2022-04-01 16:29:27,024 - INFO - Running RABIES - version: 0.3.5 2022-04-01 16:29:27,024 - 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 16:29:27,025 - INFO - INPUT BIDS DATASET: rabies_in/ sub-301404/ sub-301404/ anat/ sub-301404_T2w.nii.gz sub-301404_T2w.json func/ sub-301404_task-rest_bold.nii.gz sub-301404_task-rest_bold.json 2022-04-01 16:29:28,463 - WARNING - Matplotlib created a temporary config/cache directory at /tmp/matplotlib-lizjy56k 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 16:29:28,506 - INFO - Generating new fontManager, this may take some time... 2022-04-01 16:36:02,296 - INFO - Running workflow with MultiProc plugin. 2022-04-01 16:36:02,340 - INFO - Workflow main_wf settings: ['check', 'execution', 'logging', 'monitoring'] 2022-04-01 16:36:02,387 - INFO - Running in parallel. 2022-04-01 16:36:02,394 - INFO - [MultiProc] Running 0 tasks, and 3 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:36:02,469 - INFO - [Node] Setting-up "main_wf.bold_selectfiles" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_selectfiles". 2022-04-01 16:36:02,476 - INFO - [Node] Running "bold_selectfiles" ("rabies.preprocess_pkg.utils.BIDSDataGraber") 2022-04-01 16:36:02,479 - INFO - [Node] Setting-up "main_wf.anat_selectfiles" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_selectfiles". 2022-04-01 16:36:02,485 - INFO - [Node] Running "anat_selectfiles" ("rabies.preprocess_pkg.utils.BIDSDataGraber") 2022-04-01 16:36:02,488 - INFO - [Node] Setting-up "main_wf.resample_template" in "/rabies_out/main_wf/resample_template". 2022-04-01 16:36:02,496 - INFO - [Node] Running "resample_template" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:02,535 - INFO - Resampling template to 0.20000000298023224x0.20000000298023224x0.20000000298023224mm dimensions. 2022-04-01 16:36:02,589 - INFO - [Node] Finished "main_wf.bold_selectfiles". 2022-04-01 16:36:02,593 - INFO - [Node] Finished "main_wf.anat_selectfiles". 2022-04-01 16:36:03,444 - INFO - [Node] Finished "main_wf.resample_template". 2022-04-01 16:36:04,399 - INFO - [Job 0] Completed (main_wf.bold_selectfiles). 2022-04-01 16:36:04,401 - INFO - [Job 4] Completed (main_wf.anat_selectfiles). 2022-04-01 16:36:04,402 - INFO - [Job 7] Completed (main_wf.resample_template). 2022-04-01 16:36:04,403 - INFO - [MultiProc] Running 0 tasks, and 3 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:36:04,505 - INFO - [Node] Setting-up "main_wf.bold_convert_to_RAS" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_convert_to_RAS". 2022-04-01 16:36:04,505 - INFO - [Node] Setting-up "main_wf.anat_convert_to_RAS" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_convert_to_RAS". 2022-04-01 16:36:04,506 - INFO - [Node] Setting-up "main_wf.template_info" in "/rabies_out/main_wf/template_info". 2022-04-01 16:36:04,509 - INFO - [Node] Running "bold_convert_to_RAS" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:04,509 - INFO - [Node] Running "anat_convert_to_RAS" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:04,512 - INFO - [Node] Running "template_info" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:04,640 - INFO - [Node] Finished "main_wf.anat_convert_to_RAS". 2022-04-01 16:36:06,400 - INFO - [Job 5] Completed (main_wf.anat_convert_to_RAS). 2022-04-01 16:36:06,402 - 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 16:36:06,466 - INFO - [Node] Setting-up "main_wf.anat_autobox" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_autobox". 2022-04-01 16:36:06,474 - INFO - [Node] Running "anat_autobox" ("nipype.interfaces.afni.utils.Autobox"), a CommandLine Interface with command: 3dAutobox -input /rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_autobox/sub-301404_T2w_RAS.nii.gz -prefix sub-301404_T2w_RAS_autobox.nii.gz -npad 1 2022-04-01 16:36:06,766 - INFO - [Node] Finished "main_wf.template_info". 2022-04-01 16:36:06,896 - INFO - [Node] Finished "main_wf.anat_autobox". 2022-04-01 16:36:08,404 - INFO - [Job 41] Completed (main_wf.template_info). 2022-04-01 16:36:08,404 - INFO - [Job 6] Completed (main_wf.anat_autobox). 2022-04-01 16:36:08,405 - 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 16:36:08,473 - INFO - [Node] Setting-up "main_wf.anat_inho_cor_wf.InhoCorrection" in "/rabies_out/main_wf/anat_inho_cor_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/InhoCorrection". 