Loading singularity... find: ‘/sub-aam063/’: Datei oder Verzeichnis nicht gefunden creating temp directory in /scratch/brainimage/kraft/rest/fmriprep_temp/sub-aam063 Starting fmriprep. subject: sub-aam063 INFO:  Convert SIF file to sandbox... 200821-13:37:37,710 cli INFO: Making sure the input data is BIDS compliant (warnings can be ignored in most cases). bids-validator@1.4.0 1: [WARN] The recommended file /README is missing. See Section 03 (Modality agnostic files) of the BIDS specification. (code: 101 - README_FILE_MISSING)  Please visit https://neurostars.org/search?q=README_FILE_MISSING for existing conversations about this issue. 2: [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. Summary: Available Tasks: Available Modalities: 12 Files, 217.94MB rest T1w 1 - Subject bold 1 - Session fieldmap  If you have any questions, please post on https://neurostars.org/tags/bids. 200821-13:37:58,891 nipype.workflow IMPORTANT: Running fMRIPREP version 20.1.1: * BIDS dataset path: /data. * Participant list: ['aam063']. * Run identifier: 20200821-133736_2d82cfc3-da0f-4706-ab61-3d9c0c12b2f5. * Output spaces: T1w MNI152NLin2009cAsym:res-native fsnative fsaverage:den-164k. * Pre-run FreeSurfer's SUBJECTS_DIR: /output/freesurfer. 200821-13:38:02,207 nipype.workflow INFO: No single-band-reference found for sub-aam063_task-rest_bold.nii.gz. 200821-13:38:03,509 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more function 200821-13:38:03,512 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more function 200821-13:38:03,514 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more models 200821-13:38:08,185 nipype.workflow INFO: fMRIPrep workflow graph with 425 nodes built successfully. 200821-13:38:23,926 nipype.workflow VERBOSE: fMRIPrep config: [environment] cpu_count = 80 exec_env = "singularity" free_mem = 171.6 overcommit_policy = "heuristic" overcommit_limit = "50%" nipype_version = "1.5.0" templateflow_version = "0.6.2" version = "20.1.1" [execution] bids_dir = "/data" bids_description_hash = "a7a2b23db6604519a0e5ec12d3ebcf22b5e7ccfc6014eda611f8dea713518223" boilerplate_only = false debug = false fs_license_file = "/lic/license.txt" fs_subjects_dir = "/output/freesurfer" layout = "BIDS Layout: .../data | Subjects: 1 | Sessions: 0 | Runs: 1" log_dir = "/output/fmriprep/logs" log_level = 15 low_mem = false md_only_boilerplate = false notrack = true output_dir = "/output" output_spaces = "T1w MNI152NLin2009cAsym:res-native fsnative fsaverage:den-164k" reports_only = false run_uuid = "20200821-133736_2d82cfc3-da0f-4706-ab61-3d9c0c12b2f5" participant_label = [ "aam063",] templateflow_home = "/templateflow" work_dir = "/working_dir" write_graph = false [workflow] anat_only = false aroma_err_on_warn = false aroma_melodic_dim = -200 bold2t1w_dof = 6 bold2t1w_init = "register" cifti_output = false fmap_bspline = false force_syn = false hires = true ignore = [ "slicetiming",] longitudinal = false medial_surface_nan = false regressors_all_comps = false regressors_dvars_th = 1.5 regressors_fd_th = 0.5 run_reconall = true skull_strip_fixed_seed = false skull_strip_template = "OASIS30ANTs" skull_strip_t1w = "force" spaces = "T1w MNI152NLin2009cAsym:res-native fsnative fsaverage:den-164k" use_aroma = false use_syn_sdc = false [nipype] crashfile_format = "txt" get_linked_libs = false nprocs = 80 omp_nthreads = 8 plugin = "MultiProc" resource_monitor = false stop_on_first_crash = false [seeds] master = 36280 ants = 3232 [nipype.plugin_args] maxtasksperchild = 1 raise_insufficient = false 200821-13:38:23,926 nipype.workflow IMPORTANT: fMRIPrep started! 200821-13:38:28,529 nipype.workflow INFO: Workflow fmriprep_wf settings: ['check', 'execution', 'logging', 'monitoring'] 200821-13:38:28,798 nipype.workflow INFO: Running in parallel. 200821-13:38:28,820 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 14 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:38:28,940 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.spacesource" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/func_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.resnative/spacesource". 200821-13:38:28,949 nipype.workflow INFO: [Node] Running "spacesource" ("niworkflows.interfaces.space.SpaceDataSource") 200821-13:38:28,961 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.spacesource". 200821-13:38:28,961 nipype.workflow INFO: [Job 0] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.spacesource). 200821-13:38:29,52 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.select_tpl" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.resnative/select_tpl". 200821-13:38:29,75 nipype.workflow INFO: [Node] Running "select_tpl" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:29,121 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.select_tpl". 200821-13:38:29,121 nipype.workflow INFO: [Job 1] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.select_tpl). 200821-13:38:29,200 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.split_target" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.resnative/split_target". 200821-13:38:29,234 nipype.workflow INFO: [Node] Running "split_target" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:29,243 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.split_target". 200821-13:38:29,243 nipype.workflow INFO: [Job 2] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.split_target). 200821-13:38:29,327 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.tf_select" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_reports_wf/_template_MNI152NLin2009cAsym/tf_select". 200821-13:38:29,341 nipype.workflow INFO: [Node] Running "tf_select" ("smriprep.interfaces.templateflow.TemplateFlowSelect") 200821-13:38:29,398 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.tf_select". 200821-13:38:29,398 nipype.workflow INFO: [Job 3] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.tf_select). 200821-13:38:29,477 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.split_desc" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/split_desc". 200821-13:38:29,482 nipype.workflow INFO: [Node] Running "split_desc" ("smriprep.interfaces.templateflow.TemplateDesc") 200821-13:38:29,486 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.split_desc". 200821-13:38:29,486 nipype.workflow INFO: [Job 4] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.split_desc). 200821-13:38:29,716 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.split" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/split". 200821-13:38:29,746 nipype.workflow INFO: [Node] Setting-up "_split0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/split/mapflow/_split0". 200821-13:38:29,780 nipype.workflow INFO: [Node] Running "_split0" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:29,834 nipype.workflow INFO: [Node] Finished "_split0". 200821-13:38:29,844 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.split". 200821-13:38:29,844 nipype.workflow INFO: [Job 12] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.split). 200821-13:38:29,985 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.about" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/about". 200821-13:38:30,2 nipype.workflow INFO: [Node] Running "about" ("fmriprep.interfaces.reports.AboutSummary") 200821-13:38:30,29 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.about". 200821-13:38:30,29 nipype.workflow INFO: [Job 101] Completed (fmriprep_wf.single_subject_aam063_wf.about). 200821-13:38:30,165 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.fsdir_run_20200821_133736_2d82cfc3_da0f_4706_ab61_3d9c0c12b2f5" in "/working_dir/fmriprep_wf/fsdir_run_20200821_133736_2d82cfc3_da0f_4706_ab61_3d9c0c12b2f5". 200821-13:38:30,179 nipype.workflow INFO: [Node] Running "fsdir_run_20200821_133736_2d82cfc3_da0f_4706_ab61_3d9c0c12b2f5" ("niworkflows.interfaces.bids.BIDSFreeSurferDir") 200821-13:38:35,898 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.raw_sources" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/func_derivatives_wf/raw_sources". 200821-13:38:35,907 nipype.workflow INFO: [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:35,916 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.raw_sources". 200821-13:38:38,855 nipype.workflow INFO: [Node] Finished "fmriprep_wf.fsdir_run_20200821_133736_2d82cfc3_da0f_4706_ab61_3d9c0c12b2f5". 200821-13:38:38,856 nipype.workflow INFO: [Job 162] Completed (fmriprep_wf.fsdir_run_20200821_133736_2d82cfc3_da0f_4706_ab61_3d9c0c12b2f5). 200821-13:38:38,979 nipype.workflow INFO: [Job 6] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.func_derivatives_wf.raw_sources). 200821-13:38:38,986 nipype.workflow INFO: [MultiProc] Running 5 tasks, and 2 jobs ready. Free memory (GB): 168.03/168.84, Free processors: 75/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.bidssrc * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.validate * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.magmrg 200821-13:38:39,98 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.tf_select" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/tf_select". 200821-13:38:39,105 nipype.workflow INFO: [Node] Running "tf_select" ("smriprep.interfaces.templateflow.TemplateFlowSelect") 200821-13:38:39,137 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.tf_select". 200821-13:38:39,137 nipype.workflow INFO: [Job 5] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.tf_select). 200821-13:38:39,252 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.phmap2rads" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/phmap2rads". 200821-13:38:39,260 nipype.workflow INFO: [Node] Setting-up "_phmap2rads0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/phmap2rads/mapflow/_phmap2rads0". 200821-13:38:39,266 nipype.workflow INFO: [Node] Running "_phmap2rads0" ("sdcflows.interfaces.fmap.PhaseMap2rads") 200821-13:38:39,348 nipype.workflow INFO: [Node] Finished "_phmap2rads0". 200821-13:38:39,350 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.phmap2rads". 200821-13:38:39,350 nipype.workflow INFO: [Job 13] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.phmap2rads). 200821-13:38:39,712 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.magmrg" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/magmrg". 200821-13:38:39,713 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.validate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/validate". 200821-13:38:39,718 nipype.workflow INFO: [Node] Running "magmrg" ("niworkflows.interfaces.images.IntraModalMerge") 200821-13:38:39,719 nipype.workflow INFO: [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") 200821-13:38:39,727 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl". 200821-13:38:39,734 nipype.workflow INFO: [Node] Running "lap_tmpl" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz Laplacian /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz 1.5 1 200821-13:38:39,755 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.validate". 200821-13:38:39,855 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl". 200821-13:38:39,867 nipype.workflow INFO: [Node] Running "res_tmpl" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: ResampleImageBySpacing 3 /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz 4 4 4 1 200821-13:38:39,939 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.magmrg". 200821-13:38:40,59 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.bidssrc" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/bidssrc". 200821-13:38:40,74 nipype.workflow INFO: [Node] Running "bidssrc" ("niworkflows.interfaces.bids.BIDSDataGrabber") 200821-13:38:40,79 nipype.interface INFO: No "t2w" images found for sub-aam063 200821-13:38:40,79 nipype.interface INFO: No "flair" images found for sub-aam063 200821-13:38:40,79 nipype.interface INFO: No "sbref" images found for sub-aam063 200821-13:38:40,79 nipype.interface INFO: No "roi" images found for sub-aam063 200821-13:38:40,89 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.bidssrc". 200821-13:38:40,984 nipype.workflow INFO: [Job 7] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.magmrg). 200821-13:38:40,986 nipype.workflow INFO: [Job 24] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.validate). 200821-13:38:40,989 nipype.workflow INFO: [Job 102] Completed (fmriprep_wf.single_subject_aam063_wf.bidssrc). 200821-13:38:40,995 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 8 jobs ready. Free memory (GB): 168.44/168.84, Free processors: 78/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl 200821-13:38:41,98 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.calc_phdiff" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/calc_phdiff". 200821-13:38:41,129 nipype.workflow INFO: [Node] Running "calc_phdiff" ("sdcflows.interfaces.fmap.SubtractPhases") 200821-13:38:41,140 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.calc_phdiff". 200821-13:38:41,140 nipype.workflow INFO: [Job 14] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.calc_phdiff). 200821-13:38:41,242 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.ds_report_validation" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/ds_report_validation". 200821-13:38:41,255 nipype.workflow INFO: [Node] Running "ds_report_validation" ("fmriprep.interfaces.DerivativesDataSink") 200821-13:38:41,270 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.ds_report_validation". 