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ENH: update folder names from fmriprep to petprep
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‎fmriprep/interfaces/__pycache__/reports.cpython-310.pyc‎

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‎fmriprep/reports/__pycache__/core.cpython-310.pyc‎

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‎petprep.egg-info/PKG-INFO‎

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Metadata-Version: 2.1
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Name: fmriprep
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Version: 21.0.1+33.g75b0f7b1
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Summary: fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data.
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Home-page: https://github.com/nipreps/fmriprep
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Author: The NiPreps Developers
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Author-email: [email protected]
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License: Apache License, Version 2.0
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Project-URL: Documentation, https://fmriprep.readthedocs.io/
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Project-URL: Paper, https://doi.org/10.1038/s41592-018-0235-4
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Project-URL: Docker Images, https://hub.docker.com/r/nipreps/fmriprep/tags/
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Project-URL: NiPreps, https://www.nipreps.org/
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Platform: UNKNOWN
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Classifier: Development Status :: 4 - Beta
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Classifier: Intended Audience :: Science/Research
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Classifier: Topic :: Scientific/Engineering :: Image Recognition
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Classifier: License :: OSI Approved :: Apache Software License
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Classifier: Programming Language :: Python :: 3.7
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Classifier: Programming Language :: Python :: 3.8
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Requires-Python: >=3.7
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Description-Content-Type: text/x-rst; charset=UTF-8
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Provides-Extra: datalad
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Provides-Extra: doc
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Provides-Extra: docs
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Provides-Extra: duecredit
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Provides-Extra: resmon
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Provides-Extra: sentry
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Provides-Extra: tests
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Provides-Extra: maint
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Provides-Extra: all
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License-File: LICENSE
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License-File: NOTICE
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Preprocessing of functional MRI (fMRI) involves numerous steps to clean and standardize
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the data before statistical analysis.
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Generally, researchers create ad hoc preprocessing workflows for each dataset,
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building upon a large inventory of available tools.
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The complexity of these workflows has snowballed with rapid advances in
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acquisition and processing.
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fMRIPrep is an analysis-agnostic tool that addresses the challenge of robust and
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reproducible preprocessing for task-based and resting fMRI data.
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fMRIPrep automatically adapts a best-in-breed workflow to the idiosyncrasies of
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virtually any dataset, ensuring high-quality preprocessing without manual intervention.
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fMRIPrep robustly produces high-quality results on diverse fMRI data.
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Additionally, fMRIPrep introduces less uncontrolled spatial smoothness than observed
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with commonly used preprocessing tools.
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fMRIPrep equips neuroscientists with an easy-to-use and transparent preprocessing
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workflow, which can help ensure the validity of inference and the interpretability
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of results.
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The workflow is based on `Nipype <https://nipype.readthedocs.io>`_ and encompases a large
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set of tools from well-known neuroimaging packages, including
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`FSL <https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>`_,
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`ANTs <https://stnava.github.io/ANTs/>`_,
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`FreeSurfer <https://surfer.nmr.mgh.harvard.edu/>`_,
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`AFNI <https://afni.nimh.nih.gov/>`_,
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and `Nilearn <https://nilearn.github.io/>`_.
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This pipeline was designed to provide the best software implementation for each state of
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preprocessing, and will be updated as newer and better neuroimaging software becomes
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available.
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fMRIPrep performs basic preprocessing steps (coregistration, normalization, unwarping, noise
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component extraction, segmentation, skullstripping etc.) providing outputs that can be
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easily submitted to a variety of group level analyses, including task-based or resting-state
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fMRI, graph theory measures, surface or volume-based statistics, etc.
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fMRIPrep allows you to easily do the following:
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* Take fMRI data from *unprocessed* (only reconstructed) to ready for analysis.
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* Implement tools from different software packages.
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* Achieve optimal data processing quality by using the best tools available.
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* Generate preprocessing-assessment reports, with which the user can easily identify problems.
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* Receive verbose output concerning the stage of preprocessing for each subject, including
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meaningful errors.
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* Automate and parallelize processing steps, which provides a significant speed-up from
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typical linear, manual processing.
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[Nat Meth doi:`10.1038/s41592-018-0235-4 <https://doi.org/10.1038/s41592-018-0235-4>`_]
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[Documentation `fmriprep.org <https://fmriprep.readthedocs.io>`_]
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[Software doi:`10.5281/zenodo.852659 <https://doi.org/10.5281/zenodo.852659>`_]
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[Support `neurostars.org <https://neurostars.org/tags/fmriprep>`_]
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License information
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-------------------
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*fMRIPrep* adheres to the
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`general licensing guidelines <https://www.nipreps.org/community/licensing/>`__
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of the *NiPreps framework*.
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License
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~~~~~~~
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Copyright (c) 2021, the *NiPreps* Developers.
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As of the 21.0.x pre-release and release series, *fMRIPrep* is
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licensed under the Apache License, Version 2.0 (the "License");
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you may not use this file except in compliance with the License.
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You may obtain a copy of the License at
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`http://www.apache.org/licenses/LICENSE-2.0
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<http://www.apache.org/licenses/LICENSE-2.0>`__.
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Unless required by applicable law or agreed to in writing, software
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distributed under the License is distributed on an "AS IS" BASIS,
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WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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See the License for the specific language governing permissions and
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limitations under the License.
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‎petprep.egg-info/SOURCES.txt‎