2022-04-01 16:36:08,478 - INFO - [Node] Running "InhoCorrection" ("rabies.preprocess_pkg.inho_correction.InhoCorrection") 2022-04-01 16:36:10,406 - 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 16:36:12,294 - INFO - [Node] Finished "main_wf.bold_convert_to_RAS". 2022-04-01 16:36:12,408 - INFO - [Job 1] Completed (main_wf.bold_convert_to_RAS). 2022-04-01 16:36:12,409 - 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 16:36:12,473 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/gen_ref". 2022-04-01 16:36:12,479 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 16:36:14,411 - 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 16:36:43,296 - INFO - [Node] Finished "main_wf.anat_inho_cor_wf.InhoCorrection". 2022-04-01 16:36:43,867 - INFO - [Node] Finished "main_wf.bold_main_wf.gen_bold_ref.gen_ref". 2022-04-01 16:36:44,441 - INFO - [Job 8] Completed (main_wf.anat_inho_cor_wf.InhoCorrection). 2022-04-01 16:36:44,442 - INFO - [Job 2] Completed (main_wf.bold_main_wf.gen_bold_ref.gen_ref). 2022-04-01 16:36:44,443 - INFO - [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:36:44,507 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/ants_MC". 2022-04-01 16:36:44,508 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.atlas_reg" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/atlas_reg". 2022-04-01 16:36:44,509 - INFO - [Node] Setting-up "main_wf.anat_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_datasink". 2022-04-01 16:36:44,513 - INFO - [Node] Running "ants_MC" ("rabies.preprocess_pkg.utils.antsMotionCorr") 2022-04-01 16:36:44,515 - INFO - [Node] Running "atlas_reg" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:44,515 - INFO - [Node] Running "anat_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 16:36:44,520 - INFO - [Node] Finished "main_wf.anat_datasink". 2022-04-01 16:36:44,520 - INFO - [Node] Setting-up "main_wf.anat_inho_cor_diagnosis" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/anat_inho_cor_diagnosis". 2022-04-01 16:36:44,530 - INFO - [Node] Running "anat_inho_cor_diagnosis" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:36:46,444 - INFO - [Job 39] Completed (main_wf.anat_datasink). 2022-04-01 16:36:46,445 - 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 16:36:47,720 - INFO - [Node] Finished "main_wf.anat_inho_cor_diagnosis". 2022-04-01 16:36:48,445 - INFO - [Job 40] Completed (main_wf.anat_inho_cor_diagnosis). 2022-04-01 16:36:48,447 - 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 16:38:19,024 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.atlas_reg". 2022-04-01 16:38:20,536 - INFO - [Job 9] Completed (main_wf.commonspace_reg_wf.atlas_reg). 2022-04-01 16:38:20,538 - 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 16:38:20,603 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/PlotOverlap_Native2Atlas". 2022-04-01 16:38:20,603 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.prep_commonspace_transform" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/prep_commonspace_transform". 2022-04-01 16:38:20,609 - INFO - [Node] Running "PlotOverlap_Native2Atlas" ("rabies.preprocess_pkg.preprocess_visual_QC.PlotOverlap") 2022-04-01 16:38:20,610 - INFO - [Node] Running "prep_commonspace_transform" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:38:21,150 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.prep_commonspace_transform". 2022-04-01 16:38:22,538 - INFO - [Job 11] Completed (main_wf.commonspace_reg_wf.prep_commonspace_transform). 2022-04-01 16:38:22,540 - 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 16:38:22,607 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/InhoCorrection". 2022-04-01 16:38:22,615 - INFO - [Node] Running "InhoCorrection" ("rabies.preprocess_pkg.inho_correction.InhoCorrection") 2022-04-01 16:38:22,959 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas". 2022-04-01 16:38:24,541 - INFO - [Job 10] Completed (main_wf.commonspace_reg_wf.PlotOverlap_Native2Atlas). 2022-04-01 16:38:24,542 - 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 16:45:46,723 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_hmc_wf.ants_MC". 2022-04-01 16:45:46,980 - INFO - [Job 3] Completed (main_wf.bold_main_wf.bold_hmc_wf.ants_MC). 