{ "cells": [ { "cell_type": "markdown", "metadata": { "colab_type": "text", "id": "view-in-github" }, "source": [ "\n", "\"Open " ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "# ASLprep\n", "\n", "Author: Steffen Bollmann" ] }, { "cell_type": "markdown", "metadata": { "id": "JkhI6CLRoPU_" }, "source": [ "## Setup Neurodesk" ] }, { "cell_type": "code", "execution_count": null, "metadata": { "colab": { "base_uri": "https://localhost:8080/" }, "id": "Jfdj9uK8fIEP", "outputId": "e286b923-463e-4ca8-8f2a-c03d27d8a872" }, "outputs": [], "source": [ "%%capture\n", "import os\n", "import sys\n", "IN_COLAB = 'google.colab' in sys.modules\n", "\n", "if IN_COLAB:\n", " os.environ[\"LD_PRELOAD\"] = \"\";\n", " os.environ[\"APPTAINER_BINDPATH\"] = \"/content,/tmp,/cvmfs\"\n", " os.environ[\"MPLCONFIGDIR\"] = \"/content/matplotlib-mpldir\"\n", " os.environ[\"LMOD_CMD\"] = \"/usr/share/lmod/lmod/libexec/lmod\"\n", "\n", " !curl -J -O https://raw.githubusercontent.com/NeuroDesk/neurocommand/main/googlecolab_setup.sh\n", " !chmod +x googlecolab_setup.sh\n", " !./googlecolab_setup.sh\n", "\n", " os.environ[\"MODULEPATH\"] = ':'.join(map(str, list(map(lambda x: os.path.join(os.path.abspath('/cvmfs/neurodesk.ardc.edu.au/neurodesk-modules/'), x),os.listdir('/cvmfs/neurodesk.ardc.edu.au/neurodesk-modules/')))))" ] }, { "cell_type": "code", "execution_count": 2, "metadata": { "tags": [] }, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "vendor_id\t: AuthenticAMD\n", "model name\t: AMD EPYC-Rome Processor\n" ] } ], "source": [ "# Output CPU information:\n", "!cat /proc/cpuinfo | grep 'vendor' | uniq\n", "!cat /proc/cpuinfo | grep 'model name' | uniq" ] }, { "cell_type": "markdown", "metadata": { "id": "Emcl6_v2oS8w" }, "source": [ "## Run aslprep" ] }, { "cell_type": "code", "execution_count": 2, "metadata": { "colab": { "base_uri": "https://localhost:8080/" }, "id": "KP-zWRC-fpq-", "outputId": "5d32f567-153d-4d5a-e181-01eb08c8ac96" }, "outputs": [ { "data": { "text/plain": [ "['aslprep/0.7.2']" ] }, "execution_count": 2, "metadata": {}, "output_type": "execute_result" } ], "source": [ "# load fmriprep\n", "import lmod\n", "import os\n", "await lmod.load('aslprep/0.7.2')\n", "await lmod.list()" ] }, { "cell_type": "code", "execution_count": 4, "metadata": { "id": "HCuMtD1jfsOh" }, "outputs": [], "source": [ "# Request a freesurfer license and store it in your homedirectory. This is just an exampe - please replace with your license id:\n", "!echo \"Steffen.Bollmann@cai.uq.edu.au\" > ~/.license\n", "!echo \"21029\" >> ~/.license\n", "!echo \"*Cqyn12sqTCxo\" >> ~/.license\n", "!echo \"FSxgcvGkNR59Y\" >> ~/.license" ] }, { "cell_type": "code", "execution_count": 5, "metadata": { "colab": { "base_uri": "https://localhost:8080/" }, "id": "B2b1ZHDFfu7a", "outputId": "dc408c99-c534-4a43-b349-eb6a4e57d52c", "tags": [ "scroll-output" ] }, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "Cloning: 0%| | 0.00/2.00 [00:00\n", "241015-23:34:23,907 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.res_tmpl\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/res_tmpl\".\n", "241015-23:34:23,910 nipype.workflow INFO:\n", "\t [Node] Executing \"res_tmpl\" \n", "241015-23:34:24,16 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.processing_target\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/processing_target\".\n", "241015-23:34:24,18 nipype.workflow INFO:\n", "\t [Node] Executing \"processing_target\" \n", "241015-23:34:24,132 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.lap_tmpl\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/lap_tmpl\".\n", "241015-23:34:24,134 nipype.workflow INFO:\n", "\t [Node] Executing \"lap_tmpl\" \n", "241015-23:34:24,354 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:34:24,358 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:34:24,364 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000742s.\n", "241015-23:34:24,368 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_hmc_wf.raw_sources\" in \"/home/jovyan/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\".\n", "241015-23:34:24,371 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:34:24,372 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000636s.\n", "241015-23:34:24,375 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.processing_target\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/processing_target\".\n", "241015-23:34:24,378 nipype.workflow INFO:\n", "\t [Node] Executing \"processing_target\" \n", "241015-23:34:24,513 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.hmc_aslref_wf.val_asl\" in \"/home/jovyan/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\".\n", "241015-23:34:24,516 nipype.workflow INFO:\n", "\t [Node] Executing \"val_asl\" \n", "241015-23:34:24,626 nipype.workflow INFO:\n", "\t [Node] Finished \"val_asl\", elapsed time 0.103679s.\n", "241015-23:34:24,638 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.ds_asl_std_wf.raw_sources\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/ds_asl_std_wf/raw_sources\".\n", "241015-23:34:24,641 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:34:24,643 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000873s.\n", "241015-23:34:24,644 nipype.workflow INFO:\n", "\t [Node] Finished \"processing_target\", elapsed time 0.620777s.\n", "241015-23:34:24,658 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.parcellate_cbf_wf.atlas_name_grabber\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/parcellate_cbf_wf/atlas_name_grabber\".\n", "241015-23:34:24,661 nipype.workflow INFO:\n", "\t [Node] Executing \"atlas_name_grabber\" \n", "241015-23:34:24,662 nipype.workflow INFO:\n", "\t [Node] Finished \"atlas_name_grabber\", elapsed time 0.000655s.\n", "241015-23:34:25,9 nipype.workflow INFO:\n", "\t [Node] Finished \"processing_target\", elapsed time 0.630156s.\n", "241015-23:34:25,20 nipype.workflow INFO:\n", "\t [Node] Finished \"full_wm\", elapsed time 1.367654s.\n", "241015-23:34:25,68 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.validate_asl\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/validate_asl\".\n", "241015-23:34:25,70 nipype.workflow INFO:\n", "\t [Node] Executing \"validate_asl\" \n", "241015-23:34:25,185 nipype.workflow INFO:\n", "\t [Node] Finished \"validate_asl\", elapsed time 0.109683s.\n", "241015-23:34:25,668 nipype.workflow INFO:\n", "\t [Node] Finished \"res_tmpl\", elapsed time 1.751608s.\n", "241015-23:34:27,873 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber0\" in \"/home/jovyan/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\".\n", "241015-23:34:27,876 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber1\" in \"/home/jovyan/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\".\n", "241015-23:34:27,878 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber2\" in \"/home/jovyan/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\".\n", "241015-23:34:27,878 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber0\" \n", "241015-23:34:27,879 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber3\" in \"/home/jovyan/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\".\n", "241015-23:34:27,880 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber1\" \n", "241015-23:34:27,880 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber4\" in \"/home/jovyan/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\".\n", "241015-23:34:27,882 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber2\" \n", "241015-23:34:27,882 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber5\" in \"/home/jovyan/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\".\n", "241015-23:34:27,883 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber3\" \n", "241015-23:34:27,883 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber6\" in \"/home/jovyan/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\".\n", "241015-23:34:27,885 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber4\" \n", "241015-23:34:27,886 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber5\" \n", "241015-23:34:27,886 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber6\" \n", "241015-23:34:27,889 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber3\", elapsed time 0.004739s.\n", "241015-23:34:27,891 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber1\", elapsed time 0.004406s.\n", "241015-23:34:27,893 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber7\" in \"/home/jovyan/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\".\n", "241015-23:34:27,894 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber6\", elapsed time 0.006154s.\n", "241015-23:34:27,894 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber2\", elapsed time 0.006392s.\n", "241015-23:34:27,896 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber8\" in \"/home/jovyan/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\".\n", "241015-23:34:27,896 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber7\" \n", "241015-23:34:27,897 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber9\" in \"/home/jovyan/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\".\n", "241015-23:34:27,898 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber8\" \n", "241015-23:34:27,900 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber9\" \n", "241015-23:34:27,903 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber4\", elapsed time 0.011844s.\n", "241015-23:34:27,903 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber5\", elapsed time 0.009827s.\n", "241015-23:34:27,904 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber8\", elapsed time 0.004553s.\n", "241015-23:34:27,904 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber7\", elapsed time 0.006769s.\n", "241015-23:34:27,904 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber9\", elapsed time 0.003245s.\n", "241015-23:34:27,904 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber10\" in \"/home/jovyan/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\".\n", "241015-23:34:27,904 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber0\", elapsed time 0.025012s.\n", "241015-23:34:27,907 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber11\" in \"/home/jovyan/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\".\n", "241015-23:34:27,907 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber12\" in \"/home/jovyan/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\".\n", "241015-23:34:27,908 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber13\" in \"/home/jovyan/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\".\n", "241015-23:34:27,909 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber11\" \n", "241015-23:34:27,909 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber12\" \n", "241015-23:34:27,910 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber13\" \n", "241015-23:34:27,910 nipype.workflow INFO:\n", "\t [Node] Executing \"_atlas_file_grabber10\" \n", "241015-23:34:27,911 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber11\", elapsed time 0.001751s.\n", "241015-23:34:27,912 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber12\", elapsed time 0.00191s.\n", "241015-23:34:27,913 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber13\", elapsed time 0.001958s.\n", "241015-23:34:27,914 nipype.workflow INFO:\n", "\t [Node] Finished \"_atlas_file_grabber10\", elapsed time 0.002364s.\n", "241015-23:34:28,832 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.bidssrc\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/bidssrc\".