2022-04-01 13:41:23,154 - INFO - Running RABIES - version: 0.3.5 2022-04-01 13:41:23,154 - INFO - CLI INPUTS: -> rabies_step = preprocess -> plugin = MultiProc -> local_threads = 80 -> scale_min_memory = 1.0 -> min_proc = 1 -> bids_dir = /rabies_in -> output_dir = /rabies_out -> bold_only = False -> anat_autobox = True -> bold_autobox = False -> apply_despiking = False -> HMC_option = intraSubjectBOLD -> apply_slice_mc = False -> detect_dummy = False -> data_type = float32 -> debug = False -> bold_inho_cor_method = N4_reg -> bold_inho_cor_otsu = 2 -> anat_inho_cor_method = N4_reg -> atlas_reg_script = SyN -> fast_commonspace = True -> commonspace_masking = False -> coreg_script = Rigid -> coreg_masking = False -> brain_extraction = False -> nativespace_resampling = inputs_defined -> commonspace_resampling = 0.3x0.3x0.3 -> anatomical_resampling = inputs_defined -> TR = 1 -> apply_STC = False -> tpattern = alt -> anat_template = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Anatomical_Imaging/SIGMA_Rat_Anatomical_InVivo_Template/SIGMA_InVivo_Brain_Template.nii -> brain_mask = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Anatomical_Imaging/SIGMA_Rat_Anatomical_InVivo_Template/SIGMA_InVivo_Brain_Mask.nii -> WM_mask = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Anatomical_Imaging/SIGMA_Rat_Anatomical_InVivo_Template/SIGMA_InVivo_WM_bin.nii.gz -> CSF_mask = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Anatomical_Imaging/SIGMA_Rat_Anatomical_InVivo_Template/SIGMA_InVivo_CSF_bin.nii.gz -> vascular_mask = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Anatomical_Imaging/SIGMA_Rat_Anatomical_InVivo_Template/SIGMA_InVivo_CSF_bin.nii.gz -> labels = /template/SIGMA_Wistar_Rat_Brain_TemplatesAndAtlases_Version1.1/SIGMA_Rat_Brain_Atlases/SIGMA_Anatomical_Atlas/SIGMA_Anatomical_Brain_Atlas_rs.nii 2022-04-01 13:41:23,155 - INFO - INPUT BIDS DATASET: rabies_in/ sub-301002/ sub-301002/ anat/ sub-301002_T2w.json sub-301002_T2w.nii.gz func/ sub-301002_task-rest_bold.json sub-301002_task-rest_bold.nii.gz 2022-04-01 13:41:24,232 - WARNING - Matplotlib created a temporary config/cache directory at /tmp/matplotlib-ru6f54uf because the default path (/home/m/mchakrav/gjoanes/.config/matplotlib) is not a writable directory; it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing. 2022-04-01 13:41:24,274 - INFO - Generating new fontManager, this may take some time... 2022-04-01 13:47:57,796 - INFO - Running workflow with MultiProc plugin. 2022-04-01 13:47:57,842 - INFO - Workflow main_wf settings: ['check', 'execution', 'logging', 'monitoring'] 2022-04-01 13:47:57,890 - INFO - Running in parallel. 2022-04-01 13:47:57,897 - INFO - [MultiProc] Running 0 tasks, and 3 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 13:47:58,017 - INFO - [Node] Setting-up "main_wf.bold_selectfiles" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_selectfiles". 2022-04-01 13:47:58,025 - INFO - [Node] Running "bold_selectfiles" ("rabies.preprocess_pkg.utils.BIDSDataGraber") 2022-04-01 13:47:58,027 - INFO - [Node] Setting-up "main_wf.anat_selectfiles" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_selectfiles". 2022-04-01 13:47:58,035 - INFO - [Node] Running "anat_selectfiles" ("rabies.preprocess_pkg.utils.BIDSDataGraber") 2022-04-01 13:47:58,036 - INFO - [Node] Setting-up "main_wf.resample_template" in "/rabies_out/main_wf/resample_template". 2022-04-01 13:47:58,043 - INFO - [Node] Running "resample_template" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:47:58,082 - INFO - Resampling template to 0.20000000298023224x0.20000000298023224x0.20000000298023224mm dimensions. 2022-04-01 13:47:58,140 - INFO - [Node] Finished "main_wf.bold_selectfiles". 2022-04-01 13:47:58,145 - INFO - [Node] Finished "main_wf.anat_selectfiles". 2022-04-01 13:47:58,850 - INFO - [Node] Finished "main_wf.resample_template". 2022-04-01 13:47:59,902 - INFO - [Job 0] Completed (main_wf.bold_selectfiles). 2022-04-01 13:47:59,904 - INFO - [Job 4] Completed (main_wf.anat_selectfiles). 2022-04-01 13:47:59,904 - INFO - [Job 7] Completed (main_wf.resample_template). 2022-04-01 13:47:59,906 - INFO - [MultiProc] Running 0 tasks, and 3 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 13:48:00,000 - INFO - [Node] Setting-up "main_wf.bold_convert_to_RAS" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_convert_to_RAS". 2022-04-01 13:48:00,001 - INFO - [Node] Setting-up "main_wf.anat_convert_to_RAS" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_convert_to_RAS". 2022-04-01 13:48:00,001 - INFO - [Node] Setting-up "main_wf.template_info" in "/rabies_out/main_wf/template_info". 