2022-04-01 16:45:46,981 - 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 16:54:24,249 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection". 2022-04-01 16:54:25,514 - INFO - [Job 12] Completed (main_wf.bold_main_wf.bold_inho_cor_wf.InhoCorrection). 2022-04-01 16:54:25,516 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:54:25,608 - INFO - [Node] Setting-up "main_wf.bold_inho_cor_diagnosis" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_inho_cor_diagnosis". 2022-04-01 16:54:25,609 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/EPI_Coregistration". 2022-04-01 16:54:25,614 - INFO - [Node] Running "bold_inho_cor_diagnosis" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:54:25,614 - INFO - [Node] Running "EPI_Coregistration" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:54:27,517 - 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 16:54:28,948 - INFO - [Node] Finished "main_wf.bold_inho_cor_diagnosis". 2022-04-01 16:54:29,523 - INFO - [Job 13] Completed (main_wf.bold_inho_cor_diagnosis). 2022-04-01 16:54:29,525 - 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 16:54:38,497 - INFO - [Node] Finished "main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration". 2022-04-01 16:54:39,533 - INFO - [Job 14] Completed (main_wf.bold_main_wf.cross_modal_reg_wf.EPI_Coregistration). 2022-04-01 16:54:39,535 - INFO - [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:54:39,600 - INFO - [Node] Setting-up "main_wf.commonspace_reg_wf.transforms_datasink" in "/rabies_out/main_wf/commonspace_reg_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/transforms_datasink". 2022-04-01 16:54:39,601 - INFO - [Node] Setting-up "main_wf.PlotOverlap_EPI2Anat" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/PlotOverlap_EPI2Anat". 2022-04-01 16:54:39,601 - INFO - [Node] Setting-up "main_wf.bold_main_wf.bold_to_commonspace_transforms" in "/rabies_out/main_wf/bold_main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_to_commonspace_transforms". 2022-04-01 16:54:39,601 - INFO - [Node] Setting-up "main_wf.bold_main_wf.transforms_prep" in "/rabies_out/main_wf/bold_main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/transforms_prep". 2022-04-01 16:54:39,605 - INFO - [Node] Running "transforms_prep" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:54:39,606 - INFO - [Node] Running "bold_to_commonspace_transforms" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 16:54:39,607 - INFO - [Node] Running "transforms_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 16:54:39,607 - INFO - [Node] Running "PlotOverlap_EPI2Anat" ("rabies.preprocess_pkg.preprocess_visual_QC.PlotOverlap") 2022-04-01 16:54:39,609 - INFO - [Node] Finished "main_wf.bold_main_wf.transforms_prep". 2022-04-01 16:54:39,610 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_to_commonspace_transforms". 2022-04-01 16:54:39,614 - INFO - [Node] Finished "main_wf.commonspace_reg_wf.transforms_datasink". 2022-04-01 16:54:41,034 - INFO - [Node] Finished "main_wf.PlotOverlap_EPI2Anat". 2022-04-01 16:54:41,536 - INFO - [Job 15] Completed (main_wf.commonspace_reg_wf.transforms_datasink). 2022-04-01 16:54:41,537 - INFO - [Job 16] Completed (main_wf.PlotOverlap_EPI2Anat). 2022-04-01 16:54:41,537 - INFO - [Job 17] Completed (main_wf.bold_main_wf.bold_to_commonspace_transforms). 2022-04-01 16:54:41,538 - INFO - [Job 26] Completed (main_wf.bold_main_wf.transforms_prep). 2022-04-01 16:54:41,539 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 16:54:41,604 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_transform". 2022-04-01 16:54:41,604 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_transform". 2022-04-01 16:54:41,611 - INFO - [Node] Running "bold_transform" ("rabies.preprocess_pkg.utils.slice_applyTransforms") 2022-04-01 16:54:41,611 - INFO - [Node] Running "bold_transform" ("rabies.preprocess_pkg.utils.slice_applyTransforms") 2022-04-01 16:54:43,539 - 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 16:59:36,707 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.bold_transform". 2022-04-01 16:59:38,005 - INFO - [Job 27] Completed (main_wf.bold_main_wf.bold_native_trans_wf.bold_transform). 2022-04-01 16:59:38,007 - 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 16:59:38,071 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/merge". 