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rel(0.4.0): Update dependencies and CHANGES [skip ci]
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‎CHANGES.rst‎

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0.4.0 (TBD)
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===========
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0.4.0 (November 26, 2019)
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=========================
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A new 0.4.x series with a number of new features and bugfixes.
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* CI: Fix packaging test (#115) @effigies
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* CI: Optimize CircleCI using a local docker registry instead docker save/load (#136) @oesteban
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* CI: Run pytests on Python 3.7 for now (#133) @effigies
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* CI: Test packaging and update deploy_pypi step (#119) @effigies
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* DOC: Deploy docs to gh-pages from CircleCI - with versioning (#65) @rwblair
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* DOC: Minimal refactor preparing release (#140) @oesteban
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* DOC: Revise numpy docstrings so they are correctly rendered (#134) @oesteban
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* ENH: Add --fs-subjects-dir flag (#114) @effigies
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* ENH: Add a README.rst (#103) @oesteban
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* ENH: Add smriprep-docker wrapper (#118) @effigies
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* ENH: Decoupling anatomical reports (#112) @oesteban
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* ENH: Reduce friction when iterating over target templates (#111) @oesteban
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* ENH: Write out the fsnative-to-T1w transform (#113) @oesteban
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* FIX: Allow setting nonstandard spaces for parser (#141) @oesteban
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* FIX: Build smriprep-docker like fmriprep-docker (#138) @oesteban
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* FIX: Check template identifiers are valid early (#135) @oesteban
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* FIX: Normalization workflow API - provide bare template names (#139) @oesteban
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* FIX: Build ``smriprep-docker`` like ``fmriprep-docker`` (#138) @oesteban
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* FIX: Check template identifiers are valid early (#135) @oesteban
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* FIX: Re-organize FreeSurfer stages to avoid duplication and races (#117) @effigies
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* FIX: Revise naming of transforms when several T1w images are averaged (#106) @oesteban
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* FIX: Allow setting nonstandard spaces for parser (#141) @oesteban
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* ENH: Add ``--fs-subjects-dir`` flag (#114) @effigies
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* ENH: Add ``smriprep-docker`` wrapper (#118) @effigies
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* ENH: Add a ``README.rst`` (#103) @oesteban
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* ENH: Decoupling anatomical reports (#112) @oesteban
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* ENH: Reduce friction when iterating over target templates (#111) @oesteban
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* ENH: Write out the fsnative-to-T1w transform (#113) @oesteban
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* DOC: Minimal refactor preparing release (#140) @oesteban
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* DOC: Revise numpy docstrings so they are correctly rendered (#134) @oesteban
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* DOC: Deploy docs to gh-pages from CircleCI - with versioning (#65) @rwblair
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* CI: Optimize CircleCI using a local docker registry instead docker save/load (#136) @oesteban
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* CI: Run pytests on Python 3.7 for now (#133) @effigies
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* CI: Fix packaging test (#115) @effigies
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* CI: Test packaging and update deploy_pypi step (#119) @effigies
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* MAINT: Fine-tune versioning extension of sphinx (#121) @oesteban
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* MAINT: Refactoring inputs/outputs names and some stylistic changes (#108) @oesteban
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* MAINT: Resolve issues with working directory of ds005 on CircleCI (#110) @oesteban
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* PIN: niworkflows ~= 1.0.0rc1
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0.3.2 (September 9, 2019)
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=========================
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Bugfix patch-release
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* FIX: Render INU-corrected T1w in Segmentation reportlet (#102) @oesteban
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0.3.1 (July 21, 2019)
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=====================
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Minor release to update pinnings of niworkflows and TemplateFlow client.
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* PIN: niworkflows-0.10.1 and templateflow-0.4.1
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* CI: Fix PyPI deployment (#99) @effigies
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0.3.0 (July 12, 2019)
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=====================
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Minor release to allow dependent tools to upgrade to PyBIDS 0.9 series (minimum 0.9.2).
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We've also moved to a ``setup.cfg``-based setup to standardize configuration.
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0.2.4 (July 9, 2019)
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====================
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Several minor improvements on TemplateFlow integration.
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* ENH: Use proper resolution in anatomical outputs (#92) @oesteban
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0.2.3 (June 5, 2019)
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====================
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Enable CLI to set pediatric and infant templates for skull-stripping.
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* ENH: Allow template modifiers (a la ``--output-spaces``) in skull-stripping (#89) @oesteban
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0.2.2 (June 5, 2019)
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====================
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Enable latest templates added to TemplateFlow.