\n", "241015-23:34:28,835 nipype.workflow INFO:\n", "\t [Node] Executing \"bidssrc\" \n", "241015-23:34:28,840 nipype.interface INFO:\n", "\t No \"t2w\" images found for sub-01\n", "241015-23:34:28,840 nipype.interface INFO:\n", "\t No \"flair\" images found for sub-01\n", "241015-23:34:28,840 nipype.interface INFO:\n", "\t No \"fmap\" images found for sub-01\n", "241015-23:34:28,840 nipype.interface INFO:\n", "\t No \"sbref\" images found for sub-01\n", "241015-23:34:28,841 nipype.interface INFO:\n", "\t No \"roi\" images found for sub-01\n", "241015-23:34:28,842 nipype.workflow INFO:\n", "\t [Node] Finished \"bidssrc\", elapsed time 0.001041s.\n", "241015-23:34:29,579 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:34:29,589 nipype.workflow INFO:\n", "\t [Node] Executing \"select_highest_contrast_volumes\" \n", "241015-23:34:29,657 nipype.interface INFO:\n", "\t Selecting m0scan as highest-contrast volume type for reference volume generation.\n", "241015-23:34:29,851 nipype.workflow INFO:\n", "\t [Node] Finished \"select_highest_contrast_volumes\", elapsed time 0.261419s.\n", "241015-23:34:30,165 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_template_wf.anat_ref_dimensions\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/anat_ref_dimensions\".\n", "241015-23:34:30,374 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber0\" in \"/home/jovyan/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\".\n", "241015-23:34:30,375 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber0\" - collecting precomputed outputs\n", "241015-23:34:30,376 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber0\" found cached.\n", "241015-23:34:30,377 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber1\" in \"/home/jovyan/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\".\n", "241015-23:34:30,378 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber1\" - collecting precomputed outputs\n", "241015-23:34:30,378 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber1\" found cached.\n", "241015-23:34:30,380 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber2\" in \"/home/jovyan/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\".\n", "241015-23:34:30,381 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber2\" - collecting precomputed outputs\n", "241015-23:34:30,381 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber2\" found cached.\n", "241015-23:34:30,382 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber3\" in \"/home/jovyan/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\".\n", "241015-23:34:30,383 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber3\" - collecting precomputed outputs\n", "241015-23:34:30,383 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber3\" found cached.\n", "241015-23:34:30,385 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber4\" in \"/home/jovyan/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\".\n", "241015-23:34:30,386 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber4\" - collecting precomputed outputs\n", "241015-23:34:30,386 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber4\" found cached.\n", "241015-23:34:30,387 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber5\" in \"/home/jovyan/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\".\n", "241015-23:34:30,388 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber5\" - collecting precomputed outputs\n", "241015-23:34:30,388 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber5\" found cached.\n", "241015-23:34:30,389 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber6\" in \"/home/jovyan/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\".\n", "241015-23:34:30,390 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber6\" - collecting precomputed outputs\n", "241015-23:34:30,390 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber6\" found cached.\n", "241015-23:34:30,392 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber7\" in \"/home/jovyan/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\".\n", "241015-23:34:30,393 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber7\" - collecting precomputed outputs\n", "241015-23:34:30,393 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber7\" found cached.\n", "241015-23:34:30,394 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber8\" in \"/home/jovyan/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\".\n", "241015-23:34:30,395 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber8\" - collecting precomputed outputs\n", "241015-23:34:30,395 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber8\" found cached.\n", "241015-23:34:30,396 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber9\" in \"/home/jovyan/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\".\n", "241015-23:34:30,397 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber9\" - collecting precomputed outputs\n", "241015-23:34:30,397 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber9\" found cached.\n", "241015-23:34:30,398 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber10\" in \"/home/jovyan/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\".\n", "241015-23:34:30,399 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber10\" - collecting precomputed outputs\n", "241015-23:34:30,400 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber10\" found cached.\n", "241015-23:34:30,401 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber11\" in \"/home/jovyan/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\".\n", "241015-23:34:30,402 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber11\" - collecting precomputed outputs\n", "241015-23:34:30,402 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber11\" found cached.\n", "241015-23:34:30,403 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber12\" in \"/home/jovyan/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\".\n", "241015-23:34:30,404 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber12\" - collecting precomputed outputs\n", "241015-23:34:30,404 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber12\" found cached.\n", "241015-23:34:30,406 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_atlas_file_grabber13\" in \"/home/jovyan/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\".\n", "241015-23:34:30,407 nipype.workflow INFO:\n", "\t [Node] Cached \"_atlas_file_grabber13\" - collecting precomputed outputs\n", "241015-23:34:30,407 nipype.workflow INFO:\n", "\t [Node] \"_atlas_file_grabber13\" found cached.\n", "241015-23:34:30,602 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.reduce_asl_file\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/reduce_asl_file\".\n", "241015-23:34:30,608 nipype.workflow INFO:\n", "\t [Node] Executing \"reduce_asl_file\" \n", "241015-23:34:31,756 nipype.workflow INFO:\n", "\t [Node] Finished \"reduce_asl_file\", elapsed time 1.146737s.\n", "241015-23:34:31,811 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.reduce_asl_file\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/reduce_asl_file\".\n", "241015-23:34:31,835 nipype.workflow INFO:\n", "\t [Node] Executing \"reduce_asl_file\" \n", "241015-23:34:31,996 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.hmc_aslref_wf.gen_avg\" in \"/home/jovyan/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\".\n", "241015-23:34:32,671 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.bids_info\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/bids_info\".\n", "241015-23:34:32,967 nipype.workflow INFO:\n", "\t [Node] Finished \"reduce_asl_file\", elapsed time 1.130671s.\n", "241015-23:34:33,985 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities0\" in \"/home/jovyan/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\".\n", "241015-23:34:33,987 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities1\" in \"/home/jovyan/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\".\n", "241015-23:34:33,987 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities2\" in \"/home/jovyan/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\".\n", "241015-23:34:33,988 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities0\" \n", "241015-23:34:33,989 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities3\" in \"/home/jovyan/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\".\n", "241015-23:34:33,990 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities0\", elapsed time 0.001176s.\n", "241015-23:34:33,990 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities1\" \n", "241015-23:34:33,990 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities4\" in \"/home/jovyan/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\".\n", "241015-23:34:33,991 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities2\" \n", "241015-23:34:33,992 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities5\" in \"/home/jovyan/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\".\n", "241015-23:34:33,993 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities6\" in \"/home/jovyan/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\".\n", "241015-23:34:33,993 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities1\", elapsed time 0.001407s.\n", "241015-23:34:33,993 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities3\" \n", "241015-23:34:33,994 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities4\" \n", "241015-23:34:33,994 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities2\", elapsed time 0.001834s.\n", "241015-23:34:33,995 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities5\" \n", "241015-23:34:33,995 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities7\" in \"/home/jovyan/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\".\n", "241015-23:34:33,996 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities6\" \n", "241015-23:34:33,996 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities9\" in \"/home/jovyan/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\".\n", "241015-23:34:33,996 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities3\", elapsed time 0.001857s.\n", "241015-23:34:33,996 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities4\", elapsed time 0.001559s.\n", "241015-23:34:33,997 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities8\" in \"/home/jovyan/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\".\n", "241015-23:34:33,997 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities5\", elapsed time 0.001334s.\n", "241015-23:34:33,998 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities7\" \n", "241015-23:34:33,998 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities9\" \n", "241015-23:34:34,0 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities8\" \n", "241015-23:34:34,0 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities9\", elapsed time 0.001067s.\n", "241015-23:34:34,1 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities7\", elapsed time 0.001594s.\n", "241015-23:34:34,1 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities10\" in \"/home/jovyan/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\".\n", "241015-23:34:34,3 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities6\", elapsed time 0.001567s.\n", "241015-23:34:34,4 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities13\" in \"/home/jovyan/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\".