2022-04-01 13:48:00,006 - INFO - [Node] Running "anat_convert_to_RAS" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:48:00,006 - INFO - [Node] Running "bold_convert_to_RAS" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:48:00,007 - INFO - [Node] Running "template_info" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:48:00,143 - INFO - [Node] Finished "main_wf.anat_convert_to_RAS". 2022-04-01 13:48:01,903 - INFO - [Job 5] Completed (main_wf.anat_convert_to_RAS). 2022-04-01 13:48:01,905 - INFO - [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 169.29/169.69, Free processors: 78/80. Currently running: * main_wf.template_info * main_wf.bold_convert_to_RAS 2022-04-01 13:48:01,976 - INFO - [Node] Setting-up "main_wf.anat_autobox" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_autobox". 2022-04-01 13:48:01,982 - INFO - [Node] Running "anat_autobox" ("nipype.interfaces.afni.utils.Autobox"), a CommandLine Interface with command: 3dAutobox -input /rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_autobox/sub-301002_T2w_RAS.nii.gz -prefix sub-301002_T2w_RAS_autobox.nii.gz -npad 1 2022-04-01 13:48:02,101 - INFO - [Node] Finished "main_wf.template_info". 2022-04-01 13:48:02,250 - INFO - [Node] Finished "main_wf.anat_autobox". 2022-04-01 13:48:03,907 - INFO - [Job 41] Completed (main_wf.template_info). 2022-04-01 13:48:03,908 - INFO - [Job 6] Completed (main_wf.anat_autobox). 2022-04-01 13:48:03,909 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 169.49/169.69, Free processors: 79/80. Currently running: * main_wf.bold_convert_to_RAS 2022-04-01 13:48:03,978 - INFO - [Node] Setting-up "main_wf.anat_inho_cor_wf.InhoCorrection" in "/rabies_out/main_wf/anat_inho_cor_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/InhoCorrection". 2022-04-01 13:48:03,984 - INFO - [Node] Running "InhoCorrection" ("rabies.preprocess_pkg.inho_correction.InhoCorrection") 2022-04-01 13:48:05,910 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 168.89/169.69, Free processors: 78/80. Currently running: * main_wf.anat_inho_cor_wf.InhoCorrection * main_wf.bold_convert_to_RAS 2022-04-01 13:48:07,670 - INFO - [Node] Finished "main_wf.bold_convert_to_RAS". 2022-04-01 13:48:07,911 - INFO - [Job 1] Completed (main_wf.bold_convert_to_RAS). 2022-04-01 13:48:07,913 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 169.09/169.69, Free processors: 79/80. Currently running: * main_wf.anat_inho_cor_wf.InhoCorrection 2022-04-01 13:48:07,984 - INFO - [Node] Setting-up "main_wf.bold_main_wf.gen_bold_ref.gen_ref" in "/rabies_out/main_wf/bold_main_wf/gen_bold_ref/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/gen_ref". 2022-04-01 13:48:07,990 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 13:48:09,913 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 167.09/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.gen_bold_ref.gen_ref * main_wf.anat_inho_cor_wf.InhoCorrection 2022-04-01 13:48:41,204 - INFO - [Node] Finished "main_wf.bold_main_wf.gen_bold_ref.gen_ref". 2022-04-01 13:48:41,564 - INFO - [Node] Finished "main_wf.anat_inho_cor_wf.InhoCorrection". 2022-04-01 13:48:41,946 - INFO - [Job 8] Completed (main_wf.anat_inho_cor_wf.InhoCorrection). 2022-04-01 13:48:41,947 - INFO - [Job 2] Completed (main_wf.bold_main_wf.gen_bold_ref.gen_ref). 2022-04-01 13:48:41,948 - INFO - [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 13:48:42,016 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_hmc_wf.ants_MC" in "/rabies_out/main_wf/bold_main_wf/bold_hmc_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/ants_MC". 2022-04-01 13:48:42,017 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.atlas_reg" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/atlas_reg". 2022-04-01 13:48:42,017 - INFO - [Node] Setting-up "main_wf.anat_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_datasink". 2022-04-01 13:48:42,021 - INFO - [Node] Running "ants_MC" ("rabies.preprocess_pkg.utils.antsMotionCorr") 2022-04-01 13:48:42,028 - INFO - [Node] Setting-up "main_wf.anat_inho_cor_diagnosis" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/anat_inho_cor_diagnosis". 2022-04-01 13:48:42,033 - INFO - [Node] Running "anat_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 13:48:42,034 - INFO - [Node] Running "atlas_reg" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:48:42,038 - INFO - [Node] Finished "main_wf.anat_datasink". 2022-04-01 13:48:42,038 - INFO - [Node] Running "anat_inho_cor_diagnosis" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:48:43,950 - INFO - [Job 39] Completed (main_wf.anat_datasink). 