Release notes for Dipy version 0.11

GitHub stats for 2015/12/03 - 2016/02/21 (tag: 0.10)

The following 16 authors contributed 271 commits.

  • Ariel Rokem
  • Bago Amirbekian
  • Bishakh Ghosh
  • Eleftherios Garyfallidis
  • Gabriel Girard
  • Gregory R. Lee
  • Himanshu Mishra
  • Jean-Christophe Houde
  • Marc-Alexandre Côté
  • Matthew Brett
  • Matthieu Dumont
  • Omar Ocegueda
  • Sagun Pai
  • Samuel St-Jean
  • Stephan Meesters
  • Vatsala Swaroop

We closed a total of 144 issues, 55 pull requests and 89 regular issues; this is the full list (generated with the script tools/github_stats.py):

Pull Requests (55):

  • PR #933: Updating release dates
  • PR #925: fix typos
  • PR #915: BF: correct handling of output paths in dipy_quickbundles.
  • PR #922: Fix PEP8 in top-level tests
  • PR #921: fix typo
  • PR #918: Fix PEP8 in test_expectmax
  • PR #917: Website 0.11 update and more devs
  • PR #916: Getting website ready for 0.11 release
  • PR #914: DOC: Update release notes for 0.11
  • PR #910: Singleton sl vals
  • PR #908: Fix pep8 errors in viz
  • PR #911: fix typo
  • PR #904: fix typo
  • PR #851: Tissue Classifier tracking example - changed seeding mask to wm only voxels
  • PR #858: Updates for upcoming numpy 1.11 release
  • PR #856: Add reference to gitter chat room in the README
  • PR #762: Contextual enhancements of ODF/FOD fields
  • PR #857: DTI memory: use the same step in prediction as you use in fitting.
  • PR #816: A few fixes to SFM.
  • PR #811: Extract values from an image based on streamline coordinates.
  • PR #853: miscellaneous Python 3 compatibility problem fixes in fvtk
  • PR #849: nlmeans use num threads option in 3d
  • PR #850: DOC: fix typo
  • PR #848: DOC: fix typo
  • PR #847: DOC: fix typo
  • PR #845: DOC: Add kurtosis example to examples_index
  • PR #846: DOC: fix typo
  • PR #826: Return numpy arrays instead of memory views from cython functions
  • PR #841: Rename CONTRIBUTING to CONTRIBUTING.md
  • PR #839: DOC: Fix up the docstring for the CENIR data
  • PR #819: DOC: Add the DKI reconstruction example to the list of valid examples.
  • PR #843: Drop 3.2
  • PR #838: “Contributing”
  • PR #833: Doc: Typo
  • PR #817: RF: Convert nan values in bvectors to 0’s
  • PR #836: fixed typo
  • PR #695: Introducing workflows
  • PR #829: Fixes issue #813 by not checking data type explicitly.
  • PR #830: Fixed doc of SDT
  • PR #825: Updated toollib and doc tools (#802)
  • PR #760: NF - random seeds from mask
  • PR #824: Updated copyright to 2016
  • PR #815: DOC: The previous link doesn’t exist anymore.
  • PR #669: Function to reorient gradient directions according to moco parameters
  • PR #809: MRG: refactor and test setup.py
  • PR #821: BF: revert accidentally committed COMMIT_INFO.txt
  • PR #818: Round coords life
  • PR #797: Update csdeconv.py
  • PR #806: Relax regression tests
  • PR #814: TEST: compare array shapes directly
  • PR #808: MRG: pull in discarded changes from maintenance
  • PR #745: faster version of piesno
  • PR #807: BF: fix shebang lines for scripts
  • PR #794: RF: Allow setting the verbosity of the AffineRegistration while running it
  • PR #801: TST: add Python 3.5 to travis-ci test matrix

Issues (89):

  • #933: Updating release dates
  • #925: fix typos
  • #915: BF: correct handling of output paths in dipy_quickbundles.
  • #922: Fix PEP8 in top-level tests
  • #886: PEP8 in top-level tests
  • #921: fix typo
  • #918: Fix PEP8 in test_expectmax
  • #863: PEP8 in test_expectmax
  • #919: STYLE:PEP8 workflows
  • #896: STYLE: PEP8 for workflows folder
  • #917: Website 0.11 update and more devs
  • #900: SLR example needs updating
  • #906: Compiling the website needs too much memory
  • #916: Getting website ready for 0.11 release
  • #914: DOC: Update release notes for 0.11
  • #910: Singleton sl vals
  • #908: Fix pep8 errors in viz
  • #890: PEP8 in viz
  • #911: fix typo
  • #905: math is broken in doc
  • #904: fix typo
  • #851: Tissue Classifier tracking example - changed seeding mask to wm only voxels
  • #858: Updates for upcoming numpy 1.11 release
  • #856: Add reference to gitter chat room in the README
  • #762: Contextual enhancements of ODF/FOD fields
  • #857: DTI memory: use the same step in prediction as you use in fitting.
  • #816: A few fixes to SFM.
  • #898: Pep8 #891
  • #811: Extract values from an image based on streamline coordinates.
  • #892: PEP8 workflows
  • #894: PEP8 utils
  • #895: PEP8 Tracking
  • #893: PEP8 Viz
  • #860: Added Travis-CI badge
  • #692: Refactor fetcher.py
  • #742: LinAlgError on tracking quickstart, with python 3.4
  • #822: Could you help me ? “URLError:<urlopen error [Errno 10060]>”
  • #840: Make dti reconst less memory hungry
  • #855: 0.9.3rc
  • #853: miscellaneous Python 3 compatibility problem fixes in fvtk
  • #849: nlmeans use num threads option in 3d
  • #850: DOC: fix typo
  • #848: DOC: fix typo
  • #153: DiffusionSpectrumModel assumes 1 b0 and fails with data with more than 1 b0
  • #93: GradientTable mask does not account for nan’s in b-values
  • #665: Online tutorial of quickbundles does not work for released version on macosx
  • #758: One viz test still failing on mac os
  • #847: DOC: fix typo
  • #845: DOC: Add kurtosis example to examples_index
  • #846: DOC: fix typo
  • #826: Return numpy arrays instead of memory views from cython functions
  • #841: Rename CONTRIBUTING to CONTRIBUTING.md
  • #839: DOC: Fix up the docstring for the CENIR data
  • #842: New pip fails on 3.2
  • #819: DOC: Add the DKI reconstruction example to the list of valid examples.
  • #843: Drop 3.2
  • #838: “Contributing”
  • #833: Doc: Typo
  • #817: RF: Convert nan values in bvectors to 0’s
  • #836: fixed typo
  • #695: Introducing workflows
  • #829: Fixes issue #813 by not checking data type explicitly.
  • #805: Multiple failures on Windows Python 3.5 build
  • #802: toollib and doc tools need update to 3.5
  • #812: Python 2.7 doctest failures on 64-bit Windows
  • #685: (WIP) DKI PR5 - NF: DKI-ODF estimation
  • #830: Fixed doc of SDT
  • #825: Updated toollib and doc tools (#802)
  • #760: NF - random seeds from mask
  • #824: Updated copyright to 2016
  • #666: Parallelized local tracking branch so now you can actually look at my code :)
  • #815: DOC: The previous link doesn’t exist anymore.
  • #747: TEST: make test faster
  • #631: NF - multiprocessing multi voxel fit
  • #669: Function to reorient gradient directions according to moco parameters
  • #809: MRG: refactor and test setup.py
  • #820: dipy.get_info() returns wrong commit hash
  • #821: BF: revert accidentally committed COMMIT_INFO.txt
  • #818: Round coords life
  • #810: Wrong input type for _voxel2stream on 64-bit Windows
  • #803: Windows 7 Pro VM Python 2.7 gives 5 test errors with latest release 0.10.1
  • #797: Update csdeconv.py
  • #806: Relax regression tests
  • #814: TEST: compare array shapes directly
  • #808: MRG: pull in discarded changes from maintenance
  • #745: faster version of piesno
  • #807: BF: fix shebang lines for scripts
  • #794: RF: Allow setting the verbosity of the AffineRegistration while running it
  • #801: TST: add Python 3.5 to travis-ci test matrix