ASLprep#
Author: Steffen Bollmann
Date: 17 Oct 2024
Citation and Resources#
Tools included in this workflow#
ASLPrep:
Adebimpe, A., Bertolero, M., Dolui, S. et al. ASLPrep: a platform for processing of arterial spin labeled MRI and quantification of regional brain perfusion. Nat Methods 19, 683–686 (2022). https://doi.org/10.1038/s41592-022-01458-7
FreeSurfer:
Fischl B. (2012). FreeSurfer. NeuroImage, 62(2), 774–781. https://doi.org/10.1016/j.neuroimage.2012.01.021
Dataset#
Opensource Data from OpenNeuro:
Alvaro Galiano and Reyes Garcia de Eulate and Marta Vidorreta and Miriam Recio and Mario Riverol and José L. Zubieta and Maria A. Fernandez-Seara PhD (2021). Resting State Perfusion in Healthy Aging. OpenNeuro Dataset ds000240.doi: 10.18112/openneuro.ds000240.v2.0.0
Run aslprep#
# load fmriprep
import module
import os
await module.load('aslprep/0.7.2')
await module.list()
['aslprep/0.7.2']
# Request a freesurfer license and store it in your homedirectory. This is just an example - please replace with your license id:
!echo "Steffen.Bollmann@cai.uq.edu.au" > ~/.license
!echo "21029" >> ~/.license
!echo "*Cqyn12sqTCxo" >> ~/.license
!echo "FSxgcvGkNR59Y" >> ~/.license
# download data using datalad
!datalad install https://github.com/OpenNeuroDatasets/ds000240.git
!cd ds000240 && datalad get sub-01
Cloning: 0%| | 0.00/2.00 [00:00<?, ? candidates/s]
Enumerating: 0.00 Objects [00:00, ? Objects/s]
Counting: 0%| | 0.00/1.20k [00:00<?, ? Objects/s]
Compressing: 0%| | 0.00/883 [00:00<?, ? Objects/s]
Receiving: 0%| | 0.00/2.39k [00:00<?, ? Objects/s]
Resolving: 0%| | 0.00/256 [00:00<?, ? Deltas/s]
[INFO ] scanning for unlocked files (this may take some time)
[INFO ] Remote origin not usable by git-annex; setting annex-ignore
[INFO ] access to 1 dataset sibling s3-PRIVATE not auto-enabled, enable with:
| datalad siblings -d "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/ds000240" enable -s s3-PRIVATE
install(ok): /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/ds000240 (dataset)
Total: 0%| | 0.00/18.0M [00:00<?, ? Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 0%| | 0.00/9.52M [00:00<?, ? Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 1%| | 68.2k/9.52M [00:00<00:26, 354k Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 2%| | 207k/9.52M [00:00<00:16, 575k Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 5%|▏ | 451k/9.52M [00:00<00:07, 1.14M Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 9%|▎ | 886k/9.52M [00:00<00:04, 2.11M Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 16%|▍ | 1.55M/9.52M [00:00<00:02, 2.80M Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 33%|▉ | 3.14M/9.52M [00:00<00:01, 6.18M Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 78%|██▎| 7.40M/9.52M [00:01<00:00, 12.6M Bytes/s]
Get sub-01/a .. 1_T1w.nii.gz: 99%|██▉| 9.42M/9.52M [00:01<00:00, 14.3M Bytes/s]
Total: 53%|█████████████▊ | 9.52M/18.0M [00:01<00:01, 5.24M Bytes/s]
Get sub-01/p .. 1_asl.nii.gz: 0%| | 0.00/8.48M [00:00<?, ? Bytes/s]
Get sub-01/p .. 1_asl.nii.gz: 26%|▊ | 2.22M/8.48M [00:00<00:00, 18.7M Bytes/s]
Get sub-01/p .. 1_asl.nii.gz: 51%|█▌ | 4.31M/8.48M [00:00<00:00, 14.5M Bytes/s]
Get sub-01/p .. 1_asl.nii.gz: 89%|██▋| 7.55M/8.48M [00:00<00:00, 18.8M Bytes/s]
get(ok): sub-01/anat/sub-01_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-01/perf/sub-01_asl.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-01 (directory)
action summary:
get (ok: 3)
%%bash
# aslprep data/bids_root/ out/ participant -w work/
aslprep ds000240 \
aslprep-output \
participant \
--participant-label 01 \
--fs-license-file ~/.license \
-w aslprep-work
bids-validator@1.14.5
This dataset appears to be BIDS compatible.
Summary: Available Tasks: Available Modalities:
133 Files, 17.76MB MRI
63 - Subjects
1 - Session
If you have any questions, please post on https://neurostars.org/tags/bids.
251104-21:48:30,692 nipype.workflow IMPORTANT:
Running ASLPrep version 0.7.2
License NOTICE ##################################################
ASLPrep 0.7.2
Copyright 2023 The PennLINC Team and the NiPreps Developers.
This product is primarily developed by the PennLINC team,
but it is also a part of the NiPreps community.
This product includes software developed by
the NiPreps Community (https://nipreps.org/).
Portions of this software were developed at the Department of
Psychology at Stanford University, Stanford, CA, US.
This software is also distributed as a Docker container image.
The bootstrapping file for the image ("Dockerfile") is licensed
under the MIT License.
This software may be distributed through an add-on package called
"Docker Wrapper" that is under the BSD 3-clause License.
#################################################################
251104-21:48:32,853 nipype.workflow IMPORTANT:
Building ASLPrep's workflow:
* BIDS dataset path: /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/ds000240.
* Participant list: ['01'].
* Run identifier: 20251104-214447_4c00b167-7b00-4e37-aedd-23d5228f28d4.
* Output spaces: MNI152NLin2009cAsym:res-native.
* Pre-run FreeSurfer's SUBJECTS_DIR: /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer.
251104-21:48:39,3 nipype.workflow INFO:
ANAT Stage 1: Adding template workflow
251104-21:48:48,301 nipype.workflow INFO:
ANAT Stage 2: Preparing brain extraction workflow
251104-21:48:49,170 nipype.workflow INFO:
ANAT Stage 3: Preparing segmentation workflow
251104-21:48:49,271 nipype.workflow INFO:
ANAT Stage 4: Preparing normalization workflow for ['MNI152NLin2009cAsym']
251104-21:48:49,280 nipype.workflow INFO:
ANAT Stage 5: Preparing surface reconstruction workflow
251104-21:48:49,399 nipype.workflow INFO:
ANAT Stage 6: Preparing mask refinement workflow
251104-21:48:49,402 nipype.workflow INFO:
ANAT No T2w images provided - skipping Stage 7
251104-21:48:49,402 nipype.workflow INFO:
ANAT Stage 8: Creating GIFTI surfaces for ['white', 'pial', 'midthickness', 'sphere_reg', 'sphere']
251104-21:48:49,420 nipype.workflow INFO:
ANAT Stage 8: Creating GIFTI metrics for ['thickness', 'sulc']
251104-21:48:49,427 nipype.workflow INFO:
ANAT Stage 8a: Creating cortical ribbon mask
251104-21:48:49,431 nipype.workflow INFO:
ANAT Stage 9: Creating fsLR registration sphere
251104-21:48:49,435 nipype.workflow INFO:
ANAT Stage 10: MSM-Sulc disabled
251104-21:48:50,243 nipype.workflow INFO:
Collected run data for /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/ds000240/sub-01/perf/sub-01_asl.nii.gz:
aslcontext: /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/ds000240/sub-01/perf/sub-01_aslcontext.tsv
m0scan: null
sbref: null
251104-21:48:50,267 nipype.workflow INFO:
No single-band-reference found for sub-01_asl.nii.gz.
251104-21:48:51,348 nipype.workflow INFO:
Stage 1: Adding HMC aslref workflow
251104-21:48:51,451 nipype.workflow INFO:
Stage 2: Adding motion correction workflow
251104-21:48:51,457 nipype.workflow INFO:
Stage 3: Adding coregistration aslref workflow
251104-21:49:06,94 nipype.workflow INFO:
ASLPrep workflow graph with 414 nodes built successfully.
251104-21:49:41,809 nipype.workflow IMPORTANT:
ASLPrep started!
251104-21:50:14,598 nipype.interface WARNING:
Cannot determine world direction of phase encoding. Orientation: RAS; PE dir: None
251104-21:50:22,36 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.full_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/full_wm".
251104-21:50:22,40 nipype.workflow INFO:
[Node] Executing "full_wm" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:22,517 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.res_tmpl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/res_tmpl".
251104-21:50:22,519 nipype.workflow INFO:
[Node] Executing "res_tmpl" <niworkflows.interfaces.nibabel.RegridToZooms>
251104-21:50:22,532 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.lap_tmpl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/lap_tmpl".
251104-21:50:22,541 nipype.workflow INFO:
[Node] Executing "lap_tmpl" <nipype.interfaces.ants.utils.ImageMath>
251104-21:50:22,883 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.processing_target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/processing_target".
251104-21:50:22,885 nipype.workflow INFO:
[Node] Executing "processing_target" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,241 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_hmc_aslref_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/ds_hmc_aslref_wf/raw_sources".
251104-21:50:23,257 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,267 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000598s.
251104-21:50:23,269 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_hmc_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/ds_hmc_wf/raw_sources".
251104-21:50:23,277 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,278 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000418s.
251104-21:50:23,280 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.processing_target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/processing_target".
251104-21:50:23,285 nipype.workflow INFO:
[Node] Executing "processing_target" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,396 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/raw_sources".
251104-21:50:23,405 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,413 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.parcellate_cbf_wf.atlas_name_grabber" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_name_grabber".
251104-21:50:23,414 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000527s.
251104-21:50:23,444 nipype.workflow INFO:
[Node] Executing "atlas_name_grabber" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:23,470 nipype.workflow INFO:
[Node] Finished "atlas_name_grabber", elapsed time 0.000522s.
251104-21:50:23,814 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.hmc_aslref_wf.val_asl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/hmc_aslref_wf/val_asl".
251104-21:50:23,822 nipype.workflow INFO:
[Node] Executing "val_asl" <niworkflows.interfaces.header.ValidateImage>
251104-21:50:23,867 nipype.workflow INFO:
[Node] Finished "processing_target", elapsed time 0.973506s.
251104-21:50:23,898 nipype.workflow INFO:
[Node] Finished "val_asl", elapsed time 0.072684s.
251104-21:50:23,936 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.validate_asl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/validate_asl".
251104-21:50:23,937 nipype.workflow INFO:
[Node] Executing "validate_asl" <niworkflows.interfaces.header.ValidateImage>
251104-21:50:24,1 nipype.workflow INFO:
[Node] Finished "processing_target", elapsed time 0.71038s.
251104-21:50:24,9 nipype.workflow INFO:
[Node] Finished "validate_asl", elapsed time 0.068928s.
251104-21:50:24,181 nipype.workflow INFO:
[Node] Finished "full_wm", elapsed time 2.137217s.
251104-21:50:26,144 nipype.workflow INFO:
[Node] Finished "res_tmpl", elapsed time 3.603952s.
251104-21:50:26,214 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber0".
251104-21:50:26,215 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber1".
251104-21:50:26,215 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber2".
251104-21:50:26,216 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber0" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,216 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber3".
251104-21:50:26,217 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber1" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,217 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber4".
251104-21:50:26,218 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber2" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,218 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber5".
251104-21:50:26,218 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber3" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,219 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber4" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,220 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber6".
251104-21:50:26,220 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber5" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,222 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber6" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,223 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber4", elapsed time 0.002722s.
251104-21:50:26,223 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber1", elapsed time 0.006076s.
251104-21:50:26,224 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber2", elapsed time 0.005026s.
251104-21:50:26,224 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber3", elapsed time 0.004817s.
251104-21:50:26,224 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber5", elapsed time 0.003281s.
251104-21:50:26,225 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber6", elapsed time 0.002703s.
251104-21:50:26,226 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber7".
251104-21:50:26,226 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber8".
251104-21:50:26,226 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber9".
251104-21:50:26,227 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber7" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,227 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber9" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,228 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber8" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,229 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber7", elapsed time 0.000988s.
251104-21:50:26,229 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber9", elapsed time 0.001032s.
251104-21:50:26,229 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber10".
251104-21:50:26,231 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber10" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,231 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber0", elapsed time 0.009607s.
251104-21:50:26,231 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber11".
251104-21:50:26,233 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber11" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,233 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber12".
251104-21:50:26,234 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber13".
251104-21:50:26,235 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber8", elapsed time 0.006195s.
251104-21:50:26,235 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber12" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,235 nipype.workflow INFO:
[Node] Executing "_atlas_file_grabber13" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:26,241 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber13", elapsed time 0.005119s.
251104-21:50:26,241 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber10", elapsed time 0.009524s.
251104-21:50:26,241 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber11", elapsed time 0.007534s.
251104-21:50:26,241 nipype.workflow INFO:
[Node] Finished "_atlas_file_grabber12", elapsed time 0.005424s.
251104-21:50:28,387 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber0".
251104-21:50:28,393 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber0" - collecting precomputed outputs
251104-21:50:28,394 nipype.workflow INFO:
[Node] "_atlas_file_grabber0" found cached.
251104-21:50:28,394 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber1".
251104-21:50:28,395 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber1" - collecting precomputed outputs
251104-21:50:28,395 nipype.workflow INFO:
[Node] "_atlas_file_grabber1" found cached.
251104-21:50:28,396 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber2".
251104-21:50:28,397 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber2" - collecting precomputed outputs
251104-21:50:28,397 nipype.workflow INFO:
[Node] "_atlas_file_grabber2" found cached.
251104-21:50:28,397 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber3".
251104-21:50:28,398 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber3" - collecting precomputed outputs
251104-21:50:28,398 nipype.workflow INFO:
[Node] "_atlas_file_grabber3" found cached.
251104-21:50:28,399 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber4".
251104-21:50:28,399 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber4" - collecting precomputed outputs
251104-21:50:28,399 nipype.workflow INFO:
[Node] "_atlas_file_grabber4" found cached.
251104-21:50:28,400 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber5".
251104-21:50:28,400 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber5" - collecting precomputed outputs
251104-21:50:28,400 nipype.workflow INFO:
[Node] "_atlas_file_grabber5" found cached.
251104-21:50:28,401 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber6".
251104-21:50:28,402 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber6" - collecting precomputed outputs
251104-21:50:28,402 nipype.workflow INFO:
[Node] "_atlas_file_grabber6" found cached.
251104-21:50:28,402 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber7".
251104-21:50:28,403 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber7" - collecting precomputed outputs
251104-21:50:28,403 nipype.workflow INFO:
[Node] "_atlas_file_grabber7" found cached.
251104-21:50:28,404 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber8".
251104-21:50:28,404 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber8" - collecting precomputed outputs
251104-21:50:28,404 nipype.workflow INFO:
[Node] "_atlas_file_grabber8" found cached.
251104-21:50:28,405 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber9".
251104-21:50:28,405 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber9" - collecting precomputed outputs
251104-21:50:28,405 nipype.workflow INFO:
[Node] "_atlas_file_grabber9" found cached.
251104-21:50:28,406 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber10".
251104-21:50:28,407 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber10" - collecting precomputed outputs
251104-21:50:28,407 nipype.workflow INFO:
[Node] "_atlas_file_grabber10" found cached.
251104-21:50:28,407 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber11".
251104-21:50:28,408 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber11" - collecting precomputed outputs
251104-21:50:28,408 nipype.workflow INFO:
[Node] "_atlas_file_grabber11" found cached.
251104-21:50:28,409 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber12".
251104-21:50:28,409 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber12" - collecting precomputed outputs
251104-21:50:28,409 nipype.workflow INFO:
[Node] "_atlas_file_grabber12" found cached.
251104-21:50:28,410 nipype.workflow INFO:
[Node] Setting-up "_atlas_file_grabber13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_file_grabber/mapflow/_atlas_file_grabber13".
251104-21:50:28,410 nipype.workflow INFO:
[Node] Cached "_atlas_file_grabber13" - collecting precomputed outputs
251104-21:50:28,410 nipype.workflow INFO:
[Node] "_atlas_file_grabber13" found cached.
251104-21:50:28,877 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.bidssrc" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/bidssrc".
251104-21:50:28,878 nipype.workflow INFO:
[Node] Executing "bidssrc" <aslprep.interfaces.bids.BIDSDataGrabber>
251104-21:50:28,881 nipype.interface INFO:
No "t2w" images found for sub-01
251104-21:50:28,881 nipype.interface INFO:
No "flair" images found for sub-01
251104-21:50:28,881 nipype.interface INFO:
No "fmap" images found for sub-01
251104-21:50:28,881 nipype.interface INFO:
No "sbref" images found for sub-01
251104-21:50:28,881 nipype.interface INFO:
No "roi" images found for sub-01
251104-21:50:28,882 nipype.workflow INFO:
[Node] Finished "bidssrc", elapsed time 0.000822s.
251104-21:50:29,983 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.hmc_aslref_wf.select_highest_contrast_volumes" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/hmc_aslref_wf/select_highest_contrast_volumes".
251104-21:50:29,998 nipype.workflow INFO:
[Node] Executing "select_highest_contrast_volumes" <aslprep.interfaces.reference.SelectHighestContrastVolumes>
251104-21:50:30,108 nipype.interface INFO:
Selecting m0scan as highest-contrast volume type for reference volume generation.
251104-21:50:30,183 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.reduce_asl_file" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/reduce_asl_file".
251104-21:50:30,195 nipype.workflow INFO:
[Node] Executing "reduce_asl_file" <aslprep.interfaces.utility.ReduceASLFiles>
251104-21:50:30,462 nipype.workflow INFO:
[Node] Finished "select_highest_contrast_volumes", elapsed time 0.463432s.
251104-21:50:30,910 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_template_wf.anat_ref_dimensions" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/anat_ref_dimensions".
251104-21:50:31,202 nipype.workflow INFO:
[Node] Finished "reduce_asl_file", elapsed time 1.002439s.
251104-21:50:31,921 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.reduce_asl_file" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/reduce_asl_file".
251104-21:50:31,935 nipype.workflow INFO:
[Node] Executing "reduce_asl_file" <aslprep.interfaces.utility.ReduceASLFiles>
251104-21:50:32,169 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities0".
251104-21:50:32,170 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities1".
251104-21:50:32,172 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities2".
251104-21:50:32,172 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities3".
251104-21:50:32,172 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities1" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,180 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities2" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,181 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities5".
251104-21:50:32,181 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities1", elapsed time 0.000847s.
251104-21:50:32,181 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities3" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,181 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities6".
251104-21:50:32,188 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities8".
251104-21:50:32,188 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities7".
251104-21:50:32,189 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities4".
251104-21:50:32,189 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities2", elapsed time 0.007627s.
