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v3.1.0
branch =
'main'
commit =
'cdca7dd4'
To run group level, no idea how to debug it
{ "Name": "visualMotLoc", "BIDSModelVersion": "1.0.0", "Description": "contrasts for the visual motion localizer", "Input": { "task": [ "visualLocalizer" ], "space": [ "IXI549Space" ] }, "Nodes": [ { "Level": "Run", "Name": "run_level", "GroupBy": [ "run", "subject" ], "Model": { "Type": "glm", "X": [ "trial_type.static", "trial_type.motion", "trial_type.response", "trans_?", "rot_?" ], "HRF": { "Variables": [ "trial_type.static", "trial_type.motion", "trial_type.response" ], "Model": "spm+derivative" }, "Options": { "HighPassFilterCutoffHz": 0.008 }, "Software": { "SPM": { "InclusiveMaskingThreshold": 0.8, "SerialCorrelation": "FAST" } } }, "DummyContrasts": { "Test": "t", "Contrasts": [ "trial_type.static", "trial_type.motion", "trial_type.response" ] }, "Contrasts": [ { "Name": "static_gt_motion", "ConditionList": [ "trial_type.static", "trial_type.motion" ], "Weights": [ 1, -1 ], "Test": "t" }, { "Name": "motion_gt_static", "ConditionList": [ "trial_type.static", "trial_type.motion" ], "Weights": [ -1, 1 ], "Test": "t" } ] }, { "Level": "Subject", "Name": "subject_level", "GroupBy": [ "contrast", "subject" ], "Model": { "Type": "glm", "X": [ 1 ] }, "DummyContrasts": { "Test": "t" } }, { "Level": "Dataset", "Name": "dataset_level", "GroupBy": [ "contrast" ], "Model": { "Type": "glm", "X": [ 1 ] }, "DummyContrasts": { "Test": "t" } } ] }
[11:18:53] bidspm - INFO bidspm already initialized [11:18:53] bidspm - INFO Validating bids dataset: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/code/src/../../inputs/raw [11:18:53] bidspm - INFO bidspm already initialized Warning: Could not find a corresponding Node with Name: "dataset"; Level: "" Available nodes: - Name: "run_level"; Level: "Run" - Name: "subject_level"; Level: "Subject" - Name: "dataset_level"; Level: "Dataset" > In bids.internal.error_handling (line 60) In bids.Model/get_nodes (line 354) In getDummyContrastsList (line 24) In boilerplate (line 137) In cliStats (line 58) In bidspm>executeAction (line 86) In bidspm (line 26) In runAnalyses_visualLocalizer_MNI_groupStats (line 48) Warning: Could not find key 'designType' > In get_key (line 74) In renderer (line 159) In octache (line 79) In boilerplate (line 185) In cliStats (line 58) In bidspm>executeAction (line 86) In bidspm (line 26) In runAnalyses_visualLocalizer_MNI_groupStats (line 48) ------------------------------------------------------------------------ 03-May-2024 11:19:21 - Running job #6 ------------------------------------------------------------------------ 03-May-2024 11:19:21 - Running 'Smooth' 03-May-2024 11:19:24 - Done 'Smooth' 03-May-2024 11:19:24 - Running 'Smooth' 03-May-2024 11:19:27 - Done 'Smooth' 03-May-2024 11:19:27 - Running 'Smooth' 03-May-2024 11:19:31 - Done 'Smooth' 03-May-2024 11:19:31 - Running 'Smooth' 03-May-2024 11:19:34 - Done 'Smooth' 03-May-2024 11:19:34 - Running 'Smooth' 03-May-2024 11:19:36 - Done 'Smooth' 03-May-2024 11:19:36 - Running 'Smooth' 03-May-2024 11:19:40 - Done 'Smooth' 03-May-2024 11:19:40 - Running 'Smooth' 03-May-2024 11:19:44 - Done 'Smooth' 03-May-2024 11:19:44 - Running 'Smooth' 03-May-2024 11:19:46 - Done 'Smooth' 03-May-2024 11:19:46 - Running 'Smooth' 03-May-2024 11:19:50 - Done 'Smooth' 03-May-2024 11:19:50 - Running 'Smooth' 03-May-2024 11:19:52 - Done 'Smooth' 03-May-2024 11:19:52 - Running 'Smooth' 03-May-2024 11:19:55 - Done 'Smooth' 03-May-2024 11:19:55 - Running 'Smooth' 03-May-2024 11:19:57 - Done 'Smooth' 03-May-2024 11:19:57 - Running 'Smooth' 03-May-2024 11:20:00 - Done 'Smooth' 03-May-2024 11:20:00 - Done ------------------------------------------------------------------------ 