200821-13:38:41,270 nipype.workflow INFO: [Job 27] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.ds_report_validation). 200821-13:38:41,291 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/n4_correct". 200821-13:38:41,377 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.ds_report_about" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/ds_report_about". 200821-13:38:41,387 nipype.workflow INFO: [Node] Running "ds_report_about" ("fmriprep.interfaces.DerivativesDataSink") 200821-13:38:41,406 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.ds_report_about". 200821-13:38:41,406 nipype.workflow INFO: [Job 160] Completed (fmriprep_wf.single_subject_aam063_wf.ds_report_about). 200821-13:38:41,455 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_split". 200821-13:38:41,923 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl". 200821-13:38:42,982 nipype.workflow INFO: [Job 100] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl). 200821-13:38:42,985 nipype.workflow INFO: [MultiProc] Running 6 tasks, and 0 jobs ready. Free memory (GB): 166.47/168.84, Free processors: 67/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.bids_info * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_ref_dimensions * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl 200821-13:38:43,422 nipype.workflow INFO: [Node] Running "n4_correct" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection -d 3 --input-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/magmrg/sub-aam063_run-04_magnitude1_avg.nii.gz --output sub-aam063_run-04_magnitude1_avg_corrected.nii.gz 200821-13:38:43,425 nipype.workflow INFO: [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: fslsplit /data/sub-aam063/func/sub-aam063_task-rest_bold.nii.gz -t 200821-13:38:43,634 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref". 200821-13:38:43,642 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_ref_dimensions" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_template_wf/t1w_ref_dimensions". 200821-13:38:43,658 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") 200821-13:38:43,773 nipype.workflow INFO: [Node] Running "t1w_ref_dimensions" ("niworkflows.interfaces.images.TemplateDimensions") 200821-13:38:43,808 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.bids_info" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/bids_info". 200821-13:38:43,822 nipype.workflow INFO: [Node] Running "bids_info" ("niworkflows.interfaces.bids.BIDSInfo") 200821-13:38:43,849 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.bids_info". 200821-13:38:43,873 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_ref_dimensions". 200821-13:38:44,988 nipype.workflow INFO: [Job 103] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_ref_dimensions). 200821-13:38:44,991 nipype.workflow INFO: [Job 161] Completed (fmriprep_wf.single_subject_aam063_wf.bids_info). 200821-13:38:44,997 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 5 jobs ready. Free memory (GB): 166.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl 200821-13:38:45,105 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.t1w_name" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_derivatives_wf/t1w_name". 200821-13:38:45,109 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_derivatives_wf/raw_sources". 200821-13:38:45,117 nipype.workflow INFO: [Node] Running "t1w_name" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:45,125 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.t1w_name". 200821-13:38:45,125 nipype.workflow INFO: [Job 105] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.t1w_name). 200821-13:38:45,241 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.t1w_conform_check" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_reports_wf/t1w_conform_check". 200821-13:38:45,249 nipype.workflow INFO: [Node] Running "t1w_conform_check" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:45,256 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.t1w_conform_check". 200821-13:38:45,256 nipype.workflow INFO: [Job 106] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.t1w_conform_check). 200821-13:38:45,388 nipype.interface INFO: stderr 2020-08-21T13:38:45.388217:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] 200821-13:38:45,389 nipype.interface INFO: stderr 2020-08-21T13:38:45.388217:++ Authored by: RW Cox 200821-13:38:45,391 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.summary" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/summary". 200821-13:38:45,404 nipype.workflow INFO: [Node] Running "summary" ("fmriprep.interfaces.reports.SubjectSummary") 200821-13:38:45,425 nipype.interface INFO: stderr 2020-08-21T13:38:45.425778:++ Coarse del was 10, replaced with 4 200821-13:38:45,445 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.summary". 200821-13:38:45,446 nipype.workflow INFO: [Job 350] Completed (fmriprep_wf.single_subject_aam063_wf.summary). 200821-13:38:46,995 nipype.workflow INFO: [MultiProc] Running 6 tasks, and 2 jobs ready. Free memory (GB): 166.47/168.84, Free processors: 67/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_conform * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl 200821-13:38:47,109 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.ds_t1w_conform_report" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_reports_wf/ds_t1w_conform_report". 200821-13:38:47,119 nipype.workflow INFO: [Node] Running "ds_t1w_conform_report" ("smriprep.interfaces.DerivativesDataSink") 200821-13:38:47,136 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.ds_t1w_conform_report". 200821-13:38:47,136 nipype.workflow INFO: [Job 107] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_reports_wf.ds_t1w_conform_report). 200821-13:38:47,244 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.ds_report_summary" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/ds_report_summary". 200821-13:38:47,253 nipype.workflow INFO: [Node] Running "ds_report_summary" ("fmriprep.interfaces.DerivativesDataSink") 200821-13:38:47,270 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.ds_report_summary". 200821-13:38:47,270 nipype.workflow INFO: [Job 351] Completed (fmriprep_wf.single_subject_aam063_wf.ds_report_summary). 200821-13:38:47,351 nipype.workflow INFO: [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:47,359 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources". 200821-13:38:47,413 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct". 200821-13:38:47,484 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_conform" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_template_wf/t1w_conform". 200821-13:38:47,491 nipype.workflow INFO: [Node] Setting-up "_t1w_conform0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_template_wf/t1w_conform/mapflow/_t1w_conform0". 200821-13:38:47,496 nipype.workflow INFO: [Node] Running "_t1w_conform0" ("niworkflows.interfaces.images.Conform") 200821-13:38:47,559 nipype.workflow INFO: [Node] Finished "_t1w_conform0". 200821-13:38:47,564 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_conform". 200821-13:38:48,995 nipype.workflow INFO: [Job 8] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.n4_correct). 200821-13:38:48,997 nipype.workflow INFO: [Job 104] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources). 200821-13:38:49,0 nipype.workflow INFO: [Job 108] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.t1w_conform). 200821-13:38:49,6 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 2 jobs ready. Free memory (GB): 167.07/168.84, Free processors: 77/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl 200821-13:38:49,111 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.get1st" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_template_wf/get1st". 200821-13:38:49,916 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl". 200821-13:38:51,2 nipype.workflow INFO: [Job 98] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl). 200821-13:38:51,8 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 166.87/168.84, Free processors: 76/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.get1st * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:38:51,120 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/mrg_tmpl". 200821-13:38:51,187 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet". 200821-13:38:51,195 nipype.workflow INFO: [Node] Running "bet" ("niworkflows.interfaces.masks.BETRPT"), a CommandLine Interface with command: bet /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/n4_correct/sub-aam063_run-04_magnitude1_avg_corrected.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain.nii.gz -f 0.60 -m 200821-13:38:51,347 nipype.workflow INFO: [Node] Running "get1st" ("nipype.interfaces.utility.base.Select") 200821-13:38:51,368 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.get1st". 200821-13:38:53,4 nipype.workflow INFO: [Job 109] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_template_wf.get1st). 200821-13:38:53,11 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 166.87/168.84, Free processors: 76/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:38:53,125 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_validate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_validate". 200821-13:38:53,131 nipype.workflow INFO: [Node] Running "anat_validate" ("niworkflows.interfaces.images.ValidateImage") 200821-13:38:53,138 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_validate". 200821-13:38:53,138 nipype.workflow INFO: [Job 110] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_validate). 200821-13:38:53,298 nipype.workflow INFO: [Node] Running "mrg_tmpl" ("nipype.interfaces.utility.base.Merge") 200821-13:38:53,306 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl". 200821-13:38:55,7 nipype.workflow INFO: [Job 99] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl). 200821-13:38:55,10 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 3 jobs ready. Free memory (GB): 167.07/168.84, Free processors: 77/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:38:55,114 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.fov_check" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/surface_recon_wf/fov_check". 200821-13:38:56,550 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet". 200821-13:38:57,11 nipype.workflow INFO: [Job 9] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.magnitude_wf.bet). 200821-13:38:57,18 nipype.workflow INFO: [MultiProc] Running 5 tasks, and 2 jobs ready. Free memory (GB): 166.67/168.84, Free processors: 75/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.truncate_images * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.recon_config * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.fov_check * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:38:57,178 nipype.workflow INFO: [Node] Running "fov_check" ("nipype.interfaces.utility.wrappers.Function") 200821-13:38:57,189 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.truncate_images" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/truncate_images". 200821-13:38:57,209 nipype.workflow INFO: [Node] Setting-up "_truncate_images0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0". 200821-13:38:57,240 nipype.workflow INFO: [Node] Running "_truncate_images0" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths.nii TruncateImageIntensity /data/sub-aam063/anat/sub-aam063_T1w.nii 0.01 0.999 256 200821-13:38:57,448 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.MskErode" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/MskErode". 200821-13:38:57,464 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.prelude" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/prelude". 200821-13:38:58,19 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.recon_config" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/surface_recon_wf/recon_config". 200821-13:38:58,353 nipype.workflow INFO: [Node] Running "recon_config" ("niworkflows.interfaces.freesurfer.FSDetectInputs") 200821-13:38:58,389 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.recon_config". 200821-13:38:58,947 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.fov_check". 200821-13:38:59,13 nipype.workflow INFO: [Job 111] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.fov_check). 200821-13:38:59,16 nipype.workflow INFO: [Job 112] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.recon_config). 200821-13:38:59,22 nipype.workflow INFO: [MultiProc] Running 5 tasks, and 1 jobs ready. Free memory (GB): 166.67/168.84, Free processors: 75/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.prelude * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.MskErode * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.truncate_images * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:38:59,695 nipype.workflow INFO: [Node] Running "MskErode" ("nipype.interfaces.fsl.maths.MathsCommand"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask.nii.gz -nan -kernel 2D -ero /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/MskErode/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_maths.nii.gz 200821-13:38:59,803 nipype.workflow INFO: [Node] Finished "_truncate_images0". 200821-13:38:59,808 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.truncate_images". 