\n", "241015-23:34:34,4 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities12\" in \"/home/jovyan/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\".\n", "241015-23:34:34,4 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities11\" in \"/home/jovyan/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\".\n", "241015-23:34:34,5 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities10\" \n", "241015-23:34:34,6 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities8\", elapsed time 0.001389s.\n", "241015-23:34:34,6 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities13\" \n", "241015-23:34:34,7 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities11\" \n", "241015-23:34:34,7 nipype.workflow INFO:\n", "\t [Node] Executing \"_get_atlas_entities12\" \n", "241015-23:34:34,8 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities13\", elapsed time 0.001059s.\n", "241015-23:34:34,9 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities11\", elapsed time 0.001382s.\n", "241015-23:34:34,10 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities12\", elapsed time 0.001622s.\n", "241015-23:34:34,13 nipype.workflow INFO:\n", "\t [Node] Finished \"_get_atlas_entities10\", elapsed time 0.001582s.\n", "241015-23:34:35,964 nipype.workflow INFO:\n", "\t [Node] Executing \"anat_ref_dimensions\" \n", "241015-23:34:36,35 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities0\" in \"/home/jovyan/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\".\n", "241015-23:34:36,36 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities0\" - collecting precomputed outputs\n", "241015-23:34:36,36 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities0\" found cached.\n", "241015-23:34:36,38 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities1\" in \"/home/jovyan/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\".\n", "241015-23:34:36,39 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities1\" - collecting precomputed outputs\n", "241015-23:34:36,39 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities1\" found cached.\n", "241015-23:34:36,41 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities2\" in \"/home/jovyan/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\".\n", "241015-23:34:36,42 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities2\" - collecting precomputed outputs\n", "241015-23:34:36,42 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities2\" found cached.\n", "241015-23:34:36,44 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities3\" in \"/home/jovyan/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\".\n", "241015-23:34:36,45 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities3\" - collecting precomputed outputs\n", "241015-23:34:36,45 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities3\" found cached.\n", "241015-23:34:36,47 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities4\" in \"/home/jovyan/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\".\n", "241015-23:34:36,48 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities4\" - collecting precomputed outputs\n", "241015-23:34:36,48 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities4\" found cached.\n", "241015-23:34:36,49 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities5\" in \"/home/jovyan/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\".\n", "241015-23:34:36,50 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities5\" - collecting precomputed outputs\n", "241015-23:34:36,50 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities5\" found cached.\n", "241015-23:34:36,52 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities6\" in \"/home/jovyan/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\".\n", "241015-23:34:36,53 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities6\" - collecting precomputed outputs\n", "241015-23:34:36,53 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities6\" found cached.\n", "241015-23:34:36,55 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities7\" in \"/home/jovyan/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\".\n", "241015-23:34:36,56 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities7\" - collecting precomputed outputs\n", "241015-23:34:36,57 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities7\" found cached.\n", "241015-23:34:36,59 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities8\" in \"/home/jovyan/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\".\n", "241015-23:34:36,60 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities8\" - collecting precomputed outputs\n", "241015-23:34:36,60 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities8\" found cached.\n", "241015-23:34:36,62 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities9\" in \"/home/jovyan/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\".\n", "241015-23:34:36,64 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities9\" - collecting precomputed outputs\n", "241015-23:34:36,64 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities9\" found cached.\n", "241015-23:34:36,65 nipype.workflow INFO:\n", "\t [Node] Executing \"bids_info\" \n", "241015-23:34:36,66 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities10\" in \"/home/jovyan/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\".\n", "241015-23:34:36,67 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities10\" - collecting precomputed outputs\n", "241015-23:34:36,67 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities10\" found cached.\n", "241015-23:34:36,69 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities11\" in \"/home/jovyan/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\".\n", "241015-23:34:36,70 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities11\" - collecting precomputed outputs\n", "241015-23:34:36,70 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities11\" found cached.\n", "241015-23:34:36,70 nipype.workflow INFO:\n", "\t [Node] Finished \"bids_info\", elapsed time 0.004438s.\n", "241015-23:34:36,72 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities12\" in \"/home/jovyan/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\".\n", "241015-23:34:36,73 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities12\" - collecting precomputed outputs\n", "241015-23:34:36,73 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities12\" found cached.\n", "241015-23:34:36,75 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_get_atlas_entities13\" in \"/home/jovyan/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\".\n", "241015-23:34:36,76 nipype.workflow INFO:\n", "\t [Node] Cached \"_get_atlas_entities13\" - collecting precomputed outputs\n", "241015-23:34:36,76 nipype.workflow INFO:\n", "\t [Node] \"_get_atlas_entities13\" found cached.\n", "241015-23:34:36,653 nipype.workflow INFO:\n", "\t [Node] Finished \"anat_ref_dimensions\", elapsed time 0.688146s.\n", "241015-23:34:37,293 nipype.workflow INFO:\n", "\t [Node] Finished \"lap_tmpl\", elapsed time 12.793348s.\n", "241015-23:34:37,736 nipype.workflow INFO:\n", "\t [Node] Executing \"gen_avg\" \n", "241015-23:34:37,992 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.mrg_tmpl\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/mrg_tmpl\".\n", "241015-23:34:37,998 nipype.workflow INFO:\n", "\t [Node] Executing \"mrg_tmpl\" \n", "241015-23:34:37,999 nipype.workflow INFO:\n", "\t [Node] Finished \"mrg_tmpl\", elapsed time 0.000406s.\n", "241015-23:34:38,257 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.fs_isrunning\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/fs_isrunning\".\n", "241015-23:34:38,263 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.ds_t1w_mask_wf.raw_sources\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/ds_t1w_mask_wf/raw_sources\".\n", "241015-23:34:38,264 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.ds_ribbon_mask_wf.raw_sources\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/ds_ribbon_mask_wf/raw_sources\".\n", "241015-23:34:38,273 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_denoise0\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/denoise/mapflow/_denoise0\".\n", "241015-23:34:38,276 nipype.workflow INFO:\n", "\t [Node] Executing \"_denoise0\" \n", "241015-23:34:38,494 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.493961:++ 3dvolreg: AFNI version=AFNI_24.1.08 (May 2 2024) [64-bit]\n", "241015-23:34:38,494 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.493961:++ Authored by: RW Cox\n", "241015-23:34:38,499 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.499782:** AFNI converts NIFTI_datatype=4 (INT16) in file /home/jovyan/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\n", "241015-23:34:38,499 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.499782: Warnings of this type will be muted for this session.\n", "241015-23:34:38,500 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.499782: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.\n", "241015-23:34:38,514 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:38.514547:++ Coarse del was 10, replaced with 2\n", "241015-23:34:38,796 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:34:38,798 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000885s.\n", "241015-23:34:38,799 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:34:38,801 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000814s.\n", "241015-23:34:40,468 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S1056Parcels/space-MNI152NLin6Asym_atlas-4S1056Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:40,732 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:34:40,737 nipype.workflow INFO:\n", "\t [Node] Executing \"split_by_volume_type\" \n", "241015-23:34:41,146 nipype.workflow INFO:\n", "\t [Node] Executing \"fs_isrunning\" \n", "241015-23:34:41,149 nipype.workflow INFO:\n", "\t [Node] Finished \"fs_isrunning\", elapsed time 0.001225s.\n", "241015-23:34:41,947 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S156Parcels/space-MNI152NLin6Asym_atlas-4S156Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:42,403 nipype.workflow INFO:\n", "\t [Node] Finished \"split_by_volume_type\", elapsed time 1.663437s.\n", "241015-23:34:43,43 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S256Parcels/space-MNI152NLin6Asym_atlas-4S256Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:44,73 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S356Parcels/space-MNI152NLin6Asym_atlas-4S356Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:44,726 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:44.726188:++ Max displacement in automask = 0.96 (mm) at sub-brick 3\n", "241015-23:34:44,726 nipype.interface INFO:\n", "\t stderr 2024-10-15T23:34:44.726188:++ Max delta displ in automask = 0.93 (mm) at sub-brick 3\n", "241015-23:34:45,106 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S456Parcels/space-MNI152NLin6Asym_atlas-4S456Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:45,362 nipype.workflow INFO:\n", "\t [Node] Finished \"gen_avg\", elapsed time 7.6249590000000005s.