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| 2020-02-28 14:27:45,394 mriqc:IMPORTANT | |
| Running MRIQC version 0.15.0: | |
| * BIDS dataset path: /data. | |
| * Output folder: /out. | |
| * Analysis levels: participant, group. | |
| 2020-02-28 14:27:49,778 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) | |
| 2020-02-28 14:27:50,357 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/classification.py:349: DeprecationWarning: invalid escape sequence \k | |
| """ | |
| 2020-02-28 14:27:50,361 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/cluster/supervised.py:578: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-28 14:27:51,296 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) | |
| 2020-02-28 14:27:52,284 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) | |
| 2020-02-28 14:27:53,363 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) | |
| 2020-02-28 14:27:53,452 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) | |
| 2020-02-28 14:27:53,464 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:839: DeprecationWarning: invalid escape sequence \# | |
| """ | |
| 2020-02-28 14:27:53,464 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:1429: DeprecationWarning: invalid escape sequence \c | |
| """ | |
| 2020-02-28 14:27:53,496 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 | |
| 2020-02-28 14:27:53,549 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/decomposition/nmf.py:972: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-28 14:27:53,618 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/linear_model/omp.py:343: DeprecationWarning: invalid escape sequence \g | |
| """ | |
| 2020-02-28 14:27:53,772 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) | |
| 2020-02-28 14:27:53,914 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+) '\ | |
| 2020-02-28 14:27:54,195 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 | |
| 2020-02-28 14:27:54,235 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/generators/geometric.py:275: DeprecationWarning: invalid escape sequence \l | |
| """ | |
| 2020-02-28 14:27:54,269 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/cluster.py:537: DeprecationWarning: invalid escape sequence \m | |
| """ | |
| 2020-02-28 14:27:54,348 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/reciprocity.py:47: DeprecationWarning: invalid escape sequence \i | |
| """ | |
| 2020-02-28 14:27:54,355 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/algorithms/shortest_paths/weighted.py:1996: DeprecationWarning: invalid escape sequence \p | |
| """ | |
| 2020-02-28 14:27:54,473 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/generators/line.py:113: DeprecationWarning: invalid escape sequence \{ | |
| """ | |
| 2020-02-28 14:27:54,538 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/networkx/linalg/modularitymatrix.py:74: DeprecationWarning: invalid escape sequence \o | |
| """ | |
| 200228-14:27:55,350 nipype.workflow INFO: | |
| Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T1w.nii.gz'] | |
| 2020-02-28 14:27:55,350 nipype.workflow:INFO Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T1w.nii.gz'] | |
| 200228-14:27:55,550 nipype.workflow INFO: | |
| Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T2w.nii.gz'] | |
| 2020-02-28 14:27:55,550 nipype.workflow:INFO Building anatomical MRIQC workflow, datasets list: ['sub-01/ses-01/anat/sub-01_ses-01_T2w.nii.gz'] | |
| 2020-02-28 14:28:04,174 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) | |
| 2020-02-28 14:28:04,210 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/classification.py:349: DeprecationWarning: invalid escape sequence \k | |
| """ | |
| 2020-02-28 14:28:04,213 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/metrics/cluster/supervised.py:578: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-28 14:28:04,291 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]*' | |
| 2020-02-28 14:28:04,291 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]*' | |
| 2020-02-28 14:28:04,430 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) | |
| 2020-02-28 14:28:04,439 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:839: DeprecationWarning: invalid escape sequence \# | |
| """ | |
| 2020-02-28 14:28:04,440 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/datasets/samples_generator.py:1429: DeprecationWarning: invalid escape sequence \c | |
| """ | |
| 2020-02-28 14:28:04,464 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 | |
| 2020-02-28 14:28:04,503 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/decomposition/nmf.py:972: DeprecationWarning: invalid escape sequence \s | |
| """ | |
| 2020-02-28 14:28:04,549 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/sklearn/linear_model/omp.py:343: DeprecationWarning: invalid escape sequence \g | |
| """ | |
| 2020-02-28 14:28:04,739 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/core.py:780: DeprecationWarning: invalid escape sequence \{ | |
| to_rep = re.findall('\{(.*?)\}', template) | |
| 2020-02-28 14:28:04,739 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/core.py:784: DeprecationWarning: invalid escape sequence \% | |
| template += '[^\%s]*$' % os.path.sep | |
| 2020-02-28 14:28:04,753 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+'], | |
| 2020-02-28 14:28:04,760 py.warnings:WARNING /usr/local/miniconda/lib/python3.7/site-packages/grabbit/extensions/writable.py:33: DeprecationWarning: invalid escape sequence \| | |
| match = re.search('([^|<]+)(<.*?>)?(\|.*)?', ent) | |
| 2020-02-28 14:28:04,760 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) | |
| 2020-02-28 14:28:04,879 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. | |
| 2020-02-28 14:28:05,432 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) | |
| 2020-02-28 14:28:07,432 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) | |
| 200228-14:28:08,243 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.non_steady_state_detector" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:28:08,245 nipype.workflow INFO: | |
| [Node] Running "non_steady_state_detector" ("nipype.algorithms.confounds.NonSteadyStateDetector") | |
| 200228-14:28:11,163 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.conform" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform". | |
| 2020-02-28 14:28:11,163 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.conform" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/conform". | |
| 200228-14:28:11,168 nipype.workflow INFO: | |
| [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 2020-02-28 14:28:11,168 nipype.workflow:INFO [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 200228-14:28:12,87 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.metadata" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/metadata". | |
| 200228-14:28:12,89 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.metadata" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/metadata". | |
| 200228-14:28:12,89 nipype.workflow INFO: | |
| [Node] Running "metadata" ("niworkflows.interfaces.bids.ReadSidecarJSON") | |
| 200228-14:28:12,92 nipype.workflow INFO: | |
| [Node] Running "metadata" ("niworkflows.interfaces.bids.ReadSidecarJSON") | |
| 200228-14:28:12,126 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.metadata". | |