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CHANGES.rst
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LICENSE
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MANIFEST.in
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NOTICE
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README.rst
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pyproject.toml
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setup.cfg
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setup.py
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versioneer.py
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fmriprep/__about__.py
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fmriprep/__init__.py
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fmriprep/__main__.py
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fmriprep/_version.py
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fmriprep/_warnings.py
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fmriprep/config.py
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fmriprep.egg-info/PKG-INFO
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fmriprep.egg-info/SOURCES.txt
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fmriprep.egg-info/dependency_links.txt
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fmriprep.egg-info/entry_points.txt
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fmriprep.egg-info/requires.txt
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fmriprep.egg-info/top_level.txt
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fmriprep/cli/__init__.py
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fmriprep/cli/parser.py
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fmriprep/cli/run.py
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fmriprep/cli/version.py
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fmriprep/cli/workflow.py
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fmriprep/cli/tests/__init__.py
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fmriprep/cli/tests/test_parser.py
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fmriprep/cli/tests/test_version.py
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fmriprep/data/NOTICE
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fmriprep/data/affine.json
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fmriprep/data/bids.json
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fmriprep/data/boilerplate.bib
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fmriprep/data/fmap-any_registration.json
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fmriprep/data/fmap-any_registration_testing.json
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fmriprep/data/fmap_atlas.nii.gz
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fmriprep/data/fmap_atlas_2_MNI152NLin2009cAsym_affine.mat
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fmriprep/data/itkIdentityTransform.txt
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fmriprep/data/reports-spec.yml
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fmriprep/data/sub-01_run-01_echo-1_bold.nii.gz
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fmriprep/data/sub-01_run-01_echo-2_bold.nii.gz
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fmriprep/data/sub-01_run-01_echo-3_bold.nii.gz
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fmriprep/data/sub-01_run-01_optcomb.nii.gz
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fmriprep/data/sub-01_run-01_t2smap.nii.gz
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fmriprep/data/susceptibility_syn.json
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fmriprep/data/translation_rigid.json
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fmriprep/data/flirtsch/bbr.sch
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fmriprep/data/tests/config.toml
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fmriprep/data/tests/ds000005/CHANGES
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fmriprep/data/tests/ds000005/README
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fmriprep/data/tests/ds000005/dataset_description.json
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fmriprep/data/tests/ds000005/participants.tsv
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fmriprep/data/tests/ds000005/task-mixedgamblestask_bold.json
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fmriprep/data/tests/ds000005/sub-01/anat/sub-01_T1w.nii.gz
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fmriprep/data/tests/ds000005/sub-01/anat/sub-01_inplaneT2.nii.gz
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-01_bold.nii.gz
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-01_events.tsv
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-02_bold.nii.gz
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-02_events.tsv
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-03_bold.nii.gz
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fmriprep/data/tests/ds000005/sub-01/func/sub-01_task-mixedgamblestask_run-03_events.tsv
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fmriprep/interfaces/__init__.py
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fmriprep/interfaces/confounds.py
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fmriprep/interfaces/maths.py
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fmriprep/interfaces/multiecho.py
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fmriprep/interfaces/patches.py
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fmriprep/interfaces/reports.py
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fmriprep/interfaces/tests/__init__.py
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fmriprep/interfaces/tests/conftest.py
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fmriprep/interfaces/tests/test_confounds.py
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fmriprep/interfaces/tests/test_maths.py
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fmriprep/interfaces/tests/test_reports.py
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fmriprep/interfaces/tests/data/__init__.py
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fmriprep/reports/__init__.py
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fmriprep/reports/conftest.py
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fmriprep/reports/core.py
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fmriprep/tests/__init__.py
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fmriprep/tests/test_config.py
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fmriprep/tests/test_fsl6.py
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fmriprep/utils/__init__.py
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fmriprep/utils/bids.py
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fmriprep/utils/confounds.py
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fmriprep/utils/meepi.py
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fmriprep/utils/misc.py
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fmriprep/utils/sentry.py
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fmriprep/utils/testing.py
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fmriprep/workflows/__init__.py
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fmriprep/workflows/base.py
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fmriprep/workflows/tests.py
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fmriprep/workflows/bold/__init__.py
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fmriprep/workflows/bold/base.py
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fmriprep/workflows/bold/confounds.py
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fmriprep/workflows/bold/hmc.py
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fmriprep/workflows/bold/outputs.py
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fmriprep/workflows/bold/registration.py
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fmriprep/workflows/bold/resampling.py
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fmriprep/workflows/bold/stc.py
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fmriprep/workflows/bold/t2s.py
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fmriprep/workflows/bold/tests/__init__.py
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fmriprep/workflows/bold/tests/test_confounds.py