200821-13:38:59,943 nipype.workflow INFO: [Node] Running "prelude" ("nipype.interfaces.fsl.preprocess.PRELUDE"), a CommandLine Interface with command: prelude --abs=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain.nii.gz --mask=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask.nii.gz --phase=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/phmap2rads/mapflow/_phmap2rads0/sub-aam063_run-04_phasediff_rads.nii.gz --unwrap=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/prelude/sub-aam063_run-04_phasediff_rads_unwrapped.nii.gz 200821-13:39:00,47 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.MskErode". 200821-13:39:00,378 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.prelude". 200821-13:39:01,15 nipype.workflow INFO: [Job 113] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.truncate_images). 200821-13:39:01,18 nipype.workflow INFO: [Job 10] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.MskErode). 200821-13:39:01,20 nipype.workflow INFO: [Job 15] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.prelude). 200821-13:39:01,25 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 3 jobs ready. Free memory (GB): 162.27/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.autorecon1 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:01,130 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.recenter" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/recenter". 200821-13:39:01,137 nipype.workflow INFO: [Node] Running "recenter" ("nipype.interfaces.utility.wrappers.Function") 200821-13:39:01,212 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.recenter". 200821-13:39:01,212 nipype.workflow INFO: [Job 16] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.recenter). 200821-13:39:01,317 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.NewMask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/NewMask". 200821-13:39:01,397 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.autorecon1" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/surface_recon_wf/autorecon1". 200821-13:39:01,559 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4". 200821-13:39:01,567 nipype.workflow INFO: [Node] Setting-up "_inu_n40" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40". 200821-13:39:01,573 nipype.workflow INFO: [Node] Running "_inu_n40" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0/sub-aam063_T1w_maths.nii --convergence [ 50x50x50x50, 1e-07 ] --output sub-aam063_T1w_maths_corrected.nii --shrink-factor 4 200821-13:39:01,907 nipype.workflow INFO: [Node] Running "autorecon1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: recon-all -autorecon1 -i /data/sub-aam063/anat/sub-aam063_T1w.nii -noskullstrip -openmp 8 -subjid sub-aam063 -sd /output/freesurfer 200821-13:39:02,270 nipype.workflow WARNING: Storing result file without outputs 200821-13:39:02,272 nipype.workflow WARNING: [Node] Error on "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.autorecon1" (/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/surface_recon_wf/autorecon1) 200821-13:39:03,19 nipype.workflow ERROR: Node autorecon1 failed to run on host node45-003.cm.cluster. 200821-13:39:03,27 nipype.workflow ERROR: Saving crash info to /output/fmriprep/sub-aam063/log/20200821-133736_2d82cfc3-da0f-4706-ab61-3d9c0c12b2f5/crash-20200821-133903-kraft-autorecon1-d34ea1ff-f64e-4813-b6b2-d0862a39dc12.txt Traceback (most recent call last): File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 516, in run result = self._run_interface(execute=True) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_interface return self._run_command(execute) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 741, in _run_command result = self._interface.run(cwd=outdir) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 397, in run runtime = self._run_interface(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 792, in _run_interface self.raise_exception(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 723, in raise_exception ).format(**runtime.dictcopy()) RuntimeError: Command: recon-all -autorecon1 -i /data/sub-aam063/anat/sub-aam063_T1w.nii -noskullstrip -openmp 8 -subjid sub-aam063 -sd /output/freesurfer Standard output: Standard error: /home/fmriprep/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/surface_recon_wf/autorecon1: No such file or directory. Return code: 1 200821-13:39:03,37 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 166.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.NewMask * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:03,201 nipype.workflow INFO: [Node] Running "NewMask" ("nipype.interfaces.fsl.maths.MultiImageMaths"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask.nii.gz -sub /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/MskErode/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_maths.nii.gz -thr 0.5 -bin /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/NewMask/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_maths.nii.gz 200821-13:39:03,345 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.denoise" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/denoise". 200821-13:39:03,353 nipype.workflow INFO: [Node] Running "denoise" ("nipype.interfaces.fsl.maths.SpatialFilter"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/recenter/sub-aam063_run-04_phasediff_rads_unwrapped_recentered.nii.gz -kernel sphere 5.0000 -fmedian /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/denoise/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt.nii.gz 200821-13:39:03,382 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.NewMask". 200821-13:39:03,835 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.denoise". 200821-13:39:05,21 nipype.workflow INFO: [Job 11] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.NewMask). 200821-13:39:05,23 nipype.workflow INFO: [Job 17] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.denoise). 200821-13:39:05,30 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:05,138 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.demean" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/demean". 200821-13:39:05,396 nipype.workflow INFO: [Node] Running "demean" ("nipype.interfaces.utility.wrappers.Function") 200821-13:39:06,323 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.demean". 200821-13:39:07,24 nipype.workflow INFO: [Job 18] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.demean). 200821-13:39:07,31 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:07,457 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Despike" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/Despike". 200821-13:39:09,32 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 166.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Despike * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:09,273 nipype.workflow INFO: [Node] Running "Despike" ("nipype.interfaces.fsl.preprocess.FUGUE"), a CommandLine Interface with command: fugue --despike --despikethreshold=2.1 --loadfmap=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/demean/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean.nii.gz --savefmap=sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_fieldmap.nii.gz --mask=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask.nii.gz 200821-13:39:09,616 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Despike". 200821-13:39:10,47 nipype.interface INFO: stderr 2020-08-21T13:39:10.047258:++ Max displacement in automask = 0.21 (mm) at sub-brick 8 200821-13:39:10,47 nipype.interface INFO: stderr 2020-08-21T13:39:10.047258:++ Max delta displ in automask = 0.16 (mm) at sub-brick 18 200821-13:39:11,30 nipype.workflow INFO: [Job 19] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Despike). 200821-13:39:11,37 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:11,340 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref". 200821-13:39:11,351 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.ApplyMask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/ApplyMask". 200821-13:39:11,359 nipype.workflow INFO: [Node] Running "ApplyMask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/Despike/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_fieldmap.nii.gz -nan -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/NewMask/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_maths.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/ApplyMask/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_fieldmap_masked.nii.gz 200821-13:39:11,486 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.ApplyMask". 200821-13:39:13,33 nipype.workflow INFO: [Job 28] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.gen_ref). 200821-13:39:13,35 nipype.workflow INFO: [Job 20] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.ApplyMask). 200821-13:39:13,41 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 4 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:13,143 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.calc_dummy_scans" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/calc_dummy_scans". 200821-13:39:13,145 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Merge" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/Merge". 200821-13:39:13,151 nipype.workflow INFO: [Node] Running "calc_dummy_scans" ("nipype.interfaces.utility.wrappers.Function") 200821-13:39:13,159 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.calc_dummy_scans". 200821-13:39:13,159 nipype.workflow INFO: [Job 97] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.calc_dummy_scans). 200821-13:39:13,347 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_hmc_wf/mcflirt". 200821-13:39:13,371 nipype.workflow INFO: [Node] Running "Merge" ("nipype.interfaces.utility.base.Merge") 200821-13:39:13,377 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Merge". 200821-13:39:15,37 nipype.workflow INFO: [Job 21] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.Merge). 200821-13:39:15,44 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 167.31/168.84, Free processors: 62/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:15,180 nipype.workflow INFO: [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: mcflirt -in /data/sub-aam063/func/sub-aam063_task-rest_bold.nii.gz -out /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_hmc_wf/mcflirt/sub-aam063_task-rest_bold_mcf.nii.gz -reffile /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots -rmsabs -rmsrel 200821-13:39:15,264 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". 200821-13:39:15,278 nipype.workflow INFO: [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: antsAI -c [10,0.000001,10] -d 3 -x /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 200821-13:39:15,374 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.AddEdge" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/AddEdge". 200821-13:39:15,392 nipype.workflow INFO: [Node] Running "AddEdge" ("nipype.interfaces.fsl.maths.MultiImageMaths"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/demean/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/MskErode/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_maths.nii.gz -add /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/ApplyMask/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_fieldmap_masked.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/fmap_postproc_wf/cleanup_wf/AddEdge/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths.nii.gz 200821-13:39:15,567 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.AddEdge". 200821-13:39:17,38 nipype.workflow INFO: [Job 22] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.fmap_postproc_wf.cleanup_wf.AddEdge). 200821-13:39:17,45 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 167.31/168.84, Free processors: 62/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:17,309 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.compfmap" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/compfmap". 200821-13:39:17,382 nipype.workflow INFO: [Node] Running "compfmap" ("sdcflows.interfaces.fmap.Phasediff2Fieldmap") 200821-13:39:17,418 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.compfmap". 200821-13:39:19,40 nipype.workflow INFO: [Job 23] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.phdiff_wf.compfmap). 200821-13:39:19,43 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 167.31/168.84, Free processors: 62/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:21,135 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". 200821-13:39:23,47 nipype.workflow INFO: [Job 35] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff). 200821-13:39:23,53 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.51/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split 200821-13:39:23,848 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split". 200821-13:39:25,51 nipype.workflow INFO: [Job 25] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_split). 200821-13:39:25,58 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 63/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:25,95 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". 200821-13:39:25,114 nipype.workflow INFO: [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 200821-13:39:27,58 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 167.57/168.84, Free processors: 62/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:27,116 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.gen_ref" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.resnative/gen_ref". 