| 200228-14:28:12,129 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.metadata". | |
| 200228-14:28:12,477 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.non_steady_state_detector". | |
| 200228-14:28:12,713 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.conform". | |
| 2020-02-28 14:28:12,713 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.conform". | |
| 200228-14:28:13,503 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.sanitize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:28:13,505 nipype.workflow INFO: | |
| [Node] Running "sanitize" ("niworkflows.interfaces.utils.SanitizeImage") | |
| 200228-14:28:13,517 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/inu_n4". | |
| 2020-02-28 14:28:13,517 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/inu_n4". | |
| 200228-14:28:13,520 nipype.workflow INFO: | |
| [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] | |
| 2020-02-28 14:28:13,520 nipype.workflow:INFO [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] | |
| 200228-14:28:13,605 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicNoise". | |
| 2020-02-28 14:28:13,605 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicNoise". | |
| 200228-14:28:13,608 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:28:13,608 nipype.workflow:INFO [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:28:15,456 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/RotationMask". | |
| 2020-02-28 14:28:15,456 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/RotationMask". | |
| 200228-14:28:15,458 nipype.workflow INFO: | |
| [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 2020-02-28 14:28:15,458 nipype.workflow:INFO [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 200228-14:28:17,348 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask". | |
| 2020-02-28 14:28:17,348 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.RotationMask". | |
| 200228-14:28:17,508 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.conform" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform". | |
| 2020-02-28 14:28:17,508 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.conform" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/conform". | |
| 200228-14:28:17,510 nipype.workflow INFO: | |
| [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 2020-02-28 14:28:17,510 nipype.workflow:INFO [Node] Running "conform" ("mriqc.interfaces.common.ConformImage") | |
| 200228-14:28:18,621 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.conform". | |
| 2020-02-28 14:28:18,621 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.conform". | |
| 200228-14:28:19,512 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicNoise". | |
| 2020-02-28 14:28:19,512 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicNoise". | |
| 200228-14:28:19,514 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:28:19,514 nipype.workflow:INFO [Node] Running "PlotMosaicNoise" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:28:28,314 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise". | |
| 2020-02-28 14:28:28,314 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise". | |
| 200228-14:28:29,521 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/RotationMask". | |
| 2020-02-28 14:28:29,521 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/RotationMask". | |
| 200228-14:28:29,524 nipype.workflow INFO: | |
| [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 2020-02-28 14:28:29,524 nipype.workflow:INFO [Node] Running "RotationMask" ("mriqc.interfaces.anatomical.RotationMask") | |
| 200228-14:28:31,444 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask". | |
| 2020-02-28 14:28:31,444 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.RotationMask". | |
| 200228-14:28:31,525 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/inu_n4". | |
| 2020-02-28 14:28:31,525 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/inu_n4". | |
| 200228-14:28:31,528 nipype.workflow INFO: | |
| [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] | |
| 2020-02-28 14:28:31,528 nipype.workflow:INFO [Node] Running "inu_n4" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] | |
| 200228-14:28:33,24 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise". | |
| 2020-02-28 14:28:33,024 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicNoise". | |
| 200228-14:28:33,464 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.sanitize". | |
| 200228-14:28:35,522 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:28:35,522 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:28:35,524 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:28:35,524 nipype.workflow INFO: | |
| [Node] Running "SpikesMask" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:28:35,524 nipype.workflow:INFO [Node] Running "SpikesMask" ("nipype.interfaces.utility.wrappers.Function") | |
| 200228-14:28:35,536 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 200228-14:28:37,180 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.180784:++ 3dvolreg: AFNI version=AFNI_17.3.03 (Nov 9 2017) [64-bit] | |
| 200228-14:28:37,181 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.181097:++ Authored by: RW Cox | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset, | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: such as /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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, | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: or viewing/combining it with volumes of differing obliquity, | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: you should consider running: | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: 3dWarp -deoblique | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: on this and other oblique datasets in the same session. | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201295: See 3dWarp -help for details. | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201687:++ Oblique dataset:/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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. | |
| 200228-14:28:37,201 nipype.interface INFO: | |
| stderr 2020-02-28T14:28:37.201794:++ Coarse del was 10, replaced with 6 | |
| 200228-14:28:41,970 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask". | |
| 2020-02-28 14:28:41,970 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask". | |
| 200228-14:28:43,533 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:28:43,533 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:28:43,538 nipype.workflow INFO: | |
| [Node] Running "SpikesFinderBgMask" ("mriqc.interfaces.functional.Spikes") | |
| 2020-02-28 14:28:43,538 nipype.workflow:INFO [Node] Running "SpikesFinderBgMask" ("mriqc.interfaces.functional.Spikes") | |
| 200228-14:28:52,348 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask". | |
| 2020-02-28 14:28:52,348 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask". | |
| 200228-14:29:14,227 nipype.interface INFO: | |
| stderr 2020-02-28T14:29:14.227724:++ Max displacement in automask = 1.03 (mm) at sub-brick 16 | |
| 200228-14:29:14,227 nipype.interface INFO: | |
| stderr 2020-02-28T14:29:14.227724:++ Max delta displ in automask = 0.79 (mm) at sub-brick 17 | |
| 200228-14:29:15,989 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref". | |
