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. Summary: Available Tasks: Available Modalities: 20 Files, 331.58MB T1w 1 - Subject T2w 1 - Session dwi bold fieldmap fieldmap  If you have any questions, please post on https://neurostars.org/tags/bids. 211021-14:14:18,686 nipype.workflow IMPORTANT: Running fMRIPREP version 20.2.3: * BIDS dataset path: /EBC/home/mblesa/BIDS/fMRIprep_tentative. * Participant list: ['003']. * Run identifier: 20211021-141405_1e25f0f2-78ac-4cd7-a42a-64845dc5d3d8. * Output spaces: MNI152NLin2009cAsym:res-2. * Pre-run FreeSurfer's SUBJECTS_DIR: /EBC/home/mblesa/BIDS/fMRIprep_tentative/OUTPUT_syn/freesurfer. 211021-14:14:28,938 nipype.workflow INFO: No single-band-reference found for sub-003_task-pixar1_bold.nii.gz. 211021-14:14:34,444 nipype.workflow IMPORTANT: Slice-timing correction will be included. 211021-14:14:34,520 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more function 211021-14:14:34,522 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more function 211021-14:14:34,524 nipype.interface INFO: We advise you to upgrade DIPY version. This upgrade will open access to more models 211021-14:14:35,695 nipype.workflow INFO: No single-band-reference found for sub-003_task-pixar2_bold.nii.gz. 211021-14:14:36,521 nipype.workflow IMPORTANT: Slice-timing correction will be included. 211021-14:14:36,733 nipype.workflow INFO: No single-band-reference found for sub-003_task-sesame_bold.nii.gz. 211021-14:14:37,439 nipype.workflow IMPORTANT: Slice-timing correction will be included. 211021-14:14:40,804 nipype.workflow INFO: fMRIPrep workflow graph with 899 nodes built successfully. 211021-14:14:53,197 nipype.workflow IMPORTANT: fMRIPrep started! 211021-14:14:59,156 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.full_wm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/full_wm". 211021-14:14:59,157 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.full_wm". 211021-14:14:59,178 nipype.workflow INFO: [Node] Running "full_wm" ("nipype.interfaces.utility.wrappers.Function") 211021-14:14:59,194 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl". 211021-14:14:59,195 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl". 211021-14:14:59,223 nipype.workflow INFO: [Node] Running "lap_tmpl" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz Laplacian /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz 1.5 1 211021-14:15:00,136 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.full_wm". 211021-14:15:00,224 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl". 211021-14:15:00,225 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl". 211021-14:15:00,244 nipype.workflow INFO: [Node] Running "res_tmpl" ("niworkflows.interfaces.images.RegridToZooms") 211021-14:15:02,52 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl". 211021-14:15:07,900 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_std_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.res2/gen_ref". 211021-14:15:07,901 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_std_trans_wf.gen_ref". 211021-14:15:07,918 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-14:15:07,928 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_std_trans_wf.gen_ref". 211021-14:15:09,942 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_std_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.res2/gen_ref". 211021-14:15:09,943 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_std_trans_wf.gen_ref". 211021-14:15:09,961 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-14:15:09,972 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_std_trans_wf.gen_ref". 211021-14:15:10,24 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_std_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_std_trans_wf/_std_target_MNI152NLin2009cAsym.res2/gen_ref". 211021-14:15:10,25 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_std_trans_wf.gen_ref". 211021-14:15:10,44 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-14:15:10,58 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_std_trans_wf.gen_ref". 211021-14:15:10,747 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl". 211021-14:15:14,801 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/mrg_tmpl". 211021-14:15:14,802 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl". 211021-14:15:14,820 nipype.workflow INFO: [Node] Running "mrg_tmpl" ("nipype.interfaces.utility.base.Merge") 211021-14:15:14,831 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl". 211021-14:15:36,883 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:15:36,884 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:15:36,909 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:16:09,962 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:16:11,928 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:16:11,928 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:16:11,952 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_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 211021-14:16:12,714 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:16:15,908 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:16:15,909 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:16:15,936 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:16:17,333 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:16:19,998 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:16:19,999 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:16:20,18 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:16:20,105 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:16:21,61 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:16:21,62 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:16:21,84 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:16:21,441 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:16:26,124 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:16:26,124 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:16:26,300 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:16:27,865 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:16:28,886 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.get_ees" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/get_ees". 211021-14:16:28,887 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:16:28,913 nipype.workflow INFO: [Node] Running "get_ees" ("nipype.interfaces.utility.wrappers.Function") 211021-14:16:29,42 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:16:29,72 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:16:29,73 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:16:29,100 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:16:30,875 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:16:33,30 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:16:33,31 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:16:33,56 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:16:34,552 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:16:35,49 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:16:35,50 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:16:35,76 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:16:35,192 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:16:36,939 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:16:36,940 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:16:36,963 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:16:39,954 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:16:40,886 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:16:40,886 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:16:40,906 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:16:41,116 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:16:42,949 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:16:42,950 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:16:42,975 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:16:43,292 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:16:44,891 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:16:44,891 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:16:44,912 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:16:45,70 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:16:47,27 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:16:47,28 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:16:47,50 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:16:47,187 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:16:49,66 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:16:49,66 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:16:49,88 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:16:49,233 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:16:51,918 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg". 211021-14:16:51,919 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:16:51,944 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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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 211021-14:17:00,42 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:17:00,915 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply". 211021-14:17:00,916 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:17:00,923 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_apply". 211021-14:17:00,923 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:17:00,943 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_magnitude1_avg_corrected_brain_mask.nii.gz --interpolation MultiLabel --output sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:17:00,947 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/phdiff_wf/compfmap/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap.nii.gz --interpolation BSpline --output sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:17:01,644 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:17:02,988 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.torads" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/torads". 211021-14:17:02,988 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:17:03,6 nipype.workflow INFO: [Node] Running "torads" ("sdcflows.interfaces.fmap.FieldToRadS") 211021-14:17:03,287 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:17:05,60 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:17:06,948 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/gen_vsm". 211021-14:17:06,949 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:17:06,975 nipype.workflow INFO: [Node] Running "gen_vsm" ("nipype.interfaces.fsl.preprocess.FUGUE"), a CommandLine Interface with command: fugue --dwell=0.0003499960 --loadfmap=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/torads/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad.nii.gz --mask=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply/sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --unmaskshift --saveshift=sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked.nii.gz --unwarpdir=y- 211021-14:17:07,372 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:17:08,966 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm". 211021-14:17:08,967 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:17:08,989 nipype.workflow INFO: [Node] Running "vsm2dfm" ("sdcflows.interfaces.fmap.FUGUEvsm2ANTSwarp") 211021-14:17:09,136 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:17:11,910 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/fmap_rpt". 211021-14:17:11,911 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:17:11,933 nipype.workflow INFO: [Node] Running "fmap_rpt" ("sdcflows.interfaces.reportlets.FieldmapReportlet") 211021-14:17:12,155 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask". 211021-14:17:12,156 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:17:12,170 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_reference". 211021-14:17:12,171 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:17:12,181 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:17:12,196 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:17:12,714 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:17:12,953 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:17:12,954 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:17:12,977 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask/ref_bold_corrected_brain_mask_maths_trans.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 211021-14:17:13,343 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:17:14,648 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:17:16,930 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:17:16,931 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:17:17,129 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 211021-14:17:19,579 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:17:20,951 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:17:20,952 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:17:20,979 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected_trans_corrected.nii.gz ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m 211021-14:17:22,758 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:17:22,927 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:17:22,927 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:17:22,949 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 211021-14:17:24,132 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:17:24,424 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:17:24,928 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:17:24,929 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:17:24,953 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:17:25,140 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:17:27,12 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:17:27,13 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:17:27,35 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:17:30,19 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:17:31,902 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:17:31,903 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:17:31,921 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:17:32,160 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:17:32,991 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:17:32,992 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:17:33,16 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:17:33,362 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:17:34,910 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:17:34,911 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:17:34,930 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:17:34,985 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:17:36,913 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:17:36,914 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:17:36,938 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz 211021-14:17:37,102 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:17:38,975 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:17:38,976 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:17:39,0 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:17:39,257 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:17:41,946 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.bold_transform" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_bold_trans_wf/bold_transform". 