251104-21:50:32,190 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities3", elapsed time 0.001256s.
251104-21:50:32,190 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities5" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,190 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities8" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,190 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities9".
251104-21:50:32,191 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities7" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,191 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities0" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,191 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities6" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,198 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities4" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,198 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.hmc_aslref_wf.gen_avg" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/hmc_aslref_wf/gen_avg".
251104-21:50:32,199 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities10".
251104-21:50:32,199 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities9" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,199 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities5", elapsed time 0.007916s.
251104-21:50:32,200 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities4", elapsed time 0.000959s.
251104-21:50:32,201 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities6", elapsed time 0.00085s.
251104-21:50:32,201 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities10" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,201 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities9", elapsed time 0.001178s.
251104-21:50:32,202 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities8", elapsed time 0.001211s.
251104-21:50:32,203 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities10", elapsed time 0.000863s.
251104-21:50:32,203 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities7", elapsed time 0.001294s.
251104-21:50:32,203 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities0", elapsed time 0.001129s.
251104-21:50:32,204 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities11".
251104-21:50:32,206 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities11" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,207 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities12".
251104-21:50:32,207 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities11", elapsed time 0.000794s.
251104-21:50:32,208 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities13".
251104-21:50:32,208 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities12" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,210 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities12", elapsed time 0.000796s.
251104-21:50:32,210 nipype.workflow INFO:
[Node] Executing "_get_atlas_entities13" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:32,212 nipype.workflow INFO:
[Node] Finished "_get_atlas_entities13", elapsed time 0.001179s.
251104-21:50:32,751 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.bids_info" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/bids_info".
251104-21:50:32,755 nipype.workflow INFO:
[Node] Finished "reduce_asl_file", elapsed time 0.818047s.
251104-21:50:34,295 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities0".
251104-21:50:34,296 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities0" - collecting precomputed outputs
251104-21:50:34,297 nipype.workflow INFO:
[Node] "_get_atlas_entities0" found cached.
251104-21:50:34,297 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities1".
251104-21:50:34,298 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities1" - collecting precomputed outputs
251104-21:50:34,298 nipype.workflow INFO:
[Node] "_get_atlas_entities1" found cached.
251104-21:50:34,299 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities2".
251104-21:50:34,305 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities2" - collecting precomputed outputs
251104-21:50:34,305 nipype.workflow INFO:
[Node] "_get_atlas_entities2" found cached.
251104-21:50:34,306 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities3".
251104-21:50:34,306 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities3" - collecting precomputed outputs
251104-21:50:34,306 nipype.workflow INFO:
[Node] "_get_atlas_entities3" found cached.
251104-21:50:34,307 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities4".
251104-21:50:34,308 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities4" - collecting precomputed outputs
251104-21:50:34,308 nipype.workflow INFO:
[Node] "_get_atlas_entities4" found cached.
251104-21:50:34,309 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities5".
251104-21:50:34,310 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities5" - collecting precomputed outputs
251104-21:50:34,310 nipype.workflow INFO:
[Node] "_get_atlas_entities5" found cached.
251104-21:50:34,311 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities6".
251104-21:50:34,317 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities6" - collecting precomputed outputs
251104-21:50:34,317 nipype.workflow INFO:
[Node] "_get_atlas_entities6" found cached.
251104-21:50:34,318 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities7".
251104-21:50:34,318 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities7" - collecting precomputed outputs
251104-21:50:34,318 nipype.workflow INFO:
[Node] "_get_atlas_entities7" found cached.
251104-21:50:34,319 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities8".
251104-21:50:34,320 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities8" - collecting precomputed outputs
251104-21:50:34,320 nipype.workflow INFO:
[Node] "_get_atlas_entities8" found cached.
251104-21:50:34,321 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities9".
251104-21:50:34,322 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities9" - collecting precomputed outputs
251104-21:50:34,322 nipype.workflow INFO:
[Node] "_get_atlas_entities9" found cached.
251104-21:50:34,323 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities10".
251104-21:50:34,323 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities10" - collecting precomputed outputs
251104-21:50:34,323 nipype.workflow INFO:
[Node] "_get_atlas_entities10" found cached.
251104-21:50:34,324 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities11".
251104-21:50:34,325 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities11" - collecting precomputed outputs
251104-21:50:34,325 nipype.workflow INFO:
[Node] "_get_atlas_entities11" found cached.
251104-21:50:34,326 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities12".
251104-21:50:34,327 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities12" - collecting precomputed outputs
251104-21:50:34,327 nipype.workflow INFO:
[Node] "_get_atlas_entities12" found cached.
251104-21:50:34,328 nipype.workflow INFO:
[Node] Setting-up "_get_atlas_entities13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/get_atlas_entities/mapflow/_get_atlas_entities13".
251104-21:50:34,329 nipype.workflow INFO:
[Node] Cached "_get_atlas_entities13" - collecting precomputed outputs
251104-21:50:34,329 nipype.workflow INFO:
[Node] "_get_atlas_entities13" found cached.
251104-21:50:35,328 nipype.workflow INFO:
[Node] Executing "anat_ref_dimensions" <niworkflows.interfaces.images.TemplateDimensions>
251104-21:50:35,703 nipype.workflow INFO:
[Node] Finished "anat_ref_dimensions", elapsed time 0.374518s.
251104-21:50:35,757 nipype.workflow INFO:
[Node] Executing "bids_info" <niworkflows.interfaces.bids.BIDSInfo>
251104-21:50:35,760 nipype.workflow INFO:
[Node] Finished "bids_info", elapsed time 0.00233s.
251104-21:50:36,536 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.fs_isrunning" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fs_isrunning".
251104-21:50:36,536 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.ds_t1w_mask_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/ds_t1w_mask_wf/raw_sources".
251104-21:50:36,536 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.ds_ribbon_mask_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/ds_ribbon_mask_wf/raw_sources".
251104-21:50:36,628 nipype.workflow INFO:
[Node] Setting-up "_denoise0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/denoise/mapflow/_denoise0".
251104-21:50:36,629 nipype.workflow INFO:
[Node] Executing "_denoise0" <nipype.interfaces.ants.segmentation.DenoiseImage>
251104-21:50:37,45 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:37,46 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000457s.
251104-21:50:37,175 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.split_by_volume_type" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/split_by_volume_type".
251104-21:50:37,177 nipype.workflow INFO:
[Node] Executing "split_by_volume_type" <aslprep.interfaces.utility.SplitByVolumeType>
251104-21:50:37,204 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:37,205 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000555s.
251104-21:50:37,463 nipype.workflow INFO:
[Node] Finished "lap_tmpl", elapsed time 13.59798s.
251104-21:50:37,492 nipype.workflow INFO:
[Node] Executing "gen_avg" <niworkflows.interfaces.images.RobustAverage>
251104-21:50:38,233 nipype.interface INFO:
stderr 2025-11-04T21:50:38.233702:++ 3dvolreg: AFNI version=AFNI_24.1.08 (May 2 2024) [64-bit]
251104-21:50:38,241 nipype.interface INFO:
stderr 2025-11-04T21:50:38.233702:++ Authored by: RW Cox
251104-21:50:38,243 nipype.interface INFO:
stderr 2025-11-04T21:50:38.243071:** AFNI converts NIFTI_datatype=4 (INT16) in file /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/hmc_aslref_wf/gen_avg/sub-01_asl_contrast_sliced.nii.gz to FLOAT32
251104-21:50:38,244 nipype.interface INFO:
stderr 2025-11-04T21:50:38.243071: Warnings of this type will be muted for this session.
251104-21:50:38,245 nipype.interface INFO:
stderr 2025-11-04T21:50:38.243071: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
251104-21:50:38,273 nipype.interface INFO:
stderr 2025-11-04T21:50:38.273756:++ Coarse del was 10, replaced with 2
251104-21:50:38,323 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.mrg_tmpl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/mrg_tmpl".
251104-21:50:38,713 nipype.workflow INFO:
[Node] Finished "split_by_volume_type", elapsed time 1.534708s.
251104-21:50:38,901 nipype.workflow INFO:
[Node] Executing "mrg_tmpl" <nipype.interfaces.utility.base.Merge>
251104-21:50:38,902 nipype.workflow INFO:
[Node] Finished "mrg_tmpl", elapsed time 0.000215s.
251104-21:50:39,159 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S1056Parcels/space-MNI152NLin6Asym_atlas-4S1056Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:39,480 nipype.workflow INFO:
[Node] Executing "fs_isrunning" <nipype.interfaces.utility.wrappers.Function>
251104-21:50:39,481 nipype.workflow INFO:
[Node] Finished "fs_isrunning", elapsed time 0.000505s.
251104-21:50:40,727 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S156Parcels/space-MNI152NLin6Asym_atlas-4S156Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:42,143 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S256Parcels/space-MNI152NLin6Asym_atlas-4S256Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:42,677 nipype.interface INFO:
stderr 2025-11-04T21:50:42.677433:++ Max displacement in automask = 0.96 (mm) at sub-brick 3
251104-21:50:42,677 nipype.interface INFO:
stderr 2025-11-04T21:50:42.677433:++ Max delta displ in automask = 0.93 (mm) at sub-brick 3
251104-21:50:43,101 nipype.workflow INFO:
[Node] Finished "gen_avg", elapsed time 5.607441s.
251104-21:50:43,527 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S356Parcels/space-MNI152NLin6Asym_atlas-4S356Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:44,909 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S456Parcels/space-MNI152NLin6Asym_atlas-4S456Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:46,285 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S556Parcels/space-MNI152NLin6Asym_atlas-4S556Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:47,674 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S656Parcels/space-MNI152NLin6Asym_atlas-4S656Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:49,39 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S756Parcels/space-MNI152NLin6Asym_atlas-4S756Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:50,395 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S856Parcels/space-MNI152NLin6Asym_atlas-4S856Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:51,734 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S956Parcels/space-MNI152NLin6Asym_atlas-4S956Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:50:52,929 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Glasser/space-MNI152NLin6Asym_atlas-Glasser_res-01_dseg.nii.gz dtype from float32 to int16
251104-21:50:54,468 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Gordon/space-MNI152NLin6Asym_atlas-Gordon_res-01_dseg.nii.gz dtype from float32 to int16
251104-21:50:56,1 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-HCP/space-MNI152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz dtype from float32 to int16
251104-21:50:56,440 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Tian/space-MNI152NLin6Asym_atlas-Tian_res-02_dseg.nii.gz dtype from float32 to int16
251104-21:51:04,778 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.fmapref_buffer" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/fmapref_buffer".
251104-21:51:04,795 nipype.workflow INFO:
[Node] Executing "fmapref_buffer" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:04,797 nipype.workflow INFO:
[Node] Finished "fmapref_buffer", elapsed time 0.000809s.
251104-21:51:05,32 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S1056Parcels/space-MNI152NLin6Asym_atlas-4S1056Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:05,846 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S156Parcels/space-MNI152NLin6Asym_atlas-4S156Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:06,677 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S256Parcels/space-MNI152NLin6Asym_atlas-4S256Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:07,496 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S356Parcels/space-MNI152NLin6Asym_atlas-4S356Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:08,317 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S456Parcels/space-MNI152NLin6Asym_atlas-4S456Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:09,153 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S556Parcels/space-MNI152NLin6Asym_atlas-4S556Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:09,986 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S656Parcels/space-MNI152NLin6Asym_atlas-4S656Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:10,802 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S756Parcels/space-MNI152NLin6Asym_atlas-4S756Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:11,610 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S856Parcels/space-MNI152NLin6Asym_atlas-4S856Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:12,411 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S956Parcels/space-MNI152NLin6Asym_atlas-4S956Parcels_res-01_dseg.nii.gz dtype from uint32 to int16
251104-21:51:13,238 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Glasser/space-MNI152NLin6Asym_atlas-Glasser_res-01_dseg.nii.gz dtype from float32 to int16
251104-21:51:14,198 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Gordon/space-MNI152NLin6Asym_atlas-Gordon_res-01_dseg.nii.gz dtype from float32 to int16
251104-21:51:15,301 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-HCP/space-MNI152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz dtype from float32 to int16
251104-21:51:15,445 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Tian/space-MNI152NLin6Asym_atlas-Tian_res-02_dseg.nii.gz dtype from float32 to int16
251104-21:51:16,525 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_coreg_aslref_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/ds_coreg_aslref_wf/raw_sources".
251104-21:51:16,525 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.init_aff" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/init_aff".
251104-21:51:16,532 nipype.workflow INFO:
[Node] Setting-up "_mcflirt0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt0".
251104-21:51:16,533 nipype.workflow INFO:
[Node] Setting-up "_mcflirt2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt2".
251104-21:51:16,540 nipype.workflow INFO:
[Node] Executing "_mcflirt0" <nipype.interfaces.fsl.preprocess.MCFLIRT>
251104-21:51:16,541 nipype.workflow INFO:
[Node] Executing "_mcflirt2" <nipype.interfaces.fsl.preprocess.MCFLIRT>
251104-21:51:16,542 nipype.workflow INFO:
[Node] Executing "init_aff" <nipype.interfaces.ants.utils.AI>
251104-21:51:16,545 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:16,560 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000492s.
251104-21:51:16,622 nipype.workflow INFO:
[Node] Setting-up "_mcflirt1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt1".
251104-21:51:16,623 nipype.workflow INFO:
[Node] Executing "_mcflirt1" <nipype.interfaces.fsl.preprocess.MCFLIRT>
251104-21:51:18,311 nipype.workflow INFO:
[Node] Finished "_mcflirt2", elapsed time 1.769496s.
251104-21:51:19,632 nipype.workflow INFO:
[Node] Finished "_denoise0", elapsed time 42.684922s.
251104-21:51:20,575 nipype.workflow INFO:
[Node] Setting-up "_anat_conform0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/anat_conform/mapflow/_anat_conform0".
251104-21:51:20,577 nipype.workflow INFO:
[Node] Executing "_anat_conform0" <niworkflows.interfaces.images.Conform>
251104-21:51:21,941 nipype.workflow INFO:
[Node] Finished "_anat_conform0", elapsed time 1.364016s.
251104-21:51:22,557 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_template_wf.get1st" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/get1st".
251104-21:51:22,566 nipype.workflow INFO:
[Node] Executing "get1st" <nipype.interfaces.utility.base.Select>
251104-21:51:22,567 nipype.workflow INFO:
[Node] Finished "get1st", elapsed time 0.000454s.
251104-21:51:23,734 nipype.workflow INFO:
[Node] Finished "_mcflirt0", elapsed time 7.19247s.
251104-21:51:23,769 nipype.workflow INFO:
[Node] Finished "_mcflirt1", elapsed time 7.144657s.
251104-21:51:24,606 nipype.workflow INFO:
[Node] Setting-up "_mcflirt0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt0".
251104-21:51:24,609 nipype.workflow INFO:
[Node] Cached "_mcflirt0" - collecting precomputed outputs
251104-21:51:24,609 nipype.workflow INFO:
[Node] "_mcflirt0" found cached.
251104-21:51:24,610 nipype.workflow INFO:
[Node] Setting-up "_mcflirt1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt1".
251104-21:51:24,613 nipype.workflow INFO:
[Node] Cached "_mcflirt1" - collecting precomputed outputs
251104-21:51:24,613 nipype.workflow INFO:
[Node] "_mcflirt1" found cached.
251104-21:51:24,614 nipype.workflow INFO:
[Node] Setting-up "_mcflirt2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/mcflirt/mapflow/_mcflirt2".
251104-21:51:24,616 nipype.workflow INFO:
[Node] Cached "_mcflirt2" - collecting precomputed outputs
251104-21:51:24,616 nipype.workflow INFO:
[Node] "_mcflirt2" found cached.
251104-21:51:26,550 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.fov_check" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/fov_check".
251104-21:51:26,553 nipype.workflow INFO:
[Node] Setting-up "_truncate_images0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0".
251104-21:51:26,555 nipype.workflow INFO:
[Node] Executing "_truncate_images0" <nipype.interfaces.ants.utils.ImageMath>
251104-21:51:26,861 nipype.workflow INFO:
[Node] Executing "fov_check" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:27,236 nipype.workflow INFO:
[Node] Finished "fov_check", elapsed time 0.372571s.
251104-21:51:27,855 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.recon_config" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/recon_config".
251104-21:51:28,560 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files0".
251104-21:51:28,561 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files1".
251104-21:51:28,561 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files2".
251104-21:51:28,564 nipype.workflow INFO:
[Node] Executing "_listify_mat_files0" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:28,565 nipype.workflow INFO:
[Node] Executing "_listify_mat_files2" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:28,565 nipype.workflow INFO:
[Node] Executing "_listify_mat_files1" <nipype.interfaces.utility.wrappers.Function>
251104-21:51:28,565 nipype.workflow INFO:
[Node] Finished "_listify_mat_files0", elapsed time 0.000536s.
251104-21:51:28,566 nipype.workflow INFO:
[Node] Finished "_listify_mat_files2", elapsed time 0.000385s.
251104-21:51:28,566 nipype.workflow INFO:
[Node] Finished "_listify_mat_files1", elapsed time 0.000455s.
251104-21:51:30,493 nipype.workflow INFO:
[Node] Finished "_truncate_images0", elapsed time 3.9380420000000003s.
251104-21:51:30,617 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files0".
251104-21:51:30,620 nipype.workflow INFO:
[Node] Cached "_listify_mat_files0" - collecting precomputed outputs
251104-21:51:30,620 nipype.workflow INFO:
[Node] "_listify_mat_files0" found cached.
251104-21:51:30,621 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files1".
251104-21:51:30,626 nipype.workflow INFO:
[Node] Cached "_listify_mat_files1" - collecting precomputed outputs
251104-21:51:30,626 nipype.workflow INFO:
[Node] "_listify_mat_files1" found cached.
251104-21:51:30,626 nipype.workflow INFO:
[Node] Setting-up "_listify_mat_files2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/listify_mat_files/mapflow/_listify_mat_files2".
251104-21:51:30,627 nipype.workflow INFO:
[Node] Cached "_listify_mat_files2" - collecting precomputed outputs
251104-21:51:30,627 nipype.workflow INFO:
[Node] "_listify_mat_files2" found cached.
251104-21:51:30,750 nipype.workflow INFO:
[Node] Executing "recon_config" <niworkflows.interfaces.freesurfer.FSDetectInputs>
251104-21:51:30,802 nipype.workflow INFO:
[Node] Finished "recon_config", elapsed time 0.043879s.
251104-21:51:32,547 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.combine_motpars" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/combine_motpars".
251104-21:51:32,550 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon1".
251104-21:51:32,554 nipype.workflow INFO:
[Node] Setting-up "_inu_n40" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40".