2022-04-01 13:48:43,951 - INFO - [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 166.39/169.69, Free processors: 77/80. Currently running: * main_wf.anat_inho_cor_diagnosis * main_wf.commonspace_reg_wf.atlas_reg * main_wf.bold_main_wf.bold_hmc_wf.ants_MC 2022-04-01 13:48:45,258 - INFO - [Node] Finished "main_wf.anat_inho_cor_diagnosis". 2022-04-01 13:48:45,951 - INFO - [Job 40] Completed (main_wf.anat_inho_cor_diagnosis). 2022-04-01 13:48:45,953 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 166.59/169.69, Free processors: 78/80. Currently running: * main_wf.commonspace_reg_wf.atlas_reg * main_wf.bold_main_wf.bold_hmc_wf.ants_MC 2022-04-01 13:50:17,786 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.atlas_reg". 2022-04-01 13:50:18,041 - INFO - [Job 9] Completed (main_wf.commonspace_reg_wf.atlas_reg). 2022-04-01 13:50:18,042 - INFO - [MultiProc] Running 1 tasks, and 2 jobs ready. Free memory (GB): 168.59/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_hmc_wf.ants_MC 2022-04-01 13:50:18,110 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/PlotOverlap_Native2Atlas". 2022-04-01 13:50:18,111 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.prep_commonspace_transform" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/prep_commonspace_transform". 2022-04-01 13:50:18,115 - INFO - [Node] Running "PlotOverlap_Native2Atlas" ("rabies.preprocess_pkg.preprocess_visual_QC.PlotOverlap") 2022-04-01 13:50:18,121 - INFO - [Node] Running "prep_commonspace_transform" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 13:50:18,657 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.prep_commonspace_transform". 2022-04-01 13:50:20,043 - INFO - [Job 11] Completed (main_wf.commonspace_reg_wf.prep_commonspace_transform). 2022-04-01 13:50:20,044 - INFO - [MultiProc] Running 2 tasks, and 1 jobs ready. Free memory (GB): 168.39/169.69, Free processors: 78/80. Currently running: * main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas * main_wf.bold_main_wf.bold_hmc_wf.ants_MC 2022-04-01 13:50:20,112 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection" in "/rabies_out/main_wf/bold_main_wf/bold_inho_cor_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/InhoCorrection". 2022-04-01 13:50:20,120 - INFO - [Node] Running "InhoCorrection" ("rabies.preprocess_pkg.inho_correction.InhoCorrection") 2022-04-01 13:50:20,406 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas". 2022-04-01 13:50:22,045 - INFO - [Job 10] Completed (main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas). 2022-04-01 13:50:22,047 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 167.99/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection * main_wf.bold_main_wf.bold_hmc_wf.ants_MC 2022-04-01 13:57:19,200 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_hmc_wf.ants_MC". 2022-04-01 13:57:20,461 - INFO - [Job 3] Completed (main_wf.bold_main_wf.bold_hmc_wf.ants_MC). 2022-04-01 13:57:20,463 - INFO - [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 169.09/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection 2022-04-01 14:03:54,220 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection". 2022-04-01 14:03:54,867 - INFO - [Job 12] Completed (main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection). 2022-04-01 14:03:54,868 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:03:54,932 - INFO - [Node] Setting-up "main_wf.bold_inho_cor_diagnosis" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_inho_cor_diagnosis". 2022-04-01 14:03:54,932 - INFO - [Node] Setting-up "main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration" in "/rabies_out/main_wf/bold_main_wf/cross_modal_reg_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/EPI_Coregistration". 2022-04-01 14:03:54,937 - INFO - [Node] Running "bold_inho_cor_diagnosis" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 14:03:54,938 - INFO - [Node] Running "EPI_Coregistration" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 14:03:56,870 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 166.49/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration * main_wf.bold_inho_cor_diagnosis 2022-04-01 14:03:58,213 - INFO - [Node] Finished "main_wf.bold_inho_cor_diagnosis". 2022-04-01 14:03:58,871 - INFO - [Job 13] Completed (main_wf.bold_inho_cor_diagnosis). 2022-04-01 14:03:58,873 - INFO - [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 166.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration 2022-04-01 14:04:11,815 - INFO - [Node] Finished "main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration". 