\n", "241015-23:34:46,275 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S556Parcels/space-MNI152NLin6Asym_atlas-4S556Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:48,55 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S656Parcels/space-MNI152NLin6Asym_atlas-4S656Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:49,99 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S756Parcels/space-MNI152NLin6Asym_atlas-4S756Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:50,112 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S856Parcels/space-MNI152NLin6Asym_atlas-4S856Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:51,156 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S956Parcels/space-MNI152NLin6Asym_atlas-4S956Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:34:52,237 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Glasser/space-MNI152NLin6Asym_atlas-Glasser_res-01_dseg.nii.gz dtype from float32 to int16\n", "241015-23:34:53,427 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Gordon/space-MNI152NLin6Asym_atlas-Gordon_res-01_dseg.nii.gz dtype from float32 to int16\n", "241015-23:34:54,827 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-HCP/space-MNI152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz dtype from float32 to int16\n", "241015-23:34:55,197 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Tian/space-MNI152NLin6Asym_atlas-Tian_res-02_dseg.nii.gz dtype from float32 to int16\n", "241015-23:35:03,266 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.fmapref_buffer\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/fmapref_buffer\".\n", "241015-23:35:03,815 nipype.workflow INFO:\n", "\t [Node] Executing \"fmapref_buffer\" \n", "241015-23:35:03,825 nipype.workflow INFO:\n", "\t [Node] Finished \"fmapref_buffer\", elapsed time 0.00421s.\n", "241015-23:35:03,840 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S1056Parcels/space-MNI152NLin6Asym_atlas-4S1056Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:05,295 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S156Parcels/space-MNI152NLin6Asym_atlas-4S156Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:06,270 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S256Parcels/space-MNI152NLin6Asym_atlas-4S256Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:07,353 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S356Parcels/space-MNI152NLin6Asym_atlas-4S356Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:08,851 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S456Parcels/space-MNI152NLin6Asym_atlas-4S456Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:10,246 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S556Parcels/space-MNI152NLin6Asym_atlas-4S556Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:11,658 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S656Parcels/space-MNI152NLin6Asym_atlas-4S656Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:13,23 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S756Parcels/space-MNI152NLin6Asym_atlas-4S756Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:13,865 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S856Parcels/space-MNI152NLin6Asym_atlas-4S856Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:14,678 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-4S956Parcels/space-MNI152NLin6Asym_atlas-4S956Parcels_res-01_dseg.nii.gz dtype from uint32 to int16\n", "241015-23:35:15,508 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Glasser/space-MNI152NLin6Asym_atlas-Glasser_res-01_dseg.nii.gz dtype from float32 to int16\n", "241015-23:35:16,510 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Gordon/space-MNI152NLin6Asym_atlas-Gordon_res-01_dseg.nii.gz dtype from float32 to int16\n", "241015-23:35:17,665 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-HCP/space-MNI152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz dtype from float32 to int16\n", "241015-23:35:17,935 nipype.interface WARNING:\n", "\t Changing /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/atlases/atlas-Tian/space-MNI152NLin6Asym_atlas-Tian_res-02_dseg.nii.gz dtype from float32 to int16\n", "241015-23:35:19,718 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:35:19,722 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt2\" in \"/home/jovyan/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\".\n", "241015-23:35:19,730 nipype.workflow INFO:\n", "\t [Node] Executing \"_mcflirt2\" \n", "241015-23:35:19,730 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:35:19,732 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.000968s.\n", "241015-23:35:20,118 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.init_aff\" in \"/home/jovyan/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\".\n", "241015-23:35:20,123 nipype.workflow INFO:\n", "\t [Node] Executing \"init_aff\" \n", "241015-23:35:20,177 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt0\" in \"/home/jovyan/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\".\n", "241015-23:35:20,181 nipype.workflow INFO:\n", "\t [Node] Executing \"_mcflirt0\" \n", "241015-23:35:20,203 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt1\" in \"/home/jovyan/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\".\n", "241015-23:35:20,207 nipype.workflow INFO:\n", "\t [Node] Executing \"_mcflirt1\" \n", "241015-23:35:22,658 nipype.workflow INFO:\n", "\t [Node] Finished \"_mcflirt2\", elapsed time 2.926998s.\n", "241015-23:35:23,676 nipype.workflow INFO:\n", "\t [Node] Finished \"_denoise0\", elapsed time 44.818047s.\n", "241015-23:35:25,770 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_anat_conform0\" in \"/home/jovyan/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\".\n", "241015-23:35:25,772 nipype.workflow INFO:\n", "\t [Node] Executing \"_anat_conform0\" \n", "241015-23:35:28,45 nipype.workflow INFO:\n", "\t [Node] Finished \"_anat_conform0\", elapsed time 2.272462s.\n", "241015-23:35:28,368 nipype.workflow INFO:\n", "\t [Node] Finished \"_mcflirt1\", elapsed time 8.155737s.\n", "241015-23:35:29,722 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.anat_template_wf.get1st\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/anat_template_wf/get1st\".\n", "241015-23:35:29,725 nipype.workflow INFO:\n", "\t [Node] Executing \"get1st\" \n", "241015-23:35:29,726 nipype.workflow INFO:\n", "\t [Node] Finished \"get1st\", elapsed time 0.00039s.\n", "241015-23:35:33,410 nipype.workflow INFO:\n", "\t [Node] Finished \"_mcflirt0\", elapsed time 13.227096s.\n", "241015-23:35:34,898 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.fov_check\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/fov_check\".\n", "241015-23:35:34,902 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_truncate_images0\" in \"/home/jovyan/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\".\n", "241015-23:35:34,905 nipype.workflow INFO:\n", "\t [Node] Executing \"_truncate_images0\" \n", "241015-23:35:34,929 nipype.workflow INFO:\n", "\t [Node] Executing \"fov_check\" \n", "241015-23:35:35,33 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt0\" in \"/home/jovyan/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\".\n", "241015-23:35:35,41 nipype.workflow INFO:\n", "\t [Node] Cached \"_mcflirt0\" - collecting precomputed outputs\n", "241015-23:35:35,42 nipype.workflow INFO:\n", "\t [Node] \"_mcflirt0\" found cached.\n", "241015-23:35:35,44 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt1\" in \"/home/jovyan/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\".\n", "241015-23:35:35,50 nipype.workflow INFO:\n", "\t [Node] Cached \"_mcflirt1\" - collecting precomputed outputs\n", "241015-23:35:35,50 nipype.workflow INFO:\n", "\t [Node] \"_mcflirt1\" found cached.\n", "241015-23:35:35,52 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_mcflirt2\" in \"/home/jovyan/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\".\n", "241015-23:35:35,55 nipype.workflow INFO:\n", "\t [Node] Cached \"_mcflirt2\" - collecting precomputed outputs\n", "241015-23:35:35,55 nipype.workflow INFO:\n", "\t [Node] \"_mcflirt2\" found cached.\n", "241015-23:35:35,474 nipype.workflow INFO:\n", "\t [Node] Finished \"fov_check\", elapsed time 0.540739s.\n", "241015-23:35:36,665 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.recon_config\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/recon_config\".\n", "241015-23:35:38,920 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files0\" in \"/home/jovyan/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\".\n", "241015-23:35:38,921 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files1\" in \"/home/jovyan/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\".\n", "241015-23:35:38,923 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files2\" in \"/home/jovyan/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\".\n", "241015-23:35:38,927 nipype.workflow INFO:\n", "\t [Node] Executing \"_listify_mat_files1\" \n", "241015-23:35:38,928 nipype.workflow INFO:\n", "\t [Node] Executing \"_listify_mat_files2\" \n", "241015-23:35:38,929 nipype.workflow INFO:\n", "\t [Node] Finished \"_listify_mat_files1\", elapsed time 0.00056s.\n", "241015-23:35:38,930 nipype.workflow INFO:\n", "\t [Node] Finished \"_listify_mat_files2\", elapsed time 0.000796s.\n", "241015-23:35:38,930 nipype.workflow INFO:\n", "\t [Node] Executing \"_listify_mat_files0\" \n", "241015-23:35:38,932 nipype.workflow INFO:\n", "\t [Node] Finished \"_listify_mat_files0\", elapsed time 0.000827s.\n", "241015-23:35:40,918 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files0\" in \"/home/jovyan/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\".\n", "241015-23:35:40,923 nipype.workflow INFO:\n", "\t [Node] Cached \"_listify_mat_files0\" - collecting precomputed outputs\n", "241015-23:35:40,924 nipype.workflow INFO:\n", "\t [Node] \"_listify_mat_files0\" found cached.\n", "241015-23:35:40,925 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files1\" in \"/home/jovyan/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\".\n", "241015-23:35:40,930 nipype.workflow INFO:\n", "\t [Node] Cached \"_listify_mat_files1\" - collecting precomputed outputs\n", "241015-23:35:40,930 nipype.workflow INFO:\n", "\t [Node] \"_listify_mat_files1\" found cached.\n", "241015-23:35:40,931 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_listify_mat_files2\" in \"/home/jovyan/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\".\n", "241015-23:35:40,933 nipype.workflow INFO:\n", "\t [Node] Cached \"_listify_mat_files2\" - collecting precomputed outputs\n", "241015-23:35:40,933 nipype.workflow INFO:\n", "\t [Node] \"_listify_mat_files2\" found cached.\n", "241015-23:35:41,577 nipype.workflow INFO:\n", "\t [Node] Executing \"recon_config\" \n", "241015-23:35:41,650 nipype.workflow INFO:\n", "\t [Node] Finished \"recon_config\", elapsed time 0.07135s.\n", "241015-23:35:42,100 nipype.workflow INFO:\n", "\t [Node] Finished \"_truncate_images0\", elapsed time 6.709567s.\n", "241015-23:35:42,932 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.combine_motpars\" in \"/home/jovyan/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\".\n", "241015-23:35:42,934 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon1\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon1\".\n", "241015-23:35:42,942 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_inu_n40\" in \"/home/jovyan/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\".\n", "241015-23:35:42,944 nipype.workflow INFO:\n", "\t [Node] Executing \"autorecon1\" \n", "241015-23:35:42,945 nipype.workflow INFO:\n", "\t [Node] Executing \"_inu_n40\" \n", "241015-23:35:42,951 nipype.workflow INFO:\n", "\t [Node] Executing \"combine_motpars\" \n", "241015-23:35:42,959 nipype.workflow INFO:\n", "\t [Node] Finished \"combine_motpars\", elapsed time 0.007317s.