| 200228-14:29:17,626 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:29:17,626 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:29:17,629 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:29:17,629 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:34:50,329 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4". | |
| 2020-02-28 14:34:50,329 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.inu_n4". | |
| 200228-14:34:51,908 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.HeadMaskWorkflow.fsl_bet" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/fsl_bet". | |
| 200228-14:34:51,911 nipype.workflow INFO: | |
| [Node] Running "fsl_bet" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:34:52,48 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/skullstrip". | |
| 2020-02-28 14:34:52,048 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/skullstrip". | |
| 200228-14:34:52,55 nipype.workflow INFO: | |
| [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:34:52,055 nipype.workflow:INFO [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:35:08,852 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4". | |
| 2020-02-28 14:35:08,852 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.inu_n4". | |
| 200228-14:35:09,934 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/fsl_bet". | |
| 2020-02-28 14:35:09,934 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/HeadMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/fsl_bet". | |
| 200228-14:35:09,937 nipype.workflow INFO: | |
| [Node] Running "fsl_bet" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:35:09,937 nipype.workflow:INFO [Node] Running "fsl_bet" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:36:12,17 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip". | |
| 2020-02-28 14:36:12,017 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.skullstrip". | |
| 200228-14:36:13,993 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/sstrip_orig_vol". | |
| 2020-02-28 14:36:13,993 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/sstrip_orig_vol". | |
| 200228-14:36:13,996 nipype.workflow INFO: | |
| [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:36:13,996 nipype.workflow:INFO [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:36:15,953 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 2020-02-28 14:36:15,953 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 200228-14:36:18,99 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.segmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/segmentation". | |
| 2020-02-28 14:36:18,099 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.segmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/segmentation". | |
| 200228-14:36:18,103 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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:36:18,103 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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:36:41,601 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.HeadMaskWorkflow.fsl_bet". | |
| 200228-14:36:42,24 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.binarize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/binarize". | |
| 200228-14:36:42,27 nipype.workflow INFO: | |
| [Node] Running "binarize" ("nipype.interfaces.fsl.maths.Threshold"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:36:43,434 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AFNISkullStripWorkflow.binarize". | |
| 200228-14:36:44,80 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicZoomed". | |
| 2020-02-28 14:36:44,080 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/PlotMosaicZoomed". | |
| 200228-14:36:44,84 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:36:44,084 nipype.workflow:INFO [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:36:56,249 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed". | |
| 2020-02-28 14:36:56,249 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed". | |
| 200228-14:36:58,38 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MergePlots". | |
| 2020-02-28 14:36:58,038 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MergePlots". | |
| 200228-14:36:58,45 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 2020-02-28 14:36:58,045 nipype.workflow:INFO [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200228-14:36:58,48 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots". | |
| 2020-02-28 14:36:58,048 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.MergePlots". | |
| 200228-14:37:00,38 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/smoothness". | |
| 2020-02-28 14:37:00,038 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/smoothness". | |
| 200228-14:37:00,41 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:37:00,041 nipype.workflow:INFO [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:37:02,490 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet". | |
| 2020-02-28 14:37:02,490 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.HeadMaskWorkflow.fsl_bet". | |
| 200228-14:37:04,38 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/skullstrip". | |
| 2020-02-28 14:37:04,038 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/skullstrip". | |
| 200228-14:37:04,41 nipype.workflow INFO: | |
| [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:37:04,041 nipype.workflow:INFO [Node] Running "skullstrip" ("nipype.interfaces.afni.preprocess.SkullStrip"), a CommandLine Interface with command: | |
| 3dSkullStrip -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:37:11,227 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness". | |
| 2020-02-28 14:37:11,227 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.smoothness". | |
| 200228-14:38:26,790 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip". | |
| 2020-02-28 14:38:26,790 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.skullstrip". | |
| 200228-14:38:28,128 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/sstrip_orig_vol". | |
| 2020-02-28 14:38:28,128 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/sstrip_orig_vol". | |
| 200228-14:38:28,132 nipype.workflow INFO: | |
| [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:38:28,132 nipype.workflow:INFO [Node] Running "sstrip_orig_vol" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command: | |
| 3dcalc -a /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:38:30,51 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 2020-02-28 14:38:30,051 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.sstrip_orig_vol". | |
| 200228-14:38:30,130 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize". | |
| 2020-02-28 14:38:30,130 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AFNISkullStripWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/binarize". | |
| 200228-14:38:30,133 nipype.workflow INFO: | |
| [Node] Running "binarize" ("nipype.interfaces.fsl.maths.Threshold"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:38:30,133 nipype.workflow:INFO [Node] Running "binarize" ("nipype.interfaces.fsl.maths.Threshold"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:38:31,542 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize". | |
| 2020-02-28 14:38:31,542 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AFNISkullStripWorkflow.binarize". | |