211021-14:17:41,947 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.bold_transform". 211021-14:17:42,97 nipype.workflow INFO: [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") 211021-14:18:07,842 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.bold_transform". 211021-14:18:09,179 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.merge" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_bold_trans_wf/merge". 211021-14:18:09,179 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.merge". 211021-14:18:09,219 nipype.workflow INFO: [Node] Running "merge" ("niworkflows.interfaces.nilearn.Merge") 211021-14:18:26,174 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_bold_trans_wf.merge". 211021-14:18:27,14 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.val_bold" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/val_bold". 211021-14:18:27,16 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.val_bold". 211021-14:18:27,30 nipype.workflow INFO: [Node] Setting-up "_val_bold0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/val_bold/mapflow/_val_bold0". 211021-14:18:27,32 nipype.workflow INFO: [Node] Outdated cache found for "_val_bold0". 211021-14:18:27,49 nipype.workflow INFO: [Node] Running "_val_bold0" ("niworkflows.interfaces.images.ValidateImage") 211021-14:18:27,96 nipype.workflow INFO: [Node] Finished "_val_bold0". 211021-14:18:27,102 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.val_bold". 211021-14:18:30,318 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref". 211021-14:18:30,319 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.gen_ref". 211021-14:18:30,338 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") 211021-14:18:32,591 nipype.interface INFO: stderr 2021-10-21T14:18:32.590793:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] 211021-14:18:32,591 nipype.interface INFO: stderr 2021-10-21T14:18:32.590793:++ Authored by: RW Cox 211021-14:18:32,592 nipype.interface INFO: stderr 2021-10-21T14:18:32.592071:** AFNI converts NIFTI_datatype=4 (INT16) in file /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref/slice.nii.gz to FLOAT32 211021-14:18:32,592 nipype.interface INFO: stderr 2021-10-21T14:18:32.592071: Warnings of this type will be muted for this session. 211021-14:18:32,592 nipype.interface INFO: stderr 2021-10-21T14:18:32.592071: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. 211021-14:18:32,593 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783:*+ WARNING: If you are performing spatial transformations on an oblique dset, 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: such as /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref/slice.nii.gz, 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: or viewing/combining it with volumes of differing obliquity, 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: you should consider running: 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: 3dWarp -deoblique 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: on this and other oblique datasets in the same session. 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783: See 3dWarp -help for details. 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783:++ Oblique dataset:/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref/slice.nii.gz is 2.433250 degrees from plumb. 211021-14:18:32,594 nipype.interface INFO: stderr 2021-10-21T14:18:32.593783:++ Coarse del was 10, replaced with 4 211021-14:19:07,264 nipype.interface INFO: stderr 2021-10-21T14:19:07.263767:++ Max displacement in automask = 1.03 (mm) at sub-brick 1 211021-14:19:07,264 nipype.interface INFO: stderr 2021-10-21T14:19:07.263767:++ Max delta displ in automask = 1.79 (mm) at sub-brick 2 211021-14:19:09,427 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.gen_ref". 211021-14:19:11,45 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:19:11,46 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:19:11,69 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:19:43,968 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:19:45,136 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:19:45,137 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:19:45,163 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_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 211021-14:19:46,361 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:19:47,112 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:19:47,113 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:19:47,140 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:19:48,630 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:19:49,295 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:19:49,295 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:19:49,317 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:19:49,403 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:19:51,121 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:19:51,122 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:19:51,145 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:19:51,557 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:19:55,73 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:19:55,74 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:19:55,208 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:19:57,412 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:19:59,83 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:19:59,84 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:19:59,108 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:20:00,848 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:20:01,78 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:20:01,78 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:20:01,100 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:20:02,612 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:20:03,87 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:20:03,88 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:20:03,111 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:20:03,313 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:20:05,134 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:20:05,135 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:20:05,162 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:20:08,158 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:20:09,143 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:20:09,143 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:20:09,164 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:20:09,304 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:20:11,85 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:20:11,86 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:20:11,108 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:20:11,417 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:20:13,88 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:20:13,89 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:20:13,110 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:20:13,177 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:20:15,92 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:20:15,93 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:20:15,118 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:20:15,299 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:20:17,137 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcompcor" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_confounds_wf/tcompcor". 211021-14:20:17,137 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcompcor". 211021-14:20:17,141 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.dvars" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_confounds_wf/dvars". 211021-14:20:17,142 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.dvars". 211021-14:20:17,149 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:20:17,149 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:20:17,163 nipype.workflow INFO: [Node] Running "tcompcor" ("niworkflows.interfaces.patches.RobustTCompCor") 211021-14:20:17,170 nipype.workflow INFO: [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") 211021-14:20:17,175 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:20:17,396 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:20:19,467 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcompcor". 211021-14:20:21,108 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcc_metadata_fmt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_confounds_wf/tcc_metadata_fmt". 211021-14:20:21,109 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:20:21,129 nipype.workflow INFO: [Node] Running "tcc_metadata_fmt" ("niworkflows.interfaces.utils.TSV2JSON") 211021-14:20:21,167 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:20:42,595 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.dvars". 211021-14:20:43,453 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:20:43,454 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:20:43,475 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:21:18,381 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:21:19,151 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:21:19,152 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:21:19,176 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_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 211021-14:21:19,964 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:21:21,196 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:21:21,196 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:21:21,218 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:21:22,599 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:21:23,143 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:21:23,144 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:21:23,165 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:21:23,232 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:21:25,135 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:21:25,136 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:21:25,160 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:21:25,491 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:21:29,166 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:21:29,167 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:21:29,249 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:21:31,272 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:21:33,207 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.get_ees" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/get_ees". 211021-14:21:33,208 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:21:33,211 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:21:33,212 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:21:33,233 nipype.workflow INFO: [Node] Running "get_ees" ("nipype.interfaces.utility.wrappers.Function") 211021-14:21:33,236 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:21:33,249 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:21:34,990 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:21:35,174 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:21:35,175 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:21:35,199 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:21:36,770 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:21:37,151 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:21:37,152 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:21:37,176 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:21:37,368 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:21:39,210 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:21:39,211 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:21:39,237 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:21:42,125 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:21:43,171 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:21:43,172 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:21:43,192 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:21:43,291 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:21:45,213 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:21:45,214 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:21:45,239 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:21:45,545 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:21:47,203 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:21:47,204 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:21:47,224 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:21:47,279 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:21:49,177 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:21:49,177 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:21:49,198 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:21:49,337 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:21:51,201 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:21:51,202 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:21:51,228 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:21:51,451 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:21:53,202 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg". 