251104-21:51:32,555 nipype.workflow INFO:
[Node] Executing "_inu_n40" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
251104-21:51:32,572 nipype.workflow INFO:
[Node] Executing "autorecon1" <smriprep.interfaces.freesurfer.ReconAll>
251104-21:51:32,572 nipype.workflow INFO:
[Node] Executing "combine_motpars" <aslprep.interfaces.utility.CombineMotionParameters>
251104-21:51:32,586 nipype.workflow INFO:
[Node] Finished "combine_motpars", elapsed time 0.013656s.
251104-21:51:34,812 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.fsl2itk" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/fsl2itk".
251104-21:51:34,832 nipype.workflow INFO:
[Node] Executing "fsl2itk" <niworkflows.interfaces.itk.MCFLIRT2ITK>
251104-21:51:34,832 nipype.interface WARNING:
Multithreading is deprecated. Remove the num_threads input.
251104-21:51:34,956 nipype.workflow INFO:
[Node] Finished "fsl2itk", elapsed time 0.124173s.
251104-21:51:39,532 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.normalize_motion" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/normalize_motion".
251104-21:51:39,546 nipype.workflow INFO:
[Node] Executing "normalize_motion" <aslprep.interfaces.confounds.NormalizeMotionParams>
251104-21:51:39,549 nipype.workflow INFO:
[Node] Finished "normalize_motion", elapsed time 0.001839s.
251104-21:51:39,589 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.rmsdiff" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/rmsdiff".
251104-21:51:39,620 nipype.workflow INFO:
[Node] Executing "rmsdiff" <aslprep.interfaces.utility.PairwiseRMSDiff>
251104-21:51:39,863 nipype.interface INFO:
stdout 2025-11-04T21:51:39.863109:0.0754411
251104-21:51:40,167 nipype.interface INFO:
stdout 2025-11-04T21:51:40.167370:0.0469867
251104-21:51:40,433 nipype.interface INFO:
stdout 2025-11-04T21:51:40.433657:0.268931
251104-21:51:40,674 nipype.interface INFO:
stdout 2025-11-04T21:51:40.674179:0.172064
251104-21:51:40,800 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.fdisp" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/fdisp".
251104-21:51:40,804 nipype.workflow INFO:
[Node] Executing "fdisp" <nipype.algorithms.confounds.FramewiseDisplacement>
251104-21:51:40,807 nipype.workflow INFO:
[Node] Finished "fdisp", elapsed time 0.001675s.
251104-21:51:40,895 nipype.interface INFO:
stdout 2025-11-04T21:51:40.895400:0.229626
251104-21:51:41,87 nipype.interface INFO:
stdout 2025-11-04T21:51:41.087650:0.140681
251104-21:51:41,323 nipype.interface INFO:
stdout 2025-11-04T21:51:41.323115:0.0673405
251104-21:51:41,550 nipype.interface INFO:
stdout 2025-11-04T21:51:41.550060:0.106117
251104-21:51:41,762 nipype.interface INFO:
stdout 2025-11-04T21:51:41.762331:0.165799
251104-21:51:41,996 nipype.interface INFO:
stdout 2025-11-04T21:51:41.996878:1.16299
251104-21:51:42,223 nipype.interface INFO:
stdout 2025-11-04T21:51:42.223810:1.10025
251104-21:51:42,471 nipype.interface INFO:
stdout 2025-11-04T21:51:42.471670:1.5258
251104-21:51:42,674 nipype.interface INFO:
stdout 2025-11-04T21:51:42.674758:1.52019
251104-21:51:42,882 nipype.interface INFO:
stdout 2025-11-04T21:51:42.882132:0.0856617
251104-21:51:43,77 nipype.interface INFO:
stdout 2025-11-04T21:51:43.077745:0.125501
251104-21:51:43,278 nipype.interface INFO:
stdout 2025-11-04T21:51:43.278642:0.303064
251104-21:51:43,478 nipype.interface INFO:
stdout 2025-11-04T21:51:43.478134:0.10532
251104-21:51:43,672 nipype.interface INFO:
stdout 2025-11-04T21:51:43.672894:0.0578682
251104-21:51:43,859 nipype.interface INFO:
stdout 2025-11-04T21:51:43.859323:0.0771756
251104-21:51:44,69 nipype.interface INFO:
stdout 2025-11-04T21:51:44.068985:0.0968431
251104-21:51:44,268 nipype.interface INFO:
stdout 2025-11-04T21:51:44.268591:0.0749764
251104-21:51:44,470 nipype.interface INFO:
stdout 2025-11-04T21:51:44.470075:0.048651
251104-21:51:44,673 nipype.interface INFO:
stdout 2025-11-04T21:51:44.673841:0.0681753
251104-21:51:44,887 nipype.interface INFO:
stdout 2025-11-04T21:51:44.887783:0.0518362
251104-21:51:45,87 nipype.interface INFO:
stdout 2025-11-04T21:51:45.087186:0.0319023
251104-21:51:45,290 nipype.interface INFO:
stdout 2025-11-04T21:51:45.290001:0.276493
251104-21:51:45,520 nipype.interface INFO:
stdout 2025-11-04T21:51:45.520141:0.141813
251104-21:51:45,727 nipype.interface INFO:
stdout 2025-11-04T21:51:45.727492:0.0882906
251104-21:51:45,916 nipype.interface INFO:
stdout 2025-11-04T21:51:45.916917:0.0525946
251104-21:51:46,113 nipype.interface INFO:
stdout 2025-11-04T21:51:46.113746:0.0251858
251104-21:51:46,320 nipype.interface INFO:
stdout 2025-11-04T21:51:46.320062:0.0809531
251104-21:51:46,505 nipype.interface INFO:
stdout 2025-11-04T21:51:46.505351:0.0723936
251104-21:51:46,688 nipype.interface INFO:
stdout 2025-11-04T21:51:46.688577:0.085268
251104-21:51:46,873 nipype.interface INFO:
stdout 2025-11-04T21:51:46.873805:0.0905847
251104-21:51:47,104 nipype.interface INFO:
stdout 2025-11-04T21:51:47.104517:0.0575284
251104-21:51:47,295 nipype.interface INFO:
stdout 2025-11-04T21:51:47.295853:0.0871247
251104-21:51:47,481 nipype.interface INFO:
stdout 2025-11-04T21:51:47.481736:0.209896
251104-21:51:47,670 nipype.interface INFO:
stdout 2025-11-04T21:51:47.670932:0.192506
251104-21:51:47,853 nipype.interface INFO:
stdout 2025-11-04T21:51:47.853332:0.0644833
251104-21:51:48,52 nipype.interface INFO:
stdout 2025-11-04T21:51:48.052050:0.0497486
251104-21:51:48,232 nipype.interface INFO:
stdout 2025-11-04T21:51:48.232264:0.0218686
251104-21:51:48,417 nipype.interface INFO:
stdout 2025-11-04T21:51:48.417083:0.0492257
251104-21:51:48,616 nipype.interface INFO:
stdout 2025-11-04T21:51:48.616632:0.0775428
251104-21:51:48,805 nipype.interface INFO:
stdout 2025-11-04T21:51:48.805304:0.298626
251104-21:51:49,42 nipype.interface INFO:
stdout 2025-11-04T21:51:49.042193:0.278837
251104-21:51:49,234 nipype.interface INFO:
stdout 2025-11-04T21:51:49.234595:0.0498628
251104-21:51:49,410 nipype.interface INFO:
stdout 2025-11-04T21:51:49.410960:0.0647269
251104-21:51:49,583 nipype.interface INFO:
stdout 2025-11-04T21:51:49.583254:0.0989051
251104-21:51:49,782 nipype.interface INFO:
stdout 2025-11-04T21:51:49.782874:0.0821868
251104-21:51:49,969 nipype.interface INFO:
stdout 2025-11-04T21:51:49.968978:0.0826831
251104-21:51:50,144 nipype.interface INFO:
stdout 2025-11-04T21:51:50.144502:0.089464
251104-21:51:50,350 nipype.interface INFO:
stdout 2025-11-04T21:51:50.350769:0.0412687
251104-21:51:50,544 nipype.interface INFO:
stdout 2025-11-04T21:51:50.544085:0.185584
251104-21:51:50,733 nipype.interface INFO:
stdout 2025-11-04T21:51:50.733180:0.170749
251104-21:51:50,910 nipype.interface INFO:
stdout 2025-11-04T21:51:50.910314:0.149975
251104-21:51:51,88 nipype.interface INFO:
stdout 2025-11-04T21:51:51.088914:0.0924617
251104-21:51:51,273 nipype.interface INFO:
stdout 2025-11-04T21:51:51.273812:0.216905
251104-21:51:51,453 nipype.interface INFO:
stdout 2025-11-04T21:51:51.453868:0.0928228
251104-21:51:51,639 nipype.interface INFO:
stdout 2025-11-04T21:51:51.639172:0.0413924
251104-21:51:51,827 nipype.interface INFO:
stdout 2025-11-04T21:51:51.827008:0.10436
251104-21:51:52,38 nipype.interface INFO:
stdout 2025-11-04T21:51:52.038197:0.0289767
251104-21:51:52,230 nipype.interface INFO:
stdout 2025-11-04T21:51:52.230046:0.0898213
251104-21:51:52,431 nipype.interface INFO:
stdout 2025-11-04T21:51:52.431706:0.0515129
251104-21:51:52,465 nipype.workflow INFO:
[Node] Finished "_inu_n40", elapsed time 19.514254s.
251104-21:51:52,656 nipype.interface INFO:
stdout 2025-11-04T21:51:52.656409:0.175913
251104-21:51:52,853 nipype.interface INFO:
stdout 2025-11-04T21:51:52.852972:0.298548
251104-21:51:53,25 nipype.interface INFO:
stdout 2025-11-04T21:51:53.025370:0.462496
251104-21:51:53,201 nipype.interface INFO:
stdout 2025-11-04T21:51:53.201260:0.270213
251104-21:51:53,370 nipype.interface INFO:
stdout 2025-11-04T21:51:53.370495:0.0738641
251104-21:51:53,548 nipype.interface INFO:
stdout 2025-11-04T21:51:53.548302:0.0698636
251104-21:51:53,719 nipype.interface INFO:
stdout 2025-11-04T21:51:53.719082:0.168754
251104-21:51:53,897 nipype.interface INFO:
stdout 2025-11-04T21:51:53.896967:0.16513
251104-21:51:54,65 nipype.interface INFO:
stdout 2025-11-04T21:51:54.065888:0.0851289
251104-21:51:54,240 nipype.interface INFO:
stdout 2025-11-04T21:51:54.239952:0.0468945
251104-21:51:54,413 nipype.interface INFO:
stdout 2025-11-04T21:51:54.413768:0.166127
251104-21:51:54,556 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.res_target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/res_target".
251104-21:51:54,586 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.lap_target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/lap_target".
251104-21:51:54,589 nipype.workflow INFO:
[Node] Executing "lap_target" <nipype.interfaces.ants.utils.ImageMath>
251104-21:51:54,590 nipype.workflow INFO:
[Node] Executing "res_target" <niworkflows.interfaces.nibabel.RegridToZooms>
251104-21:51:54,599 nipype.interface INFO:
stdout 2025-11-04T21:51:54.599142:0.16282
251104-21:51:54,801 nipype.interface INFO:
stdout 2025-11-04T21:51:54.801549:0.0952082
251104-21:51:54,990 nipype.interface INFO:
stdout 2025-11-04T21:51:54.990714:0.356642
251104-21:51:55,166 nipype.interface INFO:
stdout 2025-11-04T21:51:55.166928:0.19418
251104-21:51:55,343 nipype.interface INFO:
stdout 2025-11-04T21:51:55.343036:0.126888
251104-21:51:55,515 nipype.workflow INFO:
[Node] Finished "res_target", elapsed time 0.924617s.
251104-21:51:55,522 nipype.interface INFO:
stdout 2025-11-04T21:51:55.522505:0.0771863
251104-21:51:55,697 nipype.interface INFO:
stdout 2025-11-04T21:51:55.697607:0.0950141
251104-21:51:55,879 nipype.interface INFO:
stdout 2025-11-04T21:51:55.879548:0.142077
251104-21:51:56,57 nipype.interface INFO:
stdout 2025-11-04T21:51:56.057048:0.099221
251104-21:51:56,238 nipype.interface INFO:
stdout 2025-11-04T21:51:56.238232:0.0350795
251104-21:51:56,417 nipype.interface INFO:
stdout 2025-11-04T21:51:56.417883:0.186767
251104-21:51:56,583 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.init_aff" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/init_aff".
251104-21:51:56,590 nipype.workflow INFO:
[Node] Executing "init_aff" <nipype.interfaces.ants.utils.AI>
251104-21:51:56,598 nipype.interface INFO:
stdout 2025-11-04T21:51:56.598425:0.159825
251104-21:51:56,781 nipype.interface INFO:
stdout 2025-11-04T21:51:56.781096:0.121566
251104-21:51:56,963 nipype.interface INFO:
stdout 2025-11-04T21:51:56.963856:0.189876
251104-21:51:57,154 nipype.interface INFO:
stdout 2025-11-04T21:51:57.154639:0.0706398
251104-21:51:57,348 nipype.interface INFO:
stdout 2025-11-04T21:51:57.348370:0.0882779
251104-21:51:57,536 nipype.interface INFO:
stdout 2025-11-04T21:51:57.536023:0.171304
251104-21:51:57,745 nipype.interface INFO:
stdout 2025-11-04T21:51:57.745251:0.173009
251104-21:51:57,968 nipype.interface INFO:
stdout 2025-11-04T21:51:57.968184:0.120357
251104-21:51:58,159 nipype.interface INFO:
stdout 2025-11-04T21:51:58.159809:0.0658371
251104-21:51:58,345 nipype.interface INFO:
stdout 2025-11-04T21:51:58.344988:0.121672
251104-21:51:58,579 nipype.interface INFO:
stdout 2025-11-04T21:51:58.579078:0.106815
251104-21:51:58,770 nipype.interface INFO:
stdout 2025-11-04T21:51:58.770770:0.0278532
251104-21:51:58,957 nipype.interface INFO:
stdout 2025-11-04T21:51:58.957262:0.0698339
251104-21:51:59,141 nipype.interface INFO:
stdout 2025-11-04T21:51:59.141082:0.0624019
251104-21:51:59,342 nipype.interface INFO:
stdout 2025-11-04T21:51:59.342358:0.0846316
251104-21:51:59,540 nipype.interface INFO:
stdout 2025-11-04T21:51:59.540253:0.0567651
251104-21:51:59,729 nipype.interface INFO:
stdout 2025-11-04T21:51:59.729296:0.0564219
251104-21:51:59,918 nipype.interface INFO:
stdout 2025-11-04T21:51:59.918297:0.210797
251104-21:52:00,115 nipype.interface INFO:
stdout 2025-11-04T21:52:00.115290:0.107237
251104-21:52:00,305 nipype.interface INFO:
stdout 2025-11-04T21:52:00.305392:0.111563
251104-21:52:00,494 nipype.interface INFO:
stdout 2025-11-04T21:52:00.494595:0.260858
251104-21:52:00,680 nipype.interface INFO:
stdout 2025-11-04T21:52:00.680494:0.18313
251104-21:52:00,872 nipype.interface INFO:
stdout 2025-11-04T21:52:00.872343:0.158311
251104-21:52:01,60 nipype.interface INFO:
stdout 2025-11-04T21:52:01.060429:0.0605256
251104-21:52:01,70 nipype.workflow INFO:
[Node] Finished "lap_target", elapsed time 6.241026s.
251104-21:52:01,230 nipype.workflow INFO:
[Node] Finished "rmsdiff", elapsed time 21.60951s.
251104-21:52:02,773 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.mrg_target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/mrg_target".
251104-21:52:02,807 nipype.workflow INFO:
[Node] Executing "mrg_target" <nipype.interfaces.utility.base.Merge>
251104-21:52:02,811 nipype.workflow INFO:
[Node] Finished "mrg_target", elapsed time 0.000207s.
251104-21:52:12,707 nipype.workflow INFO:
[Node] Finished "init_aff", elapsed time 15.924853s.
251104-21:52:14,548 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.norm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/norm".
251104-21:52:14,555 nipype.workflow INFO:
[Node] Executing "norm" <niworkflows.interfaces.fixes.FixHeaderRegistration>
251104-21:53:35,128 nipype.workflow INFO:
[Node] Finished "init_aff", elapsed time 138.241499s.
251104-21:53:36,711 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.norm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/norm".
251104-21:53:36,746 nipype.workflow INFO:
[Node] Executing "norm" <niworkflows.interfaces.fixes.FixHeaderRegistration>
251104-21:53:39,918 nipype.workflow INFO:
[Node] Finished "norm", elapsed time 2.868065s.
251104-21:53:40,653 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.map_brainmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/map_brainmask".
251104-21:53:40,658 nipype.workflow INFO:
[Node] Executing "map_brainmask" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251104-21:53:42,700 nipype.workflow INFO:
[Node] Finished "map_brainmask", elapsed time 2.041158s.
251104-21:53:46,573 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.n4_correct" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/n4_correct".
251104-21:53:46,582 nipype.workflow INFO:
[Node] Executing "n4_correct" <niworkflows.interfaces.fixes.FixN4BiasFieldCorrection>
251104-21:53:47,785 nipype.workflow INFO:
[Node] Finished "n4_correct", elapsed time 0.83305s.
251104-21:53:48,581 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.skullstrip_first_pass" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/skullstrip_first_pass".
251104-21:53:48,584 nipype.workflow INFO:
[Node] Executing "skullstrip_first_pass" <nipype.interfaces.fsl.preprocess.BET>
251104-21:53:50,629 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_aslreg_wf.raw_sources" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/ds_aslreg_wf/raw_sources".
251104-21:53:50,645 nipype.workflow INFO:
[Node] Executing "raw_sources" <nipype.interfaces.utility.wrappers.Function>
251104-21:53:50,646 nipype.workflow INFO:
[Node] Finished "raw_sources", elapsed time 0.000507s.
251104-21:53:50,678 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_std_wf.gen_ref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/gen_ref".
251104-21:53:50,703 nipype.workflow INFO:
[Node] Executing "gen_ref" <niworkflows.interfaces.nibabel.GenerateSamplingReference>
251104-21:53:50,737 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.aslref_asl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/aslref_asl".
251104-21:53:50,752 nipype.workflow INFO:
[Node] Executing "aslref_asl" <fmriprep.interfaces.resampling.ResampleSeries>
251104-21:53:51,10 nipype.workflow INFO:
[Node] Finished "skullstrip_first_pass", elapsed time 2.42544s.
251104-21:53:52,310 nipype.workflow INFO:
[Node] Finished "gen_ref", elapsed time 1.605896s.
251104-21:53:52,490 nipype.workflow INFO:
[Node] Finished "aslref_asl", elapsed time 1.736704s.
251104-21:53:52,581 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.first_dilate" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/first_dilate".
251104-21:53:52,583 nipype.workflow INFO:
[Node] Executing "first_dilate" <niworkflows.interfaces.nibabel.BinaryDilation>
251104-21:53:58,645 nipype.workflow INFO:
[Node] Finished "first_dilate", elapsed time 6.061729s.
