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0.1.3 (October 15, 2019) | ||
======================== | ||
1.0.0 (November 25, 2019) | ||
========================= | ||
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* CI: Add check to avoid deployment of documentation from forks (#48) | ||
* CI: Fix CircleCI builds by adding a [refresh workdir] commit message tag (#47) | ||
* CI: Optimize CircleCI using a local docker registry instead docker save/load (#45) | ||
* DOC: Fix typo and link to BIDS Specification (#49) | ||
* DOC: Build API documentation (#43) | ||
* ENH: Base implementation for phase1/2 fieldmaps (#60) | ||
* ENH: Update ``spatialimage.get_data()`` -> ``spatialimage.get_fdata()`` (#58) | ||
* ENH: Refactor fieldmap-unwarping flows, more homogeneous interface (#56) | ||
* ENH: Transparency on fieldmap plots! (#57) | ||
* ENH: Stop using siemens2rads from old nipype workflows (#50) | ||
* ENH: Refactor the distortion estimation workflow (#53) | ||
* ENH: Deduplicating magnitude handling and fieldmap postprocessing workflows (#52) | ||
* ENH: Do not use legacy demean function from old nipype workflows (#51) | ||
* ENH: Revise and add tests for the PEPOLAR correction (#29) | ||
* ENH: Improved fieldmap reportlets (#28) | ||
* ENH: Set-up testing framework (#27) | ||
* MAINT: Housekeeping - flake8 errors, settings, etc. (#44) | ||
* MAINT: Rename boldrefs to distortedrefs (#41) | ||
* MAINT: Use niflow-nipype1-workflows for old nipype.workflows imports (#39) | ||
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Pre-1.0.0 releases | ||
================== | ||
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0.1.4 (November 22, 2019) | ||
------------------------- | ||
A maintenance release to pin niworkflows to version 1.0.0rc1. | ||
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Adapts SDCflow to the separation of workflows from Nipype 1. | ||
0.1.3 (October 15, 2019) | ||
------------------------ | ||
Adapts *SDCflows* to the separation of workflows from Nipype 1. | ||
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* MAINT: pin `niflow-nipype1-workflows`, `nipype` and update corresponding imports. | ||
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0.1.2 (October 10, 2019) | ||
======================== | ||
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------------------------ | ||
BAD RELEASE -- DO NOT USE | ||
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0.1.1 (July 23, 2019) | ||
===================== | ||
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--------------------- | ||
Minor fixup of the deploy infrastructure from CircleCI | ||
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* MAINT: Add manifest including versioneer (#25) @effigies | ||
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0.1.0 (July 22, 2019) | ||
===================== | ||
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First version working with fMRIPrep v1.4.1. | ||
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--------------------- | ||
First version working with *fMRIPrep* v1.4.1. |
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Library API (application program interface) | ||
=========================================== | ||
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Information on specific functions, classes, and methods. | ||
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.. toctree:: | ||
:glob: | ||
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api/sdcflows.interfaces | ||
api/sdcflows.viz | ||
api/sdcflows.workflows |
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----------- | ||
What's new? | ||
----------- | ||
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.. include:: ../CHANGES.rst |
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.. toctree:: | ||
:maxdepth: 3 | ||
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api/sdcflows | ||
installation | ||
api | ||
changes |
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.. include:: links.rst | ||
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Installation | ||
============ | ||
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Make sure all of *SDCflows*' `External Dependencies`_ are installed. | ||
These tools must be installed and their binaries available in the | ||
system's ``$PATH``. | ||
A relatively interpretable description of how your environment can be set-up | ||
is found in the `Dockerfile <https://github.com/poldracklab/sdcflows/blob/master/Dockerfile>`_. | ||
As an additional installation setting, FreeSurfer_ requires a license file. | ||
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On a functional Python 3.5 (or above) environment with ``pip`` installed, | ||
*SDCflows* can be installed using the habitual command :: | ||
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$ python -m pip install sdcflows | ||
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Check your installation with the following command line :: | ||
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$ python -c "from sdcflows import __version__; print(__version__)" | ||
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External Dependencies | ||
--------------------- | ||
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The *SDCflows* are written using Python 3.5 (or above), and are based on | ||
nipype_. | ||
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*SDCflows* require some other neuroimaging software tools that are | ||
not handled by the Python's packaging system (Pypi) used to deploy | ||
the ``sdcflows`` package: | ||
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- FSL_ (version 5.0.9) | ||
- ANTs_ (version 2.2.0 - NeuroDocker build) | ||
- AFNI_ (version Debian-16.2.07) | ||
- FreeSurfer_ (version 6.0.1) |
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.. _Nipype: http://nipype.readthedocs.io/en/latest/ | ||
.. _BIDS: http://bids.neuroimaging.io | ||
.. _Installation: installation.html | ||
.. _workflows: workflows.html | ||
.. _FSL: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/ | ||
.. _ANTs: https://stnava.github.io/ANTs/ | ||
.. _AFNI: https://afni.nimh.nih.gov/ | ||
.. _FreeSurfer: https://surfer.nmr.mgh.harvard.edu/ |