\n", "241015-23:35:44,922 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.normalize_motion\" in \"/home/jovyan/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\".\n", "241015-23:35:44,922 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.rmsdiff\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/rmsdiff\".\n", "241015-23:35:44,937 nipype.workflow INFO:\n", "\t [Node] Executing \"normalize_motion\" \n", "241015-23:35:44,942 nipype.workflow INFO:\n", "\t [Node] Finished \"normalize_motion\", elapsed time 0.003731s.\n", "241015-23:35:44,966 nipype.workflow INFO:\n", "\t [Node] Executing \"rmsdiff\" \n", "241015-23:35:45,29 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:45.029529:0.0754411\n", "241015-23:35:45,369 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.asl_hmc_wf.fsl2itk\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/asl_hmc_wf/fsl2itk\".\n", "241015-23:35:45,483 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:45.483757:0.0469867\n", "241015-23:35:45,779 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:45.779630:0.268931\n", "241015-23:35:46,95 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:46.095560:0.172064\n", "241015-23:35:46,432 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:46.432704:0.229626\n", "241015-23:35:46,750 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:46.750530:0.140681\n", "241015-23:35:47,58 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:47.057960:0.0673405\n", "241015-23:35:47,190 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.fdisp\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/fdisp\".\n", "241015-23:35:47,373 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:47.373088:0.106117\n", "241015-23:35:47,702 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:47.702382:0.165799\n", "241015-23:35:48,54 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:48.054247:1.16299\n", "241015-23:35:48,340 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:48.340617:1.10025\n", "241015-23:35:48,658 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:48.658024:1.5258\n", "241015-23:35:48,988 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:48.988368:1.52019\n", "241015-23:35:49,298 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:49.298043:0.0856617\n", "241015-23:35:49,629 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:49.629311:0.125501\n", "241015-23:35:49,904 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:49.904832:0.303064\n", "241015-23:35:50,233 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:50.232979:0.10532\n", "241015-23:35:50,521 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:50.521076:0.0578682\n", "241015-23:35:50,721 nipype.workflow INFO:\n", "\t [Node] Executing \"fsl2itk\" \n", "241015-23:35:50,722 nipype.interface WARNING:\n", "\t Multithreading is deprecated. Remove the num_threads input.\n", "241015-23:35:50,828 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:50.828505:0.0771756\n", "241015-23:35:50,849 nipype.workflow INFO:\n", "\t [Node] Finished \"fsl2itk\", elapsed time 0.12698s.\n", "241015-23:35:51,166 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:51.166022:0.0968431\n", "241015-23:35:51,451 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:51.451093:0.0749764\n", "241015-23:35:51,748 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:51.748280:0.048651\n", "241015-23:35:52,79 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:52.079501:0.0681753\n", "241015-23:35:52,463 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:52.462974:0.0518362\n", "241015-23:35:52,775 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:52.774957:0.0319023\n", "241015-23:35:53,71 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:53.071594:0.276493\n", "241015-23:35:53,245 nipype.workflow INFO:\n", "\t [Node] Executing \"fdisp\" \n", "241015-23:35:53,248 nipype.workflow INFO:\n", "\t [Node] Finished \"fdisp\", elapsed time 0.002118s.\n", "241015-23:35:53,391 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:53.391627:0.141813\n", "241015-23:35:53,725 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:53.725092:0.0882906\n", "241015-23:35:54,46 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:54.046863:0.0525946\n", "241015-23:35:54,369 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:54.369523:0.0251858\n", "241015-23:35:54,687 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:54.687512:0.0809531\n", "241015-23:35:54,998 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:54.998709:0.0723936\n", "241015-23:35:55,287 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:55.287340:0.085268\n", "241015-23:35:55,602 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:55.602434:0.0905847\n", "241015-23:35:55,906 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:55.906214:0.0575284\n", "241015-23:35:56,210 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:56.210119:0.0871247\n", "241015-23:35:56,495 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:56.495360:0.209896\n", "241015-23:35:56,770 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:56.770834:0.192506\n", "241015-23:35:57,69 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:57.068991:0.0644833\n", "241015-23:35:57,352 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:57.352098:0.0497486\n", "241015-23:35:57,633 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:57.632991:0.0218686\n", "241015-23:35:57,903 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:57.903487:0.0492257\n", "241015-23:35:58,202 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:58.202372:0.0775428\n", "241015-23:35:58,502 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:58.502322:0.298626\n", "241015-23:35:58,787 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:58.787929:0.278837\n", "241015-23:35:59,89 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:59.089817:0.0498628\n", "241015-23:35:59,407 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:59.407364:0.0647269\n", "241015-23:35:59,742 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:35:59.742648:0.0989051\n", "241015-23:36:00,19 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:00.019510:0.0821868\n", "241015-23:36:00,306 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:00.306269:0.0826831\n", "241015-23:36:00,625 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:00.625903:0.089464\n", "241015-23:36:00,937 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:00.936951:0.0412687\n", "241015-23:36:01,328 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:01.328125:0.185584\n", "241015-23:36:01,637 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:01.637702:0.170749\n", "241015-23:36:01,935 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:01.935573:0.149975\n", "241015-23:36:02,217 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:02.217500:0.0924617\n", "241015-23:36:02,499 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:02.499232:0.216905\n", "241015-23:36:02,785 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:02.785309:0.0928228\n", "241015-23:36:03,64 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:03.064532:0.0413924\n", "241015-23:36:03,393 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:03.393238:0.10436\n", "241015-23:36:03,767 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:03.767474:0.0289767\n", "241015-23:36:04,74 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:04.074882:0.0898213\n", "241015-23:36:04,392 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:04.392788:0.0515129\n", "241015-23:36:04,715 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:04.715741:0.175913\n", "241015-23:36:04,989 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:04.989568:0.298548\n", "241015-23:36:05,294 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:05.294689:0.462496\n", "241015-23:36:05,573 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:05.573812:0.270213\n", "241015-23:36:05,847 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:05.847937:0.0738641\n", "241015-23:36:06,130 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:06.130243:0.0698636\n", "241015-23:36:06,545 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:06.545827:0.168754\n", "241015-23:36:06,849 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:06.848900:0.16513\n", "241015-23:36:07,155 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:07.155903:0.0851289\n", "241015-23:36:07,430 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:07.429990:0.0468945\n", "241015-23:36:07,762 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:07.762281:0.166127\n", "241015-23:36:08,62 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:08.062575:0.16282\n", "241015-23:36:08,363 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:08.363400:0.0952082\n", "241015-23:36:08,643 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:08.643217:0.356642\n", "241015-23:36:08,974 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:08.974186:0.19418\n", "241015-23:36:09,298 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:09.298055:0.126888\n", "241015-23:36:09,600 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:09.600312:0.0771863\n", "241015-23:36:09,915 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:09.915893:0.0950141\n", "241015-23:36:10,236 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:10.236892:0.142077\n", "241015-23:36:10,562 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:10.562273:0.099221\n", "241015-23:36:10,873 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:10.873279:0.0350795\n", "241015-23:36:11,220 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:11.220160:0.186767\n", "241015-23:36:11,550 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:11.550418:0.159825\n", "241015-23:36:11,842 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:11.842267:0.121566\n", "241015-23:36:12,129 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:12.129789:0.189876\n", "241015-23:36:12,477 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:12.477450:0.0706398\n", "241015-23:36:12,816 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:12.816247:0.0882779\n", "241015-23:36:13,162 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:13.162418:0.171304\n", "241015-23:36:13,483 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:13.483484:0.173009\n", "241015-23:36:13,826 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:13.826326:0.120357\n", "241015-23:36:14,131 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:14.131823:0.0658371\n", "241015-23:36:14,446 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:14.446423:0.121672\n", "241015-23:36:14,776 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:14.776803:0.106815\n", "241015-23:36:15,102 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:15.102667:0.0278532\n", "241015-23:36:15,394 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:15.394535:0.0698339\n", "241015-23:36:15,733 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:15.733735:0.0624019\n", "241015-23:36:16,19 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:16.019210:0.0846316\n", "241015-23:36:16,283 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:16.283245:0.0567651\n", "241015-23:36:16,624 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:16.623998:0.0564219\n", "241015-23:36:16,908 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:16.908848:0.210797\n", "241015-23:36:17,217 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:17.217598:0.107237\n", "241015-23:36:17,255 nipype.workflow INFO:\n", "\t [Node] Finished \"_inu_n40\", elapsed time 33.8069s.