220603-14:07:51,87 cli INFO: Telemetry system to collect crashes and errors is enabled - thanks for your feedback!. Use option ``--notrack`` to opt out. 220603-14:07:54,383 cli INFO: Making sure the input data is BIDS compliant (warnings can be ignored in most cases). 220603-14:07:54,383 cli INFO: Making sure the input data is BIDS compliant (warnings can be ignored in most cases). bids-validator@1.8.0 1: [WARN] The Authors field of dataset_description.json should contain an array of fields - with one author per field. This was triggered based on the presence of only one author field. Please ignore if all contributors are already properly listed. (code: 102 - TOO_FEW_AUTHORS)  Please visit https://neurostars.org/search?q=TOO_FEW_AUTHORS for existing conversations about this issue. 2: [WARN] The recommended file /README is very small. Please consider expanding it with additional information about the dataset. (code: 213 - README_FILE_SMALL)  Please visit https://neurostars.org/search?q=README_FILE_SMALL for existing conversations about this issue. Summary: Available Tasks: Available Modalities: 373 Files, 15.05GB rest MRI 28 - Subjects 1 - Session  If you have any questions, please post on https://neurostars.org/tags/bids. 220603-14:08:01,922 nipype.workflow IMPORTANT: Running fMRIPrep version 21.0.2 License NOTICE ################################################## fMRIPrep 21.0.2 Copyright 2021 The NiPreps Developers. This product includes software developed by the NiPreps Community (https://nipreps.org/). Portions of this software were developed at the Department of Psychology at Stanford University, Stanford, CA, US. This software redistributes the versioneer Python package, which is Public domain source code. This software is also distributed as a Docker container image. The bootstraping file for the image ("Dockerfile") is licensed under the MIT License. This software may be distributed through an add-on package called "Docker Wrapper" that is under the BSD 3-clause License. ################################################################# 220603-14:08:01,922 nipype.workflow WARNING: Previous output generated by version 0+unknown found. 220603-14:08:02,185 nipype.workflow IMPORTANT: Building fMRIPrep's workflow: * BIDS dataset path: /data. * Participant list: ['G1001']. * Run identifier: 20220603-140749_902c3c37-f73f-465e-a50e-eea45089f957. * Output spaces: MNI152NLin2009cAsym:res-native Custom23Subj:res-native. * Pre-run FreeSurfer's SUBJECTS_DIR: /out/sourcedata/freesurfer. 220603-14:08:03,753 nipype.workflow INFO: B0 field inhomogeneity map will be estimated with the following 1 estimators: []. 220603-14:08:03,795 nipype.workflow INFO: No single-band-reference found for sub-G1001_ses-01_task-rest_bold.nii.gz. 220603-14:08:03,795 nipype.workflow INFO: Found usable B0-map (fieldmap) estimator(s) to correct for susceptibility-derived distortions. 220603-14:08:03,886 nipype.workflow IMPORTANT: BOLD series will be slice-timing corrected to an offset of 0.744s. 220603-14:08:04,64 nipype.workflow INFO: Setting-up fieldmap "auto_00000" (EstimatorType.PEPOLAR) with 220603-14:08:07,82 nipype.workflow INFO: fMRIPrep workflow graph with 394 nodes built successfully. 220603-14:08:14,839 nipype.workflow IMPORTANT: fMRIPrep started! 220603-14:08:14,964 nipype.workflow INFO: Workflow fmriprep_wf settings: ['check', 'execution', 'logging', 'monitoring'] 220603-14:08:15,252 nipype.workflow INFO: Running in parallel. 220603-14:08:15,257 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 28 jobs ready. Free memory (GB): 50.00/50.00, Free processors: 8/8. 220603-14:08:15,373 nipype.workflow INFO: [Job 0] Cached (fmriprep_wf.single_subject_G1001_wf.bidssrc). 220603-14:08:15,374 nipype.workflow INFO: [Job 1] Cached (fmriprep_wf.single_subject_G1001_wf.about). 220603-14:08:15,375 nipype.workflow INFO: [Job 2] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl). 220603-14:08:15,377 nipype.workflow INFO: [Job 3] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.brain_extraction_wf.full_wm). 220603-14:08:15,378 nipype.workflow INFO: [Job 4] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl). 220603-14:08:15,380 nipype.workflow INFO: [Job 5] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_source). 220603-14:08:15,383 nipype.workflow INFO: [Job 6] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.func_derivatives_wf.raw_sources). 220603-14:08:15,389 nipype.workflow INFO: [Job 7] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.initial_boldref_wf.val_bold). 220603-14:08:17,264 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 26 jobs ready. Free memory (GB): 50.00/50.00, Free processors: 8/8. 220603-14:08:17,374 nipype.workflow INFO: [Job 8] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.initial_boldref_wf.get_dummy). 