2022-04-01 14:04:12,888 - INFO - [Job 14] Completed (main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration). 2022-04-01 14:04:12,890 - INFO - [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:04:12,955 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.transforms_datasink" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/transforms_datasink". 2022-04-01 14:04:12,955 - INFO - [Node] Setting-up "main_wf.PlotOverlap_EPI2Anat" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/PlotOverlap_EPI2Anat". 2022-04-01 14:04:12,955 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_to_commonspace_transforms" in "/rabies_out/main_wf/bold_main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_to_commonspace_transforms". 2022-04-01 14:04:12,955 - INFO - [Node] Setting-up "main_wf.bold_main_wf.transforms_prep" in "/rabies_out/main_wf/bold_main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/transforms_prep". 2022-04-01 14:04:12,960 - INFO - [Node] Running "bold_to_commonspace_transforms" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 14:04:12,960 - INFO - [Node] Running "transforms_prep" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 14:04:12,961 - INFO - [Node] Running "PlotOverlap_EPI2Anat" ("rabies.preprocess_pkg.preprocess_visual_QC.PlotOverlap") 2022-04-01 14:04:12,961 - INFO - [Node] Running "transforms_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 14:04:12,964 - INFO - [Node] Finished "main_wf.bold_main_wf.transforms_prep". 2022-04-01 14:04:12,964 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_to_commonspace_transforms". 2022-04-01 14:04:12,969 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.transforms_datasink". 2022-04-01 14:04:14,391 - INFO - [Node] Finished "main_wf.PlotOverlap_EPI2Anat". 2022-04-01 14:04:14,895 - INFO - [Job 15] Completed (main_wf.commonspace_reg_wf.transforms_datasink). 2022-04-01 14:04:14,896 - INFO - [Job 16] Completed (main_wf.PlotOverlap_EPI2Anat). 2022-04-01 14:04:14,896 - INFO - [Job 17] Completed (main_wf.bold_main_wf.bold_to_commonspace_transforms). 2022-04-01 14:04:14,897 - INFO - [Job 26] Completed (main_wf.bold_main_wf.transforms_prep). 2022-04-01 14:04:14,898 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:04:14,957 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_transform". 2022-04-01 14:04:14,958 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.bold_transform" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_transform". 2022-04-01 14:04:14,964 - INFO - [Node] Running "bold_transform" ("rabies.preprocess_pkg.utils.slice_applyTransforms") 2022-04-01 14:04:14,964 - INFO - [Node] Running "bold_transform" ("rabies.preprocess_pkg.utils.slice_applyTransforms") 2022-04-01 14:04:16,902 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 167.69/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.bold_native_trans_wf.bold_transform * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:09:10,735 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.bold_transform". 2022-04-01 14:09:11,342 - INFO - [Job 27] Completed (main_wf.bold_main_wf.bold_native_trans_wf.bold_transform). 2022-04-01 14:09:11,344 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:09:11,478 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.merge" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/merge". 2022-04-01 14:09:11,617 - INFO - [Node] Running "merge" ("rabies.preprocess_pkg.utils.Merge") 2022-04-01 14:09:13,344 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 164.69/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.bold_native_trans_wf.merge * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:09:49,670 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.merge". 2022-04-01 14:09:51,386 - INFO - [Job 28] Completed (main_wf.bold_main_wf.bold_native_trans_wf.merge). 2022-04-01 14:09:51,388 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:09:51,452 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/gen_bold_ref/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/gen_ref". 2022-04-01 14:09:51,457 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 14:09:53,391 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 166.69/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:10:21,138 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref". 2022-04-01 14:10:21,420 - INFO - [Job 29] Completed (main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref). 