200821-13:39:27,220 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". 200821-13:39:27,289 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 200821-13:39:27,632 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.gen_ref". 200821-13:39:29,56 nipype.workflow INFO: [Job 36] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm). 200821-13:39:29,58 nipype.workflow INFO: [Job 26] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_std_trans_wf.gen_ref). 200821-13:39:29,65 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:31,62 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:31,187 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 200821-13:39:31,200 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 200821-13:39:33,784 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 200821-13:39:35,66 nipype.workflow INFO: [Job 37] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask). 200821-13:39:35,72 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:35,358 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 200821-13:39:37,72 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:37,72 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz 200821-13:39:37,367 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 200821-13:39:39,69 nipype.workflow INFO: [Job 38] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate). 200821-13:39:39,76 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:39,178 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr". 200821-13:39:39,190 nipype.workflow INFO: [Node] Running "check_hdr" ("niworkflows.interfaces.images.MatchHeader") 200821-13:39:39,241 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr". 200821-13:39:39,242 nipype.workflow INFO: [Job 39] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr). 200821-13:39:41,75 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:43,78 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:43,139 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". 200821-13:39:43,246 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 200821-13:39:46,506 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". 200821-13:39:47,79 nipype.workflow INFO: [Job 40] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct). 200821-13:39:47,85 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 2 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:47,193 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.get_ees" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/get_ees". 200821-13:39:47,397 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 200821-13:39:49,85 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 167.67/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.get_ees * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:49,159 nipype.workflow INFO: [Node] Running "get_ees" ("nipype.interfaces.utility.wrappers.Function") 200821-13:39:49,171 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 200821-13:39:49,208 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m 200821-13:39:50,686 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 200821-13:39:51,83 nipype.workflow INFO: [Job 41] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.get_ees). 200821-13:39:51,86 nipype.workflow INFO: [Job 42] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass). 200821-13:39:51,92 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:51,378 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 200821-13:39:51,385 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 200821-13:39:51,878 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 200821-13:39:53,84 nipype.workflow INFO: [Job 43] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate). 200821-13:39:53,88 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:53,367 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 200821-13:39:53,377 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 200821-13:39:53,512 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 200821-13:39:55,91 nipype.workflow INFO: [Job 44] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask). 200821-13:39:55,97 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:55,280 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". 200821-13:39:55,426 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 200821-13:39:57,97 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:39:57,237 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". 200821-13:39:59,97 nipype.workflow INFO: [Job 45] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize). 200821-13:39:59,103 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:40:01,102 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.97/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:40:01,155 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 200821-13:40:01,164 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:40:01,268 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 200821-13:40:03,104 nipype.workflow INFO: [Job 46] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize). 200821-13:40:03,111 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:40:03,307 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 200821-13:40:05,110 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4 200821-13:40:05,149 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 200821-13:40:05,593 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 200821-13:40:06,547 nipype.workflow INFO: [Node] Finished "_inu_n40". 200821-13:40:06,550 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4". 200821-13:40:07,110 nipype.workflow INFO: [Job 114] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4). 200821-13:40:07,113 nipype.workflow INFO: [Job 47] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass). 200821-13:40:07,119 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 3 jobs ready. Free memory (GB): 168.27/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:09,117 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 167.77/168.84, Free processors: 76/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_target * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2 * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:09,201 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_target" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/res_target". 200821-13:40:09,220 nipype.workflow INFO: [Node] Running "res_target" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: ResampleImageBySpacing 3 /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii sub-aam063_T1w_maths_corrected_resampled.nii 4 4 4 1 200821-13:40:09,220 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/lap_target". 200821-13:40:09,223 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 200821-13:40:09,228 nipype.workflow INFO: [Node] Running "lap_target" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_maths.nii Laplacian /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii 1.5 1 200821-13:40:09,232 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:40:09,332 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 200821-13:40:11,115 nipype.workflow INFO: [Job 48] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2). 200821-13:40:11,121 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 77/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_target * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:11,423 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". 200821-13:40:11,551 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_target". 200821-13:40:13,116 nipype.workflow INFO: [Job 117] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.res_target). 200821-13:40:13,123 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 167.87/168.84, Free processors: 77/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:13,395 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 200821-13:40:13,604 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". 200821-13:40:14,619 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target". 200821-13:40:15,118 nipype.workflow INFO: [Job 115] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.lap_target). 200821-13:40:15,121 nipype.workflow INFO: [Job 49] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks). 200821-13:40:15,127 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 2 jobs ready. Free memory (GB): 168.07/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:15,236 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_target" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/mrg_target". 200821-13:40:15,269 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.init_aff" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/init_aff". 200821-13:40:15,283 nipype.workflow INFO: [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: antsAI -c [10,0.000001,10] -d 3 -x /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz -m Mattes[/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl/tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz,/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/res_target/sub-aam063_T1w_maths_corrected_resampled.nii,32,Regular,0.250000] -o initialization.mat -p 0 -s [15.000000,0.100000] -t Affine[0.100000] -v 1 200821-13:40:15,478 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". 200821-13:40:17,125 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 167.67/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_target * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:17,195 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 200821-13:40:17,292 nipype.workflow INFO: [Node] Running "mrg_target" ("nipype.interfaces.utility.base.Merge") 200821-13:40:17,298 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_target". 200821-13:40:17,412 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". 200821-13:40:18,418 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.init_aff". 200821-13:40:19,123 nipype.workflow INFO: [Job 118] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.init_aff). 200821-13:40:19,125 nipype.workflow INFO: [Job 50] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask). 200821-13:40:19,128 nipype.workflow INFO: [Job 116] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.mrg_target). 200821-13:40:19,133 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 168.27/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:21,128 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 63/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:21,279 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/norm". 200821-13:40:21,300 nipype.workflow INFO: [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ anat_to_template, anat_to_template_Warped.nii.gz ] --transform Rigid[ 0.1 ] --metric MI[ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform Affine[ 0.1 ] --metric MI[ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii, 0.5, 4, None, 1 ] --metric CC[ /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl/tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/lap_target/sub-aam063_T1w_maths_corrected_maths.nii, 0.5, 4, None, 1 ] --convergence [ 50x10x0, 1e-09, 15 ] --smoothing-sigmas 2.0x1.0x0.0vox --shrink-factors 4x2x1 --use-histogram-matching 1 --masks [ /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] -v --winsorize-image-intensities [ 0.025, 0.975 ] --write-composite-transform 0 200821-13:40:21,346 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg". 200821-13:40:21,365 nipype.workflow INFO: [Node] Running "fmap2ref_reg" ("niworkflows.interfaces.registration.ANTSRegistrationRPT"), a CommandLine Interface with command: antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz, transform_InverseWarped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.01 ] --metric Mattes[ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 200821-13:40:44,998 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 200821-13:40:45,175 nipype.workflow INFO: [Job 51] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg). 200821-13:40:45,182 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 2 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:47,177 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 164.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:47,301 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply". 200821-13:40:47,314 nipype.workflow INFO: [Node] Running "fmap_mask2ref_apply" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask.nii.gz --interpolation MultiLabel --output sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 200821-13:40:47,353 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_apply". 200821-13:40:47,394 nipype.workflow INFO: [Node] Running "fmap2ref_apply" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/phdiff_wf/compfmap/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap.nii.gz --interpolation BSpline --output sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 200821-13:40:48,284 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 200821-13:40:49,177 nipype.workflow INFO: [Job 53] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply). 200821-13:40:49,181 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:49,416 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.torads" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/torads". 200821-13:40:50,200 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 200821-13:40:51,179 nipype.workflow INFO: [Job 52] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply). 