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| 2020-02-27 05:58:29,767 mriqc:IMPORTANT | |
| Running MRIQC version 0.15.0: | |
| * BIDS dataset path: /data. | |
| * Output folder: /out. | |
| * Analysis levels: group, participant. | |
| 2020-02-27 05:58:34,063 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/importlib/_bootstrap.py:219: ImportWarning: can't resolve package from __spec__ or __package__, falling back on __name__ and __path__ | |
| return f(*args, **kwds) | |
| 2020-02-27 05:58:34,716 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/classification.py:349: DeprecationWarning: invalid escape sequence \k | |
| """ | |
| 2020-02-27 05:58:34,720 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/cluster/supervised.py:578: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-27 05:58:36,271 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/importlib/_bootstrap.py:219: ImportWarning: can't resolve package from __spec__ or __package__, falling back on __name__ and __path__ | |
| return f(*args, **kwds) | |
| 2020-02-27 05:58:37,246 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/jedi/evaluate/arguments.py:95: DeprecationWarning: invalid escape sequence \[ | |
| match = re.match('(?:(?:(\[),? ?|, ?|)(\w+)|, ?/)\]*', string) | |
| 2020-02-27 05:58:38,262 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/ipywidgets/widgets/trait_types.py:148: DeprecationWarning: invalid escape sequence \- | |
| _number_format_re = re.compile('^(?:(.)?([<>=^]))?([+\-\( ])?([$#])?(0)?(\d+)?(,)?(\.\d+)?([a-z%])?$', re.I) | |
| 2020-02-27 05:58:38,353 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/importlib/_bootstrap.py:219: ImportWarning: can't resolve package from __spec__ or __package__, falling back on __name__ and __path__ | |
| return f(*args, **kwds) | |
| 2020-02-27 05:58:38,365 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:839: DeprecationWarning: invalid escape sequence \# | |
| """ | |
| 2020-02-27 05:58:38,365 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:1429: DeprecationWarning: invalid escape sequence \c | |
| """ | |
| 2020-02-27 05:58:38,398 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/nilearn/datasets/neurovault.py:16: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working | |
| from collections import Container | |
| 2020-02-27 05:58:38,453 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/decomposition/nmf.py:972: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-27 05:58:38,524 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/linear_model/omp.py:343: DeprecationWarning: invalid escape sequence \g | |
| """ | |
| 2020-02-27 05:58:38,682 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/svgutils/compose.py:347: DeprecationWarning: invalid escape sequence \. | |
| m = re.match('([0-9]+\.?[0-9]*)([a-z]+)', measure) | |
| 2020-02-27 05:58:38,826 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/afni/utils.py:214: DeprecationWarning: invalid escape sequence \d | |
| pattern = 'x=(?P<x_min>-?\d+)\.\.(?P<x_max>-?\d+) '\ | |
| 2020-02-27 05:58:39,136 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/classes/reportviews.py:95: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working | |
| from collections import Mapping, Set, Iterable | |
| 2020-02-27 05:58:39,176 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/generators/geometric.py:275: DeprecationWarning: invalid escape sequence \l | |
| """ | |
| 2020-02-27 05:58:39,210 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/cluster.py:537: DeprecationWarning: invalid escape sequence \m | |
| """ | |
| 2020-02-27 05:58:39,289 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/reciprocity.py:47: DeprecationWarning: invalid escape sequence \i | |
| """ | |
| 2020-02-27 05:58:39,296 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/shortest_paths/weighted.py:1996: DeprecationWarning: invalid escape sequence \p | |
| """ | |
| 2020-02-27 05:58:39,414 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/generators/line.py:113: DeprecationWarning: invalid escape sequence \{ | |
| """ | |
| 2020-02-27 05:58:39,477 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/linalg/modularitymatrix.py:74: DeprecationWarning: invalid escape sequence \o | |
| """ | |
| 200227-05:58:40,200 nipype.workflow INFO: | |
| Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T1w.nii.gz'] | |
| 2020-02-27 05:58:40,200 nipype.workflow:INFO Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T1w.nii.gz'] | |
| 200227-05:58:40,384 nipype.workflow INFO: | |
| Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T2w.nii.gz'] | |
| 2020-02-27 05:58:40,384 nipype.workflow:INFO Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T2w.nii.gz'] | |
| 2020-02-27 05:58:48,902 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/importlib/_bootstrap.py:219: ImportWarning: can't resolve package from __spec__ or __package__, falling back on __name__ and __path__ | |
| return f(*args, **kwds) | |
| 2020-02-27 05:58:48,937 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/classification.py:349: DeprecationWarning: invalid escape sequence \k | |
| """ | |
| 2020-02-27 05:58:48,941 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/cluster/supervised.py:578: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-27 05:58:49,018 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/fsl/utils.py:854: DeprecationWarning: invalid escape sequence \ | |
| 'Rotation\ &\ Translation\ Matrix:\n(?P<rot_tran_mat>[0-9\.\ \n-]+)[\s\n]*' | |
| 2020-02-27 05:58:49,018 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/nipype/interfaces/fsl/utils.py:863: DeprecationWarning: invalid escape sequence \. | |
| '(?P<fwd_half_xfm>[0-9\.\ \n-]+)[\s\n]*' | |
| 2020-02-27 05:58:49,160 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/importlib/_bootstrap.py:219: ImportWarning: can't resolve package from __spec__ or __package__, falling back on __name__ and __path__ | |
| return f(*args, **kwds) | |
| 2020-02-27 05:58:49,170 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:839: DeprecationWarning: invalid escape sequence \# | |
| """ | |
| 2020-02-27 05:58:49,170 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:1429: DeprecationWarning: invalid escape sequence \c | |
| """ | |
| 2020-02-27 05:58:49,196 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/nilearn/datasets/neurovault.py:16: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working | |
| from collections import Container | |
| 2020-02-27 05:58:49,236 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/decomposition/nmf.py:972: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-27 05:58:49,284 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/linear_model/omp.py:343: DeprecationWarning: invalid escape sequence \g | |
| """ | |
| 2020-02-27 05:58:49,478 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/core.py:780: DeprecationWarning: invalid escape sequence \{ | |
| to_rep = re.findall('\{(.*?)\}', template) | |
| 2020-02-27 05:58:49,478 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/core.py:784: DeprecationWarning: invalid escape sequence \% | |
| template += '[^\%s]*$' % os.path.sep | |
| 2020-02-27 05:58:49,491 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/external/inflect.py:845: DeprecationWarning: invalid escape sequence \S | |