211021-14:21:53,203 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:21:53,227 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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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 211021-14:22:04,579 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:22:05,193 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply". 211021-14:22:05,194 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:22:05,202 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_apply". 211021-14:22:05,203 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:22:05,219 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_magnitude1_avg_corrected_brain_mask.nii.gz --interpolation MultiLabel --output sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:22:05,229 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/phdiff_wf/compfmap/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap.nii.gz --interpolation BSpline --output sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:22:05,834 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:22:07,207 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.torads" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/torads". 211021-14:22:07,208 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:22:07,229 nipype.workflow INFO: [Node] Running "torads" ("sdcflows.interfaces.fmap.FieldToRadS") 211021-14:22:07,382 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:22:09,102 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:22:11,226 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/gen_vsm". 211021-14:22:11,227 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:22:11,250 nipype.workflow INFO: [Node] Running "gen_vsm" ("nipype.interfaces.fsl.preprocess.FUGUE"), a CommandLine Interface with command: fugue --dwell=0.0003499960 --loadfmap=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/torads/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad.nii.gz --mask=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply/sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --unmaskshift --saveshift=sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked.nii.gz --unwarpdir=y- 211021-14:22:11,655 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:22:13,204 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm". 211021-14:22:13,205 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:22:13,226 nipype.workflow INFO: [Node] Running "vsm2dfm" ("sdcflows.interfaces.fmap.FUGUEvsm2ANTSwarp") 211021-14:22:13,331 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:22:15,339 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask". 211021-14:22:15,340 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:22:15,346 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_reference". 211021-14:22:15,347 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:22:15,359 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/fmap_rpt". 211021-14:22:15,359 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:22:15,366 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:22:15,374 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:22:15,381 nipype.workflow INFO: [Node] Running "fmap_rpt" ("sdcflows.interfaces.reportlets.FieldmapReportlet") 211021-14:22:15,680 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:22:17,211 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:22:17,211 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:22:17,232 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask/ref_bold_corrected_brain_mask_maths_trans.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 211021-14:22:17,572 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:22:17,658 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:22:21,213 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:22:21,214 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:22:21,412 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 211021-14:22:23,651 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:22:25,219 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:22:25,220 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:22:25,244 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected_trans_corrected.nii.gz ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m 211021-14:22:27,20 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:22:27,192 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:22:27,265 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:22:27,266 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:22:27,289 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 211021-14:22:28,790 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:22:29,228 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:22:29,229 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:22:29,255 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:22:29,442 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:22:31,233 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:22:31,234 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:22:31,259 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:22:34,168 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:22:35,217 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:22:35,218 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:22:35,239 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:22:35,384 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:22:37,251 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:22:37,252 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:22:37,277 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:22:37,604 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:22:39,224 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:22:39,225 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:22:39,245 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:22:39,312 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:22:41,225 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:22:41,225 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:22:41,248 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz 211021-14:22:41,403 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:22:43,230 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:22:43,231 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:22:43,255 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:22:43,439 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:22:46,240 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.bold_transform" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_bold_trans_wf/bold_transform". 211021-14:22:46,241 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.bold_transform". 211021-14:22:46,613 nipype.workflow INFO: [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") 211021-14:23:59,545 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.bold_transform". 211021-14:24:01,561 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.merge" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_bold_trans_wf/merge". 211021-14:24:01,562 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.merge". 211021-14:24:01,628 nipype.workflow INFO: [Node] Running "merge" ("niworkflows.interfaces.nilearn.Merge") 211021-14:24:51,53 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_bold_trans_wf.merge". 211021-14:24:51,372 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.val_bold" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/val_bold". 211021-14:24:51,373 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.val_bold". 211021-14:24:51,385 nipype.workflow INFO: [Node] Setting-up "_val_bold0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/val_bold/mapflow/_val_bold0". 211021-14:24:51,386 nipype.workflow INFO: [Node] Outdated cache found for "_val_bold0". 211021-14:24:51,404 nipype.workflow INFO: [Node] Running "_val_bold0" ("niworkflows.interfaces.images.ValidateImage") 211021-14:24:51,454 nipype.workflow INFO: [Node] Finished "_val_bold0". 211021-14:24:51,461 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.val_bold". 211021-14:24:53,658 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref". 211021-14:24:53,658 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.gen_ref". 211021-14:24:53,679 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") 211021-14:24:55,773 nipype.interface INFO: stderr 2021-10-21T14:24:55.773250:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] 211021-14:24:55,774 nipype.interface INFO: stderr 2021-10-21T14:24:55.773250:++ Authored by: RW Cox 211021-14:24:55,774 nipype.interface INFO: stderr 2021-10-21T14:24:55.774306:** AFNI converts NIFTI_datatype=4 (INT16) in file /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref/slice.nii.gz to FLOAT32 211021-14:24:55,774 nipype.interface INFO: stderr 2021-10-21T14:24:55.774306: Warnings of this type will be muted for this session. 211021-14:24:55,774 nipype.interface INFO: stderr 2021-10-21T14:24:55.774306: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. 211021-14:24:55,775 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520:*+ WARNING: If you are performing spatial transformations on an oblique dset, 211021-14:24:55,775 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: such as /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref/slice.nii.gz, 211021-14:24:55,775 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: or viewing/combining it with volumes of differing obliquity, 211021-14:24:55,775 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: you should consider running: 211021-14:24:55,775 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: 3dWarp -deoblique 211021-14:24:55,776 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: on this and other oblique datasets in the same session. 211021-14:24:55,776 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520: See 3dWarp -help for details. 211021-14:24:55,776 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520:++ Oblique dataset:/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref/slice.nii.gz is 2.433250 degrees from plumb. 211021-14:24:55,776 nipype.interface INFO: stderr 2021-10-21T14:24:55.775520:++ Coarse del was 10, replaced with 4 211021-14:25:38,187 nipype.interface INFO: stderr 2021-10-21T14:25:38.187266:++ Max displacement in automask = 3.12 (mm) at sub-brick 1 211021-14:25:38,187 nipype.interface INFO: stderr 2021-10-21T14:25:38.187266:++ Max delta displ in automask = 4.99 (mm) at sub-brick 2 211021-14:25:40,330 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.gen_ref". 211021-14:25:41,427 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:25:41,428 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:25:41,453 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:26:15,772 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:26:17,479 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:26:17,479 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:26:17,506 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_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 211021-14:26:18,134 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:26:19,455 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:26:19,456 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:26:19,478 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:26:20,610 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:26:21,461 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:26:21,461 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:26:21,479 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:26:21,571 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:26:23,455 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:26:23,456 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:26:23,481 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:26:23,930 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:26:27,538 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:26:27,539 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:26:27,642 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:26:29,744 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:26:31,446 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:26:31,447 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:26:31,472 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:26:33,253 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:26:33,448 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:26:33,449 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:26:33,472 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:26:35,26 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:26:35,455 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:26:35,456 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:26:35,481 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:26:35,678 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:26:37,456 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:26:37,456 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:26:37,483 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:26:40,529 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:26:41,473 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:26:41,474 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:26:41,494 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:26:41,635 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:26:43,421 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:26:43,422 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:26:43,447 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:26:43,765 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:26:45,471 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:26:45,472 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:26:45,492 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:26:45,557 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:26:47,473 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:26:47,474 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:26:47,501 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:26:47,703 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:26:49,464 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcompcor" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_confounds_wf/tcompcor". 