\n", "241015-23:36:17,542 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:17.542867:0.111563\n", "241015-23:36:17,888 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:17.888854:0.260858\n", "241015-23:36:18,200 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:18.200660:0.18313\n", "241015-23:36:18,472 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:18.472826:0.158311\n", "241015-23:36:18,741 nipype.interface INFO:\n", "\t stdout 2024-10-15T23:36:18.741789:0.0605256\n", "241015-23:36:18,934 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.lap_target\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/lap_target\".\n", "241015-23:36:18,939 nipype.workflow INFO:\n", "\t [Node] Executing \"lap_target\" \n", "241015-23:36:19,13 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.res_target\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/res_target\".\n", "241015-23:36:19,16 nipype.workflow INFO:\n", "\t [Node] Executing \"res_target\" \n", "241015-23:36:19,27 nipype.workflow INFO:\n", "\t [Node] Finished \"rmsdiff\", elapsed time 34.060469s.\n", "241015-23:36:20,795 nipype.workflow INFO:\n", "\t [Node] Finished \"res_target\", elapsed time 1.777984s.\n", "241015-23:36:22,870 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.init_aff\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/init_aff\".\n", "241015-23:36:22,886 nipype.workflow INFO:\n", "\t [Node] Executing \"init_aff\" \n", "241015-23:36:28,153 nipype.workflow INFO:\n", "\t [Node] Finished \"lap_target\", elapsed time 8.864422s.\n", "241015-23:36:28,874 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.mrg_target\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/mrg_target\".\n", "241015-23:36:28,882 nipype.workflow INFO:\n", "\t [Node] Executing \"mrg_target\" \n", "241015-23:36:28,886 nipype.workflow INFO:\n", "\t [Node] Finished \"mrg_target\", elapsed time 0.000775s.\n", "241015-23:36:54,456 nipype.workflow INFO:\n", "\t [Node] Finished \"init_aff\", elapsed time 31.117898s.\n", "241015-23:36:55,3 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.norm\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/norm\".\n", "241015-23:36:55,15 nipype.workflow INFO:\n", "\t [Node] Executing \"norm\" \n", "241015-23:37:50,827 nipype.workflow INFO:\n", "\t [Node] Finished \"init_aff\", elapsed time 150.337216s.\n", "241015-23:37:53,32 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.norm\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/norm\".\n", "241015-23:37:53,41 nipype.workflow INFO:\n", "\t [Node] Executing \"norm\" \n", "241015-23:37:55,981 nipype.workflow INFO:\n", "\t [Node] Finished \"norm\", elapsed time 2.555342s.\n", "241015-23:37:56,883 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.map_brainmask\" in \"/home/jovyan/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\".\n", "241015-23:37:56,891 nipype.workflow INFO:\n", "\t [Node] Executing \"map_brainmask\" \n", "241015-23:37:58,185 nipype.workflow INFO:\n", "\t [Node] Finished \"map_brainmask\", elapsed time 0.739941s.\n", "241015-23:38:00,900 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.n4_correct\" in \"/home/jovyan/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\".\n", "241015-23:38:00,905 nipype.workflow INFO:\n", "\t [Node] Executing \"n4_correct\" \n", "241015-23:38:02,357 nipype.workflow INFO:\n", "\t [Node] Finished \"n4_correct\", elapsed time 1.4509750000000001s.\n", "241015-23:38:02,899 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:38:02,903 nipype.workflow INFO:\n", "\t [Node] Executing \"skullstrip_first_pass\" \n", "241015-23:38:04,886 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.ds_aslreg_wf.raw_sources\" in \"/home/jovyan/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\".\n", "241015-23:38:04,891 nipype.workflow INFO:\n", "\t [Node] Executing \"raw_sources\" \n", "241015-23:38:04,894 nipype.workflow INFO:\n", "\t [Node] Finished \"raw_sources\", elapsed time 0.001078s.\n", "241015-23:38:04,897 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_std_wf.gen_ref\" in \"/home/jovyan/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\".\n", "241015-23:38:04,908 nipype.workflow INFO:\n", "\t [Node] Executing \"gen_ref\" \n", "241015-23:38:04,936 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_native_wf.aslref_asl\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_native_wf/aslref_asl\".\n", "241015-23:38:04,942 nipype.workflow INFO:\n", "\t [Node] Executing \"aslref_asl\" \n", "241015-23:38:05,331 nipype.workflow INFO:\n", "\t [Node] Finished \"skullstrip_first_pass\", elapsed time 2.425698s.\n", "241015-23:38:06,915 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.first_dilate\" in \"/home/jovyan/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\".\n", "241015-23:38:06,921 nipype.workflow INFO:\n", "\t [Node] Executing \"first_dilate\" \n", "241015-23:38:07,182 nipype.workflow INFO:\n", "\t [Node] Finished \"first_dilate\", elapsed time 0.25848s.\n", "241015-23:38:07,185 nipype.workflow INFO:\n", "\t [Node] Finished \"gen_ref\", elapsed time 2.275337s.\n", "241015-23:38:07,854 nipype.workflow INFO:\n", "\t [Node] Finished \"aslref_asl\", elapsed time 2.911506s.\n", "241015-23:38:08,913 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.first_mask\" in \"/home/jovyan/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\".\n", "241015-23:38:08,917 nipype.workflow INFO:\n", "\t [Node] Executing \"first_mask\" \n", "241015-23:38:08,942 nipype.workflow INFO:\n", "\t [Node] Finished \"first_mask\", elapsed time 0.024383s.\n", "241015-23:38:10,959 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.unifize\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_fit_wf/enhance_aslref_wf/unifize\".\n", "241015-23:38:10,963 nipype.workflow INFO:\n", "\t [Node] Executing \"unifize\" \n", "241015-23:38:52,390 nipype.workflow INFO:\n", "\t [Node] Finished \"unifize\", elapsed time 41.424875s.\n", "241015-23:38:52,984 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.fixhdr_unifize\" in \"/home/jovyan/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\".\n", "241015-23:38:53,83 nipype.workflow INFO:\n", "\t [Node] Executing \"fixhdr_unifize\" \n", "241015-23:38:53,110 nipype.workflow INFO:\n", "\t [Node] Finished \"fixhdr_unifize\", elapsed time 0.025915s.\n", "241015-23:38:55,54 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:38:55,69 nipype.workflow INFO:\n", "\t [Node] Executing \"skullstrip_second_pass\" \n", "241015-23:38:55,448 nipype.workflow INFO:\n", "\t [Node] Finished \"skullstrip_second_pass\", elapsed time 0.377396s.\n", "241015-23:38:56,976 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.fixhdr_skullstrip2\" in \"/home/jovyan/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\".\n", "241015-23:38:57,49 nipype.workflow INFO:\n", "\t [Node] Executing \"fixhdr_skullstrip2\" \n", "241015-23:38:57,72 nipype.workflow INFO:\n", "\t [Node] Finished \"fixhdr_skullstrip2\", elapsed time 0.02123s.\n", "241015-23:38:59,47 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.combine_masks\" in \"/home/jovyan/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\".\n", "241015-23:38:59,232 nipype.workflow INFO:\n", "\t [Node] Executing \"combine_masks\" \n", "241015-23:38:59,408 nipype.workflow INFO:\n", "\t [Node] Finished \"combine_masks\", elapsed time 0.174483s.\n", "241015-23:39:00,990 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_fit_wf.enhance_aslref_wf.apply_mask\" in \"/home/jovyan/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\".\n", "241015-23:39:00,994 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.asl_preproc_asl.asl_confounds_wf.dvars\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/asl_preproc_asl/asl_confounds_wf/dvars\".\n", "241015-23:39:01,130 nipype.workflow INFO:\n", "\t [Node] Executing \"apply_mask\" \n", "241015-23:39:01,163 nipype.workflow INFO:\n", "\t [Node] Executing \"dvars\" \n", "241015-23:39:01,174 nipype.workflow INFO:\n", "\t [Node] Finished \"apply_mask\", elapsed time 0.042512s.\n", "241015-23:39:05,322 nipype.workflow INFO:\n", "\t [Node] Finished \"dvars\", elapsed time 4.157649s.\n", "241015-23:46:46,733 nipype.workflow INFO:\n", "\t [Node] Finished \"norm\", elapsed time 591.231926s.\n", "241015-23:46:49,50 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.map_brainmask\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/map_brainmask\".\n", "241015-23:46:49,51 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.map_wmmask\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/map_wmmask\".\n", "241015-23:46:49,58 nipype.workflow INFO:\n", "\t [Node] Executing \"map_brainmask\" \n", "241015-23:46:49,78 nipype.workflow INFO:\n", "\t [Node] Executing \"map_wmmask\" \n", "241015-23:47:06,335 nipype.workflow INFO:\n", "\t [Node] Finished \"map_wmmask\", elapsed time 16.739302s.\n", "241015-23:47:07,243 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_inu_n4_final0\" in \"/home/jovyan/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\".\n", "241015-23:47:07,246 nipype.workflow INFO:\n", "\t [Node] Executing \"_inu_n4_final0\" \n", "241015-23:47:13,18 nipype.workflow INFO:\n", "\t [Node] Finished \"map_brainmask\", elapsed time 23.959311s.\n", "241015-23:47:15,232 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.thr_brainmask\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/thr_brainmask\".\n", "241015-23:47:15,243 nipype.workflow INFO:\n", "\t [Node] Executing \"thr_brainmask\" \n", "241015-23:47:17,756 nipype.workflow INFO:\n", "\t [Node] Finished \"thr_brainmask\", elapsed time 1.6254659999999999s.\n", "241015-23:47:19,70 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.dil_brainmask\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/dil_brainmask\".\n", "241015-23:47:19,72 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.03_pad_mask\" in \"/home/jovyan/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\".\n", "241015-23:47:19,79 nipype.workflow INFO:\n", "\t [Node] Executing \"03_pad_mask\" \n", "241015-23:47:19,82 nipype.workflow INFO:\n", "\t [Node] Executing \"dil_brainmask\" \n", "241015-23:47:21,89 nipype.workflow INFO:\n", "\t [Node] Finished \"03_pad_mask\", elapsed time 1.289053s.\n", "241015-23:47:21,231 nipype.workflow INFO:\n", "\t [Node] Finished \"dil_brainmask\", elapsed time 2.145244s.\n", "241015-23:47:23,57 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.get_brainmask\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/get_brainmask\".\n", "241015-23:47:23,64 nipype.workflow INFO:\n", "\t [Node] Executing \"get_brainmask\" \n", "241015-23:47:25,695 nipype.workflow INFO:\n", "\t [Node] Finished \"get_brainmask\", elapsed time 1.980961s.\n", "241015-23:47:28,819 nipype.workflow INFO:\n", "\t [Node] Finished \"_inu_n4_final0\", elapsed time 20.891908s.\n", "241015-23:47:31,175 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.01_atropos\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/01_atropos\".\n", "241015-23:47:31,183 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_apply_mask0\" in \"/home/jovyan/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\".\n", "241015-23:47:31,186 nipype.workflow INFO:\n", "\t [Node] Executing \"01_atropos\" \n", "241015-23:47:31,187 nipype.workflow INFO:\n", "\t [Node] Executing \"_apply_mask0\" \n", "241015-23:47:32,258 nipype.workflow INFO:\n", "\t [Node] Finished \"_apply_mask0\", elapsed time 1.068499s.