2022-04-01 14:10:21,422 - INFO - [MultiProc] Running 1 tasks, and 5 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:10:21,491 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.prop_labels_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/prop_labels_EPI". 2022-04-01 14:10:21,491 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.vascular_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/vascular_mask_EPI". 2022-04-01 14:10:21,491 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.CSF_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/CSF_mask_EPI". 2022-04-01 14:10:21,498 - INFO - [Node] Running "prop_labels_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:10:21,498 - INFO - [Node] Running "vascular_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:10:21,498 - INFO - [Node] Running "CSF_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:10:21,503 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.WM_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/WM_mask_EPI". 2022-04-01 14:10:21,513 - INFO - [Node] Running "WM_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:10:21,514 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_native_trans_wf.Brain_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_native_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/Brain_mask_EPI". 2022-04-01 14:10:21,523 - INFO - [Node] Running "Brain_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:10:22,042 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.Brain_mask_EPI". 2022-04-01 14:10:22,046 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.CSF_mask_EPI". 2022-04-01 14:10:22,051 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.vascular_mask_EPI". 2022-04-01 14:10:22,051 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.WM_mask_EPI". 2022-04-01 14:10:22,307 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.prop_labels_EPI". 2022-04-01 14:10:23,423 - INFO - [Job 30] Completed (main_wf.bold_main_wf.bold_native_trans_wf.prop_labels_EPI). 2022-04-01 14:10:23,425 - INFO - [Job 31] Completed (main_wf.bold_main_wf.bold_native_trans_wf.vascular_mask_EPI). 2022-04-01 14:10:23,425 - INFO - [Job 32] Completed (main_wf.bold_main_wf.bold_native_trans_wf.CSF_mask_EPI). 2022-04-01 14:10:23,426 - INFO - [Job 33] Completed (main_wf.bold_main_wf.bold_native_trans_wf.WM_mask_EPI). 2022-04-01 14:10:23,427 - INFO - [Job 34] Completed (main_wf.bold_main_wf.bold_native_trans_wf.Brain_mask_EPI). 2022-04-01 14:10:23,428 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:10:23,520 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_confs_wf.estimate_confounds" in "/rabies_out/main_wf/bold_main_wf/bold_confs_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/estimate_confounds". 2022-04-01 14:10:23,528 - INFO - [Node] Running "estimate_confounds" ("rabies.preprocess_pkg.confounds.EstimateConfounds") 2022-04-01 14:10:25,430 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 166.39/169.69, Free processors: 78/80. Currently running: * main_wf.bold_main_wf.bold_confs_wf.estimate_confounds * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:12:50,006 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_confs_wf.estimate_confounds". 2022-04-01 14:12:51,648 - INFO - [Job 35] Completed (main_wf.bold_main_wf.bold_confs_wf.estimate_confounds). 2022-04-01 14:12:51,649 - INFO - [MultiProc] Running 1 tasks, and 1 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:12:51,714 - INFO - [Node] Setting-up "main_wf.confounds_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/confounds_datasink". 2022-04-01 14:12:51,719 - INFO - [Node] Running "confounds_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 14:12:51,725 - INFO - [Node] Finished "main_wf.confounds_datasink". 2022-04-01 14:12:53,650 - INFO - [Job 36] Completed (main_wf.confounds_datasink). 2022-04-01 14:12:53,651 - INFO - [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 168.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform 2022-04-01 14:16:53,702 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform". 2022-04-01 14:16:54,164 - INFO - [Job 18] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform). 2022-04-01 14:16:54,165 - INFO - [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:16:54,230 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.merge" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/merge". 2022-04-01 14:16:54,365 - INFO - [Node] Running "merge" ("rabies.preprocess_pkg.utils.Merge") 2022-04-01 14:16:56,168 - INFO - [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 165.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.merge 2022-04-01 14:20:51,702 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.merge". 