| 200228-14:38:32,133 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicZoomed". | |
| 2020-02-28 14:38:32,133 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/PlotMosaicZoomed". | |
| 200228-14:38:32,134 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/smoothness". | |
| 2020-02-28 14:38:32,134 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/smoothness". | |
| 200228-14:38:32,135 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:38:32,135 nipype.workflow:INFO [Node] Running "PlotMosaicZoomed" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:38:32,137 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:38:32,137 nipype.workflow:INFO [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:38:42,659 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness". | |
| 2020-02-28 14:38:42,659 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.smoothness". | |
| 200228-14:38:43,853 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed". | |
| 2020-02-28 14:38:43,853 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.PlotMosaicZoomed". | |
| 200228-14:38:44,143 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MergePlots". | |
| 2020-02-28 14:38:44,143 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MergePlots". | |
| 200228-14:38:44,146 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 2020-02-28 14:38:44,146 nipype.workflow:INFO [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200228-14:38:44,150 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots". | |
| 2020-02-28 14:38:44,150 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.MergePlots". | |
| 200228-14:44:00,676 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.segmentation". | |
| 2020-02-28 14:44:00,676 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.segmentation". | |
| 200228-14:44:02,469 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/harmonize". | |
| 2020-02-28 14:44:02,469 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/harmonize". | |
| 200228-14:44:02,470 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization". | |
| 2020-02-28 14:44:02,470 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/SpatialNormalization". | |
| 200228-14:44:02,471 nipype.workflow INFO: | |
| [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 2020-02-28 14:44:02,471 nipype.workflow:INFO [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 200228-14:44:02,473 nipype.workflow INFO: | |
| [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-28 14:44:02,473 nipype.workflow:INFO [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 200228-14:44:03,164 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization". | |
| 2020-02-28 14:44:03,164 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/SpatialNormalization/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/SpatialNormalization". | |
| 200228-14:44:03,189 nipype.workflow INFO: | |
| [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-28 14:44:03,189 nipype.workflow:INFO [Node] Running "SpatialNormalization" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-28 14:44:04,392 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2020-02-28 14:44:05,001 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 200228-14:44:06,968 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize". | |
| 2020-02-28 14:44:06,968 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.harmonize". | |
| 200228-14:46:20,364 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct". | |
| 2020-02-28 14:46:20,364 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.motion_correct". | |
| 200228-14:46:20,612 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.quality" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:20,612 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.quality" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:20,614 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.mean" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:20,614 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.mean" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:20,616 nipype.workflow INFO: | |
| [Node] Running "quality" ("nipype.interfaces.afni.preprocess.QualityIndex"), a CommandLine Interface with command: | |
| 3dTqual -automask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:20,616 nipype.workflow:INFO [Node] Running "quality" ("nipype.interfaces.afni.preprocess.QualityIndex"), a CommandLine Interface with command: | |
| 3dTqual -automask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:20,624 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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:20,624 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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:25,630 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.7/site-packages/niworkflows/data/t1w-mni_registration_fast_000.json. | |
| 2020-02-28 14:46:25,632 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:26,466 niworkflows:INFO Terminal outputs of initialization saved (/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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). | |
| 2020-02-28 14:46:26,466 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.7/site-packages/niworkflows/data/t1w-mni_registration_fast_000.json. | |
| 2020-02-28 14:46:26,468 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:26,574 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.mean". | |
| 2020-02-28 14:46:26,574 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.mean". | |
| 200228-14:46:28,615 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:28,615 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:28,618 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicMean" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:46:28,618 nipype.workflow:INFO [Node] Running "PlotMosaicMean" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:46:34,228 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.quality". | |
| 2020-02-28 14:46:34,228 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.quality". | |
| 200228-14:46:34,627 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.compute_tsnr" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:34,627 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.compute_tsnr" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:34,629 nipype.workflow INFO: | |
| [Node] Running "compute_tsnr" ("nipype.algorithms.confounds.TSNR") | |
| 2020-02-28 14:46:34,629 nipype.workflow:INFO [Node] Running "compute_tsnr" ("nipype.algorithms.confounds.TSNR") | |
| 200228-14:46:37,349 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean". | |
| 2020-02-28 14:46:37,349 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean". | |
| 200228-14:46:38,626 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:38,626 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:38,630 nipype.workflow INFO: | |
| [Node] Running "SharpenEPI" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:38,630 nipype.workflow:INFO [Node] Running "SharpenEPI" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection -d 3 --input-image /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:40,589 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.compute_tsnr". | |
| 2020-02-28 14:46:40,589 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.compute_tsnr". | |