220603-14:08:17,376 nipype.workflow INFO: [Job 9] Cached (fmriprep_wf.single_subject_G1001_wf.fmap_preproc_wf.out_merge_fmap_id). 220603-14:08:17,377 nipype.workflow INFO: [Job 10] Cached (fmriprep_wf.single_subject_G1001_wf.fmap_preproc_wf.out_merge_method). 220603-14:08:17,381 nipype.workflow INFO: [Job 11] Cached (fmriprep_wf.single_subject_G1001_wf.fmap_preproc_wf.wf_auto_00000.flatten). 220603-14:08:17,382 nipype.workflow INFO: [Job 12] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.split_desc). 220603-14:08:17,383 nipype.workflow INFO: [Job 13] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_reports_wf.tf_select). 220603-14:08:17,384 nipype.workflow INFO: [Job 14] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.split_desc). 220603-14:08:17,386 nipype.workflow INFO: [Job 15] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_reports_wf.tf_select). 220603-14:08:19,266 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 24 jobs ready. Free memory (GB): 50.00/50.00, Free processors: 8/8. 220603-14:08:19,375 nipype.workflow INFO: [Job 16] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.split_desc). 220603-14:08:19,377 nipype.workflow INFO: [Job 17] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_reports_wf.tf_select). 220603-14:08:19,378 nipype.workflow INFO: [Job 18] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.select_tpl). 220603-14:08:19,379 nipype.workflow INFO: [Job 19] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.split_target). 220603-14:08:19,381 nipype.workflow INFO: [Job 20] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.select_tpl). 220603-14:08:19,382 nipype.workflow INFO: [Job 21] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.split_target). 220603-14:08:19,383 nipype.workflow INFO: [Job 22] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.select_tpl). 220603-14:08:19,385 nipype.workflow INFO: [Job 23] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.bold_std_trans_wf.split_target). 220603-14:08:21,269 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 18 jobs ready. Free memory (GB): 50.00/50.00, Free processors: 8/8. 220603-14:08:21,382 nipype.workflow INFO: [Job 24] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.func_derivatives_wf.spacesource). 220603-14:08:21,384 nipype.workflow INFO: [Job 25] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.func_derivatives_wf.spacesource). 220603-14:08:21,385 nipype.workflow INFO: [Job 26] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_derivatives_wf.spacesource). 220603-14:08:21,387 nipype.workflow INFO: [Job 27] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_derivatives_wf.spacesource). 220603-14:08:21,393 nipype.workflow INFO: [Job 28] Cached (fmriprep_wf.single_subject_G1001_wf.bids_info). 220603-14:08:21,399 nipype.workflow INFO: [Job 29] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_template_wf.t1w_ref_dimensions). 220603-14:08:21,407 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_G1001_wf.ds_report_about" in "/scratch/fmriprep_wf/single_subject_G1001_wf/ds_report_about". 220603-14:08:21,415 nipype.workflow INFO: [Node] Running "ds_report_about" ("fmriprep.interfaces.DerivativesDataSink") 220603-14:08:21,462 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_G1001_wf.ds_report_about". 220603-14:08:21,463 nipype.workflow INFO: [Job 30] Completed (fmriprep_wf.single_subject_G1001_wf.ds_report_about). 220603-14:08:21,554 nipype.workflow INFO: [Job 31] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl). 220603-14:08:21,556 nipype.workflow INFO: [Job 32] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.select_bold). 220603-14:08:23,269 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 17 jobs ready. Free memory (GB): 50.00/50.00, Free processors: 8/8. 220603-14:08:23,381 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.ds_report_validation" in "/scratch/fmriprep_wf/single_subject_G1001_wf/func_preproc_ses_01_task_rest_wf/ds_report_validation". 220603-14:08:23,391 nipype.workflow INFO: [Node] Running "ds_report_validation" ("fmriprep.interfaces.DerivativesDataSink") 220603-14:08:23,405 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.ds_report_validation". 220603-14:08:23,405 nipype.workflow INFO: [Job 33] Completed (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.ds_report_validation). 220603-14:08:23,492 nipype.workflow INFO: [Job 34] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.initial_boldref_wf.calc_dummy_scans). 220603-14:08:23,498 nipype.workflow INFO: [Job 35] Cached (fmriprep_wf.single_subject_G1001_wf.func_preproc_ses_01_task_rest_wf.initial_boldref_wf.gen_avg). 