‎petprep.egg-info/dependency_links.txt‎

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‎petprep.egg-info/entry_points.txt‎

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[console_scripts]
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fmriprep = fmriprep.cli.run:main

‎petprep.egg-info/requires.txt‎

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nibabel>=3.0
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nipype>=1.5.1
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nitime
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nitransforms~=21.0.0
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niworkflows@ git+https://github.com/nipreps/niworkflows.git@master
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numpy
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packaging
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pandas
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psutil>=5.4
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pybids>=0.12.1
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requests
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sdcflows~=2.0.11
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smriprep~=0.8.0
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tedana~=0.0.9
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templateflow>=0.6
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toml
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[all]
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datalad
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pydot>=1.2.3
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pydotplus
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sphinx>=1.8
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sphinx-argparse
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sphinx_rtd_theme
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sphinxcontrib-napoleon
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duecredit
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fuzzywuzzy
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python-Levenshtein
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sentry-sdk~=1.3.0
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coverage
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codecov
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pytest
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pytest-cov
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pytest-env
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[datalad]
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datalad
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[doc]
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pydot>=1.2.3
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pydotplus
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sphinx>=1.8
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sphinx-argparse
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sphinx_rtd_theme
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sphinxcontrib-napoleon
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[docs]
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pydot>=1.2.3
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pydotplus
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sphinx>=1.8
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sphinx-argparse
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sphinx_rtd_theme
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sphinxcontrib-napoleon
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[duecredit]
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duecredit
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[maint]
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fuzzywuzzy
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python-Levenshtein
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[resmon]
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[sentry]
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sentry-sdk~=1.3.0
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[tests]
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coverage
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codecov
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pytest
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pytest-cov
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pytest-env

‎petprep.egg-info/top_level.txt‎

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fmriprep

‎petprep/.DS_Store‎

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‎petprep/__init__.py‎

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# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
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# vi: set ft=python sts=4 ts=4 sw=4 et:
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#
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# Copyright The NiPreps Developers <[email protected]>
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#
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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#
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# http://www.apache.org/licenses/LICENSE-2.0
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#
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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#
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# We support and encourage derived works from this project, please read
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# about our expectations at
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#
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# https://www.nipreps.org/community/licensing/
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#
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"""Top-module metadata."""
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try:
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from ._version import __version__
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except ImportError:
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__version__ = '0+unknown'

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