200821-13:40:51,183 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.torads * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:51,216 nipype.workflow INFO: [Node] Running "torads" ("sdcflows.interfaces.fmap.FieldToRadS") 200821-13:40:51,369 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.torads". 200821-13:40:53,182 nipype.workflow INFO: [Job 54] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.torads). 200821-13:40:53,188 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:53,525 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/gen_vsm". 200821-13:40:55,189 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:55,370 nipype.workflow INFO: [Node] Running "gen_vsm" ("nipype.interfaces.fsl.preprocess.FUGUE"), a CommandLine Interface with command: fugue --dwell=0.0005100000 --loadfmap=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/torads/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad.nii.gz --mask=/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply/sub-aam063_run-04_magnitude1_avg_corrected_brain_mask_trans.nii.gz --unmaskshift --saveshift=sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked.nii.gz --unwarpdir=y- 200821-13:40:55,741 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 200821-13:40:57,189 nipype.workflow INFO: [Job 55] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm). 200821-13:40:57,195 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:40:57,426 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm". 200821-13:40:57,492 nipype.workflow INFO: [Node] Running "vsm2dfm" ("sdcflows.interfaces.fmap.FUGUEvsm2ANTSwarp") 200821-13:40:57,630 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 200821-13:40:59,193 nipype.workflow INFO: [Job 56] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm). 200821-13:40:59,199 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 3 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:01,41 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/fmap_rpt". 200821-13:41:01,194 nipype.workflow INFO: [MultiProc] Running 5 tasks, and 0 jobs ready. Free memory (GB): 164.67/168.84, Free processors: 68/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:01,309 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_reference". 200821-13:41:01,324 nipype.workflow INFO: [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 200821-13:41:01,390 nipype.workflow INFO: [Node] Running "fmap_rpt" ("sdcflows.interfaces.reportlets.FieldmapReportlet") 200821-13:41:01,513 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask". 200821-13:41:01,531 nipype.workflow INFO: [Node] Running "unwarp_mask" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz --interpolation NearestNeighbor --output ref_bold_corrected_brain_mask_maths_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz --transform /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-aam063_run-04_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 200821-13:41:02,349 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 200821-13:41:03,194 nipype.workflow INFO: [Job 81] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask). 200821-13:41:03,196 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 1 jobs ready. Free memory (GB): 164.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:03,197 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 200821-13:41:03,502 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 200821-13:41:05,199 nipype.workflow INFO: [Job 83] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference). 200821-13:41:05,205 nipype.workflow INFO: [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 164.87/168.84, Free processors: 69/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:05,373 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask/ref_bold_corrected_brain_mask_maths_trans.nii.gz -kernel sphere 3.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/ref_bold_corrected_brain_mask_maths_trans_dil.nii.gz 200821-13:41:05,694 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 200821-13:41:07,199 nipype.workflow INFO: [Job 82] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate). 200821-13:41:07,202 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:07,313 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.check_hdr" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr". 200821-13:41:07,321 nipype.workflow INFO: [Node] Running "check_hdr" ("niworkflows.interfaces.images.MatchHeader") 200821-13:41:07,356 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.check_hdr". 200821-13:41:07,356 nipype.workflow INFO: [Job 84] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.check_hdr). 200821-13:41:09,209 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:09,663 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 200821-13:41:11,208 nipype.workflow INFO: [Job 95] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt). 200821-13:41:11,214 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 1 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:11,327 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.ds_report_fmap" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/fmap2field_wf/ds_report_fmap". 200821-13:41:11,336 nipype.workflow INFO: [Node] Running "ds_report_fmap" ("niworkflows.interfaces.bids.DerivativesDataSink") 200821-13:41:11,350 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". 200821-13:41:11,350 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.ds_report_fmap". 200821-13:41:11,350 nipype.workflow INFO: [Job 96] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.fmap2field_wf.ds_report_fmap). 200821-13:41:11,553 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/ref_bold_corrected_brain_mask_maths_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r 200821-13:41:13,216 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:14,839 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 200821-13:41:15,215 nipype.workflow INFO: [Job 85] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct). 200821-13:41:15,222 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:15,547 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 200821-13:41:17,221 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:17,357 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m 200821-13:41:18,864 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 200821-13:41:19,220 nipype.workflow INFO: [Job 86] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass). 200821-13:41:19,226 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:19,546 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 200821-13:41:19,554 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz 200821-13:41:20,62 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 200821-13:41:21,225 nipype.workflow INFO: [Job 87] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate). 200821-13:41:21,231 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:21,528 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 200821-13:41:21,537 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 200821-13:41:21,685 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 200821-13:41:23,230 nipype.workflow INFO: [Job 88] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask). 200821-13:41:23,236 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:23,449 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". 200821-13:41:23,598 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 200821-13:41:25,230 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:25,381 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 200821-13:41:27,232 nipype.workflow INFO: [Job 89] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize). 200821-13:41:27,239 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:29,239 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.17/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:29,409 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 200821-13:41:29,427 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:41:29,585 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 200821-13:41:31,241 nipype.workflow INFO: [Job 90] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize). 200821-13:41:31,248 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:31,452 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 200821-13:41:33,248 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:33,405 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 200821-13:41:33,825 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 200821-13:41:35,249 nipype.workflow INFO: [Job 91] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass). 200821-13:41:35,256 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:37,255 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.17/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2 * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:37,407 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 200821-13:41:37,416 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:41:37,529 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 200821-13:41:39,254 nipype.workflow INFO: [Job 92] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2). 200821-13:41:39,260 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:39,572 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". 200821-13:41:41,260 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:41,405 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz 200821-13:41:41,614 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 200821-13:41:43,260 nipype.workflow INFO: [Job 93] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks). 200821-13:41:43,266 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:43,586 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". 200821-13:41:45,266 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.07/168.84, Free processors: 70/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:45,468 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 200821-13:41:45,661 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 200821-13:41:47,267 nipype.workflow INFO: [Job 94] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask). 200821-13:41:47,270 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.27/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt 200821-13:41:59,280 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt". 200821-13:42:01,302 nipype.workflow INFO: [Job 29] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.mcflirt). 200821-13:42:01,307 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 3 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:42:01,420 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_rmsd_header" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/add_rmsd_header". 200821-13:42:01,589 nipype.workflow INFO: [Node] Running "add_rmsd_header" ("niworkflows.interfaces.utils.AddTSVHeader") 200821-13:42:01,598 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_rmsd_header". 200821-13:42:01,598 nipype.workflow INFO: [Job 30] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_rmsd_header). 200821-13:42:03,309 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 165.78/168.84, Free processors: 63/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.normalize_motion * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:42:03,615 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.normalize_motion" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_hmc_wf/normalize_motion". 200821-13:42:03,622 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_hmc_wf/fsl2itk". 200821-13:42:03,821 nipype.workflow INFO: [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") 200821-13:42:03,852 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.normalize_motion". 200821-13:42:04,256 nipype.workflow INFO: [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") 200821-13:42:05,306 nipype.workflow INFO: [Job 31] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.normalize_motion). 200821-13:42:05,312 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 2 jobs ready. Free memory (GB): 165.79/168.84, Free processors: 64/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:42:05,428 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_motion_headers" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/add_motion_headers". 200821-13:42:05,439 nipype.workflow INFO: [Node] Running "add_motion_headers" ("niworkflows.interfaces.utils.AddTSVHeader") 200821-13:42:05,471 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_motion_headers". 200821-13:42:05,471 nipype.workflow INFO: [Job 32] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_motion_headers). 200821-13:42:05,729 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.fdisp" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/fdisp". 200821-13:42:07,326 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 163.34/168.84, Free processors: 63/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.fdisp * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:42:07,834 nipype.workflow INFO: [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") 200821-13:42:07,852 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.fdisp". 200821-13:42:09,310 nipype.workflow INFO: [Job 33] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.fdisp). 