| 200228-14:46:42,627 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:42,627 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:42,629 nipype.workflow INFO: | |
| [Node] Running "PlotMosaicSD" ("mriqc.interfaces.viz.PlotMosaic") | |
| 2020-02-28 14:46:42,629 nipype.workflow:INFO [Node] Running "PlotMosaicSD" ("mriqc.interfaces.viz.PlotMosaic") | |
| 200228-14:46:48,693 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI". | |
| 2020-02-28 14:46:48,693 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.SharpenEPI". | |
| 200228-14:46:50,749 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:50,749 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:50,753 nipype.workflow INFO: | |
| [Node] Running "bet_msk" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:50,753 nipype.workflow:INFO [Node] Running "bet_msk" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:51,327 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD". | |
| 2020-02-28 14:46:51,327 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD". | |
| 200228-14:46:52,644 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:52,644 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:52,646 nipype.workflow INFO: | |
| [Node] Running "ComputeFD" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 2020-02-28 14:46:52,646 nipype.workflow:INFO [Node] Running "ComputeFD" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 200228-14:46:52,661 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD". | |
| 2020-02-28 14:46:52,661 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.ComputeFD". | |
| 200228-14:46:53,205 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk". | |
| 2020-02-28 14:46:53,205 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.bet_msk". | |
| 200228-14:46:54,647 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:54,647 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:54,650 nipype.workflow INFO: | |
| [Node] Running "erode" ("nipype.interfaces.fsl.maths.ErodeImage"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:54,650 nipype.workflow:INFO [Node] Running "erode" ("nipype.interfaces.fsl.maths.ErodeImage"), a CommandLine Interface with command: | |
| fslmaths /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:55,566 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode". | |
| 2020-02-28 14:46:55,566 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.fMRIBrainMask.erode". | |
| 200228-14:46:56,649 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:56,649 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:56,650 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:46:56,650 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:46:56,653 nipype.workflow INFO: | |
| [Node] Running "gcor" ("mriqc.interfaces.transitional.GCOR"), a CommandLine Interface with command: | |
| @compute_gcor -mask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:56,653 nipype.workflow:INFO [Node] Running "gcor" ("mriqc.interfaces.transitional.GCOR"), a CommandLine Interface with command: | |
| @compute_gcor -mask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:46:56,653 nipype.workflow INFO: | |
| [Node] Running "outliers" ("nipype.interfaces.afni.preprocess.OutlierCount"), a CommandLine Interface with command: | |
| 3dToutcount -fraction -mask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:46:56,653 nipype.workflow:INFO [Node] Running "outliers" ("nipype.interfaces.afni.preprocess.OutlierCount"), a CommandLine Interface with command: | |
| 3dToutcount -fraction -mask /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:47:03,667 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers". | |
| 2020-02-28 14:47:03,667 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.outliers". | |
| 200228-14:47:04,657 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:47:04,657 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:47:04,661 nipype.workflow INFO: | |
| [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:47:04,661 nipype.workflow:INFO [Node] Running "smoothness" ("nipype.interfaces.afni.utils.FWHMx"), a CommandLine Interface with command: | |
| 3dFWHMx -ShowMeClassicFWHM -combine -detrend -input /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:47:05,623 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness". | |
| 2020-02-28 14:47:05,623 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.smoothness". | |
| 200228-14:47:06,660 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:47:06,660 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:47:06,676 nipype.workflow INFO: | |
| [Node] Running "ComputeDVARS" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 2020-02-28 14:47:06,676 nipype.workflow:INFO [Node] Running "ComputeDVARS" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 200228-14:47:11,595 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor". | |
| 2020-02-28 14:47:11,595 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.gcor". | |
| 200228-14:47:48,714 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS". | |
| 2020-02-28 14:47:48,714 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.ComputeDVARS". | |
| 200228-14:47:50,703 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:47:50,703 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:47:50,705 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.functional.FunctionalQC") | |
| 2020-02-28 14:47:50,705 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.functional.FunctionalQC") | |
| 200228-14:47:55,883 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.measures". | |
| 2020-02-28 14:47:55,883 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ComputeIQMs.measures". | |
| 200228-14:47:58,709 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:47:58,709 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:47:58,711 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-28 14:47:58,711 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200228-14:47:59,798 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/bold> | |
| 2020-02-28 14:47:59,798 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/bold> | |
| 200228-14:47:59,943 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-28 14:47:59,943 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200228-14:47:59,946 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.UploadMetrics". | |
| 2020-02-28 14:47:59,946 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.UploadMetrics". | |
| 2020-02-28 14:50:06,778 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2020-02-28 14:50:10,174 niworkflows:INFO Report - setting fixed (/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:10,174 niworkflows:INFO Generating visual report | |
| 2020-02-28 14:50:14,794 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 200228-14:50:17,668 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization". | |
| 2020-02-28 14:50:17,668 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization". | |
| 2020-02-28 14:50:18,316 niworkflows:INFO Report - setting fixed (/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:18,316 niworkflows:INFO Generating visual report | |
| 200228-14:50:18,862 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/invert_xfm". | |
| 2020-02-28 14:50:18,862 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/invert_xfm". | |