03-May-2024 11:21:23 - Running job #6 ------------------------------------------------------------------------ 03-May-2024 11:21:24 - Running 'Factorial design specification' Mapping files : ...done Design configuration : ...done Saving SPM configuration : ...SPM.mat saved Design reporting : ...done Completed : 11:21:24 - 03/05/2024 03-May-2024 11:21:24 - Done 'Factorial design specification' 03-May-2024 11:21:24 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-static/task-visualLocalizer_space-IXI549Space_desc-beforeEstimation_designmatrix_001.png 03-May-2024 11:21:25 - Done 'Print figure' 03-May-2024 11:21:25 - Running 'Factorial design specification' Mapping files : ...done Design configuration : ...done Saving SPM configuration : ...SPM.mat saved Design reporting : ...done Completed : 11:21:26 - 03/05/2024 03-May-2024 11:21:26 - Done 'Factorial design specification' 03-May-2024 11:21:26 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-motion/task-visualLocalizer_space-IXI549Space_desc-beforeEstimation_designmatrix_001.png 03-May-2024 11:21:27 - Done 'Print figure' 03-May-2024 11:21:27 - Running 'Factorial design specification' Mapping files : ...done Design configuration : ...done Saving SPM configuration : ...SPM.mat saved Design reporting : ...done Completed : 11:21:27 - 03/05/2024 03-May-2024 11:21:27 - Done 'Factorial design specification' 03-May-2024 11:21:27 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-response/task-visualLocalizer_space-IXI549Space_desc-beforeEstimation_designmatrix_001.png 03-May-2024 11:21:28 - Done 'Print figure' 03-May-2024 11:21:28 - Running 'Factorial design specification' Mapping files : ...done Design configuration : ...done Saving SPM configuration : ...SPM.mat saved Design reporting : ...done Completed : 11:21:28 - 03/05/2024 03-May-2024 11:21:28 - Done 'Factorial design specification' 03-May-2024 11:21:28 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-staticGtMotion/task-visualLocalizer_space-IXI549Space_desc-beforeEstimation_designmatrix_001.png 03-May-2024 11:21:29 - Done 'Print figure' 03-May-2024 11:21:29 - Running 'Factorial design specification' Mapping files : ...done Design configuration : ...done Saving SPM configuration : ...SPM.mat saved Design reporting : ...done Completed : 11:21:30 - 03/05/2024 03-May-2024 11:21:30 - Done 'Factorial design specification' 03-May-2024 11:21:30 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-motionGtStatic/task-visualLocalizer_space-IXI549Space_desc-beforeEstimation_designmatrix_001.png 03-May-2024 11:21:30 - Done 'Print figure' 03-May-2024 11:21:30 - Running 'Model estimation' SPM12: spm_spm (v7738) 11:21:30 - 03/05/2024 ======================================================================== Chunk 1/1 : ...done Spatial non-sphericity (over scans) : ...done Saving SPM.mat : ...done Completed : 11:21:33 - 03/05/2024 Done 03-May-2024 11:21:33 - Done 'Model estimation' 03-May-2024 11:21:33 - Running 'MA: inspect goodness of fit' 03-May-2024 11:21:35 - Failed 'MA: inspect goodness of fit' Index exceeds array bounds. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 283. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 155. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/batch_MA_inspect_GoF.m" (???), function "run_module" at line 66. 03-May-2024 11:21:35 - Running 'MA: define model space' 03-May-2024 11:21:35 - Done 'MA: define model space' 03-May-2024 11:21:35 - Running 'MA: classical ICs (automatic)' -> Subject 1 (1 out of 1): - Model GLM (1 out of 1) ... successful! 