| 'general': ['(?!major|lieutenant|brigadier|adjutant|.*star)\S+'], | |
| 2020-02-27 05:58:49,499 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/extensions/writable.py:33: DeprecationWarning: invalid escape sequence \| | |
| match = re.search('([^|<]+)(<.*?>)?(\|.*)?', ent) | |
| 2020-02-27 05:58:49,499 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/extensions/writable.py:92: DeprecationWarning: invalid escape sequence \[ | |
| optional_patterns = re.findall('\[(.*?)\]', pattern) | |
| 2020-02-27 05:58:49,618 mriqc:WARNING Anonymized quality metrics (IQMs) will be submitted to MRIQC's metrics repository. Submission of IQMs can be disabled using the ``--no-sub`` argument. Please visit https://mriqc.readthedocs.io/en/latest/dsa.html to revise MRIQC's Data Sharing Agreement. | |
| 2020-02-27 05:58:50,172 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/numpy/matrixlib/defmatrix.py:68: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. | |
| return matrix(data, dtype=dtype, copy=False) | |
| 2020-02-27 05:58:52,173 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/numpy/matrixlib/defmatrix.py:68: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. | |
| return matrix(data, dtype=dtype, copy=False) | |
| 200227-05:58:53,570 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.non_steady_state_detector" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/non_steady_state_detector". | |
| 200227-05:58:53,572 nipype.workflow INFO: | |
| [Node] Running "non_steady_state_detector" ("nipype.algorithms.confounds.NonSteadyStateDetector") | |
| 200227-05:58:55,948 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.conform" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform". | |
| 2020-02-27 05:58:55,948 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.conform" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform". | |
| 200227-05:58:55,950 nipype.workflow INFO: | |
| [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 2020-02-27 05:58:55,950 nipype.workflow:INFO [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 200227-05:58:55,970 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.conform" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform". | |
| 2020-02-27 05:58:55,970 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.conform" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform". | |
| 200227-05:58:55,972 nipype.workflow INFO: | |
| [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 2020-02-27 05:58:55,972 nipype.workflow:INFO [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 200227-05:58:56,982 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.metadata" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/metadata". | |
| 200227-05:58:56,984 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.metadata" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/metadata". | |
| 200227-05:58:56,985 nipype.workflow INFO: | |
| [Node] Running "metadata" ("niworkflows.interfaces.bids.ReadSidecarJSON") | |
| 200227-05:58:56,986 nipype.workflow INFO: | |
| [Node] Running "metadata" ("niworkflows.interfaces.bids.ReadSidecarJSON") | |
| 200227-05:58:57,21 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.metadata". | |
| 200227-05:58:57,23 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.metadata". | |
| 200227-05:58:57,365 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.conform". | |
| 2020-02-27 05:58:57,365 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.conform". | |
| 200227-05:58:57,446 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.conform". | |
| 2020-02-27 05:58:57,446 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.conform". | |
| 200227-05:58:57,681 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.non_steady_state_detector". | |
| 200227-05:59:00,658 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/inu_n4". | |
| 200227-05:59:00,661 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/inu_n4". | |
| 200227-05:59:00,667 nipype.workflow INFO: | |
| [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz --output [ sub-01_ses-01_T1w_conformed_corrected.nii.gz, sub-01_ses-01_T1w_conformed_bias.nii.gz ] | |
| 200227-05:59:00,667 nipype.workflow INFO: | |
| [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz --output [ sub-01_ses-01_T2w_conformed_corrected.nii.gz, sub-01_ses-01_T2w_conformed_bias.nii.gz ] | |
| 200227-05:59:02,937 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/RotationMask". | |
| 2020-02-27 05:59:02,937 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/RotationMask". | |
| 200227-05:59:02,937 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/RotationMask". | |
| 200227-05:59:02,937 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicNoise". | |
| 2020-02-27 05:59:02,937 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/RotationMask". | |
| 2020-02-27 05:59:02,937 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicNoise". | |
| 200227-05:59:02,940 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-05:59:02,940 nipype.workflow INFO: | |
| [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 2020-02-27 05:59:02,940 nipype.workflow:INFO [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 05:59:02,940 nipype.workflow:INFO [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 200227-05:59:02,940 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicNoise". | |
| 2020-02-27 05:59:02,940 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicNoise". | |
| 200227-05:59:02,943 nipype.workflow INFO: | |
| [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 2020-02-27 05:59:02,943 nipype.workflow:INFO [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 200227-05:59:02,944 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 05:59:02,944 nipype.workflow:INFO [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-05:59:03,853 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.sanitize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/sanitize". | |
| 200227-05:59:03,856 nipype.workflow INFO: | |
| [Node] Running "sanitize" ("niworkflows.interfaces.utils.SanitizeImage") | |
| 200227-05:59:05,57 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask". | |
| 2020-02-27 05:59:05,057 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask". | |
| 200227-05:59:05,60 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask". | |
| 2020-02-27 05:59:05,060 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask". | |
| 200227-05:59:17,41 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise". | |
| 2020-02-27 05:59:17,041 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise". | |
| 200227-05:59:17,340 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise". | |
| 2020-02-27 05:59:17,340 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise". | |
| 200227-05:59:23,677 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.sanitize". | |
| 200227-05:59:26,593 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/SpikesMask". | |
| 200227-05:59:26,602 nipype.workflow INFO: | |
| [Node] Running "SpikesMask" ("nipype.interfaces.utility.wrappers.Function") | |
| 200227-05:59:29,297 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gen_ref". | |
| 200227-05:59:29,300 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 200227-05:59:30,793 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.793178:++ 3dvolreg: AFNI version=AFNI_17.3.03 (Nov 9 2017) [64-bit] | |