251104-21:54:00,580 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.first_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/first_mask".
251104-21:54:00,583 nipype.workflow INFO:
[Node] Executing "first_mask" <niworkflows.interfaces.nibabel.ApplyMask>
251104-21:54:00,636 nipype.workflow INFO:
[Node] Finished "first_mask", elapsed time 0.052032s.
251104-21:54:02,610 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.unifize" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/unifize".
251104-21:54:02,612 nipype.workflow INFO:
[Node] Executing "unifize" <nipype.interfaces.afni.utils.Unifize>
251104-21:54:31,148 nipype.workflow INFO:
[Node] Finished "unifize", elapsed time 28.534544s.
251104-21:54:32,672 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.fixhdr_unifize" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/fixhdr_unifize".
251104-21:54:32,785 nipype.workflow INFO:
[Node] Executing "fixhdr_unifize" <niworkflows.interfaces.header.CopyXForm>
251104-21:54:32,832 nipype.workflow INFO:
[Node] Finished "fixhdr_unifize", elapsed time 0.04689s.
251104-21:54:34,628 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.skullstrip_second_pass" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/skullstrip_second_pass".
251104-21:54:34,643 nipype.workflow INFO:
[Node] Executing "skullstrip_second_pass" <nipype.interfaces.afni.preprocess.Automask>
251104-21:54:35,868 nipype.workflow INFO:
[Node] Finished "skullstrip_second_pass", elapsed time 1.2244869999999999s.
251104-21:54:36,603 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.fixhdr_skullstrip2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/fixhdr_skullstrip2".
251104-21:54:36,665 nipype.workflow INFO:
[Node] Executing "fixhdr_skullstrip2" <niworkflows.interfaces.header.CopyXForm>
251104-21:54:36,748 nipype.workflow INFO:
[Node] Finished "fixhdr_skullstrip2", elapsed time 0.081289s.
251104-21:54:38,651 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.combine_masks" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/combine_masks".
251104-21:54:38,654 nipype.workflow INFO:
[Node] Executing "combine_masks" <nipype.interfaces.fsl.maths.BinaryMaths>
251104-21:54:39,283 nipype.workflow INFO:
[Node] Finished "combine_masks", elapsed time 0.628501s.
251104-21:54:40,591 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.apply_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/apply_mask".
251104-21:54:40,591 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.dvars" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/dvars".
251104-21:54:40,594 nipype.workflow INFO:
[Node] Executing "apply_mask" <niworkflows.interfaces.nibabel.ApplyMask>
251104-21:54:40,712 nipype.workflow INFO:
[Node] Finished "apply_mask", elapsed time 0.117823s.
251104-21:54:42,757 nipype.workflow INFO:
[Node] Executing "dvars" <nipype.algorithms.confounds.ComputeDVARS>
251104-21:54:46,442 nipype.workflow INFO:
[Node] Finished "dvars", elapsed time 3.684805s.
251104-21:58:40,615 nipype.workflow INFO:
[Node] Finished "norm", elapsed time 385.722798s.
251104-21:58:42,642 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.map_brainmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/map_brainmask".
251104-21:58:42,642 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.map_wmmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/map_wmmask".
251104-21:58:42,700 nipype.workflow INFO:
[Node] Executing "map_wmmask" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251104-21:58:42,835 nipype.workflow INFO:
[Node] Executing "map_brainmask" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251104-21:58:58,549 nipype.workflow INFO:
[Node] Finished "map_brainmask", elapsed time 15.712184s.
251104-21:58:59,15 nipype.workflow INFO:
[Node] Finished "map_wmmask", elapsed time 16.314608s.
251104-21:59:00,637 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.thr_brainmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/thr_brainmask".
251104-21:59:00,672 nipype.workflow INFO:
[Node] Executing "thr_brainmask" <nipype.interfaces.ants.utils.ThresholdImage>
251104-21:59:00,672 nipype.workflow INFO:
[Node] Setting-up "_inu_n4_final0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/inu_n4_final/mapflow/_inu_n4_final0".
251104-21:59:00,678 nipype.workflow INFO:
[Node] Executing "_inu_n4_final0" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
251104-21:59:03,622 nipype.workflow INFO:
[Node] Finished "thr_brainmask", elapsed time 2.2107580000000002s.
251104-21:59:04,624 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.dil_brainmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/dil_brainmask".
251104-21:59:04,632 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.03_pad_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/03_pad_mask".
251104-21:59:04,663 nipype.workflow INFO:
[Node] Executing "dil_brainmask" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:04,679 nipype.workflow INFO:
[Node] Executing "03_pad_mask" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:06,251 nipype.workflow INFO:
[Node] Finished "03_pad_mask", elapsed time 0.736086s.
251104-21:59:06,536 nipype.workflow INFO:
[Node] Finished "dil_brainmask", elapsed time 1.140016s.
251104-21:59:08,626 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.get_brainmask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/get_brainmask".
251104-21:59:08,635 nipype.workflow INFO:
[Node] Executing "get_brainmask" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:10,206 nipype.workflow INFO:
[Node] Finished "get_brainmask", elapsed time 1.069147s.
251104-21:59:13,350 nipype.workflow INFO:
[Node] Finished "_inu_n4_final0", elapsed time 12.126095s.
251104-21:59:14,630 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.01_atropos" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/01_atropos".
251104-21:59:14,641 nipype.workflow INFO:
[Node] Executing "01_atropos" <nipype.interfaces.ants.segmentation.Atropos>
251104-21:59:14,641 nipype.workflow INFO:
[Node] Setting-up "_apply_mask0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/apply_mask/mapflow/_apply_mask0".
251104-21:59:14,643 nipype.workflow INFO:
[Node] Executing "_apply_mask0" <niworkflows.interfaces.nibabel.ApplyMask>
251104-21:59:15,366 nipype.workflow INFO:
[Node] Finished "_apply_mask0", elapsed time 0.722404s.
251104-21:59:42,404 nipype.workflow INFO:
[Node] Finished "01_atropos", elapsed time 27.368652s.
251104-21:59:42,674 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.02_pad_segm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/02_pad_segm".
251104-21:59:42,685 nipype.workflow INFO:
[Node] Executing "02_pad_segm" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:43,586 nipype.workflow INFO:
[Node] Finished "02_pad_segm", elapsed time 0.900258s.
251104-21:59:44,627 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.04_sel_labels" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/04_sel_labels".
251104-21:59:44,631 nipype.workflow INFO:
[Node] Executing "04_sel_labels" <nipype.interfaces.utility.wrappers.Function>
251104-21:59:44,924 nipype.workflow INFO:
[Node] Finished "04_sel_labels", elapsed time 0.292579s.
251104-21:59:49,134 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.06_get_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/06_get_gm".
251104-21:59:49,134 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.05_get_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/05_get_wm".
251104-21:59:49,155 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.27_depad_csf" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/27_depad_csf".
251104-21:59:49,156 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.10_me_csf" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/10_me_csf".
251104-21:59:49,157 nipype.workflow INFO:
[Node] Executing "06_get_gm" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:49,162 nipype.workflow INFO:
[Node] Executing "05_get_wm" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:49,168 nipype.workflow INFO:
[Node] Executing "27_depad_csf" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:49,171 nipype.workflow INFO:
[Node] Executing "10_me_csf" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:49,933 nipype.workflow INFO:
[Node] Finished "27_depad_csf", elapsed time 0.763912s.
251104-21:59:50,622 nipype.workflow INFO:
[Node] Finished "06_get_gm", elapsed time 1.459322s.
251104-21:59:51,33 nipype.workflow INFO:
[Node] Finished "05_get_wm", elapsed time 1.334554s.
251104-21:59:51,129 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.07_fill_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/07_fill_gm".
251104-21:59:51,132 nipype.workflow INFO:
[Node] Executing "07_fill_gm" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:52,691 nipype.workflow INFO:
[Node] Finished "10_me_csf", elapsed time 3.5183720000000003s.
251104-21:59:53,123 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.09_relabel_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/09_relabel_wm".
251104-21:59:53,123 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.apply_wm_prior" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/apply_wm_prior".
251104-21:59:53,125 nipype.workflow INFO:
[Node] Executing "09_relabel_wm" <nipype.interfaces.ants.utils.MultiplyImages>
251104-21:59:53,126 nipype.workflow INFO:
[Node] Executing "apply_wm_prior" <nipype.interfaces.utility.wrappers.Function>
251104-21:59:53,828 nipype.workflow INFO:
[Node] Finished "apply_wm_prior", elapsed time 0.700966s.
251104-21:59:54,296 nipype.workflow INFO:
[Node] Finished "09_relabel_wm", elapsed time 1.169754s.
251104-21:59:55,153 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.26_depad_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/26_depad_wm".
251104-21:59:55,155 nipype.workflow INFO:
[Node] Executing "26_depad_wm" <nipype.interfaces.ants.utils.ImageMath>
251104-21:59:55,158 nipype.workflow INFO:
[Node] Setting-up "_inu_n4_final0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/inu_n4_final/mapflow/_inu_n4_final0".
251104-21:59:55,160 nipype.workflow INFO:
[Node] Executing "_inu_n4_final0" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
251104-21:59:55,927 nipype.workflow INFO:
[Node] Finished "26_depad_wm", elapsed time 0.771573s.
251104-21:59:58,646 nipype.workflow INFO:
[Node] Finished "07_fill_gm", elapsed time 7.513894s.
251104-21:59:59,153 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.08_mult_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/08_mult_gm".
251104-21:59:59,157 nipype.workflow INFO:
[Node] Executing "08_mult_gm" <nipype.interfaces.ants.utils.MultiplyImages>
251104-22:00:00,37 nipype.workflow INFO:
[Node] Finished "08_mult_gm", elapsed time 0.878638s.
251104-22:00:01,133 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.11_add_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/11_add_gm".
251104-22:00:01,137 nipype.workflow INFO:
[Node] Executing "11_add_gm" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:02,548 nipype.workflow INFO:
[Node] Finished "11_add_gm", elapsed time 1.4106589999999999s.
251104-22:00:03,123 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.12_relabel_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/12_relabel_gm".
251104-22:00:03,125 nipype.workflow INFO:
[Node] Executing "12_relabel_gm" <nipype.interfaces.ants.utils.MultiplyImages>
251104-22:00:03,856 nipype.workflow INFO:
[Node] Finished "12_relabel_gm", elapsed time 0.729965s.
251104-22:00:05,122 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.25_depad_gm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/25_depad_gm".
251104-22:00:05,122 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.13_add_gm_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/13_add_gm_wm".
251104-22:00:05,124 nipype.workflow INFO:
[Node] Executing "25_depad_gm" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:05,125 nipype.workflow INFO:
[Node] Executing "13_add_gm_wm" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:05,848 nipype.workflow INFO:
[Node] Finished "25_depad_gm", elapsed time 0.723433s.
251104-22:00:06,770 nipype.workflow INFO:
[Node] Finished "13_add_gm_wm", elapsed time 1.644561s.
251104-22:00:06,952 nipype.workflow INFO:
[Node] Finished "_inu_n4_final0", elapsed time 11.791098999999999s.
251104-22:00:07,143 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.14_sel_labels2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/14_sel_labels2".
251104-22:00:07,144 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.merge_tpms" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/merge_tpms".
251104-22:00:07,144 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.24_depad_segm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/24_depad_segm".
251104-22:00:07,146 nipype.workflow INFO:
[Node] Executing "14_sel_labels2" <nipype.interfaces.utility.wrappers.Function>
251104-22:00:07,146 nipype.workflow INFO:
[Node] Executing "24_depad_segm" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:07,147 nipype.workflow INFO:
[Node] Executing "merge_tpms" <nipype.interfaces.utility.base.Merge>
251104-22:00:07,147 nipype.workflow INFO:
[Node] Finished "merge_tpms", elapsed time 0.000181s.
251104-22:00:07,353 nipype.workflow INFO:
[Node] Finished "14_sel_labels2", elapsed time 0.206725s.
251104-22:00:08,67 nipype.workflow INFO:
[Node] Finished "24_depad_segm", elapsed time 0.920535s.
251104-22:00:09,122 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.15_add_7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/15_add_7".
251104-22:00:09,125 nipype.workflow INFO:
[Node] Executing "15_add_7" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:10,144 nipype.workflow INFO:
[Node] Finished "15_add_7", elapsed time 1.018517s.
251104-22:00:11,124 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.16_me_7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/16_me_7".
251104-22:00:11,127 nipype.workflow INFO:
[Node] Executing "16_me_7" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:13,265 nipype.workflow INFO:
[Node] Finished "16_me_7", elapsed time 2.136479s.
251104-22:00:15,127 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.17_comp_7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/17_comp_7".
251104-22:00:15,129 nipype.workflow INFO:
[Node] Executing "17_comp_7" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:16,458 nipype.workflow INFO:
[Node] Finished "17_comp_7", elapsed time 1.328359s.
251104-22:00:17,130 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.18_md_7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/18_md_7".
251104-22:00:17,133 nipype.workflow INFO:
[Node] Executing "18_md_7" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:18,541 nipype.workflow INFO:
[Node] Finished "18_md_7", elapsed time 1.40763s.
251104-22:00:19,129 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.19_fill_7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/19_fill_7".
251104-22:00:19,132 nipype.workflow INFO:
[Node] Executing "19_fill_7" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:26,37 nipype.workflow INFO:
[Node] Finished "19_fill_7", elapsed time 6.905169s.
251104-22:00:27,126 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.20_add_7_2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/20_add_7_2".
251104-22:00:27,128 nipype.workflow INFO:
[Node] Executing "20_add_7_2" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:28,390 nipype.workflow INFO:
[Node] Finished "20_add_7_2", elapsed time 1.261233s.
251104-22:00:29,127 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.21_md_7_2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/21_md_7_2".
251104-22:00:29,130 nipype.workflow INFO:
[Node] Executing "21_md_7_2" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:30,494 nipype.workflow INFO:
[Node] Finished "21_md_7_2", elapsed time 1.364083s.
251104-22:00:31,125 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.22_me_7_2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/22_me_7_2".
251104-22:00:31,128 nipype.workflow INFO:
[Node] Executing "22_me_7_2" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:33,343 nipype.workflow INFO:
[Node] Finished "22_me_7_2", elapsed time 2.215179s.
251104-22:00:35,123 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.23_depad_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/23_depad_mask".
251104-22:00:35,125 nipype.workflow INFO:
[Node] Executing "23_depad_mask" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:35,802 nipype.workflow INFO:
[Node] Finished "23_depad_mask", elapsed time 0.676511s.
251104-22:00:37,121 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.msk_conform" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/msk_conform".
251104-22:00:37,124 nipype.workflow INFO:
[Node] Executing "msk_conform" <nipype.interfaces.utility.wrappers.Function>
251104-22:00:37,316 nipype.workflow INFO:
[Node] Finished "msk_conform", elapsed time 0.191741s.
251104-22:00:43,417 nipype.workflow INFO:
[Node] Setting-up "_apply_mask0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/apply_mask/mapflow/_apply_mask0".
251104-22:00:43,418 nipype.workflow INFO:
[Node] Executing "_apply_mask0" <niworkflows.interfaces.nibabel.ApplyMask>
251104-22:00:44,56 nipype.workflow INFO:
[Node] Finished "_apply_mask0", elapsed time 0.63808s.
251104-22:00:46,42 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.register_template_wf.trunc_mov" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/register_template_wf/_template_MNI152NLin2009cAsym/trunc_mov".
251104-22:00:46,44 nipype.workflow INFO:
[Node] Executing "trunc_mov" <nipype.interfaces.ants.utils.ImageMath>
251104-22:00:46,261 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.gen_ref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/gen_ref".
251104-22:00:46,268 nipype.workflow INFO:
[Node] Executing "gen_ref" <niworkflows.interfaces.nibabel.GenerateSamplingReference>
251104-22:00:47,782 nipype.workflow INFO:
[Node] Finished "gen_ref", elapsed time 1.513375s.
251104-22:00:49,640 nipype.workflow INFO:
[Node] Finished "trunc_mov", elapsed time 3.5951370000000002s.
251104-22:00:53,114 nipype.workflow INFO:
[Node] Finished "autorecon1", elapsed time 560.541052s.
251104-22:00:54,625 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.skull_strip_extern" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/skull_strip_extern".
251104-22:00:55,204 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.fsnative2t1w_xfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/fsnative2t1w_xfm".
251104-22:00:55,219 nipype.workflow INFO:
[Node] Executing "fsnative2t1w_xfm" <niworkflows.interfaces.freesurfer.PatchedRobustRegister>
251104-22:00:56,342 nipype.workflow INFO:
[Node] Executing "skull_strip_extern" <niworkflows.interfaces.freesurfer.FSInjectBrainExtracted>
251104-22:00:58,701 nipype.workflow INFO:
[Node] Finished "skull_strip_extern", elapsed time 2.358825s.
251104-22:01:00,226 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.gcareg" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/gcareg".
251104-22:01:00,229 nipype.workflow INFO:
[Node] Executing "gcareg" <smriprep.interfaces.freesurfer.ReconAll>
251104-22:01:00,230 nipype.interface INFO:
resume recon-all : recon-all -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -gcareg
251104-22:01:00,231 nipype.interface INFO:
resume recon-all : recon-all -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -gcareg
251104-22:01:34,527 nipype.workflow INFO:
[Node] Finished "fsnative2t1w_xfm", elapsed time 39.307336s.
251104-22:03:36,206 nipype.workflow INFO:
[Node] Finished "gcareg", elapsed time 155.975736s.
251104-22:03:40,444 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.autorecon2_vol" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon2_vol".
251104-22:03:40,447 nipype.workflow INFO:
[Node] Executing "autorecon2_vol" <smriprep.interfaces.freesurfer.ReconAll>
251104-22:03:40,448 nipype.interface INFO:
resume recon-all : recon-all -autorecon2-volonly -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nogcareg
251104-22:03:40,449 nipype.interface INFO:
resume recon-all : recon-all -autorecon2-volonly -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nogcareg
251104-23:46:31,76 nipype.workflow INFO:
[Node] Finished "autorecon2_vol", elapsed time 6170.620468s.
251104-23:46:35,253 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs1".
251104-23:46:35,288 nipype.workflow INFO:
[Node] Executing "_autorecon_surfs1" <smriprep.interfaces.freesurfer.ReconAll>
251104-23:46:35,301 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi rh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer
251104-23:46:35,301 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi rh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer
251104-23:46:37,217 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs0".
251104-23:46:37,219 nipype.workflow INFO:
[Node] Executing "_autorecon_surfs0" <smriprep.interfaces.freesurfer.ReconAll>
251104-23:46:37,220 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi lh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer
251104-23:46:37,221 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi lh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer
251105-00:17:51,651 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs1", elapsed time 1876.349181s.
251105-00:23:43,8 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs0", elapsed time 2225.787651s.