| 200228-14:50:18,865 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:18,865 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:19,56 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:50:19,056 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:50:19,59 nipype.workflow INFO: | |
| [Node] Running "EPI2MNI" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-28 14:50:19,059 nipype.workflow:INFO [Node] Running "EPI2MNI" ("niworkflows.interfaces.registration.RobustMNINormalizationRPT") | |
| 2020-02-28 14:50:19,060 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 200228-14:50:20,856 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 2020-02-28 14:50:20,856 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200228-14:50:20,860 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:20,860 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:24,980 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization". | |
| 2020-02-28 14:50:24,980 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.SpatialNormalization.SpatialNormalization". | |
| 200228-14:50:26,260 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t10". | |
| 2020-02-28 14:50:26,260 nipype.workflow:INFO [Node] Finished "_MNItpms2t10". | |
| 200228-14:50:26,869 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/invert_xfm". | |
| 2020-02-28 14:50:26,869 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/invert_xfm". | |
| 200228-14:50:26,870 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 2020-02-28 14:50:26,870 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200228-14:50:26,872 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:26,872 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:26,874 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:26,874 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:32,242 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t11". | |
| 2020-02-28 14:50:32,242 nipype.workflow:INFO [Node] Finished "_MNItpms2t11". | |
| 200228-14:50:32,862 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 2020-02-28 14:50:32,862 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200228-14:50:32,866 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:32,866 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:38,232 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t12". | |
| 2020-02-28 14:50:38,232 nipype.workflow:INFO [Node] Finished "_MNItpms2t12". | |
| 200228-14:50:38,871 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1". | |
| 2020-02-28 14:50:38,871 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1". | |
| 200228-14:50:38,875 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 2020-02-28 14:50:38,875 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200228-14:50:38,876 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 2020-02-28 14:50:38,876 nipype.workflow:INFO [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 200228-14:50:38,876 nipype.workflow INFO: | |
| [Node] "_MNItpms2t10" found cached. | |
| 2020-02-28 14:50:38,876 nipype.workflow:INFO [Node] "_MNItpms2t10" found cached. | |
| 200228-14:50:38,877 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 2020-02-28 14:50:38,877 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200228-14:50:38,879 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 2020-02-28 14:50:38,879 nipype.workflow:INFO [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 200228-14:50:38,879 nipype.workflow INFO: | |
| [Node] "_MNItpms2t11" found cached. | |
| 2020-02-28 14:50:38,879 nipype.workflow:INFO [Node] "_MNItpms2t11" found cached. | |
| 200228-14:50:38,880 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 2020-02-28 14:50:38,880 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200228-14:50:38,881 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 2020-02-28 14:50:38,881 nipype.workflow:INFO [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 200228-14:50:38,881 nipype.workflow INFO: | |
| [Node] "_MNItpms2t12" found cached. | |
| 2020-02-28 14:50:38,881 nipype.workflow:INFO [Node] "_MNItpms2t12" found cached. | |
| 200228-14:50:38,883 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1". | |
| 2020-02-28 14:50:38,883 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.MNItpms2t1". | |
| 200228-14:50:40,871 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 2020-02-28 14:50:40,871 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200228-14:50:40,874 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:40,874 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:46,235 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t10". | |
| 2020-02-28 14:50:46,235 nipype.workflow:INFO [Node] Finished "_MNItpms2t10". | |
| 200228-14:50:46,877 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 2020-02-28 14:50:46,877 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200228-14:50:46,882 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:46,882 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:52,233 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t11". | |
| 2020-02-28 14:50:52,233 nipype.workflow:INFO [Node] Finished "_MNItpms2t11". | |
| 200228-14:50:52,882 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 2020-02-28 14:50:52,882 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200228-14:50:52,887 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:50:52,887 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:50:58,250 nipype.workflow INFO: | |
| [Node] Finished "_MNItpms2t12". | |
| 2020-02-28 14:50:58,250 nipype.workflow:INFO [Node] Finished "_MNItpms2t12". | |
| 200228-14:50:58,890 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1". | |
| 2020-02-28 14:50:58,890 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1". | |
| 200228-14:50:58,894 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 2020-02-28 14:50:58,894 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t10" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t10". | |
| 200228-14:50:58,895 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 2020-02-28 14:50:58,895 nipype.workflow:INFO [Node] Cached "_MNItpms2t10" - collecting precomputed outputs | |
| 200228-14:50:58,896 nipype.workflow INFO: | |
| [Node] "_MNItpms2t10" found cached. | |
| 2020-02-28 14:50:58,896 nipype.workflow:INFO [Node] "_MNItpms2t10" found cached. | |
| 200228-14:50:58,896 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 2020-02-28 14:50:58,896 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t11" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11". | |
| 200228-14:50:58,898 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 2020-02-28 14:50:58,898 nipype.workflow:INFO [Node] Cached "_MNItpms2t11" - collecting precomputed outputs | |
| 200228-14:50:58,898 nipype.workflow INFO: | |
| [Node] "_MNItpms2t11" found cached. | |
| 2020-02-28 14:50:58,898 nipype.workflow:INFO [Node] "_MNItpms2t11" found cached. | |
| 200228-14:50:58,899 nipype.workflow INFO: | |
| [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 2020-02-28 14:50:58,899 nipype.workflow:INFO [Node] Setting-up "_MNItpms2t12" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12". | |
| 200228-14:50:58,913 nipype.workflow INFO: | |
| [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 2020-02-28 14:50:58,913 nipype.workflow:INFO [Node] Cached "_MNItpms2t12" - collecting precomputed outputs | |