| 200227-05:59:30,793 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.793178:++ Authored by: RW Cox | |
| 200227-05:59:30,801 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset, | |
| 200227-05:59:30,801 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: such as /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gen_ref/slice.nii.gz, | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: or viewing/combining it with volumes of differing obliquity, | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: you should consider running: | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: 3dWarp -deoblique | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: on this and other oblique datasets in the same session. | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851: See 3dWarp -help for details. | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851:++ Oblique dataset:/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gen_ref/slice.nii.gz is 20.932278 degrees from plumb. | |
| 200227-05:59:30,802 nipype.interface INFO: | |
| stderr 2020-02-27T05:59:30.801851:++ Coarse del was 10, replaced with 6 | |
| 200227-05:59:33,721 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask". | |
| 200227-05:59:38,446 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/SpikesFinderBgMask". | |
| 2020-02-27 05:59:38,446 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/SpikesFinderBgMask". | |
| 200227-05:59:38,448 nipype.workflow INFO: | |
| [Node] Running "SpikesFinderBgMask" ("mriqc.interfaces.functional.Spikes") | |
| 2020-02-27 05:59:38,448 nipype.workflow:INFO [Node] Running "SpikesFinderBgMask" ("mriqc.interfaces.functional.Spikes") | |
| 200227-05:59:47,374 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask". | |
| 2020-02-27 05:59:47,374 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask". | |
| 200227-06:00:07,237 nipype.interface INFO: | |
| stderr 2020-02-27T06:00:07.237510:++ Max displacement in automask = 1.03 (mm) at sub-brick 16 | |
| 200227-06:00:07,237 nipype.interface INFO: | |
| stderr 2020-02-27T06:00:07.237510:++ Max delta displ in automask = 0.79 (mm) at sub-brick 17 | |
| 200227-06:00:08,981 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref". | |
| 200227-06:00:12,689 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/motion_correct". | |
| 200227-06:00:12,693 nipype.workflow INFO: | |
| [Node] Running "motion_correct" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command: | |
| 3dvolreg -Fourier -twopass -1Dfile sub-01_ses-01_task-Stroop_run-01_bold_valid.1D -1Dmatrix_save sub-01_ses-01_task-Stroop_run-01_bold_valid.aff12.1D -prefix sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz -base /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gen_ref/ref_image.nii.gz -zpad 4 -maxdisp1D sub-01_ses-01_task-Stroop_run-01_bold_valid_md.1D /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/motion_correct/sub-01_ses-01_task-Stroop_run-01_bold_valid.nii.gz | |
| 200227-06:05:38,227 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4". | |
| 200227-06:05:39,863 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4". | |
| 200227-06:05:41,60 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/skullstrip". | |
| 200227-06:05:41,63 nipype.workflow INFO: | |
| [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/skullstrip/sub-01_ses-01_T1w_conformed_corrected.nii.gz -prefix sub-01_ses-01_T1w_conformed_corrected_skullstrip.nii.gz | |
| 200227-06:05:41,706 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.HeadMaskWorkflow.fsl_bet" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/fsl_bet". | |
| 200227-06:05:41,710 nipype.workflow INFO: | |
| [Node] Running "fsl_bet" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/inu_n4/sub-01_ses-01_T1w_conformed_corrected.nii.gz /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/fsl_bet/sub-01_ses-01_T1w_conformed_corrected_brain.nii.gz -A | |
| 200227-06:05:44,488 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/skullstrip". | |
| 200227-06:05:44,492 nipype.workflow INFO: | |
| [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/skullstrip/sub-01_ses-01_T2w_conformed_corrected.nii.gz -prefix sub-01_ses-01_T2w_conformed_corrected_skullstrip.nii.gz | |
| 200227-06:05:44,685 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/fsl_bet". | |
| 200227-06:05:44,688 nipype.workflow INFO: | |
| [Node] Running "fsl_bet" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/inu_n4/sub-01_ses-01_T2w_conformed_corrected.nii.gz /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/fsl_bet/sub-01_ses-01_T2w_conformed_corrected_brain.nii.gz -A | |
| 200227-06:07:01,197 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip". | |
| 200227-06:07:05,126 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/sstrip_orig_vol". | |
| 200227-06:07:05,153 nipype.workflow INFO: | |
| [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz -b /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/skullstrip/sub-01_ses-01_T1w_conformed_corrected_skullstrip.nii.gz -expr "a*step(b)" -prefix sub-01_ses-01_T1w_conformed_calc.nii.gz | |
| 200227-06:07:07,183 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 200227-06:07:11,251 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip". | |
| 200227-06:07:11,358 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.binarize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/binarize". | |
| 200227-06:07:11,360 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.segmentation" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/segmentation". | |
| 200227-06:07:11,365 nipype.workflow INFO: | |
| [Node] Running "binarize" ("nipype.interfaces.fsl.maths.Threshold"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/sstrip_orig_vol/sub-01_ses-01_T1w_conformed_calc.nii.gz -thr 0.0010000000 -bin /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/binarize/sub-01_ses-01_T1w_conformed_calc_thresh.nii.gz | |
| 200227-06:07:11,368 nipype.workflow INFO: | |
| [Node] Running "segmentation" ("nipype.interfaces.fsl.preprocess.FAST"), a CommandLine Interface with command: | |
| fast -t 1 -o segment -g -S 1 /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/segmentation/sub-01_ses-01_T1w_conformed_calc.nii.gz | |
| 200227-06:07:12,775 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.binarize". | |
| 200227-06:07:14,755 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/smoothness". | |
| 200227-06:07:14,758 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/binarize/sub-01_ses-01_T1w_conformed_calc_thresh.nii.gz -detprefix sub-01_ses-01_T1w_conformed_detrend -out sub-01_ses-01_T1w_conformed_subbricks.out > sub-01_ses-01_T1w_conformed_fwhmx.out | |
| 200227-06:07:14,857 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicZoomed". | |
| 2020-02-27 06:07:14,857 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicZoomed". | |
| 200227-06:07:14,863 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 06:07:14,863 nipype.workflow:INFO [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-06:07:15,219 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/sstrip_orig_vol". | |
| 200227-06:07:15,222 nipype.workflow INFO: | |
| [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz -b /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/skullstrip/sub-01_ses-01_T2w_conformed_corrected_skullstrip.nii.gz -expr "a*step(b)" -prefix sub-01_ses-01_T2w_conformed_calc.nii.gz | |
| 200227-06:07:15,780 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization". | |
| 2020-02-27 06:07:15,780 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization". | |
| 200227-06:07:15,784 nipype.workflow INFO: | |
| [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-27 06:07:15,784 nipype.workflow:INFO [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 200227-06:07:17,178 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 2020-02-27 06:07:17,603 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 200227-06:07:18,921 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.segmentation" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation". | |
| 2020-02-27 06:07:18,921 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.segmentation" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation". | |
| 200227-06:07:18,927 nipype.workflow INFO: | |
| [Node] Running "segmentation" ("nipype.interfaces.fsl.preprocess.FAST"), a CommandLine Interface with command: | |
| fast -t 2 -o segment -g -S 1 /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation/sub-01_ses-01_T2w_conformed_calc.nii.gz | |
| 2020-02-27 06:07:18,927 nipype.workflow:INFO [Node] Running "segmentation" ("nipype.interfaces.fsl.preprocess.FAST"), a CommandLine Interface with command: | |
| fast -t 2 -o segment -g -S 1 /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation/sub-01_ses-01_T2w_conformed_calc.nii.gz | |
| 200227-06:07:18,948 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize". | |
| 200227-06:07:18,951 nipype.workflow INFO: | |
| [Node] Running "binarize" ("nipype.interfaces.fsl.maths.Threshold"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/sstrip_orig_vol/sub-01_ses-01_T2w_conformed_calc.nii.gz -thr 0.0010000000 -bin /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize/sub-01_ses-01_T2w_conformed_calc_thresh.nii.gz | |
| 200227-06:07:21,689 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize". | |
| 200227-06:07:22,822 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicZoomed". | |
| 2020-02-27 06:07:22,822 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicZoomed". | |
| 200227-06:07:22,829 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 06:07:22,829 nipype.workflow:INFO [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-06:07:23,74 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/smoothness". | |
| 2020-02-27 06:07:23,074 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/smoothness". | |
| 200227-06:07:23,87 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize/sub-01_ses-01_T2w_conformed_calc_thresh.nii.gz -detprefix sub-01_ses-01_T2w_conformed_detrend -out sub-01_ses-01_T2w_conformed_subbricks.out > sub-01_ses-01_T2w_conformed_fwhmx.out | |
| 2020-02-27 06:07:23,087 nipype.workflow:INFO [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize/sub-01_ses-01_T2w_conformed_calc_thresh.nii.gz -detprefix sub-01_ses-01_T2w_conformed_detrend -out sub-01_ses-01_T2w_conformed_subbricks.out > sub-01_ses-01_T2w_conformed_fwhmx.out | |
| 200227-06:07:24,515 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization". | |
| 2020-02-27 06:07:24,515 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization". | |
| 200227-06:07:24,527 nipype.workflow INFO: | |
| [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-27 06:07:24,527 nipype.workflow:INFO [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 200227-06:07:27,218 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness". | |
| 2020-02-27 06:07:27,391 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 200227-06:07:29,714 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed". | |
| 2020-02-27 06:07:29,714 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed". | |
| 200227-06:07:30,853 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MergePlots". | |
| 2020-02-27 06:07:30,853 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MergePlots". | |
| 200227-06:07:30,856 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 2020-02-27 06:07:30,856 nipype.workflow:INFO [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200227-06:07:30,859 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots". | |
| 2020-02-27 06:07:30,859 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots". | |
| 200227-06:07:37,649 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness". | |
| 2020-02-27 06:07:37,649 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness". | |
| 200227-06:07:38,250 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed". | |
| 2020-02-27 06:07:38,250 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed". | |
| 200227-06:07:38,697 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.HeadMaskWorkflow.fsl_bet". | |
| 200227-06:07:38,778 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MergePlots". | |
| 200227-06:07:38,780 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200227-06:07:38,783 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots". | |
| 200227-06:07:41,631 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet". | |
| 2020-02-27 06:09:41,738 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.7/site-packages/niworkflows/data/t1w-mni_registration_fast_000.json. | |
| 2020-02-27 06:09:41,740 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_to_mni_Warped.nii.gz ] --transform Rigid[ 0.01 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Random, 0.15 ] --convergence [ 1000, 1e-06, 20 ] --smoothing-sigmas 4.0vox --shrink-factors 4 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Regular, 0.15 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x0.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 50x20, 1e-06, 10 ] --smoothing-sigmas 1.0x0.0vox --shrink-factors 2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.0, 1.0 ] --write-composite-transform 1 | |
| 2020-02-27 06:09:50,171 niworkflows:INFO Terminal outputs of initialization saved (/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/stderr.nipype-init). | |
| 2020-02-27 06:09:50,171 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.7/site-packages/niworkflows/data/t1w-mni_registration_fast_000.json. | |
| 2020-02-27 06:09:50,173 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_to_mni_Warped.nii.gz ] --transform Rigid[ 0.01 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Random, 0.15 ] --convergence [ 1000, 1e-06, 20 ] --smoothing-sigmas 4.0vox --shrink-factors 4 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Regular, 0.15 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x0.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric Mattes[ /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 50x20, 1e-06, 10 ] --smoothing-sigmas 1.0x0.0vox --shrink-factors 2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.0, 1.0 ] --write-composite-transform 1 | |
| 2020-02-27 06:13:21,550 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2020-02-27 06:13:24,957 niworkflows:INFO Report - setting fixed (/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz) and moving (/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images | |
| 2020-02-27 06:13:24,957 niworkflows:INFO Generating visual report | |
| 200227-06:13:31,538 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization". | |