200821-13:42:09,316 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.79/168.84, Free processors: 64/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:44:29,837 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk". 200821-13:44:31,473 nipype.workflow INFO: [Job 34] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_hmc_wf.fsl2itk). 200821-13:44:31,478 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:44:31,579 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge_xforms" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/merge_xforms". 200821-13:44:31,589 nipype.workflow INFO: [Node] Running "merge_xforms" ("nipype.interfaces.utility.base.Merge") 200821-13:44:31,594 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge_xforms". 200821-13:44:31,594 nipype.workflow INFO: [Job 57] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge_xforms). 200821-13:44:33,485 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:44:35,487 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 147.73/168.84, Free processors: 64/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_transform * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:44:35,642 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_transform" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_transform". 200821-13:44:36,250 nipype.workflow INFO: [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") 200821-13:49:01,778 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_transform". 200821-13:49:01,870 nipype.workflow INFO: [Job 58] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_transform). 200821-13:49:01,873 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:49:03,875 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 163.57/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:49:04,589 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/merge". 200821-13:49:05,94 nipype.workflow INFO: [Node] Running "merge" ("niworkflows.interfaces.nilearn.Merge") 200821-13:50:20,167 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge". 200821-13:50:21,974 nipype.workflow INFO: [Job 59] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.merge). 200821-13:50:21,981 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:23,980 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.83/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.validate * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:24,232 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/validate". 200821-13:50:24,578 nipype.workflow INFO: [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") 200821-13:50:24,647 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.validate". 200821-13:50:25,980 nipype.workflow INFO: [Job 60] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.validate). 200821-13:50:25,986 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:27,986 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 164.84/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:28,108 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". 200821-13:50:28,131 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") 200821-13:50:29,831 nipype.interface INFO: stderr 2020-08-21T13:50:29.831537:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] 200821-13:50:29,832 nipype.interface INFO: stderr 2020-08-21T13:50:29.831537:++ Authored by: RW Cox 200821-13:50:29,836 nipype.interface INFO: stderr 2020-08-21T13:50:29.836723:** AFNI converts NIFTI_datatype=4 (INT16) in file /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 200821-13:50:29,836 nipype.interface INFO: stderr 2020-08-21T13:50:29.836723: Warnings of this type will be muted for this session. 200821-13:50:29,837 nipype.interface INFO: stderr 2020-08-21T13:50:29.836723: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. 200821-13:50:29,843 nipype.interface INFO: stderr 2020-08-21T13:50:29.843425:++ Coarse del was 10, replaced with 4 200821-13:50:51,372 nipype.interface INFO: stderr 2020-08-21T13:50:51.372648:++ Max displacement in automask = 0.07 (mm) at sub-brick 5 200821-13:50:51,372 nipype.interface INFO: stderr 2020-08-21T13:50:51.372648:++ Max delta displ in automask = 0.07 (mm) at sub-brick 12 200821-13:50:52,670 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". 200821-13:50:54,33 nipype.workflow INFO: [Job 61] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref). 200821-13:50:54,39 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:54,140 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.calc_dummy_scans" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/calc_dummy_scans". 200821-13:50:54,149 nipype.workflow INFO: [Node] Running "calc_dummy_scans" ("nipype.interfaces.utility.wrappers.Function") 200821-13:50:54,177 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.calc_dummy_scans". 200821-13:50:54,177 nipype.workflow INFO: [Job 80] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.calc_dummy_scans). 200821-13:50:56,39 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.64/168.84, Free processors: 64/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:50:56,157 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". 200821-13:50:56,200 nipype.workflow INFO: [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: antsAI -c [10,0.000001,10] -d 3 -x /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 200821-13:51:01,970 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". 200821-13:51:02,42 nipype.workflow INFO: [Job 62] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff). 200821-13:51:02,49 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:02,158 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". 200821-13:51:02,188 nipype.workflow INFO: [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 200821-13:51:03,954 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". 200821-13:51:04,44 nipype.workflow INFO: [Job 63] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm). 200821-13:51:04,51 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:04,152 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 200821-13:51:04,164 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 200821-13:51:06,54 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.64/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:06,644 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 200821-13:51:08,53 nipype.workflow INFO: [Job 64] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask). 200821-13:51:08,59 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:08,162 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 200821-13:51:08,189 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz 200821-13:51:08,595 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 200821-13:51:10,56 nipype.workflow INFO: [Job 65] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate). 200821-13:51:10,62 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:10,163 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr". 200821-13:51:10,175 nipype.workflow INFO: [Node] Running "check_hdr" ("niworkflows.interfaces.images.MatchHeader") 200821-13:51:10,225 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr". 200821-13:51:10,225 nipype.workflow INFO: [Job 66] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.check_hdr). 200821-13:51:12,59 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:12,163 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". 200821-13:51:12,347 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 200821-13:51:14,66 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 165.64/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:15,331 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". 200821-13:51:16,65 nipype.workflow INFO: [Job 67] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct). 200821-13:51:16,71 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:16,175 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 200821-13:51:16,200 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m 200821-13:51:17,803 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 200821-13:51:18,68 nipype.workflow INFO: [Job 68] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass). 200821-13:51:18,74 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:18,178 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 200821-13:51:18,191 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 200821-13:51:18,791 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 200821-13:51:20,69 nipype.workflow INFO: [Job 69] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate). 200821-13:51:20,74 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:20,179 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 200821-13:51:20,189 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 200821-13:51:20,410 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 200821-13:51:22,73 nipype.workflow INFO: [Job 70] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask). 200821-13:51:22,79 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:22,182 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". 200821-13:51:22,192 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 200821-13:51:23,979 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". 200821-13:51:24,75 nipype.workflow INFO: [Job 71] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize). 200821-13:51:24,81 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:24,183 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 200821-13:51:24,192 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:51:24,243 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 200821-13:51:26,77 nipype.workflow INFO: [Job 72] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize). 200821-13:51:26,83 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:26,188 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 200821-13:51:26,205 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 /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 200821-13:51:26,710 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 200821-13:51:28,80 nipype.workflow INFO: [Job 73] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass). 200821-13:51:28,86 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:28,188 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 200821-13:51:28,201 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 200821-13:51:28,310 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 200821-13:51:30,83 nipype.workflow INFO: [Job 74] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2). 200821-13:51:30,89 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:30,193 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". 200821-13:51:30,204 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 200821-13:51:30,402 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". 200821-13:51:32,85 nipype.workflow INFO: [Job 75] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks). 200821-13:51:32,91 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:32,194 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.dvars" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/dvars". 200821-13:51:32,194 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". 200821-13:51:32,211 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 200821-13:51:32,426 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". 200821-13:51:32,442 nipype.workflow INFO: [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") 200821-13:51:34,88 nipype.workflow INFO: [Job 79] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask). 200821-13:51:34,95 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 163.39/168.84, Free processors: 71/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.dvars * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:50,345 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.dvars". 200821-13:51:52,113 nipype.workflow INFO: [Job 76] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.dvars). 200821-13:51:52,120 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:51:52,220 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_std_dvars_header" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/add_std_dvars_header". 200821-13:51:52,231 nipype.workflow INFO: [Node] Running "add_std_dvars_header" ("niworkflows.interfaces.utils.AddTSVHeader") 200821-13:51:52,249 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_std_dvars_header". 200821-13:51:52,249 nipype.workflow INFO: [Job 77] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_std_dvars_header). 200821-13:51:52,332 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_dvars_header" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/func_preproc_task_rest_wf/bold_confounds_wf/add_dvars_header". 200821-13:51:52,341 nipype.workflow INFO: [Node] Running "add_dvars_header" ("niworkflows.interfaces.utils.AddTSVHeader") 200821-13:51:52,350 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_dvars_header". 200821-13:51:52,350 nipype.workflow INFO: [Job 78] Completed (fmriprep_wf.single_subject_aam063_wf.func_preproc_task_rest_wf.bold_confounds_wf.add_dvars_header). 200821-13:51:54,119 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm 200821-13:57:31,374 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm". 200821-13:57:32,715 nipype.workflow INFO: [Job 119] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.norm). 200821-13:57:32,722 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:57:32,827 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/map_brainmask". 