| 200228-14:50:58,913 nipype.workflow INFO: | |
| [Node] "_MNItpms2t12" found cached. | |
| 2020-02-28 14:50:58,913 nipype.workflow:INFO [Node] "_MNItpms2t12" found cached. | |
| 200228-14:50:58,916 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1". | |
| 2020-02-28 14:50:58,916 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.MNItpms2t1". | |
| 2020-02-28 14:51:33,591 niworkflows:INFO Terminal outputs of initialization saved (/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/stderr.nipype-init). | |
| 2020-02-28 14:51:33,591 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.7/site-packages/niworkflows/data/bold-mni_registration_precise_000.json. | |
| 2020-02-28 14:51:33,594 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --masks [ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] --transform Affine[ 0.08 ] --metric Mattes[ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --masks [ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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/sub-01_ses-01_task-Stroop_run-01_bold_valid_volreg_tstat_corrected.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --masks [ /opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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 ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2020-02-28 14:53:23,155 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2020-02-28 14:53:23,156 niworkflows:INFO Report - setting fixed (/opt/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz) and moving (/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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_mni_Warped.nii.gz) images | |
| 2020-02-28 14:53:23,156 niworkflows:INFO Generating visual report | |
| 200228-14:53:31,536 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI". | |
| 2020-02-28 14:53:31,536 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI". | |
| 200228-14:53:33,43 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:53:33,043 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:53:33,46 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:53:33,046 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/psyc5171/alo18003/bidscoiner/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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:53:33,51 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.segmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation". | |
| 2020-02-28 14:53:33,051 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.segmentation" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/segmentation". | |
| 200228-14:53:33,76 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/psyc5171/alo18003/bidscoiner/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 | |
| 2020-02-28 14:53:33,076 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/psyc5171/alo18003/bidscoiner/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 | |
| 200228-14:53:38,514 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation". | |
| 2020-02-28 14:53:38,514 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.SpatialNormalization.ResampleSegmentation". | |
| 200228-14:53:39,61 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:53:39,061 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:53:39,63 nipype.workflow INFO: | |
| [Node] Running "BigPlot" ("niworkflows.interfaces.plotting.FMRISummary") | |
| 2020-02-28 14:53:39,063 nipype.workflow:INFO [Node] Running "BigPlot" ("niworkflows.interfaces.plotting.FMRISummary") | |
| 200228-14:53:50,946 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot". | |
| 2020-02-28 14:53:50,946 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.BigPlot". | |
| 200228-14:53:51,72 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:53:51,072 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:53:51,75 nipype.workflow INFO: | |
| [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 2020-02-28 14:53:51,075 nipype.workflow:INFO [Node] Running "MergePlots" ("nipype.interfaces.utility.base.Merge") | |
| 200228-14:53:51,79 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots". | |
| 2020-02-28 14:53:51,079 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.MergePlots". | |
| 200228-14:53:53,68 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 2020-02-28 14:53:53,068 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/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". | |
| 200228-14:53:53,84 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:53:53,084 nipype.workflow:INFO [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:53:53,204 mriqc.report:WARNING Building bold report: no exclude index was found | |
| 200228-14:53:53,281 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport". | |
| 2020-02-28 14:53:53,281 nipype.workflow:INFO [Node] Finished "workflow_enumerator.funcMRIQC.ReportsWorkflow.GenerateReport". | |
| 200228-14:54:45,720 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm". | |
| 2020-02-28 14:54:45,720 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.invert_xfm". | |
| 200228-14:54:47,123 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ArtifactMask". | |
| 2020-02-28 14:54:47,123 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ArtifactMask". | |
| 200228-14:54:47,126 nipype.workflow INFO: | |
| [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 2020-02-28 14:54:47,126 nipype.workflow:INFO [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 200228-14:54:51,20 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm". | |
| 2020-02-28 14:54:51,020 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.invert_xfm". | |
| 200228-14:54:51,142 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ArtifactMask". | |
| 2020-02-28 14:54:51,142 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/AirMaskWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ArtifactMask". | |
| 200228-14:54:51,144 nipype.workflow INFO: | |
| [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 2020-02-28 14:54:51,144 nipype.workflow:INFO [Node] Running "ArtifactMask" ("mriqc.interfaces.anatomical.ArtifactMask") | |
| 200228-14:54:53,570 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask". | |
| 2020-02-28 14:54:53,570 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.AirMaskWorkflow.ArtifactMask". | |
| 200228-14:54:55,139 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ComputeQI2". | |
| 2020-02-28 14:54:55,139 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/ComputeQI2". | |
| 200228-14:54:55,141 nipype.workflow INFO: | |
| [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 200228-14:54:55,153 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/measures". | |
| 2020-02-28 14:54:55,141 nipype.workflow:INFO [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 2020-02-28 14:54:55,153 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/measures". | |
| 200228-14:54:55,161 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 2020-02-28 14:54:55,161 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 200228-14:54:57,635 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask". | |
| 2020-02-28 14:54:57,635 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.AirMaskWorkflow.ArtifactMask". | |