| 2020-02-27 06:13:31,538 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization". | |
| 200227-06:13:33,170 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/invert_xfm". | |
| 200227-06:13:33,180 nipype.workflow INFO: | |
| [Node] Running "invert_xfm" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_desc-head_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-01_desc-head_mask_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/binarize/sub-01_ses-01_T1w_conformed_calc_thresh.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:35,126 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 2020-02-27 06:13:35,126 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200227-06:13:35,128 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200227-06:13:35,129 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200227-06:13:35,130 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t10" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 2020-02-27 06:13:35,130 nipype.workflow:INFO [Node] Running "_MNItpms2t10" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:35,131 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t11" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-GM_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-GM_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:35,136 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t12" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-WM_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-WM_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform/sub-01_ses-01_T1w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 2020-02-27 06:13:38,267 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 200227-06:13:40,772 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t12". | |
| 200227-06:13:40,792 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t10". | |
| 2020-02-27 06:13:40,792 nipype.workflow:INFO [Node] Finished "_MNItpms2t10". | |
| 200227-06:13:40,873 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t11". | |
| 200227-06:13:41,132 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1". | |
| 200227-06:13:41,137 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200227-06:13:41,137 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 200227-06:13:41,138 nipype.workflow INFO: | |
| [Node] "_MNItpms2t10" found cached. | |
| 200227-06:13:41,138 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200227-06:13:41,139 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 200227-06:13:41,139 nipype.workflow INFO: | |
| [Node] "_MNItpms2t11" found cached. | |
| 200227-06:13:41,140 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200227-06:13:41,141 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 200227-06:13:41,141 nipype.workflow INFO: | |
| [Node] "_MNItpms2t12" found cached. | |
| 200227-06:13:41,143 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1". | |
| 2020-02-27 06:13:41,703 niworkflows:INFO Report - setting fixed (/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/fixed_masked.nii.gz) and moving (/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images | |
| 2020-02-27 06:13:41,703 niworkflows:INFO Generating visual report | |
| 200227-06:13:49,241 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization". | |
| 2020-02-27 06:13:49,241 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization". | |
| 200227-06:13:51,192 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/invert_xfm". | |
| 200227-06:13:51,197 nipype.workflow INFO: | |
| [Node] Running "invert_xfm" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_desc-head_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-01_desc-head_mask_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize/sub-01_ses-01_T2w_conformed_calc_thresh.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:53,174 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200227-06:13:53,176 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200227-06:13:53,177 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t10" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-CSF_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:53,178 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t11" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-GM_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-GM_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:53,187 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200227-06:13:53,190 nipype.workflow INFO: | |
| [Node] Running "_MNItpms2t12" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-WM_probseg.nii.gz --interpolation Linear --output tpl-MNI152NLin2009cAsym_res-01_label-WM_probseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform/sub-01_ses-01_T2w_conformed.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization/ants_t1_to_mniInverseComposite.h5 | |
| 200227-06:13:58,501 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t11". | |
| 200227-06:13:58,523 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t12". | |
| 200227-06:13:58,536 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t10". | |
| 200227-06:13:59,183 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1". | |
| 200227-06:13:59,187 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200227-06:13:59,188 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 200227-06:13:59,188 nipype.workflow INFO: | |
| [Node] "_MNItpms2t10" found cached. | |
| 200227-06:13:59,189 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200227-06:13:59,189 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 200227-06:13:59,189 nipype.workflow INFO: | |
| [Node] "_MNItpms2t11" found cached. | |
| 200227-06:13:59,190 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200227-06:13:59,191 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 200227-06:13:59,191 nipype.workflow INFO: | |
| [Node] "_MNItpms2t12" found cached. | |
| 200227-06:13:59,194 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1". | |
| 200227-06:15:10,845 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.segmentation". | |
| 200227-06:15:12,142 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.segmentation". | |
| 2020-02-27 06:15:12,142 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.segmentation". | |
| 200227-06:15:12,911 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/harmonize". | |
| 2020-02-27 06:15:12,911 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/harmonize". | |
| 200227-06:15:12,913 nipype.workflow INFO: | |
| [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 2020-02-27 06:15:12,913 nipype.workflow:INFO [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 200227-06:15:13,277 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/harmonize". | |
| 2020-02-27 06:15:13,277 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/harmonize". | |
| 200227-06:15:13,279 nipype.workflow INFO: | |
| [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 2020-02-27 06:15:13,279 nipype.workflow:INFO [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 200227-06:15:17,317 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize". | |
| 2020-02-27 06:15:17,317 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize". | |
| 200227-06:15:17,626 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize". | |
| 2020-02-27 06:15:17,626 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize". | |