251105-00:23:43,746 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs0".
251105-00:23:43,749 nipype.workflow INFO:
[Node] Executing "_autorecon_surfs0" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:23:43,750 nipype.interface INFO:
recon-all complete : Not running
251105-00:23:43,751 nipype.interface INFO:
recon-all complete : Not running
251105-00:23:44,405 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs0", elapsed time 0.655286s.
251105-00:23:44,409 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs1".
251105-00:23:44,411 nipype.workflow INFO:
[Node] Executing "_autorecon_surfs1" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:23:44,413 nipype.interface INFO:
recon-all complete : Not running
251105-00:23:44,413 nipype.interface INFO:
recon-all complete : Not running
251105-00:23:44,564 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs1", elapsed time 0.151319s.
251105-00:23:48,678 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.cortribbon" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/cortribbon".
251105-00:23:48,691 nipype.workflow INFO:
[Node] Executing "cortribbon" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:23:48,692 nipype.interface INFO:
resume recon-all : recon-all -parallel -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -cortribbon
251105-00:23:48,692 nipype.interface INFO:
resume recon-all : recon-all -parallel -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -cortribbon
251105-00:31:28,85 nipype.workflow INFO:
[Node] Finished "cortribbon", elapsed time 459.392785s.
251105-00:31:31,749 nipype.workflow INFO:
[Node] Setting-up "_parcstats0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats0".
251105-00:31:31,760 nipype.workflow INFO:
[Node] Setting-up "_parcstats1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats1".
251105-00:31:31,791 nipype.workflow INFO:
[Node] Executing "_parcstats0" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:31:31,791 nipype.workflow INFO:
[Node] Executing "_parcstats1" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:31:31,796 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi rh -nohyporelabel -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -notessellate -nosmooth1 -noinflate1 -noqsphere -nofix -nowhite -nosmooth2 -noinflate2 -nocurvHK -nocurvstats -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -nocortparc2 -nocortparc3 -nopctsurfcon
251105-00:31:31,796 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi lh -nohyporelabel -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -notessellate -nosmooth1 -noinflate1 -noqsphere -nofix -nowhite -nosmooth2 -noinflate2 -nocurvHK -nocurvstats -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -nocortparc2 -nocortparc3 -nopctsurfcon
251105-00:31:31,797 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi rh -nohyporelabel -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -notessellate -nosmooth1 -noinflate1 -noqsphere -nofix -nowhite -nosmooth2 -noinflate2 -nocurvHK -nocurvstats -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -nocortparc2 -nocortparc3 -nopctsurfcon
251105-00:31:31,797 nipype.interface INFO:
resume recon-all : recon-all -autorecon-hemi lh -nohyporelabel -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -notessellate -nosmooth1 -noinflate1 -noqsphere -nofix -nowhite -nosmooth2 -noinflate2 -nocurvHK -nocurvstats -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -nocortparc2 -nocortparc3 -nopctsurfcon
251105-00:36:08,868 nipype.workflow INFO:
[Node] Finished "_parcstats1", elapsed time 277.0518s.
251105-00:36:09,12 nipype.workflow INFO:
[Node] Finished "_parcstats0", elapsed time 277.216666s.
251105-00:36:09,837 nipype.workflow INFO:
[Node] Setting-up "_parcstats0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats0".
251105-00:36:09,840 nipype.workflow INFO:
[Node] Executing "_parcstats0" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:36:09,846 nipype.interface INFO:
recon-all complete : Not running
251105-00:36:09,846 nipype.interface INFO:
recon-all complete : Not running
251105-00:36:10,410 nipype.workflow INFO:
[Node] Finished "_parcstats0", elapsed time 0.564961s.
251105-00:36:10,414 nipype.workflow INFO:
[Node] Setting-up "_parcstats1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats1".
251105-00:36:10,416 nipype.workflow INFO:
[Node] Executing "_parcstats1" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:36:10,418 nipype.interface INFO:
recon-all complete : Not running
251105-00:36:10,418 nipype.interface INFO:
recon-all complete : Not running
251105-00:36:10,564 nipype.workflow INFO:
[Node] Finished "_parcstats1", elapsed time 0.147229s.
251105-00:36:11,790 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.autorecon3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon3".
251105-00:36:11,811 nipype.workflow INFO:
[Node] Executing "autorecon3" <smriprep.interfaces.freesurfer.ReconAll>
251105-00:36:11,813 nipype.interface INFO:
resume recon-all : recon-all -autorecon3 -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -noparcstats -nocortparc2 -noparcstats2 -nocortparc3 -noparcstats3 -nopctsurfcon -nocortribbon -nobalabels
251105-00:36:11,822 nipype.interface INFO:
resume recon-all : recon-all -autorecon3 -openmp 8 -subjid sub-01 -sd /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -noparcstats -nocortparc2 -noparcstats2 -nocortparc3 -noparcstats3 -nopctsurfcon -nocortribbon -nobalabels
251105-00:43:43,977 nipype.workflow INFO:
[Node] Finished "autorecon3", elapsed time 452.16353s.
251105-00:43:45,859 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.get_surfaces" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/get_surfaces".
251105-00:43:45,893 nipype.workflow INFO:
[Node] Executing "get_surfaces" <nipype.interfaces.io.FreeSurferSource>
251105-00:43:45,926 nipype.workflow INFO:
[Node] Finished "get_surfaces", elapsed time 0.029208s.
251105-00:43:49,880 nipype.workflow INFO:
[Node] Setting-up "_midthickness1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/midthickness/mapflow/_midthickness1".
251105-00:43:49,918 nipype.workflow INFO:
[Node] Executing "_midthickness1" <smriprep.interfaces.freesurfer.MakeMidthickness>
251105-00:43:53,504 nipype.workflow INFO:
[Node] Setting-up "_midthickness0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/midthickness/mapflow/_midthickness0".
251105-00:43:53,521 nipype.workflow INFO:
[Node] Executing "_midthickness0" <smriprep.interfaces.freesurfer.MakeMidthickness>
251105-01:02:57,314 nipype.workflow INFO:
[Node] Finished "_midthickness0", elapsed time 1143.778018s.
251105-01:03:48,232 nipype.workflow INFO:
[Node] Finished "_midthickness1", elapsed time 1198.312182s.
251105-01:03:50,196 nipype.workflow INFO:
[Node] Setting-up "_midthickness0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/midthickness/mapflow/_midthickness0".
251105-01:03:50,198 nipype.workflow INFO:
[Node] Cached "_midthickness0" - collecting precomputed outputs
251105-01:03:50,198 nipype.workflow INFO:
[Node] "_midthickness0" found cached.
251105-01:03:50,199 nipype.workflow INFO:
[Node] Setting-up "_midthickness1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/midthickness/mapflow/_midthickness1".
251105-01:03:50,200 nipype.workflow INFO:
[Node] Cached "_midthickness1" - collecting precomputed outputs
251105-01:03:50,200 nipype.workflow INFO:
[Node] "_midthickness1" found cached.
251105-01:03:52,164 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.save_midthickness" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/save_midthickness".
251105-01:03:52,184 nipype.workflow INFO:
[Node] Executing "save_midthickness" <nipype.interfaces.io.DataSink>
251105-01:03:52,194 nipype.workflow INFO:
[Node] Finished "save_midthickness", elapsed time 0.004108s.
251105-01:03:54,164 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.sync" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/sync".
251105-01:03:54,181 nipype.workflow INFO:
[Node] Executing "sync" <nipype.interfaces.utility.wrappers.Function>
251105-01:03:54,184 nipype.workflow INFO:
[Node] Finished "sync", elapsed time 0.001307s.
251105-01:03:56,214 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.gifti_spheres_wf.get_surfaces" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/get_surfaces".
251105-01:03:56,209 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.gifti_surface_wf.get_surfaces" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/get_surfaces".
251105-01:03:56,214 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.gifti_morphometrics_wf.get_surfaces" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/get_surfaces".
251105-01:03:56,231 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.refinement_wf.segs_to_native_aseg.fs_datasource" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/refinement_wf/segs_to_native_aseg/fs_datasource".
251105-01:03:56,290 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_reg_wf.bbreg_wf.mri_coreg" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_reg_wf/bbreg_wf/mri_coreg".
251105-01:03:56,305 nipype.workflow INFO:
[Node] Executing "get_surfaces" <nipype.interfaces.utility.wrappers.Function>
251105-01:03:56,316 nipype.workflow INFO:
[Node] Executing "get_surfaces" <nipype.interfaces.utility.wrappers.Function>
251105-01:03:56,327 nipype.workflow INFO:
[Node] Executing "get_surfaces" <nipype.interfaces.io.FreeSurferSource>
251105-01:03:56,342 nipype.workflow INFO:
[Node] Executing "fs_datasource" <nipype.interfaces.io.FreeSurferSource>
251105-01:03:56,349 nipype.workflow INFO:
[Node] Finished "get_surfaces", elapsed time 0.014492s.
251105-01:03:56,349 nipype.workflow INFO:
[Node] Finished "get_surfaces", elapsed time 0.021077s.
251105-01:03:56,385 nipype.workflow INFO:
[Node] Executing "mri_coreg" <nipype.interfaces.freesurfer.registration.MRICoreg>
251105-01:03:56,402 nipype.workflow INFO:
[Node] Finished "get_surfaces", elapsed time 0.067692s.
251105-01:03:56,421 nipype.workflow INFO:
[Node] Finished "fs_datasource", elapsed time 0.071601s.
251105-01:03:56,458 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.recon_report" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/recon_report".
251105-01:03:56,472 nipype.workflow INFO:
[Node] Executing "recon_report" <smriprep.interfaces.reports.FSSurfaceReport>
251105-01:04:00,208 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.refinement_wf.segs_to_native_aseg.resample" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/refinement_wf/segs_to_native_aseg/resample".
251105-01:04:00,253 nipype.workflow INFO:
[Node] Executing "resample" <nipype.interfaces.freesurfer.preprocess.ApplyVolTransform>
251105-01:04:02,286 nipype.workflow INFO:
[Node] Setting-up "_fs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii1".
251105-01:04:02,287 nipype.workflow INFO:
[Node] Setting-up "_fs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii0".
251105-01:04:02,292 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii2".
251105-01:04:02,293 nipype.workflow INFO:
[Node] Setting-up "_fs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii3".
251105-01:04:02,297 nipype.workflow INFO:
[Node] Setting-up "_fs2gii5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii5".
251105-01:04:02,297 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii3".
251105-01:04:02,297 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii0".
251105-01:04:02,312 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii1".
251105-01:04:02,303 nipype.workflow INFO:
[Node] Setting-up "_fs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii2".
251105-01:04:02,329 nipype.workflow INFO:
[Node] Executing "_fs2gii0" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,334 nipype.workflow INFO:
[Node] Setting-up "_fs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii2".
251105-01:04:02,335 nipype.workflow INFO:
[Node] Executing "_fs2gii1" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,335 nipype.workflow INFO:
[Node] Executing "_fs2gii5" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,334 nipype.workflow INFO:
[Node] Setting-up "_fs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii3".
251105-01:04:02,335 nipype.workflow INFO:
[Node] Executing "_morphs2gii2" <smriprep.interfaces.freesurfer.MRIsConvertData>
251105-01:04:02,334 nipype.workflow INFO:
[Node] Setting-up "_fs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii1".
251105-01:04:02,346 nipype.workflow INFO:
[Node] Executing "_morphs2gii0" <smriprep.interfaces.freesurfer.MRIsConvertData>
251105-01:04:02,335 nipype.workflow INFO:
[Node] Setting-up "_fs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii0".
251105-01:04:02,347 nipype.workflow INFO:
[Node] Executing "_morphs2gii3" <smriprep.interfaces.freesurfer.MRIsConvertData>
251105-01:04:02,347 nipype.workflow INFO:
[Node] Executing "_morphs2gii1" <smriprep.interfaces.freesurfer.MRIsConvertData>
251105-01:04:02,359 nipype.workflow INFO:
[Node] Executing "_fs2gii2" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,395 nipype.workflow INFO:
[Node] Setting-up "_fs2gii4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii4".
251105-01:04:02,414 nipype.workflow INFO:
[Node] Executing "_fs2gii2" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,419 nipype.workflow INFO:
[Node] Executing "_fs2gii1" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,430 nipype.workflow INFO:
[Node] Executing "_fs2gii3" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,437 nipype.workflow INFO:
[Node] Executing "_fs2gii0" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,475 nipype.workflow INFO:
[Node] Executing "_fs2gii3" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:02,491 nipype.workflow INFO:
[Node] Executing "_fs2gii4" <nipype.interfaces.freesurfer.utils.MRIsConvert>
251105-01:04:06,615 nipype.workflow INFO:
[Node] Finished "resample", elapsed time 6.360245s.
251105-01:04:08,279 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.refinement_wf.refine" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/refinement_wf/refine".
251105-01:04:08,315 nipype.workflow INFO:
[Node] Executing "refine" <niworkflows.interfaces.freesurfer.RefineBrainMask>
251105-01:04:09,17 nipype.workflow INFO:
[Node] Finished "_fs2gii5", elapsed time 6.681675s.
251105-01:04:09,268 nipype.workflow INFO:
[Node] Finished "_fs2gii0", elapsed time 6.934009s.
251105-01:04:10,663 nipype.workflow INFO:
[Node] Finished "_morphs2gii2", elapsed time 8.312865s.
251105-01:04:11,12 nipype.workflow INFO:
[Node] Finished "_morphs2gii1", elapsed time 8.651755s.
251105-01:04:11,618 nipype.workflow INFO:
[Node] Finished "_morphs2gii3", elapsed time 9.257866s.
251105-01:04:12,32 nipype.workflow INFO:
[Node] Finished "_morphs2gii0", elapsed time 9.679489s.
251105-01:04:12,934 nipype.workflow INFO:
[Node] Finished "_fs2gii0", elapsed time 10.452801000000001s.
251105-01:04:12,961 nipype.workflow INFO:
[Node] Finished "_fs2gii1", elapsed time 10.61428s.
251105-01:04:12,962 nipype.workflow INFO:
[Node] Finished "_fs2gii2", elapsed time 10.589677s.
251105-01:04:13,99 nipype.workflow INFO:
[Node] Finished "_fs2gii2", elapsed time 10.618418s.
251105-01:04:13,198 nipype.workflow INFO:
[Node] Finished "_fs2gii3", elapsed time 10.72239s.
251105-01:04:13,207 nipype.workflow INFO:
[Node] Finished "_fs2gii1", elapsed time 10.738255s.
251105-01:04:13,289 nipype.workflow INFO:
[Node] Finished "_fs2gii4", elapsed time 10.789829s.
251105-01:04:13,429 nipype.workflow INFO:
[Node] Finished "_fs2gii3", elapsed time 10.947487s.
251105-01:04:14,287 nipype.workflow INFO:
[Node] Setting-up "_fs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii0".
251105-01:04:14,288 nipype.workflow INFO:
[Node] Cached "_fs2gii0" - collecting precomputed outputs
251105-01:04:14,288 nipype.workflow INFO:
[Node] "_fs2gii0" found cached.
251105-01:04:14,289 nipype.workflow INFO:
[Node] Setting-up "_fs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii1".
251105-01:04:14,289 nipype.workflow INFO:
[Node] Setting-up "_fs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii0".
251105-01:04:14,290 nipype.workflow INFO:
[Node] Cached "_fs2gii1" - collecting precomputed outputs
251105-01:04:14,290 nipype.workflow INFO:
[Node] "_fs2gii1" found cached.
251105-01:04:14,290 nipype.workflow INFO:
[Node] Cached "_fs2gii0" - collecting precomputed outputs
251105-01:04:14,290 nipype.workflow INFO:
[Node] Setting-up "_fs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii2".
251105-01:04:14,290 nipype.workflow INFO:
[Node] "_fs2gii0" found cached.
251105-01:04:14,290 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii0".
251105-01:04:14,291 nipype.workflow INFO:
[Node] Setting-up "_fs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii1".
251105-01:04:14,291 nipype.workflow INFO:
[Node] Cached "_fs2gii2" - collecting precomputed outputs
251105-01:04:14,291 nipype.workflow INFO:
[Node] "_fs2gii2" found cached.
251105-01:04:14,291 nipype.workflow INFO:
[Node] Cached "_morphs2gii0" - collecting precomputed outputs
251105-01:04:14,291 nipype.workflow INFO:
[Node] "_morphs2gii0" found cached.
251105-01:04:14,292 nipype.workflow INFO:
[Node] Setting-up "_fs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii3".
251105-01:04:14,292 nipype.workflow INFO:
[Node] Cached "_fs2gii1" - collecting precomputed outputs
251105-01:04:14,292 nipype.workflow INFO:
[Node] "_fs2gii1" found cached.
251105-01:04:14,292 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii1".
251105-01:04:14,292 nipype.workflow INFO:
[Node] Cached "_fs2gii3" - collecting precomputed outputs
251105-01:04:14,292 nipype.workflow INFO:
[Node] "_fs2gii3" found cached.
251105-01:04:14,292 nipype.workflow INFO:
[Node] Setting-up "_fs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii2".
251105-01:04:14,292 nipype.workflow INFO:
[Node] Cached "_morphs2gii1" - collecting precomputed outputs
251105-01:04:14,292 nipype.workflow INFO:
[Node] "_morphs2gii1" found cached.
251105-01:04:14,293 nipype.workflow INFO:
[Node] Setting-up "_fs2gii4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii4".
251105-01:04:14,293 nipype.workflow INFO:
[Node] Cached "_fs2gii2" - collecting precomputed outputs
251105-01:04:14,293 nipype.workflow INFO:
[Node] "_fs2gii2" found cached.
251105-01:04:14,293 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii2".
251105-01:04:14,294 nipype.workflow INFO:
[Node] Cached "_fs2gii4" - collecting precomputed outputs
251105-01:04:14,294 nipype.workflow INFO:
[Node] "_fs2gii4" found cached.
251105-01:04:14,294 nipype.workflow INFO:
[Node] Cached "_morphs2gii2" - collecting precomputed outputs
251105-01:04:14,294 nipype.workflow INFO:
[Node] "_morphs2gii2" found cached.
251105-01:04:14,294 nipype.workflow INFO:
[Node] Setting-up "_fs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fs2gii/mapflow/_fs2gii3".
251105-01:04:14,294 nipype.workflow INFO:
[Node] Setting-up "_fs2gii5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fs2gii/mapflow/_fs2gii5".
251105-01:04:14,294 nipype.workflow INFO:
[Node] Setting-up "_morphs2gii3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_morphometrics_wf/morphs2gii/mapflow/_morphs2gii3".
251105-01:04:14,295 nipype.workflow INFO:
[Node] Cached "_fs2gii3" - collecting precomputed outputs
251105-01:04:14,295 nipype.workflow INFO:
[Node] "_fs2gii3" found cached.
251105-01:04:14,295 nipype.workflow INFO:
[Node] Cached "_fs2gii5" - collecting precomputed outputs
251105-01:04:14,295 nipype.workflow INFO:
[Node] Cached "_morphs2gii3" - collecting precomputed outputs
251105-01:04:14,295 nipype.workflow INFO:
[Node] "_fs2gii5" found cached.
251105-01:04:14,295 nipype.workflow INFO:
[Node] "_morphs2gii3" found cached.
251105-01:04:18,222 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs0".
251105-01:04:18,236 nipype.workflow INFO:
[Node] Executing "_fix_surfs0" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,523 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs2".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs0".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs5".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs1".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs4".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs3".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs1".
251105-01:04:18,524 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs3".
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs2" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs5" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs0" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs4" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs3" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,525 nipype.workflow INFO:
[Node] Executing "_fix_surfs1" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,532 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs2".
251105-01:04:18,532 nipype.workflow INFO:
[Node] Executing "_fix_surfs1" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,533 nipype.workflow INFO:
[Node] Executing "_fix_surfs3" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:18,541 nipype.workflow INFO:
[Node] Executing "_fix_surfs2" <smriprep.interfaces.surf.NormalizeSurf>
251105-01:04:19,17 nipype.workflow INFO:
[Node] Finished "_fix_surfs0", elapsed time 0.775567s.
251105-01:04:19,212 nipype.workflow INFO:
[Node] Finished "_fix_surfs2", elapsed time 0.67031s.
251105-01:04:19,344 nipype.workflow INFO:
[Node] Finished "_fix_surfs1", elapsed time 0.810973s.
251105-01:04:19,382 nipype.workflow INFO:
[Node] Finished "_fix_surfs3", elapsed time 0.848536s.
251105-01:04:19,387 nipype.workflow INFO:
[Node] Finished "_fix_surfs2", elapsed time 0.861745s.
251105-01:04:19,447 nipype.workflow INFO:
[Node] Finished "_fix_surfs0", elapsed time 0.921057s.
251105-01:04:19,460 nipype.workflow INFO:
[Node] Finished "_fix_surfs1", elapsed time 0.934162s.
251105-01:04:19,462 nipype.workflow INFO:
[Node] Finished "_fix_surfs3", elapsed time 0.929616s.
251105-01:04:19,491 nipype.workflow INFO:
[Node] Finished "_fix_surfs5", elapsed time 0.965543s.
251105-01:04:19,531 nipype.workflow INFO:
[Node] Finished "_fix_surfs4", elapsed time 1.005469s.
251105-01:04:20,193 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs0".
251105-01:04:20,193 nipype.workflow INFO:
[Node] Cached "_fix_surfs0" - collecting precomputed outputs
251105-01:04:20,193 nipype.workflow INFO:
[Node] "_fix_surfs0" found cached.
251105-01:04:20,194 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs1".
251105-01:04:20,195 nipype.workflow INFO:
[Node] Cached "_fix_surfs1" - collecting precomputed outputs
251105-01:04:20,195 nipype.workflow INFO:
[Node] "_fix_surfs1" found cached.
251105-01:04:20,195 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs2".
251105-01:04:20,196 nipype.workflow INFO:
[Node] Cached "_fix_surfs2" - collecting precomputed outputs
251105-01:04:20,196 nipype.workflow INFO:
[Node] "_fix_surfs2" found cached.
251105-01:04:20,196 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_spheres_wf/fix_surfs/mapflow/_fix_surfs3".
251105-01:04:20,197 nipype.workflow INFO:
[Node] Cached "_fix_surfs3" - collecting precomputed outputs
251105-01:04:20,197 nipype.workflow INFO:
[Node] "_fix_surfs3" found cached.
251105-01:04:20,284 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs0".
251105-01:04:20,285 nipype.workflow INFO:
[Node] Cached "_fix_surfs0" - collecting precomputed outputs
251105-01:04:20,285 nipype.workflow INFO:
[Node] "_fix_surfs0" found cached.
251105-01:04:20,286 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs1".
251105-01:04:20,287 nipype.workflow INFO:
[Node] Cached "_fix_surfs1" - collecting precomputed outputs
251105-01:04:20,287 nipype.workflow INFO:
[Node] "_fix_surfs1" found cached.
251105-01:04:20,287 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs2".
251105-01:04:20,288 nipype.workflow INFO:
[Node] Cached "_fix_surfs2" - collecting precomputed outputs
251105-01:04:20,288 nipype.workflow INFO:
[Node] "_fix_surfs2" found cached.
251105-01:04:20,288 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs3".
251105-01:04:20,289 nipype.workflow INFO:
[Node] Cached "_fix_surfs3" - collecting precomputed outputs
251105-01:04:20,289 nipype.workflow INFO:
[Node] "_fix_surfs3" found cached.
251105-01:04:20,289 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs4".
251105-01:04:20,290 nipype.workflow INFO:
[Node] Cached "_fix_surfs4" - collecting precomputed outputs
251105-01:04:20,290 nipype.workflow INFO:
[Node] "_fix_surfs4" found cached.
251105-01:04:20,291 nipype.workflow INFO:
[Node] Setting-up "_fix_surfs5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/gifti_surface_wf/fix_surfs/mapflow/_fix_surfs5".
251105-01:04:20,291 nipype.workflow INFO:
[Node] Cached "_fix_surfs5" - collecting precomputed outputs
251105-01:04:20,291 nipype.workflow INFO:
[Node] "_fix_surfs5" found cached.
251105-01:04:27,885 nipype.workflow INFO:
[Node] Setting-up "_create_wm_distvol0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_wm_distvol/mapflow/_create_wm_distvol0".
251105-01:04:27,885 nipype.workflow INFO:
[Node] Setting-up "_create_wm_distvol1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_wm_distvol/mapflow/_create_wm_distvol1".
251105-01:04:27,885 nipype.workflow INFO:
[Node] Setting-up "_create_pial_distvol0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_pial_distvol/mapflow/_create_pial_distvol0".
251105-01:04:27,893 nipype.workflow INFO:
[Node] Setting-up "_create_pial_distvol1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_pial_distvol/mapflow/_create_pial_distvol1".
251105-01:04:27,895 nipype.workflow INFO:
[Node] Executing "_create_wm_distvol0" <smriprep.interfaces.workbench.CreateSignedDistanceVolume>
251105-01:04:27,895 nipype.workflow INFO:
[Node] Executing "_create_wm_distvol1" <smriprep.interfaces.workbench.CreateSignedDistanceVolume>
251105-01:04:27,895 nipype.workflow INFO:
[Node] Executing "_create_pial_distvol0" <smriprep.interfaces.workbench.CreateSignedDistanceVolume>
251105-01:04:27,896 nipype.workflow INFO:
[Node] Executing "_create_pial_distvol1" <smriprep.interfaces.workbench.CreateSignedDistanceVolume>
251105-01:04:28,947 nipype.workflow INFO:
[Node] Setting-up "_project_unproject0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fsLR_reg_wf/project_unproject/mapflow/_project_unproject0".
251105-01:04:28,948 nipype.workflow INFO:
[Node] Executing "_project_unproject0" <smriprep.interfaces.workbench.SurfaceSphereProjectUnproject>
251105-01:04:28,949 nipype.workflow INFO:
[Node] Setting-up "_project_unproject1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fsLR_reg_wf/project_unproject/mapflow/_project_unproject1".
251105-01:04:28,950 nipype.workflow INFO:
[Node] Executing "_project_unproject1" <smriprep.interfaces.workbench.SurfaceSphereProjectUnproject>
251105-01:04:30,594 nipype.workflow INFO:
[Node] Finished "recon_report", elapsed time 34.120301s.
251105-01:04:32,899 nipype.workflow INFO:
[Node] Finished "_project_unproject1", elapsed time 3.555012s.
251105-01:04:32,967 nipype.workflow INFO:
[Node] Finished "_project_unproject0", elapsed time 3.626309s.
251105-01:04:35,134 nipype.workflow INFO:
[Node] Setting-up "_project_unproject0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fsLR_reg_wf/project_unproject/mapflow/_project_unproject0".
251105-01:04:35,135 nipype.workflow INFO:
[Node] Cached "_project_unproject0" - collecting precomputed outputs
251105-01:04:35,135 nipype.workflow INFO:
[Node] "_project_unproject0" found cached.
251105-01:04:35,136 nipype.workflow INFO:
[Node] Setting-up "_project_unproject1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fsLR_reg_wf/project_unproject/mapflow/_project_unproject1".
251105-01:04:35,136 nipype.workflow INFO:
[Node] Cached "_project_unproject1" - collecting precomputed outputs
251105-01:04:35,136 nipype.workflow INFO:
[Node] "_project_unproject1" found cached.
251105-01:04:43,10 nipype.workflow INFO:
[Node] Finished "refine", elapsed time 34.693384s.
251105-01:04:45,110 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.applyrefined" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/applyrefined".
251105-01:04:45,125 nipype.workflow INFO:
[Node] Executing "applyrefined" <nipype.interfaces.fsl.maths.ApplyMask>
251105-01:04:45,759 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.register_template_wf.registration" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/register_template_wf/_template_MNI152NLin2009cAsym/registration".
251105-01:04:45,766 nipype.workflow INFO:
[Node] Executing "registration" <niworkflows.interfaces.norm.SpatialNormalization>
251105-01:04:46,462 nipype.workflow INFO:
[Node] Finished "applyrefined", elapsed time 1.3353169999999999s.
251105-01:04:47,130 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.fast" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fast".
251105-01:04:47,141 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.mask_t1w" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/mask_t1w".
251105-01:04:47,141 nipype.workflow INFO:
[Node] Executing "fast" <nipype.interfaces.fsl.preprocess.FAST>
251105-01:04:47,145 nipype.workflow INFO:
[Node] Executing "mask_t1w" <niworkflows.interfaces.nibabel.ApplyMask>
251105-01:04:47,157 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_anat_wf.gen_ref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_anat_wf/gen_ref".
251105-01:04:47,163 nipype.workflow INFO:
[Node] Executing "gen_ref" <niworkflows.interfaces.nibabel.GenerateSamplingReference>
251105-01:04:47,856 nipype.workflow INFO:
[Node] Finished "mask_t1w", elapsed time 0.709971s.
251105-01:04:53,474 nipype.workflow INFO:
[Node] Finished "gen_ref", elapsed time 6.310522s.
251105-01:04:55,74 nipype.workflow INFO:
[Node] Finished "mri_coreg", elapsed time 58.682718s.
251105-01:05:03,173 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_reg_wf.bbreg_wf.concat_xfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_reg_wf/bbreg_wf/concat_xfm".
251105-01:05:03,176 nipype.workflow INFO:
[Node] Executing "concat_xfm" <niworkflows.interfaces.nitransforms.ConcatenateXFMs>
251105-01:05:03,191 nipype.workflow INFO:
[Node] Finished "concat_xfm", elapsed time 0.014377s.
251105-01:05:07,215 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.t1w_mask_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/t1w_mask_tfm".
251105-01:05:07,228 nipype.workflow INFO:
[Node] Executing "t1w_mask_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:05:07,493 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.warp_t1w_mask_to_aslref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/warp_t1w_mask_to_aslref".
251105-01:05:07,507 nipype.workflow INFO:
[Node] Executing "warp_t1w_mask_to_aslref" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:05:07,813 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_wf.warp_t1w_mask_to_asl" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_wf/warp_t1w_mask_to_asl".
251105-01:05:07,818 nipype.workflow INFO:
[Node] Executing "warp_t1w_mask_to_asl" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:05:07,924 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_fit_reports_wf.t1w_aslref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_fit_reports_wf/t1w_aslref".
251105-01:05:07,928 nipype.workflow INFO:
[Node] Executing "t1w_aslref" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:05:07,989 nipype.workflow INFO:
[Node] Finished "warp_t1w_mask_to_aslref", elapsed time 0.480802s.
251105-01:05:08,198 nipype.workflow INFO:
[Node] Finished "t1w_mask_tfm", elapsed time 0.969684s.
251105-01:05:08,375 nipype.workflow INFO:
[Node] Finished "warp_t1w_mask_to_asl", elapsed time 0.5561s.
251105-01:05:08,913 nipype.workflow INFO:
[Node] Finished "t1w_aslref", elapsed time 0.984424s.
251105-01:05:09,805 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.union_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/union_mask".
251105-01:05:09,808 nipype.workflow INFO:
[Node] Executing "union_mask" <nipype.interfaces.utility.wrappers.Function>
251105-01:05:09,857 nipype.workflow INFO:
[Node] Finished "union_mask", elapsed time 0.048359s.
251105-01:05:12,377 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.dilated_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/dilated_mask".
251105-01:05:12,379 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
251105-01:05:12,392 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.01226s.
251105-01:05:12,435 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_anat_wf.resample" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_anat_wf/resample".
251105-01:05:12,441 nipype.workflow INFO:
[Node] Executing "resample" <fmriprep.interfaces.resampling.ResampleSeries>
251105-01:05:13,606 nipype.workflow INFO:
[Node] Finished "resample", elapsed time 1.164096s.
251105-01:05:15,433 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.subtract_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/subtract_mask".
251105-01:05:15,436 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces.morphology.BinarySubtraction>
251105-01:05:15,456 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.019401s.
251105-01:05:15,630 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_summary" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_summary".
251105-01:05:15,634 nipype.workflow INFO:
[Node] Executing "cbf_summary" <aslprep.interfaces.plotting.CBFSummaryPlot>
251105-01:05:20,71 nipype.workflow INFO:
[Node] Finished "_create_wm_distvol1", elapsed time 50.756184s.
251105-01:05:20,887 nipype.workflow INFO:
[Node] Finished "_create_wm_distvol0", elapsed time 51.601798s.
251105-01:05:21,651 nipype.workflow INFO:
[Node] Setting-up "_create_wm_distvol0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_wm_distvol/mapflow/_create_wm_distvol0".
251105-01:05:21,652 nipype.workflow INFO:
[Node] Cached "_create_wm_distvol0" - collecting precomputed outputs
251105-01:05:21,652 nipype.workflow INFO:
[Node] "_create_wm_distvol0" found cached.
251105-01:05:21,653 nipype.workflow INFO:
[Node] Setting-up "_create_wm_distvol1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_wm_distvol/mapflow/_create_wm_distvol1".
251105-01:05:21,654 nipype.workflow INFO:
[Node] Cached "_create_wm_distvol1" - collecting precomputed outputs
251105-01:05:21,654 nipype.workflow INFO:
[Node] "_create_wm_distvol1" found cached.
251105-01:05:26,871 nipype.workflow INFO:
[Node] Finished "cbf_summary", elapsed time 11.236059s.
251105-01:05:33,196 nipype.workflow INFO:
[Node] Finished "_create_pial_distvol1", elapsed time 63.834273s.
251105-01:05:34,707 nipype.workflow INFO:
[Node] Finished "_create_pial_distvol0", elapsed time 65.404378s.
251105-01:05:35,660 nipype.workflow INFO:
[Node] Setting-up "_create_pial_distvol0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_pial_distvol/mapflow/_create_pial_distvol0".
251105-01:05:35,661 nipype.workflow INFO:
[Node] Cached "_create_pial_distvol0" - collecting precomputed outputs
251105-01:05:35,662 nipype.workflow INFO:
[Node] "_create_pial_distvol0" found cached.
251105-01:05:35,662 nipype.workflow INFO:
[Node] Setting-up "_create_pial_distvol1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/create_pial_distvol/mapflow/_create_pial_distvol1".
251105-01:05:35,663 nipype.workflow INFO:
[Node] Cached "_create_pial_distvol1" - collecting precomputed outputs
251105-01:05:35,663 nipype.workflow INFO:
[Node] "_create_pial_distvol1" found cached.
251105-01:05:37,640 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_ribbon_wf.make_ribbon" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_ribbon_wf/make_ribbon".
251105-01:05:37,643 nipype.workflow INFO:
[Node] Executing "make_ribbon" <smriprep.interfaces.surf.MakeRibbon>
251105-01:05:38,369 nipype.workflow INFO:
[Node] Finished "make_ribbon", elapsed time 0.725697s.
251105-01:06:26,147 nipype.workflow INFO:
[Node] Finished "fast", elapsed time 99.004833s.
251105-01:06:27,652 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.lut_t1w_dseg" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/lut_t1w_dseg".
251105-01:06:27,658 nipype.workflow INFO:
[Node] Executing "lut_t1w_dseg" <nipype.interfaces.utility.wrappers.Function>
251105-01:06:27,923 nipype.workflow INFO:
[Node] Finished "lut_t1w_dseg", elapsed time 0.26116s.
251105-01:06:36,666 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_fit_reports_wf.t1w_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_fit_reports_wf/t1w_wm".
251105-01:06:36,667 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.warp_t1w_dseg_to_aslref" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/warp_t1w_dseg_to_aslref".
251105-01:06:36,682 nipype.workflow INFO:
[Node] Executing "t1w_wm" <nipype.interfaces.utility.wrappers.Function>
251105-01:06:36,693 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_wf.csf_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_wf/csf_tfm".
251105-01:06:36,694 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_wf.wm_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_wf/wm_tfm".
251105-01:06:36,700 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.wm_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/wm_tfm".
251105-01:06:36,701 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.csf_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/csf_tfm".
251105-01:06:36,716 nipype.workflow INFO:
[Node] Executing "csf_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:36,716 nipype.workflow INFO:
[Node] Executing "warp_t1w_dseg_to_aslref" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:36,723 nipype.workflow INFO:
[Node] Executing "wm_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:36,725 nipype.workflow INFO:
[Node] Executing "csf_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:36,740 nipype.workflow INFO:
[Node] Executing "wm_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:36,777 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.seg_rpt" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/seg_rpt".
251105-01:06:36,788 nipype.workflow INFO:
[Node] Executing "seg_rpt" <niworkflows.interfaces.reportlets.masks.ROIsPlot>
251105-01:06:36,940 nipype.workflow INFO:
[Node] Finished "t1w_wm", elapsed time 0.245858s.
251105-01:06:38,339 nipype.workflow INFO:
[Node] Finished "warp_t1w_dseg_to_aslref", elapsed time 1.616791s.
251105-01:06:38,367 nipype.workflow INFO:
[Node] Finished "wm_tfm", elapsed time 1.642803s.
251105-01:06:38,369 nipype.workflow INFO:
[Node] Finished "wm_tfm", elapsed time 1.621631s.
251105-01:06:38,369 nipype.workflow INFO:
[Node] Finished "csf_tfm", elapsed time 0.749061s.
251105-01:06:38,372 nipype.workflow INFO:
[Node] Finished "csf_tfm", elapsed time 1.656095s.
251105-01:06:38,533 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.acc_masks" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_masks".
251105-01:06:38,688 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_fit_reports_wf.aslref_wm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_fit_reports_wf/aslref_wm".
251105-01:06:38,692 nipype.workflow INFO:
[Node] Executing "aslref_wm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:38,737 nipype.workflow INFO:
[Node] Executing "acc_masks" <fmriprep.interfaces.confounds.aCompCorMasks>
251105-01:06:39,269 nipype.workflow INFO:
[Node] Finished "aslref_wm", elapsed time 0.575783s.
251105-01:06:39,400 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.gm_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/gm_tfm".
251105-01:06:39,405 nipype.workflow INFO:
[Node] Executing "gm_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:39,459 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_wf.gm_tfm" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_wf/gm_tfm".
251105-01:06:39,463 nipype.workflow INFO:
[Node] Executing "gm_tfm" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:39,654 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_by_tt_plot" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_by_tt_plot".
251105-01:06:39,657 nipype.workflow INFO:
[Node] Executing "cbf_by_tt_plot" <aslprep.interfaces.plotting.CBFByTissueTypePlot>
251105-01:06:39,869 nipype.workflow INFO:
[Node] Finished "gm_tfm", elapsed time 0.462755s.
251105-01:06:39,976 nipype.workflow INFO:
[Node] Finished "gm_tfm", elapsed time 0.512609s.
251105-01:06:40,703 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_fit_reports_wf.epi_t1_report" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_fit_reports_wf/epi_t1_report".
251105-01:06:40,707 nipype.workflow INFO:
[Node] Executing "epi_t1_report" <niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT>
251105-01:06:41,739 nipype.workflow INFO:
[Node] Finished "cbf_by_tt_plot", elapsed time 2.081911s.
251105-01:06:42,444 nipype.workflow INFO:
[Node] Finished "acc_masks", elapsed time 3.705463s.
251105-01:06:44,701 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm0".
251105-01:06:44,702 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm1".
251105-01:06:44,703 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm2".
251105-01:06:44,704 nipype.workflow INFO:
[Node] Executing "_acc_msk_tfm0" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:44,711 nipype.workflow INFO:
[Node] Executing "_acc_msk_tfm1" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:44,713 nipype.workflow INFO:
[Node] Executing "_acc_msk_tfm2" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:06:45,418 nipype.workflow INFO:
[Node] Finished "_acc_msk_tfm1", elapsed time 0.705876s.
251105-01:06:45,430 nipype.workflow INFO:
[Node] Finished "_acc_msk_tfm2", elapsed time 0.715368s.
251105-01:06:45,496 nipype.workflow INFO:
[Node] Finished "_acc_msk_tfm0", elapsed time 0.784237s.
251105-01:06:46,709 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm0".
251105-01:06:46,710 nipype.workflow INFO:
[Node] Cached "_acc_msk_tfm0" - collecting precomputed outputs
251105-01:06:46,711 nipype.workflow INFO:
[Node] "_acc_msk_tfm0" found cached.
251105-01:06:46,712 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm1".
251105-01:06:46,713 nipype.workflow INFO:
[Node] Cached "_acc_msk_tfm1" - collecting precomputed outputs
251105-01:06:46,713 nipype.workflow INFO:
[Node] "_acc_msk_tfm1" found cached.
251105-01:06:46,714 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_tfm2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_tfm/mapflow/_acc_msk_tfm2".
251105-01:06:46,715 nipype.workflow INFO:
[Node] Cached "_acc_msk_tfm2" - collecting precomputed outputs
251105-01:06:46,715 nipype.workflow INFO:
[Node] "_acc_msk_tfm2" found cached.
251105-01:06:50,711 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain1".
251105-01:06:50,725 nipype.workflow INFO:
[Node] Executing "_acc_msk_brain1" <niworkflows.interfaces.nibabel.ApplyMask>
251105-01:06:50,729 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain0".
251105-01:06:50,730 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain2".
251105-01:06:50,738 nipype.workflow INFO:
[Node] Executing "_acc_msk_brain2" <niworkflows.interfaces.nibabel.ApplyMask>
251105-01:06:50,738 nipype.workflow INFO:
[Node] Executing "_acc_msk_brain0" <niworkflows.interfaces.nibabel.ApplyMask>
251105-01:06:50,780 nipype.workflow INFO:
[Node] Finished "_acc_msk_brain1", elapsed time 0.049024s.
251105-01:06:50,787 nipype.workflow INFO:
[Node] Finished "_acc_msk_brain2", elapsed time 0.045899s.
251105-01:06:50,799 nipype.workflow INFO:
[Node] Finished "_acc_msk_brain0", elapsed time 0.060416s.
251105-01:06:52,680 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain0".
251105-01:06:52,681 nipype.workflow INFO:
[Node] Cached "_acc_msk_brain0" - collecting precomputed outputs
251105-01:06:52,682 nipype.workflow INFO:
[Node] "_acc_msk_brain0" found cached.
251105-01:06:52,682 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain1".
251105-01:06:52,683 nipype.workflow INFO:
[Node] Cached "_acc_msk_brain1" - collecting precomputed outputs
251105-01:06:52,683 nipype.workflow INFO:
[Node] "_acc_msk_brain1" found cached.
251105-01:06:52,683 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_brain2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_brain/mapflow/_acc_msk_brain2".
251105-01:06:52,684 nipype.workflow INFO:
[Node] Cached "_acc_msk_brain2" - collecting precomputed outputs
251105-01:06:52,684 nipype.workflow INFO:
[Node] "_acc_msk_brain2" found cached.
251105-01:06:56,712 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin0".
251105-01:06:56,719 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin2".
251105-01:06:56,721 nipype.workflow INFO:
[Node] Executing "_acc_msk_bin0" <niworkflows.interfaces.nibabel.Binarize>
251105-01:06:56,721 nipype.workflow INFO:
[Node] Executing "_acc_msk_bin2" <niworkflows.interfaces.nibabel.Binarize>
251105-01:06:56,730 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin1".
251105-01:06:56,731 nipype.workflow INFO:
[Node] Executing "_acc_msk_bin1" <niworkflows.interfaces.nibabel.Binarize>
251105-01:06:56,746 nipype.workflow INFO:
[Node] Finished "_acc_msk_bin2", elapsed time 0.024238s.
251105-01:06:56,752 nipype.workflow INFO:
[Node] Finished "_acc_msk_bin1", elapsed time 0.019714s.
251105-01:06:56,753 nipype.workflow INFO:
[Node] Finished "_acc_msk_bin0", elapsed time 0.031144s.
251105-01:06:56,785 nipype.workflow INFO:
[Node] Finished "seg_rpt", elapsed time 19.996237999999998s.
251105-01:06:58,411 nipype.workflow INFO:
[Node] Finished "epi_t1_report", elapsed time 17.703093s.
251105-01:06:58,859 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_fit_reports_wf.ds_epi_t1_report" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_fit_reports_wf/ds_epi_t1_report".
251105-01:06:58,862 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin0".
251105-01:06:58,863 nipype.workflow INFO:
[Node] Cached "_acc_msk_bin0" - collecting precomputed outputs
251105-01:06:58,863 nipype.workflow INFO:
[Node] "_acc_msk_bin0" found cached.
251105-01:06:58,864 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin1".
251105-01:06:58,865 nipype.workflow INFO:
[Node] Executing "ds_epi_t1_report" <aslprep.interfaces.bids.DerivativesDataSink>
251105-01:06:58,865 nipype.workflow INFO:
[Node] Cached "_acc_msk_bin1" - collecting precomputed outputs
251105-01:06:58,865 nipype.workflow INFO:
[Node] "_acc_msk_bin1" found cached.
251105-01:06:58,865 nipype.workflow INFO:
[Node] Setting-up "_acc_msk_bin2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/acc_msk_bin/mapflow/_acc_msk_bin2".
251105-01:06:58,866 nipype.workflow INFO:
[Node] Cached "_acc_msk_bin2" - collecting precomputed outputs
251105-01:06:58,866 nipype.workflow INFO:
[Node] "_acc_msk_bin2" found cached.
251105-01:06:58,880 nipype.workflow INFO:
[Node] Finished "ds_epi_t1_report", elapsed time 0.014581s.
251105-01:07:02,653 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.signals" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/signals".
251105-01:07:02,653 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.signals" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/signals".
251105-01:07:02,656 nipype.workflow INFO:
[Node] Executing "signals" <niworkflows.interfaces.images.SignalExtraction>
251105-01:07:02,657 nipype.workflow INFO:
[Node] Executing "signals" <niworkflows.interfaces.images.SignalExtraction>
251105-01:07:02,844 nipype.workflow INFO:
[Node] Finished "signals", elapsed time 0.186315s.
251105-01:07:03,21 nipype.workflow INFO:
[Node] Finished "signals", elapsed time 0.364798s.
251105-01:07:04,847 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_confounds" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_confounds".
251105-01:07:04,855 nipype.workflow INFO:
[Node] Executing "cbf_confounds" <aslprep.interfaces.confounds.GatherCBFConfounds>
251105-01:07:04,870 nipype.workflow INFO:
[Node] Finished "cbf_confounds", elapsed time 0.014379s.
251105-01:25:45,282 nipype.workflow INFO:
[Node] Finished "registration", elapsed time 1259.514809s.
251105-01:25:46,863 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.register_template_wf.outputnode" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/register_template_wf/outputnode".
251105-01:25:46,946 nipype.workflow INFO:
[Node] Executing "outputnode" <nipype.interfaces.utility.base.IdentityInterface>
251105-01:25:46,947 nipype.workflow INFO:
[Node] Finished "outputnode", elapsed time 0.000434s.
251105-01:25:48,848 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.template_buffer" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/template_buffer".
251105-01:25:48,870 nipype.workflow INFO:
[Node] Executing "template_buffer" <nipype.interfaces.utility.base.Merge>
251105-01:25:48,872 nipype.workflow INFO:
[Node] Finished "template_buffer", elapsed time 0.000411s.
251105-01:25:50,855 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat2std_buffer" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat2std_buffer".
251105-01:25:50,861 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.std2anat_buffer" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/std2anat_buffer".
251105-01:25:50,875 nipype.workflow INFO:
[Node] Executing "anat2std_buffer" <nipype.interfaces.utility.base.Merge>
251105-01:25:50,881 nipype.workflow INFO:
[Node] Executing "std2anat_buffer" <nipype.interfaces.utility.base.Merge>
251105-01:25:50,882 nipype.workflow INFO:
[Node] Finished "anat2std_buffer", elapsed time 0.000427s.
251105-01:25:50,897 nipype.workflow INFO:
[Node] Finished "std2anat_buffer", elapsed time 0.008949s.
251105-01:25:54,860 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.aslref2mni152nlin2009casym" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/aslref2mni152nlin2009casym".
251105-01:25:54,889 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.anat2std_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_mask".
251105-01:25:54,890 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.anat2std_dseg" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_dseg".
251105-01:25:54,931 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.anat2std_t1w" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_t1w".
251105-01:25:54,980 nipype.workflow INFO:
[Node] Executing "aslref2mni152nlin2009casym" <nipype.interfaces.utility.base.Merge>
251105-01:25:54,987 nipype.workflow INFO:
[Node] Finished "aslref2mni152nlin2009casym", elapsed time 0.000249s.
251105-01:25:54,987 nipype.workflow INFO:
[Node] Executing "anat2std_dseg" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:54,995 nipype.workflow INFO:
[Node] Executing "anat2std_mask" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:55,5 nipype.workflow INFO:
[Node] Executing "anat2std_t1w" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:55,194 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.aslref2target" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/aslref2target".
251105-01:25:55,198 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.t1w_std" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/_in_tuple_MNI152NLin2009cAsym.resnative/t1w_std".
251105-01:25:55,198 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.mask_std" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/_in_tuple_MNI152NLin2009cAsym.resnative/mask_std".
251105-01:25:55,199 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.parcellate_cbf_wf.merge_xforms" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/merge_xforms".
251105-01:25:55,216 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.carpetplot_wf.mrg_xfms" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/carpetplot_wf/mrg_xfms".
251105-01:25:55,251 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_carpetplot_wf.mrg_xfms" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_carpetplot_wf/mrg_xfms".
251105-01:25:55,337 nipype.workflow INFO:
[Node] Executing "aslref2target" <nipype.interfaces.utility.base.Merge>
251105-01:25:55,339 nipype.workflow INFO:
[Node] Finished "aslref2target", elapsed time 0.00026s.
251105-01:25:55,345 nipype.workflow INFO:
[Node] Executing "mrg_xfms" <nipype.interfaces.utility.base.Merge>
251105-01:25:55,346 nipype.workflow INFO:
[Node] Executing "mask_std" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:55,352 nipype.workflow INFO:
[Node] Executing "merge_xforms" <nipype.interfaces.utility.base.Merge>
251105-01:25:55,359 nipype.workflow INFO:
[Node] Executing "t1w_std" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:55,359 nipype.workflow INFO:
[Node] Finished "mrg_xfms", elapsed time 0.006549s.
251105-01:25:55,360 nipype.workflow INFO:
[Node] Executing "mrg_xfms" <nipype.interfaces.utility.base.Merge>
251105-01:25:55,360 nipype.workflow INFO:
[Node] Finished "merge_xforms", elapsed time 0.000351s.
251105-01:25:55,379 nipype.workflow INFO:
[Node] Finished "mrg_xfms", elapsed time 0.000346s.
251105-01:25:58,762 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_confounds_wf.warp_asl_mask_to_mni152nlin2009casym" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_confounds_wf/warp_asl_mask_to_mni152nlin2009casym".
251105-01:25:58,766 nipype.workflow INFO:
[Node] Executing "warp_asl_mask_to_mni152nlin2009casym" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:25:59,814 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.resample_mask" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/resample_mask".
251105-01:25:59,867 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.carpetplot_wf.resample_parc" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/carpetplot_wf/resample_parc".
251105-01:25:59,879 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_carpetplot_wf.resample_parc" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_carpetplot_wf/resample_parc".
251105-01:25:59,885 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.warp_mean_cbf_to_std" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/warp_mean_cbf_to_std".
251105-01:25:59,885 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.warp_cbf_ts_to_std" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/warp_cbf_ts_to_std".
251105-01:25:59,886 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms1".
251105-01:25:59,886 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms0".
251105-01:25:59,892 nipype.workflow INFO:
[Node] Executing "resample_parc" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:25:59,910 nipype.workflow INFO:
[Node] Executing "resample_mask" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:25:59,910 nipype.workflow INFO:
[Node] Executing "_anat2std_tpms0" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:59,910 nipype.workflow INFO:
[Node] Executing "_anat2std_tpms1" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:25:59,911 nipype.workflow INFO:
[Node] Executing "resample_parc" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:25:59,919 nipype.workflow INFO:
[Node] Executing "warp_mean_cbf_to_std" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:25:59,919 nipype.workflow INFO:
[Node] Executing "warp_cbf_ts_to_std" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:00,118 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms2".
251105-01:26:00,120 nipype.workflow INFO:
[Node] Executing "_anat2std_tpms2" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
251105-01:26:00,322 nipype.workflow INFO:
[Node] Finished "warp_asl_mask_to_mni152nlin2009casym", elapsed time 1.548138s.
251105-01:26:00,401 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space2".
251105-01:26:00,408 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space1".
251105-01:26:00,413 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space0".
251105-01:26:00,414 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space2" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:00,437 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space1" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:00,460 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space0" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:01,552 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_std_wf.resample" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_std_wf/_in_tuple_MNI152NLin2009cAsym.resnative/resample".
251105-01:26:01,613 nipype.workflow INFO:
[Node] Executing "resample" <fmriprep.interfaces.resampling.ResampleSeries>
no score inputs, setting to np.nan
no basil inputs, setting to np.nan
251105-01:26:14,996 nipype.workflow INFO:
[Node] Finished "resample_parc", elapsed time 15.102629s.
251105-01:26:15,59 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space3".
251105-01:26:15,106 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space3" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:15,697 nipype.workflow INFO:
[Node] Finished "warp_mean_cbf_to_std", elapsed time 15.776869s.
251105-01:26:15,705 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space4".
251105-01:26:15,738 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space4" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:17,83 nipype.workflow INFO:
[Node] Finished "resample_mask", elapsed time 17.16864s.
251105-01:26:17,103 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space5".
251105-01:26:17,118 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space5" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:17,830 nipype.workflow INFO:
[Node] Finished "resample_parc", elapsed time 17.913406s.
251105-01:26:17,857 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space6".
251105-01:26:17,860 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space6" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:18,260 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sub-01/perf/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz dtype from float64 to uint8
251105-01:26:25,175 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.carpetplot_wf.parcels" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/carpetplot_wf/parcels".
251105-01:26:25,175 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_carpetplot_wf.parcels" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_carpetplot_wf/parcels".
251105-01:26:27,249 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space2", elapsed time 26.834713999999998s.
251105-01:26:27,755 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space1", elapsed time 27.306214s.
251105-01:26:28,94 nipype.workflow INFO:
[Node] Finished "warp_cbf_ts_to_std", elapsed time 28.173923s.
251105-01:26:28,256 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space13".
251105-01:26:28,258 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space13" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:28,380 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space3", elapsed time 13.273691s.
251105-01:26:28,563 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space4", elapsed time 12.823233s.
251105-01:26:28,867 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space0", elapsed time 28.40056s.
251105-01:26:29,423 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space5", elapsed time 12.305021s.
251105-01:26:29,689 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space6", elapsed time 11.828432s.
251105-01:26:30,285 nipype.workflow INFO:
[Node] Finished "resample", elapsed time 28.665906s.
251105-01:26:31,403 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space13", elapsed time 3.143632s.
251105-01:26:31,758 nipype.workflow INFO:
[Node] Finished "_anat2std_tpms2", elapsed time 31.630763s.
251105-01:26:33,368 nipype.workflow INFO:
[Node] Finished "_anat2std_tpms0", elapsed time 33.451444s.
251105-01:26:34,11 nipype.workflow INFO:
[Node] Finished "_anat2std_tpms1", elapsed time 34.093798s.
251105-01:26:34,117 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space9".
251105-01:26:34,117 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space12".
251105-01:26:34,118 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space10".
251105-01:26:34,120 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space9" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,120 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space12" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,121 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space10" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,131 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space8".
251105-01:26:34,134 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space8" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,137 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space11".
251105-01:26:34,141 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space11" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,141 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wrappers.Function>
251105-01:26:34,142 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wrappers.Function>
251105-01:26:34,166 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space7".
251105-01:26:34,169 nipype.workflow INFO:
[Node] Executing "_warp_atlases_to_asl_space7" <aslprep.interfaces.ants.ApplyTransforms>
251105-01:26:34,197 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.051965s.
251105-01:26:34,199 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.053661s.
251105-01:26:35,875 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.carpetplot_wf.conf_plot" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/carpetplot_wf/conf_plot".
251105-01:26:35,883 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.cbf_reporting_wf.cbf_carpetplot_wf.conf_plot" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/cbf_reporting_wf/cbf_carpetplot_wf/conf_plot".
251105-01:26:35,907 nipype.workflow INFO:
[Node] Executing "conf_plot" <aslprep.interfaces.plotting.ASLCarpetPlot>
251105-01:26:35,908 nipype.workflow INFO:
[Node] Executing "conf_plot" <aslprep.interfaces.plotting.ASLCarpetPlot>
251105-01:26:35,908 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms0".
251105-01:26:35,916 nipype.workflow INFO:
[Node] Cached "_anat2std_tpms0" - collecting precomputed outputs
251105-01:26:35,917 nipype.workflow INFO:
[Node] "_anat2std_tpms0" found cached.
251105-01:26:35,918 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms1".
251105-01:26:35,919 nipype.workflow INFO:
[Node] Cached "_anat2std_tpms1" - collecting precomputed outputs
251105-01:26:35,919 nipype.workflow INFO:
[Node] "_anat2std_tpms1" found cached.
251105-01:26:35,921 nipype.workflow INFO:
[Node] Setting-up "_anat2std_tpms2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/anat2std_tpms/mapflow/_anat2std_tpms2".
251105-01:26:35,922 nipype.workflow INFO:
[Node] Cached "_anat2std_tpms2" - collecting precomputed outputs
251105-01:26:35,922 nipype.workflow INFO:
[Node] "_anat2std_tpms2" found cached.
251105-01:26:39,32 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space12", elapsed time 4.602551s.
251105-01:26:39,166 nipype.workflow INFO:
[Node] Finished "conf_plot", elapsed time 3.258185s.
251105-01:26:39,244 nipype.workflow INFO:
[Node] Finished "conf_plot", elapsed time 3.336268s.
251105-01:26:39,749 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space10", elapsed time 5.319191s.
251105-01:26:39,843 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space11", elapsed time 5.372196s.
251105-01:26:40,456 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space7", elapsed time 5.9780429999999996s.
251105-01:26:40,456 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space8", elapsed time 6.025507s.
251105-01:26:40,707 nipype.workflow INFO:
[Node] Finished "_warp_atlases_to_asl_space9", elapsed time 6.280006s.
251105-01:26:42,173 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space0".
251105-01:26:42,174 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space0" - collecting precomputed outputs
251105-01:26:42,174 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space0" found cached.
251105-01:26:42,181 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space1".
251105-01:26:42,182 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space1" - collecting precomputed outputs
251105-01:26:42,182 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space1" found cached.
251105-01:26:42,183 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space2".
251105-01:26:42,190 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space2" - collecting precomputed outputs
251105-01:26:42,190 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space2" found cached.
251105-01:26:42,191 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space3".
251105-01:26:42,192 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space3" - collecting precomputed outputs
251105-01:26:42,192 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space3" found cached.
251105-01:26:42,194 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space4".
251105-01:26:42,195 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space4" - collecting precomputed outputs
251105-01:26:42,195 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space4" found cached.
251105-01:26:42,196 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space5".
251105-01:26:42,197 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space5" - collecting precomputed outputs
251105-01:26:42,197 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space5" found cached.
251105-01:26:42,198 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space6".
251105-01:26:42,199 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space6" - collecting precomputed outputs
251105-01:26:42,199 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space6" found cached.
251105-01:26:42,200 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space7".
251105-01:26:42,201 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space7" - collecting precomputed outputs
251105-01:26:42,201 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space7" found cached.
251105-01:26:42,202 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space8".
251105-01:26:42,203 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space8" - collecting precomputed outputs
251105-01:26:42,203 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space8" found cached.
251105-01:26:42,204 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space9".
251105-01:26:42,205 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space9" - collecting precomputed outputs
251105-01:26:42,205 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space9" found cached.
251105-01:26:42,206 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space10".
251105-01:26:42,206 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space10" - collecting precomputed outputs
251105-01:26:42,207 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space10" found cached.
251105-01:26:42,207 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space11".
251105-01:26:42,208 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space11" - collecting precomputed outputs
251105-01:26:42,208 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space11" found cached.
251105-01:26:42,209 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space12".
251105-01:26:42,210 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space12" - collecting precomputed outputs
251105-01:26:42,210 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space12" found cached.
251105-01:26:42,211 nipype.workflow INFO:
[Node] Setting-up "_warp_atlases_to_asl_space13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/warp_atlases_to_asl_space/mapflow/_warp_atlases_to_asl_space13".
251105-01:26:42,212 nipype.workflow INFO:
[Node] Cached "_warp_atlases_to_asl_space13" - collecting precomputed outputs
251105-01:26:42,212 nipype.workflow INFO:
[Node] "_warp_atlases_to_asl_space13" found cached.
251105-01:26:46,271 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf0".
251105-01:26:46,282 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf2".
251105-01:26:46,282 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf4".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf3".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf6".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf7".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf5".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf9".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf1".
251105-01:26:46,283 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf10".
251105-01:26:46,288 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf11".
251105-01:26:46,291 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf0" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,291 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf9" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,291 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf8".
251105-01:26:46,291 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf12".
251105-01:26:46,298 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf13".
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf6" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf3" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf2" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf4" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf5" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,299 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf7" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,323 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf10" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,323 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf11" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,324 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf1" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,324 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf8" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,325 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf13" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:46,351 nipype.workflow INFO:
[Node] Executing "_parcellate_mean_cbf12" <aslprep.interfaces.parcellation.ParcellateCBF>
251105-01:26:47,658 nipype.workflow INFO:
[Node] Finished "t1w_std", elapsed time 52.297646s.
251105-01:26:48,201 nipype.workflow INFO:
[Node] Finished "anat2std_t1w", elapsed time 53.195287s.
251105-01:26:50,499 nipype.interface WARNING:
7/360 of parcels not found in atlas file.
251105-01:26:50,499 nipype.interface WARNING:
1/360 of parcels have 0% coverage.
251105-01:26:50,499 nipype.interface WARNING:
12/360 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,499 nipype.interface WARNING:
45/360 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,500 nipype.interface WARNING:
20/656 of parcels not found in atlas file.
251105-01:26:50,500 nipype.interface WARNING:
7/656 of parcels have 0% coverage.
251105-01:26:50,500 nipype.interface WARNING:
33/656 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,500 nipype.interface WARNING:
121/656 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,511 nipype.interface WARNING:
31/856 of parcels not found in atlas file.
251105-01:26:50,511 nipype.interface WARNING:
9/856 of parcels have 0% coverage.
251105-01:26:50,511 nipype.interface WARNING:
41/856 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,511 nipype.interface WARNING:
133/856 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,516 nipype.interface WARNING:
3/19 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,544 nipype.interface WARNING:
11/456 of parcels not found in atlas file.
251105-01:26:50,544 nipype.interface WARNING:
1/456 of parcels have 0% coverage.
251105-01:26:50,544 nipype.interface WARNING:
18/456 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,544 nipype.interface WARNING:
101/456 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,564 nipype.interface WARNING:
36/956 of parcels not found in atlas file.
251105-01:26:50,564 nipype.interface WARNING:
16/956 of parcels have 0% coverage.
251105-01:26:50,564 nipype.interface WARNING:
42/956 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,564 nipype.interface WARNING:
138/956 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,594 nipype.interface WARNING:
21/756 of parcels not found in atlas file.
251105-01:26:50,594 nipype.interface WARNING:
7/756 of parcels have 0% coverage.
251105-01:26:50,594 nipype.interface WARNING:
34/756 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,594 nipype.interface WARNING:
123/756 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,640 nipype.interface WARNING:
12/333 of parcels not found in atlas file.
251105-01:26:50,640 nipype.interface WARNING:
1/333 of parcels have 0% coverage.
251105-01:26:50,640 nipype.interface WARNING:
6/333 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,640 nipype.interface WARNING:
42/333 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,651 nipype.interface WARNING:
7/356 of parcels not found in atlas file.
251105-01:26:50,651 nipype.interface WARNING:
14/356 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,651 nipype.interface WARNING:
93/356 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,668 nipype.interface WARNING:
35/1056 of parcels not found in atlas file.
251105-01:26:50,668 nipype.interface WARNING:
11/1056 of parcels have 0% coverage.
251105-01:26:50,668 nipype.interface WARNING:
49/1056 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,668 nipype.interface WARNING:
144/1056 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,728 nipype.interface WARNING:
3/256 of parcels not found in atlas file.
251105-01:26:50,729 nipype.interface WARNING:
1/256 of parcels have 0% coverage.
251105-01:26:50,729 nipype.interface WARNING:
9/256 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,729 nipype.interface WARNING:
76/256 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,735 nipype.interface WARNING:
2/156 of parcels not found in atlas file.
251105-01:26:50,735 nipype.interface WARNING:
4/156 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,735 nipype.interface WARNING:
51/156 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:50,743 nipype.interface WARNING:
18/556 of parcels not found in atlas file.
251105-01:26:50,743 nipype.interface WARNING:
1/556 of parcels have 0% coverage.
251105-01:26:50,743 nipype.interface WARNING:
26/556 of parcels have <50% coverage. These parcels' time series will be replaced with zeros.
251105-01:26:50,743 nipype.interface WARNING:
110/556 of parcels have at least one uncovered voxel, but have enough good voxels to be useable. The bad voxels will be ignored and the parcels' time series will be calculated from the remaining voxels.
251105-01:26:51,431 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf13", elapsed time 5.09941s.
251105-01:26:51,457 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf12", elapsed time 5.085364s.
251105-01:26:51,459 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf6", elapsed time 5.15979s.
251105-01:26:51,480 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf10", elapsed time 5.156202s.
251105-01:26:51,519 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf4", elapsed time 5.213623s.
251105-01:26:51,552 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf8", elapsed time 5.227238s.
251105-01:26:51,624 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf9", elapsed time 5.325712s.
251105-01:26:51,675 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf7", elapsed time 5.363232s.
251105-01:26:51,722 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf11", elapsed time 5.397608s.
251105-01:26:51,747 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf3", elapsed time 5.440847s.
251105-01:26:51,777 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf0", elapsed time 5.484952s.
251105-01:26:51,834 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf5", elapsed time 5.528147s.
251105-01:26:51,888 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf1", elapsed time 5.563627s.
251105-01:26:51,895 nipype.workflow INFO:
[Node] Finished "_parcellate_mean_cbf2", elapsed time 5.588694s.
251105-01:26:52,171 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf0" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf0".
251105-01:26:52,172 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf0" - collecting precomputed outputs
251105-01:26:52,172 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf0" found cached.
251105-01:26:52,173 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf1" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf1".
251105-01:26:52,174 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf1" - collecting precomputed outputs
251105-01:26:52,174 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf1" found cached.
251105-01:26:52,175 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf2" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf2".
251105-01:26:52,175 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf2" - collecting precomputed outputs
251105-01:26:52,175 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf2" found cached.
251105-01:26:52,176 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf3" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf3".
251105-01:26:52,177 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf3" - collecting precomputed outputs
251105-01:26:52,177 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf3" found cached.
251105-01:26:52,177 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf4" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf4".
251105-01:26:52,178 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf4" - collecting precomputed outputs
251105-01:26:52,178 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf4" found cached.
251105-01:26:52,179 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf5" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf5".
251105-01:26:52,180 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf5" - collecting precomputed outputs
251105-01:26:52,180 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf5" found cached.
251105-01:26:52,180 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf6" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf6".
251105-01:26:52,181 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf6" - collecting precomputed outputs
251105-01:26:52,181 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf6" found cached.
251105-01:26:52,182 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf7" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf7".
251105-01:26:52,182 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf7" - collecting precomputed outputs
251105-01:26:52,183 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf7" found cached.
251105-01:26:52,183 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf8" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf8".
251105-01:26:52,184 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf8" - collecting precomputed outputs
251105-01:26:52,184 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf8" found cached.
251105-01:26:52,184 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf9" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf9".
251105-01:26:52,185 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf9" - collecting precomputed outputs
251105-01:26:52,185 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf9" found cached.
251105-01:26:52,186 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf10" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf10".
251105-01:26:52,187 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf10" - collecting precomputed outputs
251105-01:26:52,187 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf10" found cached.
251105-01:26:52,187 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf11" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf11".
251105-01:26:52,188 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf11" - collecting precomputed outputs
251105-01:26:52,188 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf11" found cached.
251105-01:26:52,189 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf12" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf12".
251105-01:26:52,190 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf12" - collecting precomputed outputs
251105-01:26:52,190 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf12" found cached.
251105-01:26:52,190 nipype.workflow INFO:
[Node] Setting-up "_parcellate_mean_cbf13" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/parcellate_mean_cbf/mapflow/_parcellate_mean_cbf13".
251105-01:26:52,191 nipype.workflow INFO:
[Node] Cached "_parcellate_mean_cbf13" - collecting precomputed outputs
251105-01:26:52,191 nipype.workflow INFO:
[Node] "_parcellate_mean_cbf13" found cached.
251105-01:27:08,6 nipype.workflow INFO:
[Node] Finished "mask_std", elapsed time 72.653427s.
251105-01:27:08,947 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.norm_msk" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/_in_tuple_MNI152NLin2009cAsym.resnative/norm_msk".
251105-01:27:08,954 nipype.workflow INFO:
[Node] Executing "norm_msk" <nipype.interfaces.utility.wrappers.Function>
251105-01:27:10,457 nipype.workflow INFO:
[Node] Finished "norm_msk", elapsed time 1.5023279999999999s.
251105-01:27:10,900 nipype.workflow INFO:
[Node] Setting-up "aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_reports_wf.norm_rpt" in "/home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_reports_wf/_in_tuple_MNI152NLin2009cAsym.resnative/norm_rpt".
251105-01:27:10,910 nipype.workflow INFO:
[Node] Executing "norm_rpt" <niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT>
251105-01:27:13,644 nipype.workflow INFO:
[Node] Finished "anat2std_mask", elapsed time 78.640787s.
251105-01:27:14,914 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz dtype from float64 to uint8
251105-01:27:17,684 nipype.workflow INFO:
[Node] Finished "anat2std_dseg", elapsed time 82.690006s.
251105-01:27:18,923 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/example-notebooks/books/functional_imaging/aslprep-output/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_dseg.nii.gz dtype from float64 to int16
251105-01:27:32,52 nipype.workflow INFO:
[Node] Finished "norm_rpt", elapsed time 21.141565s.
251105-01:27:35,592 nipype.workflow IMPORTANT:
ASLPrep finished successfully!
251105-01:27:35,603 nipype.workflow IMPORTANT:
Works derived from this ASLPrep execution should include the boilerplate text found in <OUTPUT_PATH>/logs/CITATION.md.
(node:2620847) Warning: Closing directory handle on garbage collection
(Use `node --trace-warnings ...` to show where the warning was created)
Downloading https://templateflow.s3.amazonaws.com/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_from-MNI152NLin6Asym_mode-image_xfm.h5
100%|██████████| 205M/205M [00:07<00:00, 27.2MB/s]
---------------------------------------------------------------------------
CalledProcessError Traceback (most recent call last)
Cell In[3], line 1
----> 1 get_ipython().run_cell_magic('bash', '', '# aslprep data/bids_root/ out/ participant -w work/\naslprep ds000240 \\\n aslprep-output \\\n participant \\\n --participant-label 01 \\\n --fs-license-file ~/.license \\\n -w aslprep-work\n')
File /opt/conda/lib/python3.11/site-packages/IPython/core/interactiveshell.py:2493, in InteractiveShell.run_cell_magic(self, magic_name, line, cell)
2491 with self.builtin_trap:
2492 args = (magic_arg_s, cell)
-> 2493 result = fn(*args, **kwargs)
2495 # The code below prevents the output from being displayed
2496 # when using magics with decorator @output_can_be_silenced
2497 # when the last Python token in the expression is a ';'.
2498 if getattr(fn, magic.MAGIC_OUTPUT_CAN_BE_SILENCED, False):
File /opt/conda/lib/python3.11/site-packages/IPython/core/magics/script.py:154, in ScriptMagics._make_script_magic.<locals>.named_script_magic(line, cell)
152 else:
153 line = script
--> 154 return self.shebang(line, cell)
File /opt/conda/lib/python3.11/site-packages/IPython/core/magics/script.py:314, in ScriptMagics.shebang(self, line, cell)
309 if args.raise_error and p.returncode != 0:
310 # If we get here and p.returncode is still None, we must have
311 # killed it but not yet seen its return code. We don't wait for it,
312 # in case it's stuck in uninterruptible sleep. -9 = SIGKILL
313 rc = p.returncode or -9
--> 314 raise CalledProcessError(rc, cell)
CalledProcessError: Command 'b'# aslprep data/bids_root/ out/ participant -w work/\naslprep ds000240 \\\n aslprep-output \\\n participant \\\n --participant-label 01 \\\n --fs-license-file ~/.license \\\n -w aslprep-work\n'' returned non-zero exit status 1.
aslprep Results#
The full result report is in aslprep-output/sub-01.html and you can open this webpage in Jupyterlab or in the browser. Here a few items from the report as an example and for a quick checking:
Brain mask and brain tissue segmentation of the T1w#
This panel shows the template T1-weighted image (if several T1w images were found), with contours delineating the detected brain mask and brain tissue segmentations.
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_dseg.svg')
Spatial normalization of the anatomical T1w reference#
Results of nonlinear alignment of the T1w reference one or more template space(s)
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_space-MNI152NLin2009cAsym_T1w.svg')
Surface reconstruction#
Surfaces (white and pial) reconstructed with FreeSurfer (recon-all) overlaid on the participant’s T1w template.
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_desc-reconall_T1w.svg')
Alignment of functional and anatomical MRI data (volume based)#
mri_coreg (FreeSurfer) was used to generate transformations from EPI space to T1 Space - bbregister refinement rejected. Note that Nearest Neighbor interpolation is used in the reportlets in order to highlight potential spin-history and other artifacts, whereas final images are resampled using Lanczos interpolation.
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_desc-coreg_asl.svg')
ASL Summary#
Summary statistics are plotted, which may reveal trends or artifacts in the ASL data. DVARS and FD show the standardized DVARS and framewise-displacement measures for each time point. A carpet plot shows the time series for all voxels within the brain mask. Voxels are grouped into cortical (blue), and subcortical (orange) gray matter, cerebellum (green) and white matter and CSF (red), indicated by the color map on the left-hand side.
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_desc-carpetplot_asl.svg')
CBF#
The maps plot cerebral blood flow (CBF) for basic CBF. The unit is mL/100 g/min.
from IPython.core.display import SVG
SVG(filename='aslprep-output/sub-01/figures/sub-01_desc-cbf_cbf.svg')
Dependencies in Jupyter/Python#
Using the package watermark to document system environment and software versions used in this notebook
%load_ext watermark
%watermark
%watermark --iversions
Last updated: 2025-11-05T01:33:38.158844+00:00
Python implementation: CPython
Python version : 3.11.6
IPython version : 8.16.1
Compiler : GCC 12.3.0
OS : Linux
Release : 5.4.0-204-generic
Machine : x86_64
Processor : x86_64
CPU cores : 32
Architecture: 64bit
IPython: 8.16.1