211021-14:26:49,464 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcompcor". 211021-14:26:49,471 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.dvars" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_confounds_wf/dvars". 211021-14:26:49,471 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.dvars". 211021-14:26:49,477 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:26:49,478 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:26:49,493 nipype.workflow INFO: [Node] Running "tcompcor" ("niworkflows.interfaces.patches.RobustTCompCor") 211021-14:26:49,500 nipype.workflow INFO: [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") 211021-14:26:49,506 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:26:49,756 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:26:56,275 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcompcor". 211021-14:26:57,476 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcc_metadata_fmt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_confounds_wf/tcc_metadata_fmt". 211021-14:26:57,477 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:26:57,499 nipype.workflow INFO: [Node] Running "tcc_metadata_fmt" ("niworkflows.interfaces.utils.TSV2JSON") 211021-14:26:57,543 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:27:23,990 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.dvars". 211021-14:27:25,854 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:27:25,855 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:27:25,879 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:28:01,126 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:28:01,602 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:28:01,603 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:28:01,628 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_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 211021-14:28:02,364 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:28:03,540 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:28:03,540 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:28:03,563 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:28:04,553 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:28:05,540 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:28:05,541 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:28:05,559 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:28:05,613 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:28:07,610 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:28:07,611 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:28:07,633 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:28:08,67 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:28:11,568 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:28:11,568 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:28:11,638 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/gen_ref/ref_bold.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:28:12,959 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:28:13,548 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.get_ees" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/get_ees". 211021-14:28:13,549 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:28:13,552 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:28:13,553 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:28:13,574 nipype.workflow INFO: [Node] Running "get_ees" ("nipype.interfaces.utility.wrappers.Function") 211021-14:28:13,578 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:28:13,596 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.get_ees". 211021-14:28:15,308 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:28:15,606 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:28:15,607 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:28:15,627 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:28:17,150 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:28:17,554 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:28:17,555 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:28:17,578 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:28:17,789 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:28:19,560 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:28:19,561 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:28:19,584 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:28:22,554 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:28:23,565 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:28:23,566 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:28:23,586 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:28:23,684 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:28:25,566 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:28:25,567 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:28:25,595 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:28:25,950 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:28:27,552 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:28:27,553 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:28:27,572 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:28:27,611 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:28:29,602 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:28:29,603 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:28:29,624 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:28:29,792 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:28:31,624 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:28:31,625 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:28:31,646 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:28:31,834 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.initial_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:28:33,582 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg". 211021-14:28:33,582 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:28:33,607 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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_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 211021-14:28:42,354 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_reg". 211021-14:28:43,597 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply". 211021-14:28:43,598 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:28:43,606 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_apply". 211021-14:28:43,607 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:28:43,626 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/phdiff_wf/magnitude_wf/bet/sub-003_magnitude1_avg_corrected_brain_mask.nii.gz --interpolation MultiLabel --output sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:28:43,633 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/phdiff_wf/compfmap/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap.nii.gz --interpolation BSpline --output sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap2ref_reg/transformComposite.h5 211021-14:28:44,213 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap2ref_apply". 211021-14:28:45,630 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.torads" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/torads". 211021-14:28:45,631 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:28:45,650 nipype.workflow INFO: [Node] Running "torads" ("sdcflows.interfaces.fmap.FieldToRadS") 211021-14:28:45,824 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.torads". 211021-14:28:47,731 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_mask2ref_apply". 211021-14:28:49,599 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/gen_vsm". 211021-14:28:49,599 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:28:49,625 nipype.workflow INFO: [Node] Running "gen_vsm" ("nipype.interfaces.fsl.preprocess.FUGUE"), a CommandLine Interface with command: fugue --dwell=0.0003499960 --loadfmap=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/torads/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad.nii.gz --mask=/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap_mask2ref_apply/sub-003_magnitude1_avg_corrected_brain_mask_trans.nii.gz --unmaskshift --saveshift=sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked.nii.gz --unwarpdir=y- 211021-14:28:50,36 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.gen_vsm". 211021-14:28:51,600 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm". 211021-14:28:51,601 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:28:51,621 nipype.workflow INFO: [Node] Running "vsm2dfm" ("sdcflows.interfaces.fmap.FUGUEvsm2ANTSwarp") 211021-14:28:51,766 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.vsm2dfm". 211021-14:28:53,797 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask". 211021-14:28:53,797 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:28:53,804 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_reference". 211021-14:28:53,804 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:28:53,817 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/fmap_rpt". 211021-14:28:53,818 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:28:53,828 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:28:53,833 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/initial_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/fmap2field_wf/vsm2dfm/sub-003_phasediff_rads_unwrapped_recentered_filt_demean_maths_fmap_trans_rad_vsm_unmasked_desc-field_sdcwarp.nii.gz 211021-14:28:53,838 nipype.workflow INFO: [Node] Running "fmap_rpt" ("sdcflows.interfaces.reportlets.FieldmapReportlet") 211021-14:28:54,108 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_mask". 211021-14:28:55,587 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:28:55,588 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:28:55,612 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/unwarp_mask/ref_bold_corrected_brain_mask_maths_trans.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 211021-14:28:55,996 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:28:56,44 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.unwarp_reference". 211021-14:28:59,598 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:28:59,598 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:28:59,752 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 211021-14:29:02,91 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:29:03,604 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:29:03,604 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:29:03,627 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected_trans_corrected.nii.gz ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m 211021-14:29:05,433 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:29:05,584 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:29:05,585 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:29:05,607 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 211021-14:29:05,825 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.fmap2field_wf.fmap_rpt". 211021-14:29:07,116 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:29:07,665 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:29:07,666 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:29:07,692 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:29:07,928 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:29:09,597 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:29:09,598 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:29:09,623 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz 211021-14:29:12,765 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:29:13,584 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:29:13,585 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:29:13,604 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:29:13,745 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:29:15,636 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:29:15,636 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:29:15,664 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:29:16,92 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:29:17,637 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:29:17,638 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:29:17,656 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:29:17,724 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:29:19,602 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:29:19,603 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:29:19,628 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz 211021-14:29:19,814 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:29:21,614 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:29:21,616 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:29:21,641 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:29:21,889 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.sdc_estimate_wf.sdc_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:29:23,775 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.bold_transform" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_bold_trans_wf/bold_transform". 211021-14:29:23,776 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.bold_transform". 211021-14:29:24,176 nipype.workflow INFO: [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") 211021-14:30:36,108 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.bold_transform". 211021-14:30:37,877 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.merge" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_bold_trans_wf/merge". 211021-14:30:37,877 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.merge". 211021-14:30:37,942 nipype.workflow INFO: [Node] Running "merge" ("niworkflows.interfaces.nilearn.Merge") 211021-14:31:18,420 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_bold_trans_wf.merge". 