03-May-2024 11:21:38 - Done 'MA: classical ICs (automatic)' 03-May-2024 11:21:38 - Running 'Model review' 03-May-2024 11:21:39 - Done 'Model review' 03-May-2024 11:21:39 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-static/task-visualLocalizer_space-IXI549Space_desc-afterEstimation_designmatrix_001.png 03-May-2024 11:21:39 - Done 'Print figure' 03-May-2024 11:21:39 - Running 'Model estimation' SPM12: spm_spm (v7738) 11:21:39 - 03/05/2024 ======================================================================== Chunk 1/1 : ...done Spatial non-sphericity (over scans) : ...done Saving SPM.mat : ...done Completed : 11:21:42 - 03/05/2024 Done 03-May-2024 11:21:42 - Done 'Model estimation' 03-May-2024 11:21:42 - Running 'MA: inspect goodness of fit' 03-May-2024 11:21:43 - Failed 'MA: inspect goodness of fit' Index exceeds array bounds. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 283. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 155. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/batch_MA_inspect_GoF.m" (???), function "run_module" at line 66. 03-May-2024 11:21:43 - Running 'MA: define model space' 03-May-2024 11:21:44 - Done 'MA: define model space' 03-May-2024 11:21:44 - Running 'MA: classical ICs (automatic)' -> Subject 1 (1 out of 1): - Model GLM (1 out of 1) ... successful! 03-May-2024 11:21:47 - Done 'MA: classical ICs (automatic)' 03-May-2024 11:21:47 - Running 'Model review' 03-May-2024 11:21:47 - Done 'Model review' 03-May-2024 11:21:47 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-motion/task-visualLocalizer_space-IXI549Space_desc-afterEstimation_designmatrix_001.png 03-May-2024 11:21:48 - Done 'Print figure' 03-May-2024 11:21:48 - Running 'Model estimation' SPM12: spm_spm (v7738) 11:21:48 - 03/05/2024 ======================================================================== Chunk 1/1 : ...done Spatial non-sphericity (over scans) : ...done Saving SPM.mat : ...done Completed : 11:21:50 - 03/05/2024 Done 03-May-2024 11:21:50 - Done 'Model estimation' 03-May-2024 11:21:50 - Running 'MA: inspect goodness of fit' 03-May-2024 11:21:51 - Failed 'MA: inspect goodness of fit' Index exceeds array bounds. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 283. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 155. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/batch_MA_inspect_GoF.m" (???), function "run_module" at line 66. 03-May-2024 11:21:51 - Running 'MA: define model space' 03-May-2024 11:21:51 - Done 'MA: define model space' 03-May-2024 11:21:52 - Running 'MA: classical ICs (automatic)' -> Subject 1 (1 out of 1): - Model GLM (1 out of 1) ... successful! 03-May-2024 11:21:54 - Done 'MA: classical ICs (automatic)' 03-May-2024 11:21:54 - Running 'Model review' 03-May-2024 11:21:54 - Done 'Model review' 03-May-2024 11:21:54 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-response/task-visualLocalizer_space-IXI549Space_desc-afterEstimation_designmatrix_001.png 03-May-2024 11:21:55 - Done 'Print figure' 03-May-2024 11:21:55 - Running 'Model estimation' SPM12: spm_spm (v7738) 11:21:55 - 03/05/2024 ======================================================================== Chunk 1/1 : ...done Spatial non-sphericity (over scans) : ...done Saving SPM.mat : ...done Completed : 11:21:58 - 03/05/2024 Done 03-May-2024 11:21:58 - Done 'Model estimation' 03-May-2024 11:21:58 - Running 'MA: inspect goodness of fit' 03-May-2024 11:21:59 - Failed 'MA: inspect goodness of fit' Index exceeds array bounds. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 283. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 155. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/batch_MA_inspect_GoF.m" (???), function "run_module" at line 66. 03-May-2024 11:21:59 - Running 'MA: define model space' 03-May-2024 11:21:59 - Done 'MA: define model space' 03-May-2024 11:21:59 - Running 'MA: classical ICs (automatic)' -> Subject 1 (1 out of 1): - Model GLM (1 out of 1) ... successful! 