| 200227-06:17:11,180 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct". | |
| 200227-06:17:11,337 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.quality" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/quality". | |
| 2020-02-27 06:17:11,337 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.quality" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/quality". | |
| 200227-06:17:11,340 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.mean" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean". | |
| 2020-02-27 06:17:11,340 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.mean" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean". | |
| 200227-06:17:11,348 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.compute_tsnr" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/compute_tsnr". | |
| 2020-02-27 06:17:11,348 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.compute_tsnr" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/compute_tsnr". | |
| 200227-06:17:11,350 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ComputeFD". | |
| 2020-02-27 06:17:11,350 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ComputeFD". | |
| 200227-06:17:11,351 nipype.workflow INFO: | |
| [Node] Running "quality" ("nipype.interfaces.afni.preprocess.QualityIndex"), a CommandLine Interface with command: | |
| 3dTqual -automask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/motion_correct/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz > sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tqual | |
| 2020-02-27 06:17:11,351 nipype.workflow:INFO [Node] Running "quality" ("nipype.interfaces.afni.preprocess.QualityIndex"), a CommandLine Interface with command: | |
| 3dTqual -automask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/motion_correct/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz > sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tqual | |
| 200227-06:17:11,352 nipype.workflow INFO: | |
| [Node] Running "mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command: | |
| 3dTstat -mean -prefix sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz | |
| 2020-02-27 06:17:11,352 nipype.workflow:INFO [Node] Running "mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command: | |
| 3dTstat -mean -prefix sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz | |
| 200227-06:17:11,352 nipype.workflow INFO: | |
| [Node] Running "compute_tsnr" ("nipype.algorithms.confounds.TSNR") | |
| 2020-02-27 06:17:11,352 nipype.workflow:INFO [Node] Running "compute_tsnr" ("nipype.algorithms.confounds.TSNR") | |
| 200227-06:17:11,354 nipype.workflow INFO: | |
| [Node] Running "ComputeFD" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 2020-02-27 06:17:11,354 nipype.workflow:INFO [Node] Running "ComputeFD" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 200227-06:17:11,370 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD". | |
| 2020-02-27 06:17:11,370 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD". | |
| 200227-06:17:17,157 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.mean". | |
| 2020-02-27 06:17:17,157 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.mean". | |
| 200227-06:17:17,324 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.compute_tsnr". | |
| 2020-02-27 06:17:17,324 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.compute_tsnr". | |
| 200227-06:17:17,346 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/SharpenEPI". | |
| 200227-06:17:17,347 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/bet_msk". | |
| 200227-06:17:17,350 nipype.workflow INFO: | |
| [Node] Running "SharpenEPI" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz --output sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_corrected.nii.gz | |
| 200227-06:17:17,351 nipype.workflow INFO: | |
| [Node] Running "bet_msk" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/bet_msk/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain.nii.gz -F -m | |
| 200227-06:17:19,38 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/PlotMosaicMean". | |
| 2020-02-27 06:17:19,038 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/PlotMosaicMean". | |
| 200227-06:17:19,40 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicMean" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 06:17:19,040 nipype.workflow:INFO [Node] Running "PlotMosaicMean" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-06:17:19,348 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/PlotMosaicSD". | |
| 2020-02-27 06:17:19,348 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/PlotMosaicSD". | |
| 200227-06:17:19,350 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicSD" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-27 06:17:19,350 nipype.workflow:INFO [Node] Running "PlotMosaicSD" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200227-06:17:19,631 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk". | |
| 200227-06:17:21,460 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/erode". | |
| 200227-06:17:21,463 nipype.workflow INFO: | |
| [Node] Running "erode" ("nipype.interfaces.fsl.maths.ErodeImage"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/bet_msk/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask.nii.gz -ero /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/erode/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask_ero.nii.gz | |
| 200227-06:17:22,185 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode". | |
| 200227-06:17:23,357 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor". | |
| 2020-02-27 06:17:23,357 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor". | |
| 200227-06:17:23,357 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/outliers". | |
| 200227-06:17:23,362 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ComputeDVARS". | |
| 2020-02-27 06:17:23,362 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ComputeDVARS". | |
| 200227-06:17:23,367 nipype.workflow INFO: | |
| [Node] Running "outliers" ("nipype.interfaces.afni.preprocess.OutlierCount"), a CommandLine Interface with command: | |
| 3dToutcount -fraction -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/erode/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask_ero.nii.gz -qthr 0.00100 /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/motion_correct/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz | |
| 200227-06:17:23,372 nipype.workflow INFO: | |
| [Node] Running "gcor" ("mriqc.interfaces.transitional.GCOR"), a CommandLine Interface with command: | |
| @compute_gcor -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask_ero.nii.gz -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz | |
| 2020-02-27 06:17:23,372 nipype.workflow:INFO [Node] Running "gcor" ("mriqc.interfaces.transitional.GCOR"), a CommandLine Interface with command: | |
| @compute_gcor -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask_ero.nii.gz -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/gcor/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg.nii.gz | |
| 200227-06:17:23,376 nipype.workflow INFO: | |
| [Node] Running "ComputeDVARS" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 2020-02-27 06:17:23,376 nipype.workflow:INFO [Node] Running "ComputeDVARS" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 200227-06:17:23,428 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/smoothness". | |
| 200227-06:17:23,431 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz -mask /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/fMRIBrainMask/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/erode/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_brain_mask_ero.nii.gz -detprefix sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_detrend -out sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_subbricks.out > sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_fwhmx.out | |
| 200227-06:17:24,202 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness". | |
| 200227-06:17:25,62 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.quality". | |
| 2020-02-27 06:17:25,062 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.quality". | |
| 200227-06:17:27,196 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI". | |
| 200227-06:17:28,322 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean". | |
| 2020-02-27 06:17:28,322 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean". | |
| 200227-06:17:28,626 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD". | |
| 2020-02-27 06:17:28,626 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD". | |
| 200227-06:17:30,83 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/EPI2MNI". | |
| 200227-06:17:30,85 nipype.workflow INFO: | |
| [Node] Running "EPI2MNI" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 200227-06:17:30,529 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers". | |
| 200227-06:17:38,765 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor". | |
| 2020-02-27 06:17:38,765 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor". | |
| 200227-06:18:00,599 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm". | |
| 200227-06:18:03,68 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ArtifactMask". | |
| 2020-02-27 06:18:03,068 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ArtifactMask". | |
| 200227-06:18:03,70 nipype.workflow INFO: | |
| [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 2020-02-27 06:18:03,070 nipype.workflow:INFO [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 200227-06:18:06,508 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS". | |
| 2020-02-27 06:18:06,508 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS". | |
| 200227-06:18:09,388 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/measures". | |
| 2020-02-27 06:18:09,388 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/measures". | |
| 200227-06:18:09,415 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.functional.FunctionalQC") | |
| 2020-02-27 06:18:09,415 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.functional.FunctionalQC") | |
| 200227-06:18:09,841 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask". | |
| 2020-02-27 06:18:09,841 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask". | |
| 200227-06:18:11,409 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/provenance". | |
| 2020-02-27 06:18:11,409 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/provenance". | |
| 200227-06:18:11,411 nipype.workflow INFO: | |
| [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-27 06:18:11,411 nipype.workflow:INFO [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 200227-06:18:11,702 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance". | |
| 2020-02-27 06:18:11,702 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance". | |
| 200227-06:18:13,146 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/measures". | |
| 2020-02-27 06:18:13,146 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/measures". | |
| 200227-06:18:13,149 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 2020-02-27 06:18:13,149 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 200227-06:18:13,255 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ComputeQI2". | |
| 2020-02-27 06:18:13,255 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ComputeQI2". | |
| 200227-06:18:13,257 nipype.workflow INFO: | |
| [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 2020-02-27 06:18:13,257 nipype.workflow:INFO [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 200227-06:18:14,556 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.measures". | |
| 2020-02-27 06:18:14,556 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.measures". | |
| 200227-06:18:16,969 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm". | |
| 200227-06:18:17,412 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/UploadMetrics". | |
| 200227-06:18:17,413 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ArtifactMask". | |
| 2020-02-27 06:18:17,412 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/UploadMetrics". | |
| 2020-02-27 06:18:17,413 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ArtifactMask". | |
| 200227-06:18:17,427 nipype.workflow INFO: | |
| [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 2020-02-27 06:18:17,427 nipype.workflow:INFO [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 200227-06:18:17,427 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-27 06:18:17,427 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200227-06:18:18,649 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/bold> | |
| 2020-02-27 06:18:18,649 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/bold> | |
| 200227-06:18:18,863 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-27 06:18:18,863 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200227-06:18:18,868 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.UploadMetrics". | |
| 2020-02-27 06:18:18,868 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.UploadMetrics". | |
| 200227-06:18:23,994 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask". | |
| 2020-02-27 06:18:23,994 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask". | |
| 200227-06:18:25,429 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/measures". | |
| 2020-02-27 06:18:25,429 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/measures". | |
| 200227-06:18:25,430 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/provenance". | |
| 2020-02-27 06:18:25,430 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/provenance". | |
| 200227-06:18:25,433 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 2020-02-27 06:18:25,433 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 200227-06:18:25,433 nipype.workflow INFO: | |
| [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-27 06:18:25,433 nipype.workflow:INFO [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 200227-06:18:25,562 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures". | |
| 2020-02-27 06:18:25,562 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures". | |
| 200227-06:18:25,700 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance". | |
| 2020-02-27 06:18:25,700 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance". | |
| 200227-06:18:27,332 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ComputeQI2". | |
| 2020-02-27 06:18:27,332 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ComputeQI2". | |
| 200227-06:18:27,334 nipype.workflow INFO: | |
| [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 2020-02-27 06:18:27,334 nipype.workflow:INFO [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 200227-06:18:37,384 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures". | |
| 2020-02-27 06:18:37,384 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures". | |
| 200227-06:18:49,108 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2". | |
| 2020-02-27 06:18:49,108 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2". | |
| 200227-06:18:51,441 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/GenerateReport". | |
| 2020-02-27 06:18:51,441 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/GenerateReport". | |
| 200227-06:18:51,444 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-27 06:18:51,444 nipype.workflow:INFO [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 200227-06:18:51,788 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport". | |
| 2020-02-27 06:18:51,788 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport". | |
| 200227-06:18:53,177 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/UploadMetrics". | |
| 2020-02-27 06:18:53,177 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/UploadMetrics". | |
| 200227-06:18:53,180 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-27 06:18:53,180 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200227-06:18:53,558 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T1w> | |
| 2020-02-27 06:18:53,558 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T1w> | |
| 200227-06:18:53,688 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-27 06:18:53,688 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200227-06:18:53,691 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.UploadMetrics". | |
| 2020-02-27 06:18:53,691 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.UploadMetrics". | |
| 200227-06:19:12,634 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2". | |
| 2020-02-27 06:19:12,634 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2". | |
| 200227-06:19:15,463 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/GenerateReport". | |
| 200227-06:19:15,468 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 200227-06:19:16,443 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport". | |
| 2020-02-27 06:19:16,443 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport". | |
| 200227-06:19:17,107 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/UploadMetrics". | |
| 2020-02-27 06:19:17,107 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.UploadMetrics" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/UploadMetrics". | |
| 200227-06:19:17,112 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-27 06:19:17,112 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200227-06:19:17,479 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T2w> | |
| 2020-02-27 06:19:17,479 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T2w> | |
| 200227-06:19:17,607 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-27 06:19:17,607 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200227-06:19:17,612 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.UploadMetrics". | |
| 2020-02-27 06:19:17,612 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.UploadMetrics". | |
| 200227-06:20:36,375 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI". | |
| 200227-06:20:37,546 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ResampleSegmentation". | |
| 2020-02-27 06:20:37,546 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/ResampleSegmentation". | |
| 200227-06:20:37,549 nipype.workflow INFO: | |
| [Node] Running "ResampleSegmentation" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_desc-carpet_dseg.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-01_desc-carpet_dseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/EPI2MNI/epi_to_mniInverseComposite.h5 | |
| 2020-02-27 06:20:37,549 nipype.workflow:INFO [Node] Running "ResampleSegmentation" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_desc-carpet_dseg.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-01_desc-carpet_dseg_trans.nii.gz --reference-image /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/mean/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat.nii.gz --transform /gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/EPI2MNI/epi_to_mniInverseComposite.h5 | |
| 200227-06:20:42,948 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation". | |
| 2020-02-27 06:20:42,948 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation". | |
| 200227-06:20:43,553 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/BigPlot". | |
| 200227-06:20:43,556 nipype.workflow INFO: | |
| [Node] Running "BigPlot" ("niworkflows.interfaces.plotting.FMRISummary") | |
| 200227-06:20:54,356 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot". | |
| 200227-06:20:55,565 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/MergePlots". | |
| 2020-02-27 06:20:55,565 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/MergePlots". | |
| 200227-06:20:55,569 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 2020-02-27 06:20:55,569 nipype.workflow:INFO [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200227-06:20:55,573 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots". | |
| 2020-02-27 06:20:55,573 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots". | |
| 200227-06:20:57,564 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/GenerateReport". | |
| 2020-02-27 06:20:57,564 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/amw17004/hw3/work/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..data..sub-01..ses-01..func..sub-01_ses-01_task-Stroop_run-01_bold.nii.gz/GenerateReport". | |
| 200227-06:20:57,566 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-27 06:20:57,566 nipype.workflow:INFO [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-27 06:20:57,625 mriqc.report:WARNING Building bold report: no exclude index was found | |
| 200227-06:20:57,706 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport". | |
| 2020-02-27 06:20:57,706 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport". | |
| 2020-02-27 06:21:01,578 mriqc:WARNING Anonymized quality metrics (IQMs) will be submitted to MRIQC's metrics repository. Submission of IQMs can be disabled using the ``--no-sub`` argument. Please visit https://mriqc.readthedocs.io/en/latest/dsa.html to revise MRIQC's Data Sharing Agreement. | |
| 2020-02-27 06:21:01,720 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/mriqc/reports/group.py:169: ResourceWarning: unclosed file <_io.TextIOWrapper name='/usr/local/miniconda/lib/python3.7/site-packages/mriqc/data/reports/embed_resources/boxplots.js' mode='r' encoding='UTF-8'> | |
| 'boxplots.js'))).read(), | |
| 2020-02-27 06:21:01,722 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/mriqc/reports/group.py:172: ResourceWarning: unclosed file <_io.TextIOWrapper name='/usr/local/miniconda/lib/python3.7/site-packages/mriqc/data/reports/embed_resources/d3.min.js' mode='r' encoding='UTF-8'> | |
| 'd3.min.js'))).read(), | |
| 2020-02-27 06:21:01,723 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/mriqc/reports/group.py:175: ResourceWarning: unclosed file <_io.TextIOWrapper name='/usr/local/miniconda/lib/python3.7/site-packages/mriqc/data/reports/embed_resources/boxplots.css' mode='r' encoding='UTF-8'> | |
| 'boxplots.css'))).read() | |