/nipype/issues adding the following information: Node: fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion Interface: niworkflows.interfaces.utils.NormalizeMotionParams Traceback: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/base.py", line 337, in _local_hash_check cached, updated = self.procs[jobid].is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 521, in _get_inputs outputs = _load_resultfile(results_file)[0].outputs File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 311, in load_resultfile if resolve and result.outputs: AttributeError: 'NoneType' object has no attribute 'outputs' 190925-03:32:43,363 nipype.workflow INFO: [Job 679] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.mcflirt). 190925-03:32:43,376 nipype.workflow INFO: [Job 744] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_reference_wf.calc_dummy_scans). 190925-03:32:43,409 nipype.workflow INFO: [Job 746] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split). 190925-03:32:43,426 nipype.workflow INFO: [Job 763] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split). 190925-03:32:43,433 nipype.workflow INFO: [Job 780] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_reference_wf.validate). 190925-03:32:44,484 nipype.workflow INFO: [Job 31] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask). 190925-03:32:44,502 nipype.workflow INFO: [LegacyMultiProc] Running 2 tasks, and 38 jobs ready. Free memory (GB): 73.03/73.24, Free processors: 6/8. Currently running: * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize 190925-03:32:44,853 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". 190925-03:32:44,929 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". 190925-03:32:44,930 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". 190925-03:32:44,991 nipype.workflow INFO: [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz 190925-03:32:45,347 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". 190925-03:32:45,351 nipype.utils ERROR: No metadata was found in the pkl file. Make sure you are currently using the same Nipype version from the generated pkl. 190925-03:32:45,390 nipype.workflow WARNING: Error while checking node hash, forcing re-run. Although this error may not prevent the workflow from running, it could indicate a major problem. Please report a new issue at https://github.com/nipy/nipype/issues adding the following information: Node: fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion Interface: niworkflows.interfaces.utils.NormalizeMotionParams Traceback: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/base.py", line 337, in _local_hash_check cached, updated = self.procs[jobid].is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 521, in _get_inputs outputs = _load_resultfile(results_file)[0].outputs File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 311, in load_resultfile if resolve and result.outputs: AttributeError: 'NoneType' object has no attribute 'outputs' 190925-03:32:45,460 nipype.workflow INFO: [Job 747] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge). 190925-03:32:45,607 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_06_wf/bold_hmc_wf/normalize_motion". 190925-03:32:45,751 nipype.workflow INFO: [Job 764] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge). 190925-03:32:45,847 nipype.workflow INFO: [Job 781] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_split). 190925-03:32:45,862 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.ds_report_validation" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_08_wf/ds_report_validation". 190925-03:32:45,904 nipype.workflow INFO: [Node] Running "ds_report_validation" ("fmriprep.interfaces.DerivativesDataSink") 190925-03:32:45,957 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.ds_report_validation". 190925-03:32:45,958 nipype.workflow INFO: [Job 782] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.ds_report_validation). 190925-03:32:46,325 nipype.workflow INFO: [Job 783] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.val_sbref). 190925-03:32:46,484 nipype.workflow INFO: [Job 15] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize). 190925-03:32:46,501 nipype.workflow INFO: [LegacyMultiProc] Running 3 tasks, and 35 jobs ready. Free memory (GB): 73.02/73.24, Free processors: 5/8. Currently running: * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion 190925-03:32:46,869 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 190925-03:32:47,67 nipype.workflow INFO: [Job 784] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_reference_wf.gen_ref). 190925-03:32:47,78 nipype.workflow INFO: [Job 851] Cached (fmriprep_wf.single_subject_8_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl). 190925-03:32:47,86 nipype.workflow INFO: [Job 853] Cached (fmriprep_wf.single_subject_8_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl). 190925-03:32:47,93 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.about". 190925-03:32:47,93 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.about" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/about". 190925-03:32:47,94 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.about". 190925-03:32:47,131 nipype.workflow INFO: [Node] Running "about" ("fmriprep.interfaces.reports.AboutSummary") 190925-03:32:47,202 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.about". 190925-03:32:47,202 nipype.workflow INFO: [Job 854] Completed (fmriprep_wf.single_subject_8_wf.about). 190925-03:32:47,732 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_07_wf/bold_hmc_wf/normalize_motion". 190925-03:32:48,408 nipype.workflow INFO: [Job 855] Cached (fmriprep_wf.single_subject_8_wf.bidssrc). 190925-03:32:48,495 nipype.workflow INFO: [LegacyMultiProc] Running 4 tasks, and 36 jobs ready. Free memory (GB): 72.92/73.24, Free processors: 4/8. Currently running: * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion 190925-03:32:48,859 nipype.workflow INFO: [Job 785] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_hmc_wf.mcflirt). 190925-03:32:48,873 nipype.workflow INFO: [Job 850] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_reference_wf.calc_dummy_scans). 190925-03:32:49,188 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 190925-03:32:49,190 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 190925-03:32:49,252 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 190925-03:32:49,323 nipype.workflow INFO: [Job 852] Cached (fmriprep_wf.single_subject_8_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl). 190925-03:32:49,384 nipype.workflow WARNING: Error while checking node hash, forcing re-run. Although this error may not prevent the workflow from running, it could indicate a major problem. Please report a new issue at https://github.com/nipy/nipype/issues adding the following information: Node: fmriprep_wf.single_subject_8_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions Interface: niworkflows.interfaces.images.TemplateDimensions Traceback: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/base.py", line 337, in _local_hash_check cached, updated = self.procs[jobid].is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 541, in _get_inputs self.set_input(key, deepcopy(output_value)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 279, in set_input setattr(self.inputs, parameter, deepcopy(val)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 400, in validate value = super(MultiObject, self).validate(objekt, name, newvalue) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_types.py", line 2336, in validate return TraitListObject( self, object, name, value ) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2313, in __init__ raise excp File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in __init__ value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 317, in validate value = super(File, self).validate(objekt, name, value, return_pathlike=True) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 141, in validate self.error(objekt, name, str(value)) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 172, in error value ) traits.trait_errors.TraitError: Each element of the 't1w_list' trait of a TemplateDimensionsInputSpec instance must be a pathlike object or string representing an existing file, but a value of '/N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz' was specified. Error setting node input: Node: t1_template_dimensions input: t1w_list results_file: /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/bidssrc/result_bidssrc.pklz value: /N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz 190925-03:32:49,834 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 190925-03:32:49,868 nipype.workflow INFO: [Node] Cached "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion" - collecting precomputed outputs 190925-03:32:49,869 nipype.workflow INFO: [Node] "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion" found cached. 190925-03:32:50,478 nipype.workflow INFO: [Job 574] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_hmc_wf.normalize_motion). 190925-03:32:50,481 nipype.workflow INFO: [Job 16] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize). 190925-03:32:50,492 nipype.workflow INFO: [LegacyMultiProc] Running 3 tasks, and 37 jobs ready. Free memory (GB): 72.83/73.24, Free processors: 5/8. Currently running: * fmriprep_wf.single_subject_8_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion * fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize 190925-03:32:50,510 nipype.workflow INFO: [Node] Cached "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion" - collecting precomputed outputs 190925-03:32:50,511 nipype.workflow INFO: [Node] "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion" found cached. 190925-03:32:50,849 nipype.workflow WARNING: Error while checking node hash, forcing re-run. Although this error may not prevent the workflow from running, it could indicate a major problem. Please report a new issue at https://github.com/nipy/nipype/issues adding the following information: Node: fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass Interface: nipype.interfaces.afni.preprocess.Automask Traceback: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/base.py", line 337, in _local_hash_check cached, updated = self.procs[jobid].is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 521, in _get_inputs outputs = _load_resultfile(results_file)[0].outputs File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 300, in load_resultfile result = loadpkl(results_file) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/utils/filemanip.py", line 687, in loadpkl pkl_file = pklopen(infile.name, 'rb') File "/usr/local/miniconda/lib/python3.7/gzip.py", line 53, in open binary_file = GzipFile(filename, gz_mode, compresslevel) File "/usr/local/miniconda/lib/python3.7/gzip.py", line 163, in __init__ fileobj = self.myfileobj = builtins.open(filename, mode or 'rb') FileNotFoundError: [Errno 2] No such file or directory: 'result_fixhdr_unifize.pklz' 190925-03:32:50,855 nipype.workflow INFO: [Job 575] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_confounds_wf.add_motion_headers). 190925-03:32:50,929 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 190925-03:32:51,159 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". 190925-03:32:51,375 nipype.workflow INFO: [Job 576] Cached (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_06_wf.bold_confounds_wf.fdisp). 190925-03:32:51,760 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/anat_preproc_wf/anat_template_wf/t1_template_dimensions". 190925-03:32:52,1 nipype.utils ERROR: No metadata was found in the pkl file. Make sure you are currently using the same Nipype version from the generated pkl. 190925-03:32:52,45 nipype.workflow WARNING: Error while checking node hash, forcing re-run. Although this error may not prevent the workflow from running, it could indicate a major problem. Please report a new issue at https://github.com/nipy/nipype/issues adding the following information: Node: fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_hmc_wf.normalize_motion Interface: niworkflows.interfaces.utils.NormalizeMotionParams Traceback: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/base.py", line 337, in _local_hash_check cached, updated = self.procs[jobid].is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 521, in _get_inputs outputs = _load_resultfile(results_file)[0].outputs File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 311, in load_resultfile if resolve and result.outputs: AttributeError: 'NoneType' object has no attribute 'outputs' 190925-03:32:52,55 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.ds_report_about". 