\n", "241015-23:47:33,649 nipype.workflow INFO:\n", "\t [Node] Finished \"autorecon1\", elapsed time 710.70345s.\n", "241015-23:47:35,319 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.fsnative2t1w_xfm\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/fsnative2t1w_xfm\".\n", "241015-23:47:35,331 nipype.workflow INFO:\n", "\t [Node] Executing \"fsnative2t1w_xfm\" \n", "241015-23:48:18,953 nipype.workflow INFO:\n", "\t [Node] Finished \"01_atropos\", elapsed time 47.765305s.\n", "241015-23:48:21,105 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.02_pad_segm\" in \"/home/jovyan/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\".\n", "241015-23:48:21,115 nipype.workflow INFO:\n", "\t [Node] Executing \"02_pad_segm\" \n", "241015-23:48:22,979 nipype.workflow INFO:\n", "\t [Node] Finished \"02_pad_segm\", elapsed time 1.862714s.\n", "241015-23:48:28,51 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.04_sel_labels\" in \"/home/jovyan/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\".\n", "241015-23:48:28,59 nipype.workflow INFO:\n", "\t [Node] Executing \"04_sel_labels\" \n", "241015-23:48:28,545 nipype.workflow INFO:\n", "\t [Node] Finished \"04_sel_labels\", elapsed time 0.484541s.\n", "241015-23:48:30,1 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.10_me_csf\" in \"/home/jovyan/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\".\n", "241015-23:48:30,2 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.27_depad_csf\" in \"/home/jovyan/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\".\n", "241015-23:48:30,2 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.05_get_wm\" in \"/home/jovyan/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\".\n", "241015-23:48:30,3 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.06_get_gm\" in \"/home/jovyan/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\".\n", "241015-23:48:30,7 nipype.workflow INFO:\n", "\t [Node] Executing \"27_depad_csf\" \n", "241015-23:48:30,8 nipype.workflow INFO:\n", "\t [Node] Executing \"10_me_csf\" \n", "241015-23:48:30,10 nipype.workflow INFO:\n", "\t [Node] Executing \"05_get_wm\" \n", "241015-23:48:30,11 nipype.workflow INFO:\n", "\t [Node] Executing \"06_get_gm\" \n", "241015-23:48:31,309 nipype.workflow INFO:\n", "\t [Node] Finished \"27_depad_csf\", elapsed time 1.300335s.\n", "241015-23:48:32,26 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.apply_wm_prior\" in \"/home/jovyan/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\".\n", "241015-23:48:32,33 nipype.workflow INFO:\n", "\t [Node] Executing \"apply_wm_prior\" \n", "241015-23:48:32,403 nipype.workflow INFO:\n", "\t [Node] Finished \"05_get_wm\", elapsed time 2.390829s.\n", "241015-23:48:32,648 nipype.workflow INFO:\n", "\t [Node] Finished \"06_get_gm\", elapsed time 2.635659s.\n", "241015-23:48:33,151 nipype.workflow INFO:\n", "\t [Node] Finished \"apply_wm_prior\", elapsed time 1.117009s.\n", "241015-23:48:33,978 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.09_relabel_wm\" in \"/home/jovyan/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\".\n", "241015-23:48:33,979 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.07_fill_gm\" in \"/home/jovyan/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\".\n", "241015-23:48:33,983 nipype.workflow INFO:\n", "\t [Node] Executing \"09_relabel_wm\" \n", "241015-23:48:33,984 nipype.workflow INFO:\n", "\t [Node] Executing \"07_fill_gm\" \n", "241015-23:48:33,991 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_inu_n4_final0\" in \"/home/jovyan/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\".\n", "241015-23:48:33,995 nipype.workflow INFO:\n", "\t [Node] Executing \"_inu_n4_final0\" \n", "241015-23:48:35,374 nipype.workflow INFO:\n", "\t [Node] Finished \"09_relabel_wm\", elapsed time 1.38923s.\n", "241015-23:48:35,988 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.26_depad_wm\" in \"/home/jovyan/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\".\n", "241015-23:48:35,993 nipype.workflow INFO:\n", "\t [Node] Executing \"26_depad_wm\" \n", "241015-23:48:36,303 nipype.workflow INFO:\n", "\t [Node] Finished \"10_me_csf\", elapsed time 6.293826s.\n", "241015-23:48:37,679 nipype.workflow INFO:\n", "\t [Node] Finished \"26_depad_wm\", elapsed time 1.6841080000000002s.\n", "241015-23:48:38,898 nipype.workflow INFO:\n", "\t [Node] Finished \"fsnative2t1w_xfm\", elapsed time 63.565442s.\n", "241015-23:48:47,223 nipype.workflow INFO:\n", "\t [Node] Finished \"07_fill_gm\", elapsed time 13.237835s.\n", "241015-23:48:48,141 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.08_mult_gm\" in \"/home/jovyan/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\".\n", "241015-23:48:48,148 nipype.workflow INFO:\n", "\t [Node] Executing \"08_mult_gm\" \n", "241015-23:48:49,834 nipype.workflow INFO:\n", "\t [Node] Finished \"08_mult_gm\", elapsed time 1.684894s.\n", "241015-23:48:52,143 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.11_add_gm\" in \"/home/jovyan/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\".\n", "241015-23:48:52,150 nipype.workflow INFO:\n", "\t [Node] Executing \"11_add_gm\" \n", "241015-23:48:54,688 nipype.workflow INFO:\n", "\t [Node] Finished \"11_add_gm\", elapsed time 2.536949s.\n", "241015-23:48:56,146 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.12_relabel_gm\" in \"/home/jovyan/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\".\n", "241015-23:48:56,153 nipype.workflow INFO:\n", "\t [Node] Executing \"12_relabel_gm\" \n", "241015-23:48:56,530 nipype.workflow INFO:\n", "\t [Node] Finished \"_inu_n4_final0\", elapsed time 22.533337s.\n", "241015-23:48:57,657 nipype.workflow INFO:\n", "\t [Node] Finished \"12_relabel_gm\", elapsed time 1.503458s.\n", "241015-23:49:00,66 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:49:00,66 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.25_depad_gm\" in \"/home/jovyan/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\".\n", "241015-23:49:00,71 nipype.workflow INFO:\n", "\t [Node] Executing \"13_add_gm_wm\" \n", "241015-23:49:00,71 nipype.workflow INFO:\n", "\t [Node] Executing \"25_depad_gm\" \n", "241015-23:49:01,785 nipype.workflow INFO:\n", "\t [Node] Finished \"25_depad_gm\", elapsed time 1.711786s.\n", "241015-23:49:02,721 nipype.workflow INFO:\n", "\t [Node] Finished \"13_add_gm_wm\", elapsed time 2.648527s.\n", "241015-23:49:04,192 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.14_sel_labels2\" in \"/home/jovyan/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\".\n", "241015-23:49:04,192 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.24_depad_segm\" in \"/home/jovyan/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\".\n", "241015-23:49:04,193 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.merge_tpms\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/merge_tpms\".\n", "241015-23:49:04,198 nipype.workflow INFO:\n", "\t [Node] Executing \"24_depad_segm\" \n", "241015-23:49:04,198 nipype.workflow INFO:\n", "\t [Node] Executing \"14_sel_labels2\" \n", "241015-23:49:04,200 nipype.workflow INFO:\n", "\t [Node] Executing \"merge_tpms\" \n", "241015-23:49:04,201 nipype.workflow INFO:\n", "\t [Node] Finished \"merge_tpms\", elapsed time 0.000437s.\n", "241015-23:49:04,454 nipype.workflow INFO:\n", "\t [Node] Finished \"14_sel_labels2\", elapsed time 0.254187s.\n", "241015-23:49:05,732 nipype.workflow INFO:\n", "\t [Node] Finished \"24_depad_segm\", elapsed time 1.533525s.\n", "241015-23:49:06,55 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.15_add_7\" in \"/home/jovyan/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\".\n", "241015-23:49:06,58 nipype.workflow INFO:\n", "\t [Node] Executing \"15_add_7\" \n", "241015-23:49:08,266 nipype.workflow INFO:\n", "\t [Node] Finished \"15_add_7\", elapsed time 2.206661s.\n", "241015-23:49:10,110 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.16_me_7\" in \"/home/jovyan/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\".\n", "241015-23:49:10,115 nipype.workflow INFO:\n", "\t [Node] Executing \"16_me_7\" \n", "241015-23:49:14,5 nipype.workflow INFO:\n", "\t [Node] Finished \"16_me_7\", elapsed time 3.888438s.\n", "241015-23:49:16,116 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.17_comp_7\" in \"/home/jovyan/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\".\n", "241015-23:49:16,122 nipype.workflow INFO:\n", "\t [Node] Executing \"17_comp_7\" \n", "241015-23:49:18,799 nipype.workflow INFO:\n", "\t [Node] Finished \"17_comp_7\", elapsed time 2.675638s.\n", "241015-23:49:20,61 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.18_md_7\" in \"/home/jovyan/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\".\n", "241015-23:49:20,67 nipype.workflow INFO:\n", "\t [Node] Executing \"18_md_7\" \n", "241015-23:49:22,552 nipype.workflow INFO:\n", "\t [Node] Finished \"18_md_7\", elapsed time 2.483126s.\n", "241015-23:49:23,907 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.19_fill_7\" in \"/home/jovyan/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\".\n", "241015-23:49:23,912 nipype.workflow INFO:\n", "\t [Node] Executing \"19_fill_7\" \n", "241015-23:49:35,637 nipype.workflow INFO:\n", "\t [Node] Finished \"19_fill_7\", elapsed time 11.723917s.\n", "241015-23:49:36,21 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:49:36,28 nipype.workflow INFO:\n", "\t [Node] Executing \"20_add_7_2\" \n", "241015-23:49:38,471 nipype.workflow INFO:\n", "\t [Node] Finished \"20_add_7_2\", elapsed time 1.861071s.\n", "241015-23:49:40,73 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:49:40,79 nipype.workflow INFO:\n", "\t [Node] Executing \"21_md_7_2\" \n", "241015-23:49:42,739 nipype.workflow INFO:\n", "\t [Node] Finished \"21_md_7_2\", elapsed time 2.6590160000000003s.\n", "241015-23:49:44,73 nipype.workflow INFO:\n", "\t [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/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\".\n", "241015-23:49:44,78 nipype.workflow INFO:\n", "\t [Node] Executing \"22_me_7_2\" \n", "241015-23:49:48,261 nipype.workflow INFO:\n", "\t [Node] Finished \"22_me_7_2\", elapsed time 4.181631s.\n", "241015-23:49:49,947 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.23_depad_mask\" in \"/home/jovyan/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\".\n", "241015-23:49:49,954 nipype.workflow INFO:\n", "\t [Node] Executing \"23_depad_mask\" \n", "241015-23:49:51,187 nipype.workflow INFO:\n", "\t [Node] Finished \"23_depad_mask\", elapsed time 1.231229s.\n", "241015-23:49:52,19 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.brain_extraction_wf.atropos_wf.msk_conform\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/brain_extraction_wf/atropos_wf/msk_conform\".\n", "241015-23:49:52,26 nipype.workflow INFO:\n", "\t [Node] Executing \"msk_conform\" \n", "241015-23:49:52,368 nipype.workflow INFO:\n", "\t [Node] Finished \"msk_conform\", elapsed time 0.341015s.\n", "241015-23:50:02,243 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_apply_mask0\" in \"/home/jovyan/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\".\n", "241015-23:50:02,245 nipype.workflow INFO:\n", "\t [Node] Executing \"_apply_mask0\" \n", "241015-23:50:03,277 nipype.workflow INFO:\n", "\t [Node] Finished \"_apply_mask0\", elapsed time 1.030496s.\n", "241015-23:50:06,856 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.register_template_wf.trunc_mov\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/register_template_wf/_template_MNI152NLin2009cAsym/trunc_mov\".