200821-13:57:32,885 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_label-brain_probseg.nii.gz --interpolation Gaussian --output tpl-OASIS30ANTs_res-01_label-brain_probseg_trans.nii.gz --reference-image /data/sub-aam063/anat/sub-aam063_T1w.nii --transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template0GenericAffine.mat, 1 ] --transform [ /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template1InverseWarp.nii.gz, 0 ] 200821-13:57:34,722 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 167.84/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask 200821-13:58:03,501 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask". 200821-13:58:04,790 nipype.workflow INFO: [Job 120] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask). 200821-13:58:04,796 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:58:04,911 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask". 200821-13:58:04,947 nipype.workflow INFO: [Node] Running "thr_brainmask" ("niworkflows.interfaces.ants.ThresholdImage"), a CommandLine Interface with command: ThresholdImage 3 /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/map_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans.nii.gz tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled.nii.gz 0.500000 1.000000 1.000000 0.000000 200821-13:58:05,871 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask". 200821-13:58:06,794 nipype.workflow INFO: [Job 121] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask). 200821-13:58:06,800 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:58:06,916 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/03_pad_mask". 200821-13:58:06,925 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.dil_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/dil_brainmask". 200821-13:58:06,934 nipype.workflow INFO: [Node] Running "dil_brainmask" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz MD /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled.nii.gz 2 200821-13:58:06,953 nipype.workflow INFO: [Node] Running "03_pad_mask" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled.nii.gz 10 200821-13:58:08,506 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask". 200821-13:58:08,796 nipype.workflow INFO: [Job 122] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask). 200821-13:58:08,802 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.dil_brainmask 200821-13:58:08,823 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.dil_brainmask". 200821-13:58:10,801 nipype.workflow INFO: [Job 123] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.dil_brainmask). 200821-13:58:10,807 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:58:10,918 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.get_brainmask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/get_brainmask". 200821-13:58:10,929 nipype.workflow INFO: [Node] Running "get_brainmask" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths_maths.nii.gz GetLargestComponent /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/dil_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz 200821-13:58:12,726 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.get_brainmask". 200821-13:58:12,804 nipype.workflow INFO: [Job 124] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.get_brainmask). 200821-13:58:12,810 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:58:12,914 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/01_atropos". 200821-13:58:12,928 nipype.workflow INFO: [Node] Running "01_atropos" ("nipype.interfaces.ants.segmentation.Atropos"), a CommandLine Interface with command: Atropos --image-dimensionality 3 --initialization KMeans[3] --intensity-image /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-aam063_T1w_maths_corrected.nii --likelihood-model Gaussian --mask-image /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/get_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths_maths.nii.gz --mrf [0.1,1x1x1] --convergence [3,0] --output [sub-aam063_T1w_maths_corrected_labeled.nii] --use-random-seed 1 200821-13:58:14,811 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 165.84/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos 200821-13:59:04,469 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos". 200821-13:59:04,928 nipype.workflow INFO: [Job 125] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos). 200821-13:59:04,931 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:06,935 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm 200821-13:59:07,161 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/02_pad_segm". 200821-13:59:07,215 nipype.workflow INFO: [Node] Running "02_pad_segm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths.nii PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/01_atropos/sub-aam063_T1w_maths_corrected_labeled.nii 10 200821-13:59:08,401 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm". 200821-13:59:08,934 nipype.workflow INFO: [Job 126] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm). 200821-13:59:08,941 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:09,54 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels". 200821-13:59:10,806 nipype.workflow INFO: [Node] Running "04_sel_labels" ("nipype.interfaces.utility.wrappers.Function") 200821-13:59:10,941 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels 200821-13:59:11,149 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels". 200821-13:59:12,941 nipype.workflow INFO: [Job 127] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels). 200821-13:59:12,947 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:13,71 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/27_depad_csf". 200821-13:59:13,72 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/10_me_csf". 200821-13:59:13,82 nipype.workflow INFO: [Node] Running "27_depad_csf" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths_class-01_maths.nii PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-aam063_T1w_maths_corrected_labeled_maths_class-01.nii -10 200821-13:59:13,82 nipype.workflow INFO: [Node] Running "10_me_csf" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths_class-01_maths.nii ME /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-aam063_T1w_maths_corrected_labeled_maths_class-01.nii 10 200821-13:59:14,95 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf". 200821-13:59:14,925 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm". 200821-13:59:14,933 nipype.workflow INFO: [Node] Running "06_get_gm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths_class-02_maths.nii GetLargestComponent /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-aam063_T1w_maths_corrected_labeled_maths_class-02.nii 200821-13:59:14,940 nipype.workflow INFO: [Job 128] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf). 200821-13:59:14,942 nipype.workflow INFO: [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 168.24/168.84, Free processors: 77/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf 200821-13:59:15,30 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/05_get_wm". 200821-13:59:15,46 nipype.workflow INFO: [Node] Running "05_get_wm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths_class-03_maths.nii GetLargestComponent /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-aam063_T1w_maths_corrected_labeled_maths_class-03.nii 200821-13:59:16,546 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm". 200821-13:59:16,584 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm". 200821-13:59:16,945 nipype.workflow INFO: [Job 130] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm). 200821-13:59:16,948 nipype.workflow INFO: [Job 136] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm). 200821-13:59:16,954 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf 200821-13:59:17,95 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm". 200821-13:59:17,796 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf". 200821-13:59:18,895 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/07_fill_gm". 200821-13:59:18,905 nipype.workflow INFO: [Node] Running "07_fill_gm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_maths_corrected_labeled_maths_class-02_maths_maths.nii FillHoles /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm/sub-aam063_T1w_maths_corrected_labeled_maths_class-02_maths.nii 2 200821-13:59:18,909 nipype.workflow INFO: [Node] Running "09_relabel_wm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/05_get_wm/sub-aam063_T1w_maths_corrected_labeled_maths_class-03_maths.nii 3.0 09_relabel_wm.nii.gz 200821-13:59:18,951 nipype.workflow INFO: [Job 129] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf). 200821-13:59:18,957 nipype.workflow INFO: [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 168.44/168.84, Free processors: 78/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm 200821-13:59:20,144 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm". 200821-13:59:20,953 nipype.workflow INFO: [Job 137] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm). 200821-13:59:20,959 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm 200821-13:59:21,65 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/26_depad_wm". 200821-13:59:21,83 nipype.workflow INFO: [Node] Running "26_depad_wm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths.nii.gz PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz -10 200821-13:59:22,361 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm". 200821-13:59:22,956 nipype.workflow INFO: [Job 138] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm). 200821-13:59:22,963 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm 200821-13:59:25,851 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm". 200821-13:59:26,966 nipype.workflow INFO: [Job 131] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm). 200821-13:59:26,973 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:27,106 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/08_mult_gm". 200821-13:59:27,132 nipype.workflow INFO: [Node] Running "08_mult_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm/sub-aam063_T1w_maths_corrected_labeled_maths_class-02_maths.nii /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/07_fill_gm/sub-aam063_T1w_maths_corrected_labeled_maths_class-02_maths_maths.nii 08_mult_gm.nii.gz 200821-13:59:28,617 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm". 200821-13:59:28,969 nipype.workflow INFO: [Job 132] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm). 200821-13:59:28,975 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:29,107 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/11_add_gm". 200821-13:59:29,117 nipype.workflow INFO: [Node] Running "11_add_gm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 08_mult_gm_maths.nii.gz addtozero /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/08_mult_gm/08_mult_gm.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/10_me_csf/sub-aam063_T1w_maths_corrected_labeled_maths_class-01_maths.nii 200821-13:59:30,978 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm 200821-13:59:33,87 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm". 200821-13:59:34,983 nipype.workflow INFO: [Job 133] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm). 200821-13:59:34,989 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:35,87 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm". 200821-13:59:35,113 nipype.workflow INFO: [Node] Running "12_relabel_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/11_add_gm/08_mult_gm_maths.nii.gz 2.0 12_relabel_gm.nii.gz 200821-13:59:36,340 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm". 200821-13:59:36,987 nipype.workflow INFO: [Job 134] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm). 200821-13:59:36,993 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:37,106 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/13_add_gm_wm". 200821-13:59:37,108 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/25_depad_gm". 200821-13:59:37,115 nipype.workflow INFO: [Node] Running "13_add_gm_wm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths.nii.gz addtozero /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz 200821-13:59:37,117 nipype.workflow INFO: [Node] Running "25_depad_gm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 12_relabel_gm_maths.nii.gz PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz -10 200821-13:59:38,405 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm". 200821-13:59:38,989 nipype.workflow INFO: [Job 135] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm). 200821-13:59:38,995 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm 200821-13:59:39,97 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/merge_tpms". 200821-13:59:39,124 nipype.workflow INFO: [Node] Running "merge_tpms" ("nipype.interfaces.utility.base.Merge") 200821-13:59:39,132 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms". 200821-13:59:40,994 nipype.workflow INFO: [Job 139] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms). 200821-13:59:41,0 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm 200821-13:59:41,501 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm". 200821-13:59:42,998 nipype.workflow INFO: [Job 140] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm). 