220603-14:08:23,504 nipype.workflow INFO: [Job 37] Cached (fmriprep_wf.single_subject_G1001_wf.fmap_preproc_wf.wf_auto_00000.regrid). 220603-14:08:23,506 nipype.workflow INFO: [Job 38] Cached (fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.tf_select). 220603-14:08:23,508 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.tf_select" in "/scratch/fmriprep_wf/single_subject_G1001_wf/anat_preproc_wf/anat_norm_wf/_template_Custom23Subj/tf_select". 220603-14:08:23,513 nipype.workflow INFO: [Node] Running "tf_select" ("smriprep.interfaces.templateflow.TemplateFlowSelect") 220603-14:08:23,530 nipype.workflow WARNING: Storing result file without outputs 220603-14:08:23,531 nipype.workflow WARNING: [Node] Error on "fmriprep_wf.single_subject_G1001_wf.anat_preproc_wf.anat_norm_wf.tf_select" (/scratch/fmriprep_wf/single_subject_G1001_wf/anat_preproc_wf/anat_norm_wf/_template_Custom23Subj/tf_select) 220603-14:08:23,533 nipype.workflow ERROR: Node tf_select.a1 failed to run on host 06df98767087. 220603-14:08:23,537 nipype.workflow ERROR: Saving crash info to /out/sub-G1001/log/20220603-140749_902c3c37-f73f-465e-a50e-eea45089f957/crash-20220603-140823-root-tf_select.a1-67f7902e-1eee-4316-958b-e2acf0268feb.txt Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 129, in validate value = Path(value) # Use pathlib's validation File "/opt/conda/lib/python3.8/pathlib.py", line 1042, in __new__ self = cls._from_parts(args, init=False) File "/opt/conda/lib/python3.8/pathlib.py", line 683, in _from_parts drv, root, parts = self._parse_args(args) File "/opt/conda/lib/python3.8/pathlib.py", line 667, in _parse_args a = os.fspath(a) TypeError: expected str, bytes or os.PathLike object, not list During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 530, in aggregate_outputs setattr(outputs, key, val) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate value = super(File, self).validate(objekt, name, value, return_pathlike=True) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 131, in validate self.error(objekt, name, str(value)) File "/opt/conda/lib/python3.8/site-packages/traits/base_trait_handler.py", line 74, in error raise TraitError( traits.trait_errors.TraitError: The 't1w_file' trait of a _TemplateFlowSelectOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '[]' was specified. During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 344, in _send_procs_to_workers self.procs[jobid].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 430, in run outputs = self.aggregate_outputs(runtime) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 537, in aggregate_outputs raise FileNotFoundError(msg) FileNotFoundError: No such file or directory '[]' for output 't1w_file' of a TemplateFlowSelect interface 220603-14:08:23,557 nipype.workflow CRITICAL: fMRIPrep failed: Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 129, in validate value = Path(value) # Use pathlib's validation File "/opt/conda/lib/python3.8/pathlib.py", line 1042, in __new__ self = cls._from_parts(args, init=False) File "/opt/conda/lib/python3.8/pathlib.py", line 683, in _from_parts drv, root, parts = self._parse_args(args) File "/opt/conda/lib/python3.8/pathlib.py", line 667, in _parse_args a = os.fspath(a) TypeError: expected str, bytes or os.PathLike object, not list During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 530, in aggregate_outputs setattr(outputs, key, val) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate value = super(File, self).validate(objekt, name, value, return_pathlike=True) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 131, in validate self.error(objekt, name, str(value)) File "/opt/conda/lib/python3.8/site-packages/traits/base_trait_handler.py", line 74, in error raise TraitError( traits.trait_errors.TraitError: The 't1w_file' trait of a _TemplateFlowSelectOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '[]' was specified. During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 344, in _send_procs_to_workers self.procs[jobid].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 430, in run outputs = self.aggregate_outputs(runtime) File "/opt/conda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 537, in aggregate_outputs raise FileNotFoundError(msg) FileNotFoundError: No such file or directory '[]' for output 't1w_file' of a TemplateFlowSelect interface 220603-14:08:25,845 cli ERROR: Preprocessing did not finish successfully. Errors occurred while processing data from participants: G1001 (1). Check the HTML reports for details. 220603-14:08:25,845 cli ERROR: Preprocessing did not finish successfully. Errors occurred while processing data from participants: G1001 (1). Check the HTML reports for details. Sentry is attempting to send 2 pending error messages Waiting up to 2 seconds Press Ctrl-C to quit