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* PIN: templateflow-0.3.0, which includes infant/pediatric templates (#88) @oesteban
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0.2.1 (May 6, 2019)
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===================
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Hotfix release improving the reliability of the brain extraction workflow.
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* FIX: Keep header consistency along anatomical workflow (#83) @oesteban
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0.2.0 (May 3, 2019)
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===================
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This new release of sMRIPrep adds the possibility of specifying several
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This new release of *sMRIPrep* adds the possibility of specifying several
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spatial normalization targets via the ``--output-spaces`` option drafted
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in `poldracklab/fmriprep#1588 <https://github.com/poldracklab/fmriprep/issues/1588>`__.
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* ENH: Force compression of derivative NIfTI volumes (#80) @effigies
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* DOC/STY: Fix documentation build, simplify (non)parametric output nodes (#79) @oesteban
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* FIX: Resolve behavior when deprecated ``--template`` is given (#77) @oesteban
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* FIX: Solved problems in report generation (#76) @oesteban
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* ENH: Force compression of derivative NIfTI volumes (#80) @effigies
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* ENH: Pull list of spatial normalization templates from TemplateFlow (#68) @oesteban
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* ENH: CLI uses ``pathlib.Path`` when possible (#73) @oesteban
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* ENH: Create a spatial normalization workflow (#72) @oesteban
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* ENH: Several improvements over the new spatial normalization workflow (#74) @oesteban
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* ENH: Support for multiple ``--output-spaces`` (#75) @oesteban
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* FIX: Solved problems in report generation (#76) @oesteban
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* DOC/STY: Fix documentation build, simplify (non)parametric output nodes (#79) @oesteban
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0.1.1 (March 22, 2019)
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======================
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* [ENH] Pure Nipype brain extraction workflow (#57) @oesteban
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* [ENH] Write metadata for anatomical outputs (#62) @oesteban
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* ENH: Pure Nipype brain extraction workflow (#57) @oesteban
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* ENH: Write metadata for anatomical outputs (#62) @oesteban
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0.1.0 (March 05, 2019)
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======================
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* [PIN] Niworkflows 0.8 and TemplateFlow 0.1 (#56) @oesteban
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* PIN: Niworkflows 0.8 and TemplateFlow 0.1 (#56) @oesteban
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0.0.5 (February 06, 2019)
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=========================
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* [MAINT] Update to keep up with poldracklab/niworkflows#299 (#51) @oesteban
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* MAINT: Update to keep up with poldracklab/niworkflows#299 (#51) @oesteban
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0.0.4 (January 25, 2019)
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========================
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* [DOC] Fix workflow hierarchy within docstrings so that fMRIPrep docs build (`0110ab2 <https://github.com/poldracklab/smriprep/commit/0110ab277faa525d60263ba085947ef1545898af>`__).
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* [ENH] Allow templates other than ``MNI152NLin2009cAsym`` (#47) @oesteban
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* ENH: Allow templates other than ``MNI152NLin2009cAsym`` (#47) @oesteban
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* DOC: Fix workflow hierarchy within docstrings so that fMRIPrep docs build (`0110ab2 <https://github.com/poldracklab/smriprep/commit/0110ab277faa525d60263ba085947ef1545898af>`__).
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0.0.3 (January 18, 2019)
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========================
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* [FIX] Add ``-cw256`` flag for images with FoV > 256 voxels (#36) @oesteban
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* [ENH] Integrate TemplateFlow to handle templates (#45) @oesteban
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* FIX: Add ``-cw256`` flag for images with FoV > 256 voxels (#36) @oesteban
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* ENH: Integrate TemplateFlow to handle templates (#45) @oesteban
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0.0.2 (January 8, 2019)
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========================
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* First functional version after forking from fMRIPrep

‎docs/requirements.txt‎

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git+https://github.com/AleksandarPetrov/napoleon.git@0dc3f28a309ad602be5f44a9049785a1026451b3#egg=sphinxcontrib-napoleon
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git+https://github.com/rwblair/sphinxcontrib-versioning.git@39b40b0b84bf872fc398feff05344051bbce0f63#egg=sphinxcontrib-versioning
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nbsphinx
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nipype>=1.3.0rc1
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niworkflows ~= 1.0.0rc1
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nipype>=1.3.1
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niworkflows ~= 1.0.0
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packaging
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pydot>=1.2.3
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pydotplus

‎setup.cfg‎

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lockfile
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matplotlib >= 2.2.0
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nibabel >= 2.2.1
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nipype >= 1.3.0-rc1
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niworkflows ~= 1.0.0rc1
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nipype >= 1.3.1
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niworkflows ~= 1.0.0
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numpy
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packaging
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pybids ~= 0.9.4

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