200821-13:59:43,4 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:43,116 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2". 200821-13:59:43,129 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/24_depad_segm". 200821-13:59:43,140 nipype.workflow INFO: [Node] Running "14_sel_labels2" ("nipype.interfaces.utility.wrappers.Function") 200821-13:59:43,140 nipype.workflow INFO: [Node] Running "24_depad_segm" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_maths.nii.gz PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/13_add_gm_wm/09_relabel_wm_maths.nii.gz -10 200821-13:59:43,467 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2". 200821-13:59:44,686 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm". 200821-13:59:45,1 nipype.workflow INFO: [Job 141] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm). 200821-13:59:45,3 nipype.workflow INFO: [Job 142] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2). 200821-13:59:45,9 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:47,6 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7 200821-13:59:47,34 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/15_add_7". 200821-13:59:47,60 nipype.workflow INFO: [Node] Running "15_add_7" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths.nii.gz addtozero /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-03.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-02.nii.gz 200821-13:59:51,243 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7". 200821-13:59:53,18 nipype.workflow INFO: [Job 143] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7). 200821-13:59:53,24 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-13:59:55,25 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7 200821-13:59:55,90 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/16_me_7". 200821-13:59:55,99 nipype.workflow INFO: [Node] Running "16_me_7" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths.nii.gz ME /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/15_add_7/09_relabel_wm_maths_class-03_maths.nii.gz 2 200821-13:59:58,691 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7". 200821-13:59:59,27 nipype.workflow INFO: [Job 144] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7). 200821-13:59:59,33 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:01,1 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/17_comp_7". 200821-14:00:01,11 nipype.workflow INFO: [Node] Running "17_comp_7" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz GetLargestComponent /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/16_me_7/09_relabel_wm_maths_class-03_maths_maths.nii.gz 200821-14:00:01,38 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7 200821-14:00:03,148 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7". 200821-14:00:05,38 nipype.workflow INFO: [Job 145] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7). 200821-14:00:05,44 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:05,154 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/18_md_7". 200821-14:00:05,165 nipype.workflow INFO: [Node] Running "18_md_7" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths.nii.gz MD /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/17_comp_7/09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz 4 200821-14:00:07,43 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7 200821-14:00:07,332 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7". 200821-14:00:09,43 nipype.workflow INFO: [Job 146] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7). 200821-14:00:09,49 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:09,161 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/19_fill_7". 200821-14:00:09,173 nipype.workflow INFO: [Node] Running "19_fill_7" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths.nii.gz FillHoles /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/18_md_7/09_relabel_wm_maths_class-03_maths_maths_maths_maths.nii.gz 2 200821-14:00:11,51 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7 200821-14:00:16,283 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7". 200821-14:00:17,55 nipype.workflow INFO: [Job 147] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7). 200821-14:00:17,61 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:19,55 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2 200821-14:00:19,142 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/20_add_7_2". 200821-14:00:19,166 nipype.workflow INFO: [Node] Running "20_add_7_2" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths.nii.gz addtozero /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/19_fill_7/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/03_pad_mask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz 200821-14:00:22,998 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2". 200821-14:00:23,63 nipype.workflow INFO: [Job 148] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2). 200821-14:00:23,69 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:23,182 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/21_md_7_2". 200821-14:00:23,193 nipype.workflow INFO: [Node] Running "21_md_7_2" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths.nii.gz MD /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/20_add_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths.nii.gz 5 200821-14:00:25,69 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2 200821-14:00:25,366 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2". 200821-14:00:27,72 nipype.workflow INFO: [Job 149] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2). 200821-14:00:27,78 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:27,185 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/22_me_7_2". 200821-14:00:27,211 nipype.workflow INFO: [Node] Running "22_me_7_2" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz ME /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/21_md_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths.nii.gz 5 200821-14:00:29,79 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 79/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2 200821-14:00:30,480 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2". 200821-14:00:31,78 nipype.workflow INFO: [Job 150] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2). 200821-14:00:31,84 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:31,200 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/23_depad_mask". 200821-14:00:31,213 nipype.workflow INFO: [Node] Running "23_depad_mask" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz PadImage /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/22_me_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz -10 200821-14:00:32,781 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask". 200821-14:00:33,81 nipype.workflow INFO: [Job 151] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask). 200821-14:00:33,87 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:33,190 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/msk_conform". 200821-14:00:33,200 nipype.workflow INFO: [Node] Running "msk_conform" ("nipype.interfaces.utility.wrappers.Function") 200821-14:00:33,345 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform". 200821-14:00:35,86 nipype.workflow INFO: [Job 152] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform). 200821-14:00:35,92 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:35,196 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.copy_xform" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform". 200821-14:00:35,234 nipype.workflow INFO: [Node] Running "copy_xform" ("niworkflows.interfaces.utils.CopyXForm") 200821-14:00:36,405 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.copy_xform". 200821-14:00:36,405 nipype.workflow INFO: [Job 153] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.copy_xform). 200821-14:00:37,92 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:37,182 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.sel_wm" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/sel_wm". 200821-14:00:37,190 nipype.workflow INFO: [Node] Running "sel_wm" ("nipype.interfaces.utility.base.Select") 200821-14:00:37,194 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.sel_wm". 200821-14:00:37,194 nipype.workflow INFO: [Job 154] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.sel_wm). 200821-14:00:39,95 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:00:39,191 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final". 200821-14:00:39,199 nipype.workflow INFO: [Node] Setting-up "_inu_n4_final0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final/mapflow/_inu_n4_final0". 200821-14:00:39,220 nipype.workflow INFO: [Node] Running "_inu_n4_final0" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /data/sub-aam063/anat/sub-aam063_T1w.nii --convergence [ 50x50x50x50x50, 1e-07 ] --output [ sub-aam063_T1w_corrected.nii, sub-aam063_T1w_bias.nii ] -r --shrink-factor 4 --weight-image /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/09_relabel_wm_maths_xform.nii.gz 200821-14:00:41,95 nipype.workflow INFO: [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.64/168.84, Free processors: 72/80. Currently running: * fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final 200821-14:01:09,993 nipype.workflow INFO: [Node] Finished "_inu_n4_final0". 200821-14:01:09,998 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final". 200821-14:01:11,179 nipype.workflow INFO: [Job 155] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final). 200821-14:01:11,185 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:01:11,311 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.apply_mask" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/apply_mask". 200821-14:01:11,330 nipype.workflow INFO: [Node] Setting-up "_apply_mask0" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/apply_mask/mapflow/_apply_mask0". 200821-14:01:11,360 nipype.workflow INFO: [Node] Running "_apply_mask0" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final/mapflow/_inu_n4_final0/sub-aam063_T1w_corrected.nii -mas /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/09_relabel_wm_mask_xform.nii.gz /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/apply_mask/mapflow/_apply_mask0/sub-aam063_T1w_corrected_masked.nii.gz 200821-14:01:12,563 nipype.workflow INFO: [Node] Finished "_apply_mask0". 200821-14:01:12,567 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.apply_mask". 200821-14:01:13,182 nipype.workflow INFO: [Job 156] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.apply_mask). 200821-14:01:13,188 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:01:13,293 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.copy_xform" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/copy_xform". 200821-14:01:13,504 nipype.workflow INFO: [Node] Running "copy_xform" ("niworkflows.interfaces.utils.CopyXForm") 200821-14:01:14,603 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.copy_xform". 200821-14:01:14,603 nipype.workflow INFO: [Job 157] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.brain_extraction_wf.copy_xform). 200821-14:01:15,186 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:01:15,276 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.ds_t1w_preproc" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_derivatives_wf/ds_t1w_preproc". 200821-14:01:15,279 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.trunc_mov" in "/working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/trunc_mov". 200821-14:01:15,289 nipype.workflow INFO: [Node] Running "trunc_mov" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-aam063_T1w_corrected_xform_maths.nii TruncateImageIntensity /working_dir/fmriprep_wf/single_subject_aam063_wf/anat_preproc_wf/brain_extraction_wf/copy_xform/sub-aam063_T1w_corrected_xform.nii 0.01 0.999 256 200821-14:01:15,289 nipype.workflow INFO: [Node] Running "ds_t1w_preproc" ("smriprep.interfaces.DerivativesDataSink") 200821-14:01:16,849 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.trunc_mov". 200821-14:01:22,215 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.ds_t1w_preproc". 200821-14:01:22,215 nipype.workflow INFO: [Job 159] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_derivatives_wf.ds_t1w_preproc). 200821-14:01:22,309 nipype.workflow INFO: [Job 158] Completed (fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.anat_norm_wf.trunc_mov). 200821-14:01:22,311 nipype.workflow INFO: [MultiProc] Running 0 tasks, and 0 jobs ready. Free memory (GB): 168.84/168.84, Free processors: 80/80. 200821-14:01:24,310 nipype.workflow INFO: *********************************** 200821-14:01:24,311 nipype.workflow ERROR: could not run node: fmriprep_wf.single_subject_aam063_wf.anat_preproc_wf.surface_recon_wf.autorecon1 200821-14:01:24,311 nipype.workflow INFO: crashfile: /output/fmriprep/sub-aam063/log/20200821-133736_2d82cfc3-da0f-4706-ab61-3d9c0c12b2f5/crash-20200821-133903-kraft-autorecon1-d34ea1ff-f64e-4813-b6b2-d0862a39dc12.txt 200821-14:01:24,311 nipype.workflow INFO: *********************************** 200821-14:01:24,311 nipype.workflow CRITICAL: fMRIPrep failed: Workflow did not execute cleanly. Check log for details 200821-14:01:24,831 cli ERROR: Preprocessing did not finish successfully. Errors occurred while processing data from participants: aam063 (1). Check the HTML reports for details. INFO:  Cleaning up image... Removing temp directory...