\n", "241015-23:50:06,857 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.ds_std_volumes_wf.gen_ref\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/ds_std_volumes_wf/_in_tuple_MNI152NLin2009cAsym.resnative/gen_ref\".\n", "241015-23:50:06,862 nipype.workflow INFO:\n", "\t [Node] Executing \"trunc_mov\" \n", "241015-23:50:08,509 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.skull_strip_extern\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/skull_strip_extern\".\n", "241015-23:50:09,295 nipype.workflow INFO:\n", "\t [Node] Executing \"gen_ref\" \n", "241015-23:50:11,156 nipype.workflow INFO:\n", "\t [Node] Executing \"skull_strip_extern\" \n", "241015-23:50:13,427 nipype.workflow INFO:\n", "\t [Node] Finished \"trunc_mov\", elapsed time 6.563622s.\n", "241015-23:50:13,620 nipype.workflow INFO:\n", "\t [Node] Finished \"gen_ref\", elapsed time 4.323494s.\n", "241015-23:50:15,277 nipype.workflow INFO:\n", "\t [Node] Finished \"skull_strip_extern\", elapsed time 4.119662s.\n", "241015-23:50:20,870 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.gcareg\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/gcareg\".\n", "241015-23:50:20,874 nipype.workflow INFO:\n", "\t [Node] Executing \"gcareg\" \n", "241015-23:50:20,876 nipype.interface INFO:\n", "\t resume recon-all : recon-all -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -gcareg\n", "241015-23:50:20,877 nipype.interface INFO:\n", "\t resume recon-all : recon-all -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -gcareg\n", "241015-23:54:44,373 nipype.workflow INFO:\n", "\t [Node] Finished \"gcareg\", elapsed time 263.497329s.\n", "241015-23:54:45,45 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.autorecon2_vol\" in \"/home/jovyan/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\".\n", "241015-23:54:45,54 nipype.workflow INFO:\n", "\t [Node] Executing \"autorecon2_vol\" \n", "241015-23:54:45,57 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon2-volonly -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nogcareg\n", "241015-23:54:45,60 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon2-volonly -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nogcareg\n", "241016-01:55:38,518 nipype.workflow INFO:\n", "\t [Node] Finished \"autorecon2_vol\", elapsed time 7253.461031s.\n", "241016-01:55:41,204 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_autorecon_surfs0\" in \"/home/jovyan/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\".\n", "241016-01:55:41,204 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_autorecon_surfs1\" in \"/home/jovyan/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\".\n", "241016-01:55:41,216 nipype.workflow INFO:\n", "\t [Node] Executing \"_autorecon_surfs0\" \n", "241016-01:55:41,218 nipype.workflow INFO:\n", "\t [Node] Executing \"_autorecon_surfs1\" \n", "241016-01:55:41,223 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi rh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer \n", "241016-01:55:41,224 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi rh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer \n", "241016-01:55:41,222 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi lh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer \n", "241016-01:55:41,230 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi lh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer \n", "241016-02:33:50,646 nipype.workflow INFO:\n", "\t [Node] Finished \"_autorecon_surfs0\", elapsed time 2289.426188s.\n", "241016-02:35:29,761 nipype.workflow INFO:\n", "\t [Node] Finished \"_autorecon_surfs1\", elapsed time 2388.538778s.\n", "241016-02:35:31,748 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_autorecon_surfs0\" in \"/home/jovyan/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\".\n", "241016-02:35:31,754 nipype.workflow INFO:\n", "\t [Node] Executing \"_autorecon_surfs0\" \n", "241016-02:35:31,758 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:35:31,759 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:35:32,310 nipype.workflow INFO:\n", "\t [Node] Finished \"_autorecon_surfs0\", elapsed time 0.553482s.\n", "241016-02:35:32,318 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_autorecon_surfs1\" in \"/home/jovyan/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\".\n", "241016-02:35:32,322 nipype.workflow INFO:\n", "\t [Node] Executing \"_autorecon_surfs1\" \n", "241016-02:35:32,324 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:35:32,325 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:35:32,524 nipype.workflow INFO:\n", "\t [Node] Finished \"_autorecon_surfs1\", elapsed time 0.201104s.\n", "241016-02:35:35,654 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.cortribbon\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/cortribbon\".\n", "241016-02:35:35,660 nipype.workflow INFO:\n", "\t [Node] Executing \"cortribbon\" \n", "241016-02:35:35,661 nipype.interface INFO:\n", "\t resume recon-all : recon-all -parallel -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -cortribbon\n", "241016-02:35:35,662 nipype.interface INFO:\n", "\t resume recon-all : recon-all -parallel -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -cortribbon\n", "241016-02:43:04,298 nipype.workflow INFO:\n", "\t [Node] Finished \"cortribbon\", elapsed time 448.636713s.\n", "241016-02:43:07,861 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_parcstats0\" in \"/home/jovyan/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\".\n", "241016-02:43:07,863 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_parcstats1\" in \"/home/jovyan/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\".\n", "241016-02:43:07,873 nipype.workflow INFO:\n", "\t [Node] Executing \"_parcstats0\" \n", "241016-02:43:07,874 nipype.workflow INFO:\n", "\t [Node] Executing \"_parcstats1\" \n", "241016-02:43:07,879 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi lh -nohyporelabel -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/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\n", "241016-02:43:07,880 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi lh -nohyporelabel -lh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/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\n", "241016-02:43:07,879 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi rh -nohyporelabel -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/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\n", "241016-02:43:07,886 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon-hemi rh -nohyporelabel -rh-only -openmp 8 -subjid sub-01 -sd /home/jovyan/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\n", "241016-02:48:29,720 nipype.workflow INFO:\n", "\t [Node] Finished \"_parcstats0\", elapsed time 321.84365s.\n", "241016-02:48:31,471 nipype.workflow INFO:\n", "\t [Node] Finished \"_parcstats1\", elapsed time 323.593271s.\n", "241016-02:48:32,59 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_parcstats0\" in \"/home/jovyan/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\".\n", "241016-02:48:32,65 nipype.workflow INFO:\n", "\t [Node] Executing \"_parcstats0\" \n", "241016-02:48:32,70 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:48:32,71 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:48:32,825 nipype.workflow INFO:\n", "\t [Node] Finished \"_parcstats0\", elapsed time 0.756917s.\n", "241016-02:48:32,834 nipype.workflow INFO:\n", "\t [Node] Setting-up \"_parcstats1\" in \"/home/jovyan/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\".\n", "241016-02:48:32,838 nipype.workflow INFO:\n", "\t [Node] Executing \"_parcstats1\" \n", "241016-02:48:32,840 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:48:32,841 nipype.interface INFO:\n", "\t recon-all complete : Not running\n", "241016-02:48:33,183 nipype.workflow INFO:\n", "\t [Node] Finished \"_parcstats1\", elapsed time 0.343395s.\n", "241016-02:48:34,42 nipype.workflow INFO:\n", "\t [Node] Setting-up \"aslprep_0_7_wf.sub_01_wf.anat_fit_wf.surface_recon_wf.autorecon_resume_wf.autorecon3\" in \"/home/jovyan/example-notebooks/books/functional_imaging/aslprep-work/aslprep_0_7_wf/sub_01_wf/anat_fit_wf/surface_recon_wf/autorecon_resume_wf/autorecon3\".\n", "241016-02:48:34,57 nipype.workflow INFO:\n", "\t [Node] Executing \"autorecon3\" \n", "241016-02:48:34,62 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon3 -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -noparcstats -nocortparc2 -noparcstats2 -nocortparc3 -noparcstats3 -nopctsurfcon -nocortribbon -nobalabels\n", "241016-02:48:34,63 nipype.interface INFO:\n", "\t resume recon-all : recon-all -autorecon3 -openmp 8 -subjid sub-01 -sd /home/jovyan/example-notebooks/books/functional_imaging/aslprep-output/sourcedata/freesurfer -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -noparcstats -nocortparc2 -noparcstats2 -nocortparc3 -noparcstats3 -nopctsurfcon -nocortribbon -nobalabels\n" ] } ], "source": [ "%%bash\n", "# aslprep data/bids_root/ out/ participant -w work/\n", "aslprep ds000240 \\\n", " aslprep-output \\\n", " participant \\\n", " --participant-label 01 \\\n", " --fs-license-file ~/.license \\\n", " -w aslprep-work" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## aslprep Results" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "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:" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "### Brain mask and brain tissue segmentation of the T1w\n", "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." ] }, { "cell_type": "code", "execution_count": 4, "metadata": {}, "outputs": [ { "data": { "image/svg+xml": [ "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "\n", " \n", "" ], "text/plain": [ "" ] }, "execution_count": 4, "metadata": {}, "output_type": "execute_result" } ], "source": [ "from IPython.core.display import SVG\n", "SVG(filename='aslprep-output/sub-01/figures/sub-01_dseg.svg')" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "### Spatial normalization of the anatomical T1w reference\n", "\n", "Results of nonlinear alignment of the T1w reference one or more template space(s)" ] }, { "cell_type": "code", "execution_count": 5, "metadata": {}, "outputs": [ { "data": { "image/svg+xml": [ "\n", " \n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " 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" \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "\n", " \n", "" ], "text/plain": [ "" ] }, "execution_count": 6, "metadata": {}, "output_type": "execute_result" } ], "source": [ "from IPython.core.display import SVG\n", "SVG(filename='aslprep-output/sub-01/figures/sub-01_desc-reconall_T1w.svg')" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Alignment of functional and anatomical MRI data (volume based)\n", "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." ] }, { "cell_type": "code", "execution_count": 7, "metadata": {}, "outputs": [ { "data": { "image/svg+xml": [ "\n", " \n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " 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"### ASL Summary\n", "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." ] }, { "cell_type": "code", "execution_count": 8, "metadata": {}, "outputs": [ { "data": { "image/svg+xml": [ "\n", " \n", " \n", " \n", " \n", " 2024-10-16T03:53:56.410778\n", " image/svg+xml\n", " \n", " \n", " Matplotlib v3.8.2, https://matplotlib.org/\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", 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