2022-04-01 16:59:38,207 - INFO - [Node] Running "merge" ("rabies.preprocess_pkg.utils.Merge") 2022-04-01 16:59:40,008 - 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 17:00:11,609 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.merge". 2022-04-01 17:00:12,038 - INFO - [Job 28] Completed (main_wf.bold_main_wf.bold_native_trans_wf.merge). 2022-04-01 17:00:12,040 - 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 17:00:12,104 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/gen_ref". 2022-04-01 17:00:12,109 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 17:00:14,040 - 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 17:00:42,790 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref". 2022-04-01 17:00:44,070 - INFO - [Job 29] Completed (main_wf.bold_main_wf.bold_native_trans_wf.gen_bold_ref.gen_ref). 2022-04-01 17:00:44,072 - 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 17:00:44,137 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/prop_labels_EPI". 2022-04-01 17:00:44,138 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/CSF_mask_EPI". 2022-04-01 17:00:44,137 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/vascular_mask_EPI". 2022-04-01 17:00:44,143 - INFO - [Node] Running "prop_labels_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:00:44,145 - INFO - [Node] Running "CSF_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:00:44,146 - INFO - [Node] Running "vascular_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:00:44,152 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/WM_mask_EPI". 2022-04-01 17:00:44,160 - INFO - [Node] Running "WM_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:00:44,166 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/Brain_mask_EPI". 2022-04-01 17:00:44,174 - INFO - [Node] Running "Brain_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:00:44,650 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.vascular_mask_EPI". 2022-04-01 17:00:44,650 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.CSF_mask_EPI". 2022-04-01 17:00:44,650 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.Brain_mask_EPI". 2022-04-01 17:00:44,681 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.WM_mask_EPI". 2022-04-01 17:00:44,946 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_native_trans_wf.prop_labels_EPI". 2022-04-01 17:00:46,073 - INFO - [Job 30] Completed (main_wf.bold_main_wf.bold_native_trans_wf.prop_labels_EPI). 2022-04-01 17:00:46,075 - INFO - [Job 31] Completed (main_wf.bold_main_wf.bold_native_trans_wf.vascular_mask_EPI). 2022-04-01 17:00:46,075 - INFO - [Job 32] Completed (main_wf.bold_main_wf.bold_native_trans_wf.CSF_mask_EPI). 2022-04-01 17:00:46,076 - INFO - [Job 33] Completed (main_wf.bold_main_wf.bold_native_trans_wf.WM_mask_EPI). 2022-04-01 17:00:46,077 - INFO - [Job 34] Completed (main_wf.bold_main_wf.bold_native_trans_wf.Brain_mask_EPI). 2022-04-01 17:00:46,078 - 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 17:00:46,177 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/estimate_confounds". 2022-04-01 17:00:46,203 - INFO - [Node] Running "estimate_confounds" ("rabies.preprocess_pkg.confounds.EstimateConfounds") 2022-04-01 17:00:48,079 - 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 17:03:15,197 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_confs_wf.estimate_confounds". 2022-04-01 17:03:16,276 - INFO - [Job 35] Completed (main_wf.bold_main_wf.bold_confs_wf.estimate_confounds). 2022-04-01 17:03:16,278 - 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 17:03:16,344 - INFO - [Node] Setting-up "main_wf.confounds_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/confounds_datasink". 2022-04-01 17:03:16,361 - INFO - [Node] Running "confounds_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 17:03:16,369 - INFO - [Node] Finished "main_wf.confounds_datasink". 2022-04-01 17:03:18,279 - INFO - [Job 36] Completed (main_wf.confounds_datasink). 2022-04-01 17:03:18,281 - 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 17:07:23,322 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform". 2022-04-01 17:07:24,590 - INFO - [Job 18] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.bold_transform). 2022-04-01 17:07:24,591 - INFO - [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 17:07:24,656 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/merge". 