03-May-2024 11:22:02 - Done 'MA: classical ICs (automatic)' 03-May-2024 11:22:02 - Running 'Model review' 03-May-2024 11:22:02 - Done 'Model review' 03-May-2024 11:22:02 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-staticGtMotion/task-visualLocalizer_space-IXI549Space_desc-afterEstimation_designmatrix_001.png 03-May-2024 11:22:03 - Done 'Print figure' 03-May-2024 11:22:03 - Running 'Model estimation' SPM12: spm_spm (v7738) 11:22:03 - 03/05/2024 ======================================================================== Chunk 1/1 : ...done Spatial non-sphericity (over scans) : ...done Saving SPM.mat : ...done Completed : 11:22:06 - 03/05/2024 Done 03-May-2024 11:22:06 - Done 'Model estimation' 03-May-2024 11:22:06 - Running 'MA: inspect goodness of fit' 03-May-2024 11:22:07 - Failed 'MA: inspect goodness of fit' Index exceeds array bounds. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 283. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/MA_inspect_GoF.m" (???), function "MA_inspect_GoF" at line 155. In file "/home/marcobarilari/data/tools/spm12/toolbox/MACS/batch_MA_inspect_GoF.m" (???), function "run_module" at line 66. 03-May-2024 11:22:07 - Running 'MA: define model space' 03-May-2024 11:22:07 - Done 'MA: define model space' 03-May-2024 11:22:07 - Running 'MA: classical ICs (automatic)' -> Subject 1 (1 out of 1): - Model GLM (1 out of 1) ... successful! 03-May-2024 11:22:10 - Done 'MA: classical ICs (automatic)' 03-May-2024 11:22:10 - Running 'Model review' 03-May-2024 11:22:10 - Done 'Model review' 03-May-2024 11:22:10 - Running 'Print figure' Printing 'Graphics' figure to: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/bidspm-stats/derivatives/bidspm-groupStats/sub-ALL_task-visualLocalizer_space-IXI549Space_FWHM-6_conFWHM-6_contrast-motionGtStatic/task-visualLocalizer_space-IXI549Space_desc-afterEstimation_designmatrix_001.png 03-May-2024 11:22:11 - Done 'Print figure' The following modules did not run: Failed: MA: inspect goodness of fit Failed: MA: inspect goodness of fit Failed: MA: inspect goodness of fit Failed: MA: inspect goodness of fit Failed: MA: inspect goodness of fit [11:22:11] bidspm - INFO Job execution failed. The full log of this run can be found in MATLAB command window, starting with the lines (look for the line showing the exact #job as displayed in this error message) ------------------ Running job #6 ------------------ Error matlabbatch:run:jobfailederr occurred: - Error in MATLABbatch system line 0 in ERROR LOG SAVED: /mnt/HD_jupiter/marcobarilari/datalad/analysis_high-res_BLAM_biMotion_localizers/outputs/derivatives/error_logs/error_2024-05-03T11-22.log Use it when opening an issue: https://github.com/cpp-lln-lab/bidspm/issues/new/choose. Error using MATLABbatch system Job execution failed. The full log of this run can be found in MATLAB command window, starting with the lines (look for the line showing the exact #job as displayed in this error message) ------------------ Running job #6 ------------------
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Here the job batch_group_level_model_specification_estimation_2024_05_03T11_21.txt
Any pointer would be very helpful. Thanks!
Hi! I have the same error message, did you find a solution? Thanks, Anna
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Operating system
Operating system version
SPM 12 version
Platform
Platform version
bidspm version
v3.1.0
bidspm branch / commit number
branch =
commit =
Expected Behavior
To run group level, no idea how to debug it
BIDS stats model
Current Behavior & Error message
Anything else?
No response
The text was updated successfully, but these errors were encountered: