Release notes for DIPY version 0.16

GitHub stats for 2018/12/12 - 2019/03/10 (tag: 0.15.0)

These lists are automatically generated, and may be incomplete or contain duplicates.

The following 14 authors contributed 361 commits.

  • Ariel Rokem
  • Bramsh Qamar
  • Clément Zotti
  • Eleftherios Garyfallidis
  • Francois Rheault
  • Gabriel Girard
  • Jean-Christophe Houde
  • Jon Haitz Legarreta Gorroño
  • Katrin Leinweber
  • Kesshi Jordan
  • Parichit Sharma
  • Serge Koudoro
  • Shreyas Fadnavis
  • Yijun Liu

We closed a total of 103 issues, 41 pull requests and 62 regular issues; this is the full list (generated with the script tools/github_stats.py):

Pull Requests (41):

  • PR #1755: Bundle Analysis and Linear mixed Models Workflows
  • PR #1748: [REBASED ] Symmetric Diffeomorphic registration workflow
  • PR #1714: DOC: Add Cython style guideline for DIPY.
  • PR #1726: IVIM MIX Model (MicroLearn)
  • PR #1753: BF: Fixes #1751, by adding a scale key-word arg to decfa
  • PR #1743: Horizon
  • PR #1749: [Fix] Tutorial syntax
  • PR #1739: IVIM Workflow
  • PR #1695: A few tractometry functions
  • PR #1741: [Fix] Pre-build : From relative to absolute import
  • PR #1742: [REBASED] Apply Transform Workflow
  • PR #1745: Adjust number of threads for SLR in Recobundles
  • PR #1746: [DOC] Add NIH to sponsor list
  • PR #1735: [Rebase] Affine Registration Workflow with Supporting Quality Metrics
  • PR #1738: [FIX] Python 3 compatibility for some tools script
  • PR #1740: [FIX] mapmri with cvxpy 1.0.15
  • PR #1730: [Fix] Cython syntax error
  • PR #1666: Remove the points added oustide of a mask. Fix the related tests.
  • PR #1737: Doc Fix
  • PR #1733: Minor Doc Fix
  • PR #1732: MAIIncrement Python version for testing to 3.6
  • PR #1716: DOC: Add Imports section on package shorthands recommendations.
  • PR #1640: Workflows - Adding PFT, probabilistic, closestpeaks tracking
  • PR #1652: Switching tests to pytest
  • PR #1720: [WIP] DIPY Workshop link on current website
  • PR #1719: BF: Syntax fix example images not rendering
  • PR #1715: DOC: Avoid the bullet points being interpreted as quoted blocks.
  • PR #1706: BUG: Fix Cython one-liner non-trivial type declaration warnings.
  • PR #1705: BUG: Fix Numpy .random.random_integer deprecation warning.
  • PR #1704: DOC: Fix typo in linear_fascicle_evaluation.py script.
  • PR #1701: BUG: Fix Sphinx math notation documentation warnings.
  • PR #1707: BUG: Address numpy.matrix PendingDeprecation warnings.
  • PR #1703: BUG: Fix blank image being recorded at linear_fascicle_evaluation.py.
  • PR #1700: DOC: Use triple double-quoted strings for docstrings.
  • PR #1708: BF: Clip the values before passing to arccos, instead of fixing nans.
  • PR #1710: DOC: fix typo in instruction below sample snippet
  • PR #1702: BUG: Fix dipy.io.trackvis deprecation warnings.
  • PR #1697: Hyperlink DOIs to preferred resolver
  • PR #1696: Transfer release notes to a specific folder
  • PR #1690: Typo in release notes
  • PR #1693: Changed the GSoC conduction years

Issues (62):

  • #1757: NI Learn info from sensors designed to acseptible eeg format?
  • #1755: Bundle Analysis and Linear mixed Models Workflows
  • #1748: [REBASED ] Symmetric Diffeomorphic registration workflow
  • #1714: DOC: Add Cython style guideline for DIPY.
  • #1726: IVIM MIX Model (MicroLearn)
  • #1751: Scale values in decfa
  • #1753: BF: Fixes #1751, by adding a scale key-word arg to decfa
  • #1754: DeprecationWarning: This function is deprecated. Please call randint(0, 10000 + 1) instead C:UsersranjiAnaconda3libsite-packagesipykernel_launcher.py:14: DeprecationWarning: imsave is deprecated! imsave is deprecated in SciPy 1.0.0, and will be removed in 1.2.0. Use imageio.imwrite instead.
  • #1743: Horizon
  • #1749: [Fix] Tutorial syntax
  • #1616: Implementing the Diffeomorphic registration
  • #1739: IVIM Workflow
  • #1695: A few tractometry functions
  • #1741: [Fix] Pre-build : From relative to absolute import
  • #1742: [REBASED] Apply Transform Workflow
  • #1745: Adjust number of threads for SLR in Recobundles
  • #1746: [DOC] Add NIH to sponsor list
  • #1605: Cleaned PR for Apply Transform Workflow to quickly register a set of moving NIFTI images using a given affine matrix.
  • #1735: [Rebase] Affine Registration Workflow with Supporting Quality Metrics
  • #1738: [FIX] Python 3 compatibility for some tools script
  • #1740: [FIX] mapmri with cvxpy 1.0.15
  • #1730: [Fix] Cython syntax error
  • #1661: Local Tracking - BinaryTissueClassifier - dropping the last point
  • #1666: Remove the points added oustide of a mask. Fix the related tests.
  • #1737: Doc Fix
  • #1604: Cleaned PR for Affine Registration Workflow with Supporting Quality Metrics
  • #1734: Documentation Error
  • #1733: Minor Doc Fix
  • #1565: New warnings with PRE=1
  • #1732: MAIIncrement Python version for testing to 3.6
  • #1716: DOC: Add Imports section on package shorthands recommendations.
  • #1640: Workflows - Adding PFT, probabilistic, closestpeaks tracking
  • #1729: N3/N4 Bias correction?
  • #1652: Switching tests to pytest
  • #1280: Switch testing to pytest?
  • #1727: Upgrade Scipy for MIX framework?
  • #1723: Failure on
  • #1720: [WIP] DIPY Workshop link on current website
  • #1718: cannot import name window
  • #1719: BF: Syntax fix example images not rendering
  • #1717: cannot import packages of dipy.viz
  • #1715: DOC: Avoid the bullet points being interpreted as quoted blocks.
  • #1706: BUG: Fix Cython one-liner non-trivial type declaration warnings.
  • #1705: BUG: Fix Numpy .random.random_integer deprecation warning.
  • #1664: Deprecation warnings on testing
  • #1704: DOC: Fix typo in linear_fascicle_evaluation.py script.
  • #1701: BUG: Fix Sphinx math notation documentation warnings.
  • #1707: BUG: Address numpy.matrix PendingDeprecation warnings.
  • #1633: Blank png saved/displayed on documentation
  • #1703: BUG: Fix blank image being recorded at linear_fascicle_evaluation.py.
  • #1700: DOC: Use triple double-quoted strings for docstrings.
  • #1708: BF: Clip the values before passing to arccos, instead of fixing nans.
  • #1698: test failure in travis
  • #1710: DOC: fix typo in instruction below sample snippet
  • #1702: BUG: Fix dipy.io.trackvis deprecation warnings.
  • #1697: Hyperlink DOIs to preferred resolver
  • #1696: Transfer release notes to a specific folder
  • #1691: Doc folder for release notes
  • #1690: Typo in release notes
  • #1693: Changed the GSoC conduction years
  • #1692: Minor doc fix
  • #1632: Link broken on website