211021-14:31:19,745 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.val_bold" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/val_bold". 211021-14:31:19,746 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.val_bold". 211021-14:31:19,759 nipype.workflow INFO: [Node] Setting-up "_val_bold0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/val_bold/mapflow/_val_bold0". 211021-14:31:19,760 nipype.workflow INFO: [Node] Outdated cache found for "_val_bold0". 211021-14:31:19,777 nipype.workflow INFO: [Node] Running "_val_bold0" ("niworkflows.interfaces.images.ValidateImage") 211021-14:31:19,817 nipype.workflow INFO: [Node] Finished "_val_bold0". 211021-14:31:19,824 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.val_bold". 211021-14:31:22,25 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref". 211021-14:31:22,26 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.gen_ref". 211021-14:31:22,48 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") 211021-14:31:24,244 nipype.interface INFO: stderr 2021-10-21T14:31:24.244478:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] 211021-14:31:24,244 nipype.interface INFO: stderr 2021-10-21T14:31:24.244478:++ Authored by: RW Cox 211021-14:31:24,245 nipype.interface INFO: stderr 2021-10-21T14:31:24.245850:** AFNI converts NIFTI_datatype=4 (INT16) in file /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref/slice.nii.gz to FLOAT32 211021-14:31:24,245 nipype.interface INFO: stderr 2021-10-21T14:31:24.245850: Warnings of this type will be muted for this session. 211021-14:31:24,246 nipype.interface INFO: stderr 2021-10-21T14:31:24.245850: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555:*+ WARNING: If you are performing spatial transformations on an oblique dset, 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: such as /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref/slice.nii.gz, 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: or viewing/combining it with volumes of differing obliquity, 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: you should consider running: 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: 3dWarp -deoblique 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: on this and other oblique datasets in the same session. 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555: See 3dWarp -help for details. 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555:++ Oblique dataset:/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref/slice.nii.gz is 2.433250 degrees from plumb. 211021-14:31:24,247 nipype.interface INFO: stderr 2021-10-21T14:31:24.247555:++ Coarse del was 10, replaced with 4 211021-14:31:57,444 nipype.interface INFO: stderr 2021-10-21T14:31:57.443896:++ Max displacement in automask = 0.10 (mm) at sub-brick 17 211021-14:31:57,444 nipype.interface INFO: stderr 2021-10-21T14:31:57.443896:++ Max delta displ in automask = 0.08 (mm) at sub-brick 6 211021-14:31:59,719 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.gen_ref". 211021-14:32:01,754 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/init_aff". 211021-14:32:01,755 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:32:01,779 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.2] -o initialization.mat -p 0 -s [20,0.12] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:32:36,606 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.init_aff". 211021-14:32:37,810 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm". 211021-14:32:37,811 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:32:37,839 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_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[ /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_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 211021-14:32:38,706 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.norm". 211021-14:32:39,814 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/map_brainmask". 211021-14:32:39,814 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:32:39,836 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 1 --input /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz --interpolation BSpline --output tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/gen_ref/ref_bold.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] 211021-14:32:41,198 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.map_brainmask". 211021-14:32:41,781 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask". 211021-14:32:41,782 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:32:41,800 nipype.workflow INFO: [Node] Running "binarize_mask" ("niworkflows.interfaces.nibabel.Binarize") 211021-14:32:41,885 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.binarize_mask". 211021-14:32:43,817 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". 211021-14:32:43,818 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:32:43,840 nipype.workflow INFO: [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/binarize_mask/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask.nii.gz -kernel sphere 3.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil.nii.gz 211021-14:32:44,248 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". 211021-14:32:46,119 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.init_aff" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/init_aff". 211021-14:32:46,120 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.init_aff". 211021-14:32:46,142 nipype.workflow INFO: [Node] Running "init_aff" ("nipype.interfaces.ants.utils.AI"), a CommandLine Interface with command: antsAI -c [10,1e-06,10] -d 3 -x /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz -m Mattes[/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl/tpl-OASIS30ANTs_res-01_T1w_regrid.nii.gz,/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/res_target/sub-003_T1w_maths_corrected_regrid.nii.gz,32,Regular,0.25] -o initialization.mat -p 0 -s [15,0.1] -g [40.0,0x40x40] -t Affine[0.1] -v 1 211021-14:33:08,709 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.init_aff". 211021-14:33:09,907 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct". 211021-14:33:09,908 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:33:10,45 nipype.workflow INFO: [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg_trans_mask_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r 211021-14:33:12,71 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.n4_correct". 211021-14:33:13,848 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". 211021-14:33:13,849 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:33:13,878 nipype.workflow INFO: [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: bet ref_bold_corrected.nii.gz ref_bold_corrected_brain.nii.gz -f 0.20 -m 211021-14:33:15,695 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". 211021-14:33:17,821 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". 211021-14:33:17,822 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:33:17,845 nipype.workflow INFO: [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: fslmaths -dt char /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz 211021-14:33:19,448 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". 211021-14:33:19,860 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". 211021-14:33:19,861 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:33:19,884 nipype.workflow INFO: [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz 211021-14:33:20,79 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". 211021-14:33:21,909 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize". 211021-14:33:21,910 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:33:21,934 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz 211021-14:33:24,816 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.unifize". 211021-14:33:25,868 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". 211021-14:33:25,869 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:33:25,888 nipype.workflow INFO: [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:33:26,24 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". 211021-14:33:27,862 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". 211021-14:33:27,863 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:33:27,889 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz 211021-14:33:28,278 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". 211021-14:33:29,853 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". 211021-14:33:29,854 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:33:29,875 nipype.workflow INFO: [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") 211021-14:33:29,930 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". 211021-14:33:31,875 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks". 211021-14:33:31,876 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:33:31,896 nipype.workflow INFO: [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz 211021-14:33:32,62 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.combine_masks". 211021-14:33:33,914 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcompcor" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_confounds_wf/tcompcor". 211021-14:33:33,915 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcompcor". 211021-14:33:33,916 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.dvars" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_confounds_wf/dvars". 211021-14:33:33,916 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.dvars". 211021-14:33:33,921 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask". 211021-14:33:33,922 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:33:33,945 nipype.workflow INFO: [Node] Running "tcompcor" ("niworkflows.interfaces.patches.RobustTCompCor") 211021-14:33:33,946 nipype.workflow INFO: [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") 211021-14:33:33,948 nipype.workflow INFO: [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: fslmaths /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/final_boldref_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz 211021-14:33:34,161 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.final_boldref_wf.enhance_and_skullstrip_bold_wf.apply_mask". 211021-14:33:40,505 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcompcor". 211021-14:33:41,856 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcc_metadata_fmt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_confounds_wf/tcc_metadata_fmt". 211021-14:33:41,856 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:33:41,876 nipype.workflow INFO: [Node] Running "tcc_metadata_fmt" ("niworkflows.interfaces.utils.TSV2JSON") 211021-14:33:41,917 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.tcc_metadata_fmt". 211021-14:34:05,205 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.dvars". 211021-14:34:06,248 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.norm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/norm". 211021-14:34:06,249 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.norm". 211021-14:34:06,303 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 [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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[ /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-003_T1w_maths_corrected.nii.gz, 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 [ /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform Affine[ 0.1 ] --metric MI[ /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-003_T1w_maths_corrected.nii.gz, 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 [ /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /root/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/sub-003_T1w_maths_corrected.nii.gz, 0.5, 4, None, 1 ] --metric CC[ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl/tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz, /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/lap_target/sub-003_T1w_maths_corrected_maths.nii.gz, 0.5, 4, None, 1 ] --convergence [ 50x10x0, 1e-09, 15 ] --smoothing-sigmas 2.0x1.0x0.0vox --shrink-factors 4x2x1 --use-histogram-matching 1 --masks [ /root/.cache/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 211021-14:43:53,205 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.norm". 211021-14:43:54,522 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_wmmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/map_wmmask". 211021-14:43:54,523 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_wmmask". 211021-14:43:54,533 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/map_brainmask". 211021-14:43:54,534 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask". 211021-14:43:54,553 nipype.workflow INFO: [Node] Running "map_wmmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/full_wm/summap.nii.gz --interpolation Gaussian --output summap_trans.nii.gz --reference-image /EBC/home/mblesa/BIDS/fMRIprep_tentative/sub-003/anat/sub-003_T1w.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template0GenericAffine.mat, 1 ] --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template1InverseWarp.nii.gz 211021-14:43:54,563 nipype.workflow INFO: [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /root/.cache/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 /EBC/home/mblesa/BIDS/fMRIprep_tentative/sub-003/anat/sub-003_T1w.nii.gz --transform [ /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template0GenericAffine.mat, 1 ] --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/norm/anat_to_template1InverseWarp.nii.gz 211021-14:44:25,617 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_brainmask". 211021-14:44:26,103 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.map_wmmask". 211021-14:44:26,523 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final". 211021-14:44:26,526 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final". 211021-14:44:26,543 nipype.workflow INFO: [Node] Setting-up "_inu_n4_final0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final/mapflow/_inu_n4_final0". 211021-14:44:26,545 nipype.workflow INFO: [Node] Outdated cache found for "_inu_n4_final0". 211021-14:44:26,571 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 /EBC/home/mblesa/BIDS/fMRIprep_tentative/sub-003/anat/sub-003_T1w.nii.gz --convergence [ 50x50x50x50x50, 1e-07 ] --output [ sub-003_T1w_corrected.nii.gz, sub-003_T1w_bias.nii.gz ] -r --shrink-factor 4 --weight-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/map_wmmask/summap_trans.nii.gz 211021-14:44:48,283 nipype.workflow INFO: [Node] Finished "_inu_n4_final0". 211021-14:44:48,289 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.inu_n4_final". 211021-14:44:48,621 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask". 211021-14:44:48,622 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask". 211021-14:44:48,644 nipype.workflow INFO: [Node] Running "thr_brainmask" ("nipype.interfaces.ants.utils.ThresholdImage"), a CommandLine Interface with command: ThresholdImage 3 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:44:50,149 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.thr_brainmask". 211021-14:44:50,536 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/03_pad_mask". 211021-14:44:50,537 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask". 211021-14:44:50,541 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.dil_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/dil_brainmask". 211021-14:44:50,542 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.dil_brainmask". 211021-14:44:50,551 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/apply_mask". 211021-14:44:50,552 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.apply_mask". 211021-14:44:50,567 nipype.workflow INFO: [Node] Running "03_pad_mask" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled.nii.gz 10 211021-14:44:50,570 nipype.workflow INFO: [Node] Setting-up "_apply_mask0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/apply_mask/mapflow/_apply_mask0". 211021-14:44:50,571 nipype.workflow INFO: [Node] Outdated cache found for "_apply_mask0". 211021-14:44:50,571 nipype.workflow INFO: [Node] Running "dil_brainmask" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz MD /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/thr_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled.nii.gz 2 211021-14:44:50,589 nipype.workflow INFO: [Node] Running "_apply_mask0" ("niworkflows.interfaces.nibabel.ApplyMask") 211021-14:44:51,495 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.03_pad_mask". 211021-14:44:51,553 nipype.workflow INFO: [Node] Finished "_apply_mask0". 211021-14:44:51,559 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.apply_mask". 211021-14:44:52,331 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.dil_brainmask". 211021-14:44:52,545 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.get_brainmask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/get_brainmask". 211021-14:44:52,546 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.get_brainmask". 211021-14:44:52,574 nipype.workflow INFO: [Node] Running "get_brainmask" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths_maths.nii.gz GetLargestComponent /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/dil_brainmask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz 211021-14:44:54,445 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.get_brainmask". 211021-14:44:56,546 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/01_atropos". 211021-14:44:56,547 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos". 211021-14:44:56,577 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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/inu_n4_final/mapflow/_inu_n4_final0/sub-003_T1w_corrected.nii.gz --likelihood-model Gaussian --mask-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_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-003_T1w_corrected_labeled.nii.gz,POSTERIOR_%02d.nii.gz] --use-random-seed 1 211021-14:45:48,139 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.01_atropos". 211021-14:45:48,778 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/02_pad_segm". 211021-14:45:48,779 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm". 211021-14:45:48,803 nipype.workflow INFO: [Node] Running "02_pad_segm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/01_atropos/sub-003_T1w_corrected_labeled.nii.gz 10 211021-14:45:50,15 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.02_pad_segm". 211021-14:45:55,632 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels". 211021-14:45:55,633 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels". 211021-14:45:55,655 nipype.workflow INFO: [Node] Running "04_sel_labels" ("nipype.interfaces.utility.wrappers.Function") 211021-14:45:56,224 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.04_sel_labels". 211021-14:45:58,617 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/27_depad_csf". 211021-14:45:58,617 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf". 211021-14:45:58,619 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/10_me_csf". 211021-14:45:58,619 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf". 211021-14:45:58,623 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm". 211021-14:45:58,624 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm". 211021-14:45:58,627 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/05_get_wm". 211021-14:45:58,628 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm". 211021-14:45:58,651 nipype.workflow INFO: [Node] Running "27_depad_csf" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths_class-01_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-003_T1w_corrected_labeled_maths_class-01.nii.gz -10 211021-14:45:58,654 nipype.workflow INFO: [Node] Running "10_me_csf" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths_class-01_maths.nii.gz ME /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-003_T1w_corrected_labeled_maths_class-01.nii.gz 10 211021-14:45:58,655 nipype.workflow INFO: [Node] Running "06_get_gm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths_class-02_maths.nii.gz GetLargestComponent /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-003_T1w_corrected_labeled_maths_class-02.nii.gz 211021-14:45:58,658 nipype.workflow INFO: [Node] Running "05_get_wm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths_class-03_maths.nii.gz GetLargestComponent /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/04_sel_labels/sub-003_T1w_corrected_labeled_maths_class-03.nii.gz 211021-14:45:59,529 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.27_depad_csf". 211021-14:45:59,854 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_wm_prior" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/apply_wm_prior". 211021-14:45:59,855 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_wm_prior". 211021-14:45:59,877 nipype.workflow INFO: [Node] Running "apply_wm_prior" ("nipype.interfaces.utility.wrappers.Function") 211021-14:46:00,753 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.05_get_wm". 211021-14:46:00,762 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.06_get_gm". 211021-14:46:01,250 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_wm_prior". 211021-14:46:01,849 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/07_fill_gm". 211021-14:46:01,849 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm". 211021-14:46:01,881 nipype.workflow INFO: [Node] Running "07_fill_gm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_labeled_maths_class-02_maths_maths.nii.gz FillHoles /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm/sub-003_T1w_corrected_labeled_maths_class-02_maths.nii.gz 2 211021-14:46:01,890 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm". 211021-14:46:01,901 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm". 211021-14:46:01,924 nipype.workflow INFO: [Node] Running "09_relabel_wm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/05_get_wm/sub-003_T1w_corrected_labeled_maths_class-03_maths.nii.gz 3.0 09_relabel_wm.nii.gz 211021-14:46:03,94 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.09_relabel_wm". 211021-14:46:03,571 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.10_me_csf". 211021-14:46:03,825 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/26_depad_wm". 211021-14:46:03,830 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm". 211021-14:46:03,858 nipype.workflow INFO: [Node] Running "26_depad_wm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz -10 211021-14:46:05,16 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.26_depad_wm". 211021-14:46:16,33 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.07_fill_gm". 211021-14:46:17,834 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.inu_n4_final" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/inu_n4_final". 211021-14:46:17,836 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.inu_n4_final". 211021-14:46:17,851 nipype.workflow INFO: [Node] Setting-up "_inu_n4_final0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/inu_n4_final/mapflow/_inu_n4_final0". 211021-14:46:17,853 nipype.workflow INFO: [Node] Outdated cache found for "_inu_n4_final0". 211021-14:46:17,884 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 /EBC/home/mblesa/BIDS/fMRIprep_tentative/sub-003/anat/sub-003_T1w.nii.gz --convergence [ 50x50x50x50x50, 1e-07 ] --output [ sub-003_T1w_corrected.nii.gz, sub-003_T1w_bias.nii.gz ] -r --shrink-factor 4 --weight-image /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/apply_wm_prior/prodmap.nii.gz 211021-14:46:37,721 nipype.workflow INFO: [Node] Finished "_inu_n4_final0". 211021-14:46:37,729 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.inu_n4_final". 211021-14:46:39,886 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/08_mult_gm". 211021-14:46:39,886 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm". 211021-14:46:39,910 nipype.workflow INFO: [Node] Running "08_mult_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/06_get_gm/sub-003_T1w_corrected_labeled_maths_class-02_maths.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/07_fill_gm/sub-003_T1w_corrected_labeled_maths_class-02_maths_maths.nii.gz 08_mult_gm.nii.gz 211021-14:46:41,326 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.08_mult_gm". 211021-14:46:41,917 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/11_add_gm". 211021-14:46:41,918 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm". 211021-14:46:41,942 nipype.workflow INFO: [Node] Running "11_add_gm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 08_mult_gm_maths.nii.gz addtozero /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/08_mult_gm/08_mult_gm.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/10_me_csf/sub-003_T1w_corrected_labeled_maths_class-01_maths.nii.gz 211021-14:46:47,40 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.11_add_gm". 211021-14:46:47,854 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm". 211021-14:46:47,855 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm". 211021-14:46:47,878 nipype.workflow INFO: [Node] Running "12_relabel_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command: MultiplyImages 3 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:46:48,944 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.12_relabel_gm". 211021-14:46:49,851 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/25_depad_gm". 211021-14:46:49,852 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm". 211021-14:46:49,858 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/13_add_gm_wm". 211021-14:46:49,859 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm". 211021-14:46:49,878 nipype.workflow INFO: [Node] Running "25_depad_gm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 12_relabel_gm_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz -10 211021-14:46:49,883 nipype.workflow INFO: [Node] Running "13_add_gm_wm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths.nii.gz addtozero /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz 211021-14:46:51,35 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.25_depad_gm". 211021-14:46:51,914 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/merge_tpms". 211021-14:46:51,915 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms". 211021-14:46:51,935 nipype.workflow INFO: [Node] Running "merge_tpms" ("nipype.interfaces.utility.base.Merge") 211021-14:46:51,946 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.merge_tpms". 211021-14:46:55,28 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm". 211021-14:46:55,814 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/24_depad_segm". 211021-14:46:55,815 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm". 211021-14:46:55,817 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2". 211021-14:46:55,817 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2". 211021-14:46:55,839 nipype.workflow INFO: [Node] Running "14_sel_labels2" ("nipype.interfaces.utility.wrappers.Function") 211021-14:46:55,839 nipype.workflow INFO: [Node] Running "24_depad_segm" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_maths.nii.gz PadImage /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/13_add_gm_wm/09_relabel_wm_maths.nii.gz -10 211021-14:46:56,205 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.14_sel_labels2". 211021-14:46:56,888 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.24_depad_segm". 211021-14:46:57,838 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/15_add_7". 211021-14:46:57,838 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7". 211021-14:46:57,859 nipype.workflow INFO: [Node] Running "15_add_7" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths.nii.gz addtozero /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-03.nii.gz /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-02.nii.gz 211021-14:47:02,478 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.15_add_7". 211021-14:47:03,839 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/16_me_7". 211021-14:47:03,840 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7". 211021-14:47:03,864 nipype.workflow INFO: [Node] Running "16_me_7" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths.nii.gz ME /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/15_add_7/09_relabel_wm_maths_class-03_maths.nii.gz 2 211021-14:47:07,330 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.16_me_7". 211021-14:47:07,819 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/17_comp_7". 211021-14:47:07,820 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7". 211021-14:47:07,845 nipype.workflow INFO: [Node] Running "17_comp_7" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz GetLargestComponent /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/16_me_7/09_relabel_wm_maths_class-03_maths_maths.nii.gz 211021-14:47:10,58 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.17_comp_7". 211021-14:47:11,864 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/18_md_7". 211021-14:47:11,865 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7". 211021-14:47:11,890 nipype.workflow INFO: [Node] Running "18_md_7" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths.nii.gz MD /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/17_comp_7/09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz 4 211021-14:47:14,71 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.18_md_7". 211021-14:47:15,857 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/19_fill_7". 211021-14:47:15,858 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7". 211021-14:47:15,882 nipype.workflow INFO: [Node] Running "19_fill_7" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths.nii.gz FillHoles /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:47:28,246 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.19_fill_7". 211021-14:47:29,880 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/20_add_7_2". 211021-14:47:29,880 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2". 211021-14:47:29,911 nipype.workflow INFO: [Node] Running "20_add_7_2" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths.nii.gz addtozero /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/03_pad_mask/tpl-OASIS30ANTs_res-01_label-brain_probseg_trans_resampled_maths.nii.gz 211021-14:47:34,442 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.20_add_7_2". 211021-14:47:35,903 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/21_md_7_2". 211021-14:47:35,904 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2". 211021-14:47:35,928 nipype.workflow INFO: [Node] Running "21_md_7_2" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths.nii.gz MD /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:47:37,945 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.21_md_7_2". 211021-14:47:39,874 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/22_me_7_2". 211021-14:47:39,874 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2". 211021-14:47:39,898 nipype.workflow INFO: [Node] Running "22_me_7_2" ("nipype.interfaces.ants.utils.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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:47:43,589 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.22_me_7_2". 211021-14:47:43,884 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/23_depad_mask". 211021-14:47:43,885 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask". 211021-14:47:43,909 nipype.workflow INFO: [Node] Running "23_depad_mask" ("nipype.interfaces.ants.utils.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 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_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 211021-14:47:44,823 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.23_depad_mask". 211021-14:47:45,893 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/msk_conform". 211021-14:47:45,894 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform". 211021-14:47:45,915 nipype.workflow INFO: [Node] Running "msk_conform" ("nipype.interfaces.utility.wrappers.Function") 211021-14:47:46,252 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.msk_conform". 211021-14:47:55,971 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.trunc_mov" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/trunc_mov". 211021-14:47:55,971 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.trunc_mov". 211021-14:47:55,978 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/gen_ref". 211021-14:47:55,978 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.gen_ref". 211021-14:47:56,4 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-14:47:56,5 nipype.workflow INFO: [Node] Running "trunc_mov" ("nipype.interfaces.ants.utils.ImageMath"), a CommandLine Interface with command: ImageMath 3 sub-003_T1w_corrected_xform_maths.nii.gz TruncateImageIntensity /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/sub-003_T1w_corrected_xform.nii.gz 0.01 0.999 256 211021-14:47:56,16 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.gen_ref". 211021-14:47:56,25 nipype.interface WARNING: Changing /EBC/home/mblesa/BIDS/fMRIprep_tentative/OUTPUT_syn/fmriprep/sub-003/anat/sub-003_desc-brain_mask.nii.gz dtype from int16 to uint8 211021-14:48:02,248 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.trunc_mov". 211021-14:48:06,908 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.t1w_brain" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/t1w_brain". 211021-14:48:06,909 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.t1w_brain". 211021-14:48:06,912 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.t1w_brain" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/t1w_brain". 211021-14:48:06,913 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.t1w_brain". 211021-14:48:06,919 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.t1w_brain" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/t1w_brain". 211021-14:48:06,920 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.t1w_brain". 211021-14:48:06,930 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/apply_mask". 211021-14:48:06,931 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_mask". 211021-14:48:06,936 nipype.workflow INFO: [Node] Running "t1w_brain" ("niworkflows.interfaces.nibabel.ApplyMask") 211021-14:48:06,942 nipype.workflow INFO: [Node] Running "t1w_brain" ("niworkflows.interfaces.nibabel.ApplyMask") 211021-14:48:06,947 nipype.workflow INFO: [Node] Running "t1w_brain" ("niworkflows.interfaces.nibabel.ApplyMask") 211021-14:48:06,949 nipype.workflow INFO: [Node] Setting-up "_apply_mask0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/apply_mask/mapflow/_apply_mask0". 211021-14:48:06,950 nipype.workflow INFO: [Node] Outdated cache found for "_apply_mask0". 211021-14:48:06,971 nipype.workflow INFO: [Node] Running "_apply_mask0" ("niworkflows.interfaces.nibabel.ApplyMask") 211021-14:48:08,25 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.t1w_brain". 211021-14:48:08,32 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.t1w_brain". 211021-14:48:08,61 nipype.workflow INFO: [Node] Finished "_apply_mask0". 211021-14:48:08,70 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.brain_extraction_wf.atropos_wf.apply_mask". 211021-14:48:08,76 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.t1w_brain". 211021-14:48:09,148 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.registration" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration". 211021-14:48:09,149 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.registration". 211021-14:48:09,203 nipype.workflow INFO: [Node] Running "registration" ("niworkflows.interfaces.mni.RobustMNINormalization") 211021-15:04:10,969 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.registration". 211021-15:04:12,94 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_mask". 211021-15:04:12,95 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_mask". 211021-15:04:12,103 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.tpl_moving" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/tpl_moving". 211021-15:04:12,103 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.tpl_moving". 211021-15:04:12,122 nipype.workflow INFO: [Node] Running "std_mask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/09_relabel_wm_mask_xform.nii.gz --interpolation MultiLabel --output 09_relabel_wm_mask_xform_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:04:12,128 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_t1_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_t1_trans_wf/gen_ref". 211021-15:04:12,129 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:12,134 nipype.workflow INFO: [Node] Running "tpl_moving" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/sub-003_T1w_corrected_xform.nii.gz --interpolation LanczosWindowedSinc --output sub-003_T1w_corrected_xform_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:04:12,135 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init". 211021-15:04:12,148 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-15:04:12,162 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_t1_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_t1_trans_wf/gen_ref". 211021-15:04:12,169 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init". 211021-15:04:12,174 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:04:12,174 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:04:12,174 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:12,199 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-15:04:12,206 nipype.workflow INFO: [Node] Running "flt_bbr_init" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -dof 6 -usesqform 211021-15:04:12,206 nipype.workflow INFO: [Node] Running "flt_bbr_init" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -dof 6 -usesqform 211021-15:04:12,210 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_t1_trans_wf.gen_ref" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_t1_trans_wf/gen_ref". 211021-15:04:12,210 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:12,217 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init". 211021-15:04:12,218 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:04:12,230 nipype.workflow INFO: [Node] Running "gen_ref" ("niworkflows.interfaces.utils.GenerateSamplingReference") 211021-15:04:12,232 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.t1w_dseg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/t1w_dseg". 211021-15:04:12,233 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.t1w_dseg". 211021-15:04:12,242 nipype.workflow INFO: [Node] Running "flt_bbr_init" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -dof 6 -usesqform 211021-15:04:12,258 nipype.workflow INFO: [Node] Running "t1w_dseg" ("nipype.interfaces.fsl.preprocess.FAST"), a CommandLine Interface with command: fast -N -p -g -S 1 /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/t1w_dseg/sub-003_T1w_corrected_xform_masked.nii.gz 211021-15:04:13,79 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:13,88 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:13,90 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_t1_trans_wf.gen_ref". 211021-15:04:55,442 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.tpl_moving". 211021-15:05:10,452 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:05:10,468 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:05:11,520 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr_init". 211021-15:05:50,897 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_mask". 211021-15:05:52,130 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_msk" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_reports_wf/_template_MNI152NLin2009cAsym/norm_msk". 211021-15:05:52,134 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_msk". 211021-15:05:52,161 nipype.workflow INFO: [Node] Running "norm_msk" ("nipype.interfaces.utility.wrappers.Function") 211021-15:05:53,943 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_msk". 211021-15:05:54,121 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_rpt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_reports_wf/_template_MNI152NLin2009cAsym/norm_rpt". 211021-15:05:54,121 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_rpt". 211021-15:05:54,144 nipype.workflow INFO: [Node] Running "norm_rpt" ("niworkflows.interfaces.registration.SimpleBeforeAfterRPT") 211021-15:06:04,364 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.norm_rpt". 211021-15:06:23,323 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.t1w_dseg". 211021-15:06:24,272 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.lut_t1w_dseg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/lut_t1w_dseg". 211021-15:06:24,272 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.lut_t1w_dseg". 211021-15:06:24,293 nipype.workflow INFO: [Node] Running "lut_t1w_dseg" ("nipype.interfaces.utility.wrappers.Function") 211021-15:06:24,761 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.lut_t1w_dseg". 211021-15:06:30,910 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.seg_rpt" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_reports_wf/seg_rpt". 211021-15:06:30,911 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.seg_rpt". 211021-15:06:30,912 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_dseg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_dseg". 211021-15:06:30,914 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_dseg". 211021-15:06:30,940 nipype.workflow INFO: [Node] Running "seg_rpt" ("niworkflows.interfaces.masks.ROIsPlot") 211021-15:06:30,943 nipype.workflow INFO: [Node] Running "std_dseg" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/lut_t1w_dseg/sub-003_T1w_corrected_xform_masked_pveseg_dseg.nii.gz --interpolation MultiLabel --output sub-003_T1w_corrected_xform_masked_pveseg_dseg_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:06:31,211 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.acc_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_confounds_wf/acc_masks". 211021-15:06:31,211 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.acc_masks". 211021-15:06:31,233 nipype.workflow INFO: [Node] Running "acc_masks" ("fmriprep.interfaces.confounds.aCompCorMasks") 211021-15:06:31,330 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.acc_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_confounds_wf/acc_masks". 211021-15:06:31,331 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.acc_masks". 211021-15:06:31,353 nipype.workflow INFO: [Node] Running "acc_masks" ("fmriprep.interfaces.confounds.aCompCorMasks") 211021-15:06:31,359 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.acc_masks" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_confounds_wf/acc_masks". 211021-15:06:31,360 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.acc_masks". 211021-15:06:31,383 nipype.workflow INFO: [Node] Running "acc_masks" ("fmriprep.interfaces.confounds.aCompCorMasks") 211021-15:06:32,935 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.wm_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_reg_wf/fsl_bbr_wf/wm_mask". 211021-15:06:32,936 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:32,939 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.wm_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_reg_wf/fsl_bbr_wf/wm_mask". 211021-15:06:32,939 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:32,949 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.wm_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_reg_wf/fsl_bbr_wf/wm_mask". 211021-15:06:32,950 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:32,959 nipype.workflow INFO: [Node] Running "wm_mask" ("nipype.interfaces.utility.wrappers.Function") 211021-15:06:32,962 nipype.workflow INFO: [Node] Running "wm_mask" ("nipype.interfaces.utility.wrappers.Function") 211021-15:06:32,971 nipype.workflow INFO: [Node] Running "wm_mask" ("nipype.interfaces.utility.wrappers.Function") 211021-15:06:33,98 nipype.workflow INFO: [Node] Setting-up "_std_tpms1" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms1". 211021-15:06:33,98 nipype.workflow INFO: [Node] Outdated cache found for "_std_tpms1". 211021-15:06:33,99 nipype.workflow INFO: [Node] Setting-up "_std_tpms0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms0". 211021-15:06:33,99 nipype.workflow INFO: [Node] Outdated cache found for "_std_tpms0". 211021-15:06:33,100 nipype.workflow INFO: [Node] Setting-up "_std_tpms2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms2". 211021-15:06:33,100 nipype.workflow INFO: [Node] Outdated cache found for "_std_tpms2". 211021-15:06:33,135 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:33,135 nipype.workflow INFO: [Node] Running "_std_tpms2" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/t1w_dseg/sub-003_T1w_corrected_xform_masked_pve_0.nii.gz --interpolation Gaussian --output sub-003_T1w_corrected_xform_masked_pve_0_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:06:33,135 nipype.workflow INFO: [Node] Running "_std_tpms0" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/t1w_dseg/sub-003_T1w_corrected_xform_masked_pve_1.nii.gz --interpolation Gaussian --output sub-003_T1w_corrected_xform_masked_pve_1_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:06:33,135 nipype.workflow INFO: [Node] Running "_std_tpms1" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/t1w_dseg/sub-003_T1w_corrected_xform_masked_pve_2.nii.gz --interpolation Gaussian --output sub-003_T1w_corrected_xform_masked_pve_2_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:06:33,152 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:33,166 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.wm_mask". 211021-15:06:35,115 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr". 211021-15:06:35,116 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr". 211021-15:06:35,131 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr". 211021-15:06:35,132 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr". 211021-15:06:35,149 nipype.workflow INFO: [Node] Running "flt_bbr" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -searchcost bbr -dof 6 -init /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init/uni_xform_masked_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch -wmseg /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar1_wf/bold_reg_wf/fsl_bbr_wf/wm_mask/sub-003_T1w_corrected_xform_masked_pveseg_dseg_mask.nii.gz 211021-15:06:35,154 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_confounds_wf.acc_masks". 211021-15:06:35,163 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr". 211021-15:06:35,164 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr". 211021-15:06:35,167 nipype.workflow INFO: [Node] Running "flt_bbr" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -searchcost bbr -dof 6 -init /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init/uni_xform_masked_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch -wmseg /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_pixar2_wf/bold_reg_wf/fsl_bbr_wf/wm_mask/sub-003_T1w_corrected_xform_masked_pveseg_dseg_mask.nii.gz 211021-15:06:35,192 nipype.workflow INFO: [Node] Running "flt_bbr" ("niworkflows.interfaces.registration.FLIRTRPT"), a CommandLine Interface with command: flirt -in /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/sdc_estimate_wf/sdc_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz -ref /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/t1w_brain/sub-003_T1w_corrected_xform_masked.nii.gz -out uni_xform_masked_flirt.nii.gz -omat uni_xform_masked_flirt.mat -searchcost bbr -dof 6 -init /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_reg_wf/fsl_bbr_wf/flt_bbr_init/uni_xform_masked_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch -wmseg /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/func_preproc_task_sesame_wf/bold_reg_wf/fsl_bbr_wf/wm_mask/sub-003_T1w_corrected_xform_masked_pveseg_dseg_mask.nii.gz 211021-15:06:35,215 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_confounds_wf.acc_masks". 211021-15:06:35,475 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_confounds_wf.acc_masks". 211021-15:06:40,285 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_reports_wf.seg_rpt". 211021-15:06:56,153 nipype.workflow INFO: [Node] Finished "_std_tpms2". 211021-15:06:56,189 nipype.workflow INFO: [Node] Finished "_std_tpms1". 211021-15:06:56,361 nipype.workflow INFO: [Node] Finished "_std_tpms0". 211021-15:06:57,115 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_tpms" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms". 211021-15:06:57,118 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_tpms". 211021-15:06:57,136 nipype.workflow INFO: [Node] Setting-up "_std_tpms0" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms0". 211021-15:06:57,140 nipype.workflow INFO: [Node] Cached "_std_tpms0" - collecting precomputed outputs 211021-15:06:57,140 nipype.workflow INFO: [Node] "_std_tpms0" found cached. 211021-15:06:57,142 nipype.workflow INFO: [Node] Setting-up "_std_tpms1" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms1". 211021-15:06:57,146 nipype.workflow INFO: [Node] Cached "_std_tpms1" - collecting precomputed outputs 211021-15:06:57,146 nipype.workflow INFO: [Node] "_std_tpms1" found cached. 211021-15:06:57,148 nipype.workflow INFO: [Node] Setting-up "_std_tpms2" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/std_tpms/mapflow/_std_tpms2". 211021-15:06:57,151 nipype.workflow INFO: [Node] Cached "_std_tpms2" - collecting precomputed outputs 211021-15:06:57,151 nipype.workflow INFO: [Node] "_std_tpms2" found cached. 211021-15:06:57,160 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_tpms". 211021-15:08:17,103 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.std_dseg". 211021-15:08:19,200 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.outputnode" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/outputnode". 211021-15:08:19,200 nipype.workflow INFO: [Node] Outdated cache found for "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.outputnode". 211021-15:08:19,221 nipype.workflow INFO: [Node] Running "outputnode" ("nipype.interfaces.utility.base.IdentityInterface") 211021-15:08:19,231 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_norm_wf.outputnode". 211021-15:08:23,217 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_dseg" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_dseg". 211021-15:08:23,225 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_mask" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_mask". 211021-15:08:23,233 nipype.workflow INFO: [Node] Setting-up "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_t1w" in "/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_t1w". 211021-15:08:23,241 nipype.workflow INFO: [Node] Running "anat2std_dseg" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/lut_t1w_dseg/sub-003_T1w_corrected_xform_masked_pveseg_dseg.nii.gz --interpolation MultiLabel --output sub-003_T1w_corrected_xform_masked_pveseg_dseg_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:08:23,254 nipype.workflow INFO: [Node] Running "anat2std_mask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/09_relabel_wm_mask_xform.nii.gz --interpolation MultiLabel --output 09_relabel_wm_mask_xform_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:08:23,258 nipype.workflow INFO: [Node] Running "anat2std_t1w" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/brain_extraction_wf/atropos_wf/copy_xform/sub-003_T1w_corrected_xform.nii.gz --interpolation LanczosWindowedSinc --output sub-003_T1w_corrected_xform_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 211021-15:08:24,988 nipype.workflow WARNING: Storing result file without outputs 211021-15:08:24,992 nipype.workflow WARNING: [Node] Error on "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_mask" (/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_mask) 211021-15:08:25,23 nipype.workflow WARNING: Storing result file without outputs 211021-15:08:25,26 nipype.workflow WARNING: [Node] Error on "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_dseg" (/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_dseg) 211021-15:08:25,49 nipype.workflow ERROR: Node anat2std_dseg.a0 failed to run on host EBC33. 211021-15:08:25,62 nipype.workflow ERROR: Saving crash info to /EBC/home/mblesa/BIDS/fMRIprep_tentative/OUTPUT_syn/fmriprep/sub-003/log/20211021-141405_1e25f0f2-78ac-4cd7-a42a-64845dc5d3d8/crash-20211021-150825-root-anat2std_dseg.a0-44425d06-dc34-43d0-87bd-a930419fcc7a.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 428, in run runtime = self._run_interface(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/niworkflows/interfaces/fixes.py", line 42, in _run_interface runtime, correct_return_codes File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 822, in _run_interface self.raise_exception(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 753, in raise_exception ).format(**runtime.dictcopy()) RuntimeError: Command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/lut_t1w_dseg/sub-003_T1w_corrected_xform_masked_pveseg_dseg.nii.gz --interpolation MultiLabel --output sub-003_T1w_corrected_xform_masked_pveseg_dseg_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 Standard output: Standard error: Exception caught during reference file reading itk::ImageFileReaderException (0x26d2a40) Location: "unknown" File: /src/ants/build/staging/include/ITK-5.1/itkImageFileReader.hxx Line: 133 Description: Could not create IO object for reading file /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz Tried to create one of the following: BMPImageIO BioRadImageIO Bruker2dseqImageIO GDCMImageIO GE4ImageIO GE5ImageIO GiplImageIO HDF5ImageIO JPEGImageIO JPEG2000ImageIO LSMImageIO MGHImageIO MINCImageIO MRCImageIO MetaImageIO NiftiImageIO NrrdImageIO PNGImageIO StimulateImageIO TIFFImageIO VTKImageIO You probably failed to set a file suffix, or set the suffix to an unsupported type. file /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz Segmentation fault (core dumped) Return code: 139 211021-15:08:25,109 nipype.workflow CRITICAL: fMRIPrep failed: 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 428, in run runtime = self._run_interface(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/niworkflows/interfaces/fixes.py", line 42, in _run_interface runtime, correct_return_codes File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 822, in _run_interface self.raise_exception(runtime) File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/base/core.py", line 753, in raise_exception ).format(**runtime.dictcopy()) RuntimeError: Command: antsApplyTransforms --default-value 0 --float 0 --input /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/lut_t1w_dseg/sub-003_T1w_corrected_xform_masked_pveseg_dseg.nii.gz --interpolation MultiLabel --output sub-003_T1w_corrected_xform_masked_pveseg_dseg_trans.nii.gz --reference-image /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz --transform /EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_norm_wf/_template_MNI152NLin2009cAsym/registration/ants_t1_to_mniComposite.h5 Standard output: Standard error: Exception caught during reference file reading itk::ImageFileReaderException (0x26d2a40) Location: "unknown" File: /src/ants/build/staging/include/ITK-5.1/itkImageFileReader.hxx Line: 133 Description: Could not create IO object for reading file /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz Tried to create one of the following: BMPImageIO BioRadImageIO Bruker2dseqImageIO GDCMImageIO GE4ImageIO GE5ImageIO GiplImageIO HDF5ImageIO JPEGImageIO JPEG2000ImageIO LSMImageIO MGHImageIO MINCImageIO MRCImageIO MetaImageIO NiftiImageIO NrrdImageIO PNGImageIO StimulateImageIO TIFFImageIO VTKImageIO You probably failed to set a file suffix, or set the suffix to an unsupported type. file /root/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_T1w.nii.gz Segmentation fault (core dumped) Return code: 139 211021-15:08:25,180 nipype.workflow WARNING: Storing result file without outputs 211021-15:08:25,184 nipype.workflow WARNING: [Node] Error on "fmriprep_wf.single_subject_003_wf.anat_preproc_wf.anat_derivatives_wf.anat2std_t1w" (/EBC/home/mblesa/BIDS/fmriprep_wf/single_subject_003_wf/anat_preproc_wf/anat_derivatives_wf/_in_tuple_MNI152NLin2009cAsym.res2/anat2std_t1w) 211021-15:08:26,152 cli ERROR: Preprocessing did not finish successfully. Errors occurred while processing data from participants: 003 (1). Check the HTML reports for details. 211021-15:10:30,302 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar1_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr". 211021-15:10:44,807 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_sesame_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr". 211021-15:10:58,234 nipype.workflow INFO: [Node] Finished "fmriprep_wf.single_subject_003_wf.func_preproc_task_pixar2_wf.bold_reg_wf.fsl_bbr_wf.flt_bbr".