2022-04-01 17:07:24,790 - INFO - [Node] Running "merge" ("rabies.preprocess_pkg.utils.Merge") 2022-04-01 17:07:26,597 - 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 17:11:05,371 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.merge". 2022-04-01 17:11:07,063 - INFO - [Job 19] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.merge). 2022-04-01 17:11:07,064 - INFO - [MultiProc] Running 0 tasks, and 2 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 17:11:07,120 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/gen_ref". 2022-04-01 17:11:07,120 - INFO - [Node] Setting-up "main_wf.temporal_features" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/temporal_features". 2022-04-01 17:11:07,139 - INFO - [Node] Running "temporal_features" ("nipype.interfaces.utility.wrappers.Function") 2022-04-01 17:11:07,141 - INFO - [Node] Running "gen_ref" ("rabies.preprocess_pkg.utils.EstimateReferenceImage") 2022-04-01 17:11:09,067 - 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 17:11:28,800 - INFO - [Node] Finished "main_wf.temporal_features". 2022-04-01 17:11:29,105 - INFO - [Job 37] Completed (main_wf.temporal_features). 2022-04-01 17:11:29,107 - 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 17:12:36,527 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref". 2022-04-01 17:12:37,176 - INFO - [Job 20] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.gen_bold_ref.gen_ref). 2022-04-01 17:12:37,177 - INFO - [MultiProc] Running 0 tasks, and 5 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 17:12:37,242 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/prop_labels_EPI". 2022-04-01 17:12:37,242 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/vascular_mask_EPI". 2022-04-01 17:12:37,243 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/CSF_mask_EPI". 2022-04-01 17:12:37,243 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/WM_mask_EPI". 2022-04-01 17:12:37,244 - 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_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/Brain_mask_EPI". 2022-04-01 17:12:37,246 - INFO - [Node] Running "prop_labels_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:12:37,247 - INFO - [Node] Running "vascular_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:12:37,247 - INFO - [Node] Running "CSF_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:12:37,248 - INFO - [Node] Running "WM_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:12:37,249 - INFO - [Node] Running "Brain_mask_EPI" ("rabies.preprocess_pkg.resampling.MaskEPI") 2022-04-01 17:12:37,462 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.Brain_mask_EPI". 2022-04-01 17:12:37,506 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.WM_mask_EPI". 2022-04-01 17:12:37,508 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.CSF_mask_EPI". 2022-04-01 17:12:37,510 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.vascular_mask_EPI". 2022-04-01 17:12:37,891 - INFO - [Node] Finished "main_wf.bold_main_wf.bold_commonspace_trans_wf.prop_labels_EPI". 2022-04-01 17:12:39,179 - INFO - [Job 21] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.prop_labels_EPI). 2022-04-01 17:12:39,180 - INFO - [Job 22] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.vascular_mask_EPI). 2022-04-01 17:12:39,180 - INFO - [Job 23] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.CSF_mask_EPI). 2022-04-01 17:12:39,181 - INFO - [Job 24] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.WM_mask_EPI). 2022-04-01 17:12:39,181 - INFO - [Job 25] Completed (main_wf.bold_main_wf.bold_commonspace_trans_wf.Brain_mask_EPI). 2022-04-01 17:12:39,183 - INFO - [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80. 2022-04-01 17:12:39,249 - INFO - [Node] Setting-up "main_wf.bold_datasink" in "/rabies_out/main_wf/_scan_info_subject_id301404.sessionNone_split_name_sub-301404_T2w/_run_None/bold_datasink". 2022-04-01 17:12:39,265 - INFO - [Node] Running "bold_datasink" ("nipype.interfaces.io.DataSink") 2022-04-01 17:12:40,004 - INFO - [Node] Finished "main_wf.bold_datasink". 2022-04-01 17:12:41,181 - INFO - [Job 38] Completed (main_wf.bold_datasink). 2022-04-01 17:12:41,183 - INFO - [MultiProc] Running 0 tasks, and 0 jobs ready. Free memory (GB): 169.69/169.69, Free processors: 80/80.