| 200228-14:54:59,152 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/provenance". | |
| 2020-02-28 14:54:59,152 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/provenance". | |
| 200228-14:54:59,155 nipype.workflow INFO: | |
| [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:54:59,155 nipype.workflow:INFO [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 200228-14:54:59,393 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance". | |
| 2020-02-28 14:54:59,393 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.provenance". | |
| 200228-14:55:01,136 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ComputeQI2". | |
| 2020-02-28 14:55:01,136 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/ComputeQI2". | |
| 200228-14:55:01,138 nipype.workflow INFO: | |
| [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 2020-02-28 14:55:01,138 nipype.workflow:INFO [Node] Running "ComputeQI2" ("mriqc.interfaces.anatomical.ComputeQI2") | |
| 200228-14:55:09,103 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures". | |
| 2020-02-28 14:55:09,103 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.measures". | |
| 200228-14:55:11,151 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/provenance". | |
| 2020-02-28 14:55:11,151 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/provenance". | |
| 200228-14:55:11,155 nipype.workflow INFO: | |
| [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:55:11,155 nipype.workflow:INFO [Node] Running "provenance" ("nipype.interfaces.utility.wrappers.Function") | |
| 200228-14:55:11,414 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance". | |
| 2020-02-28 14:55:11,414 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.provenance". | |
| 200228-14:55:29,317 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2". | |
| 2020-02-28 14:55:29,317 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ComputeIQMs.ComputeQI2". | |
| 200228-14:55:33,177 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/GenerateReport". | |
| 2020-02-28 14:55:33,177 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/GenerateReport". | |
| 200228-14:55:33,178 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/UploadMetrics". | |
| 2020-02-28 14:55:33,178 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT1w.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT1w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T1w.nii.gz/UploadMetrics". | |
| 200228-14:55:33,180 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 14:55:33,180 nipype.workflow:INFO [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 200228-14:55:33,180 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-28 14:55:33,180 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200228-14:55:33,382 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport". | |
| 2020-02-28 14:55:33,382 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.GenerateReport". | |
| 200228-14:55:33,516 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T1w> | |
| 2020-02-28 14:55:33,516 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T1w> | |
| 200228-14:55:33,648 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-28 14:55:33,648 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200228-14:55:33,651 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT1w.UploadMetrics". | |
| 2020-02-28 14:55:33,651 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT1w.UploadMetrics". | |
| 200228-14:55:45,556 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2". | |
| 2020-02-28 14:55:45,556 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.ComputeQI2". | |
| 200228-15:01:07,159 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.segmentation". | |
| 2020-02-28 15:01:07,159 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.segmentation". | |
| 200228-15:01:07,524 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/harmonize". | |
| 2020-02-28 15:01:07,524 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/harmonize". | |
| 200228-15:01:07,541 nipype.workflow INFO: | |
| [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 2020-02-28 15:01:07,541 nipype.workflow:INFO [Node] Running "harmonize" ("mriqc.interfaces.anatomical.Harmonize") | |
| 200228-15:01:12,13 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize". | |
| 2020-02-28 15:01:12,013 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.harmonize". | |
| 200228-15:01:13,538 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/measures". | |
| 2020-02-28 15:01:13,538 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ComputeIQMs/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/measures". | |
| 200228-15:01:13,541 nipype.workflow INFO: | |
| [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 2020-02-28 15:01:13,541 nipype.workflow:INFO [Node] Running "measures" ("mriqc.interfaces.anatomical.StructuralQC") | |
| 200228-15:01:27,24 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures". | |
| 2020-02-28 15:01:27,024 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ComputeIQMs.measures". | |
| 200228-15:01:29,551 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/GenerateReport". | |
| 2020-02-28 15:01:29,551 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/ReportsWorkflow/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/GenerateReport". | |
| 200228-15:01:29,552 nipype.workflow INFO: | |
| [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/UploadMetrics". | |
| 2020-02-28 15:01:29,552 nipype.workflow:INFO [Node] Setting-up "workflow_enumerator.anatMRIQCT2w.UploadMetrics" in "/gpfs/scratchfs1/psyc5171/alo18003/bidscoiner/hw3/work/workflow_enumerator/anatMRIQCT2w/_in_file_..data..sub-01..ses-01..anat..sub-01_ses-01_T2w.nii.gz/UploadMetrics". | |
| 200228-15:01:29,554 nipype.workflow INFO: | |
| [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 2020-02-28 15:01:29,554 nipype.workflow:INFO [Node] Running "GenerateReport" ("nipype.interfaces.utility.wrappers.Function") | |
| 200228-15:01:29,554 nipype.workflow INFO: | |
| [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 2020-02-28 15:01:29,554 nipype.workflow:INFO [Node] Running "UploadMetrics" ("mriqc.interfaces.webapi.UploadIQMs") | |
| 200228-15:01:29,833 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport". | |
| 2020-02-28 15:01:29,833 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.ReportsWorkflow.GenerateReport". | |
| 200228-15:01:29,915 nipype.interface INFO: | |
| MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T2w> | |
| 2020-02-28 15:01:29,915 nipype.interface:INFO MRIQC Web API: submitting to <https://mriqc.nimh.nih.gov:443/api/v1/T2w> | |
| 200228-15:01:30,28 nipype.interface INFO: | |
| QC metrics successfully uploaded. | |
| 2020-02-28 15:01:30,028 nipype.interface:INFO QC metrics successfully uploaded. | |
| 200228-15:01:30,32 nipype.workflow INFO: | |
| [Node] Finished "workflow_enumerator.anatMRIQCT2w.UploadMetrics". | |
| 2020-02-28 15:01:30,032 nipype.workflow:INFO [Node] Finished "workflow_enumerator.anatMRIQCT2w.UploadMetrics". | |
| 2020-02-28 15:01:33,500 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. | |
| 2020-02-28 15:01:33,659 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(), | |
| 2020-02-28 15:01:33,660 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(), | |
| 2020-02-28 15:01:33,661 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() | |