190925-03:32:52,55 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.ds_report_about" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/ds_report_about". 190925-03:32:52,56 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.ds_report_about". 190925-03:32:52,84 nipype.workflow INFO: [Node] Running "ds_report_about" ("fmriprep.interfaces.DerivativesDataSink") 190925-03:32:52,109 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.ds_report_about". 190925-03:32:52,110 nipype.workflow INFO: [Job 913] Completed (fmriprep_wf.single_subject_8_wf.ds_report_about). 190925-03:32:52,463 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.bids_info". 190925-03:32:52,478 nipype.workflow INFO: [Job 32] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize). 190925-03:32:52,481 nipype.workflow INFO: [Job 680] Completed (fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_07_wf.bold_hmc_wf.normalize_motion). 190925-03:32:52,489 nipype.workflow ERROR: Node t1_template_dimensions failed to run on host c5. 190925-03:32:52,527 nipype.workflow ERROR: Saving crash info to /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep/sub-8/log/20190925-014445_0ef9d520-e198-4507-b508-ab447447bf19/crash-20190925-033252-kessand-t1_template_dimensions-b6a624d0-0c73-4ca2-a3db-8eeac0fb203c.txt Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/legacymultiproc.py", line 69, in run_node result['result'] = node.run(updatehash=updatehash) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 411, in run cached, updated = self.is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 541, in _get_inputs self.set_input(key, deepcopy(output_value)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 279, in set_input setattr(self.inputs, parameter, deepcopy(val)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 400, in validate value = super(MultiObject, self).validate(objekt, name, newvalue) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_types.py", line 2336, in validate return TraitListObject( self, object, name, value ) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2313, in __init__ raise excp File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in __init__ value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 317, in validate value = super(File, self).validate(objekt, name, value, return_pathlike=True) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 141, in validate self.error(objekt, name, str(value)) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 172, in error value ) traits.trait_errors.TraitError: Each element of the 't1w_list' trait of a TemplateDimensionsInputSpec instance must be a pathlike object or string representing an existing file, but a value of '/N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz' was specified. Error setting node input: Node: t1_template_dimensions input: t1w_list results_file: /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/bidssrc/result_bidssrc.pklz value: /N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz fMRIPrep failed: Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/legacymultiproc.py", line 69, in run_node result['result'] = node.run(updatehash=updatehash) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 411, in run cached, updated = self.is_cached() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 297, in is_cached hashed_inputs, hashvalue = self._get_hashval() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 494, in _get_hashval self._get_inputs() File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 541, in _get_inputs self.set_input(key, deepcopy(output_value)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 279, in set_input setattr(self.inputs, parameter, deepcopy(val)) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 400, in validate value = super(MultiObject, self).validate(objekt, name, newvalue) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_types.py", line 2336, in validate return TraitListObject( self, object, name, value ) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2313, in __init__ raise excp File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in __init__ value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 2305, in value = [ validate( object, name, val ) for val in value ] File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 317, in validate value = super(File, self).validate(objekt, name, value, return_pathlike=True) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/traits_extension.py", line 141, in validate self.error(objekt, name, str(value)) File "/usr/local/miniconda/lib/python3.7/site-packages/traits/trait_handlers.py", line 172, in error value ) traits.trait_errors.TraitError: Each element of the 't1w_list' trait of a TemplateDimensionsInputSpec instance must be a pathlike object or string representing an existing file, but a value of '/N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz' was specified. Error setting node input: Node: t1_template_dimensions input: t1w_list results_file: /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/bidssrc/result_bidssrc.pklz value: /N/dc2/scratch/kessand/DECGR/sub-8/anat/sub-8_T1w.nii.gz 190925-03:32:53,245 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 190925-03:32:53,291 nipype.workflow INFO: [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 190925-03:32:53,793 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 190925-03:32:54,686 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_hmc_wf.normalize_motion" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/func_preproc_task_DecGR_run_08_wf/bold_hmc_wf/normalize_motion". 190925-03:32:55,280 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_8_wf.bids_info" in "/N/dc2/scratch/kessand/DECGR/derivatives/fmriprep_wf/single_subject_8_wf/bids_info". 190925-03:32:55,287 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_8_wf.bids_info". 190925-03:32:55,330 nipype.workflow INFO: [Node] Running "bids_info" ("niworkflows.interfaces.bids.BIDSInfo") 190925-03:32:56,597 nipype.workflow INFO: [Node] Cached "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_hmc_wf.normalize_motion" - collecting precomputed outputs 190925-03:32:56,597 nipype.workflow INFO: [Node] "fmriprep_wf.single_subject_8_wf.func_preproc_task_DecGR_run_08_wf.bold_hmc_wf.normalize_motion" found cached. Preprocessing did not finish successfully. Errors occurred while processing data from participants: 8 (1). Check the HTML reports for details.