2022-04-01 14:20:52,849 - INFO - [Job 19] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.merge). 2022-04-01 14:20:52,850 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:20:52,904 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/gen_bold_ref/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/gen_ref". 2022-04-01 14:20:52,904 - INFO - [Node] Setting-up "main_wf.temporal_features" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/temporal_features". 2022-04-01 14:20:52,909 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 14:20:52,910 - INFO - [Node] Running "temporal_features" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 14:20:54,856 - INFO - [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 167.49/169.69, Free processors: 78/80. Currently running: * main_wf.temporal_features * main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref 2022-04-01 14:21:17,111 - INFO - [Node] Finished "main_wf.temporal_features". 2022-04-01 14:21:18,923 - INFO - [Job 37] Completed (main_wf.temporal_features). 2022-04-01 14:21:18,925 - INFO - [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 167.69/169.69, Free processors: 79/80. Currently running: * main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref 2022-04-01 14:22:24,921 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref". 2022-04-01 14:22:24,993 - INFO - [Job 20] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref). 2022-04-01 14:22:24,995 - INFO - [MultiProc] Running 0 tasks, and 5 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:22:25,060 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.prop_labels_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/prop_labels_EPI". 2022-04-01 14:22:25,061 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.vascular_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/vascular_mask_EPI". 2022-04-01 14:22:25,061 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.CSF_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/CSF_mask_EPI". 2022-04-01 14:22:25,062 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.WM_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/WM_mask_EPI". 2022-04-01 14:22:25,062 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_commonspace_trans_wf.Brain_mask_EPI" in "/rabies_out/main_wf/bold_main_wf/bold_commonspace_trans_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/Brain_mask_EPI". 2022-04-01 14:22:25,065 - INFO - [Node] Running "prop_labels_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:22:25,065 - INFO - [Node] Running "vascular_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:22:25,066 - INFO - [Node] Running "CSF_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:22:25,066 - INFO - [Node] Running "WM_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:22:25,067 - INFO - [Node] Running "Brain_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 14:22:25,282 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.Brain_mask_EPI". 2022-04-01 14:22:25,317 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.vascular_mask_EPI". 2022-04-01 14:22:25,320 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.WM_mask_EPI". 2022-04-01 14:22:25,322 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.CSF_mask_EPI". 2022-04-01 14:22:25,701 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.prop_labels_EPI". 2022-04-01 14:22:26,996 - INFO - [Job 21] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.prop_labels_EPI). 2022-04-01 14:22:26,997 - INFO - [Job 22] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.vascular_mask_EPI). 2022-04-01 14:22:26,998 - INFO - [Job 23] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.CSF_mask_EPI). 2022-04-01 14:22:26,998 - INFO - [Job 24] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.WM_mask_EPI). 2022-04-01 14:22:26,999 - INFO - [Job 25] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.Brain_mask_EPI). 2022-04-01 14:22:27,000 - INFO - [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 14:22:27,067 - INFO - [Node] Setting-up "main_wf.bold_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301002.sessionNone_split_name_sub-301002_T2w/_run_None/bold_datasink". 2022-04-01 14:22:27,083 - INFO - [Node] Running "bold_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 14:22:27,811 - INFO - [Node] Finished "main_wf.bold_datasink". 2022-04-01 14:22:28,999 - INFO - [Job 38] Completed (main_wf.bold_datasink). 2022-04-01 14:22:29,000 - INFO - [MultiProc] Running 0 tasks, and 0 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80.