GitHub stats for 2015/03/18 - 2015/11/19 (tag: 0.9.2) These lists are automatically generated, and may be incomplete or contain duplicates. The following 20 authors (alphabetically ordered) contributed 1022 commits: Alexandre Gauvin Ariel Rokem Bago Amirbekian David Qixiang Chen Dimitris Rozakis Eleftherios Garyfallidis Gabriel Girard Gonzalo Sanguinetti Jean-Christophe Houde Marc-Alexandre Côté Matthew Brett Mauro Zucchelli Maxime Descoteaux Michael Paquette Omar Ocegueda Oscar Esteban Rafael Neto Henriques Rohan Prinja Samuel St-Jean Stefan van der Walt We closed a total of 232 issues, 94 pull requests and 138 regular issues;
this is the full list (generated with the script
Pull Requests (94): PR #769: RF: Remove aniso2iso altogether. PR #772: DOC: Use xvfb when building the docs in a headless machine. PR #754: DOC: Should we add a side-car gitter chat to the website? PR #753: TST: Test DSI with b0s. PR #767: Offscreen is False for test_slicer PR #768: Document dipy.reconst.dti.iter_fit_tensor params PR #766: Add fit_tensor iteration decorator PR #751: Reorient tracks according to ROI PR #765: BF: Typo in data file name. PR #757: Optimize dipy.align.reslice PR #587: Fvtk 2.0 PR1 PR #749: Fixed deprecation warning in skimage PR #748: TST: added test for _to_voxel_tolerance. PR #678: BF: added tolerance for negative streamline coordinates checks PR #714: RF: use masks in predictions and cross-validation PR #739: Set number of OpenMP threads during runtime PR #733: Add RTOP, RTAP and RTPP and the relative test PR #743: BF: memleaks with typed memory views in Cython PR #724: @sinkpoint’s power map - refactored PR #741: ENH: it is preferable to use choice rather than randint to not have PR #727: Optimize tensor fitting PR #726: NF - CSD response from a mask PR #729: BF: tensor predict PR #736: Added installation of python-tk package for VTK travis bot PR #735: Added comment on nlmeans example about selecting one volume PR #732: WIP: Test with vtk on Travis PR #731: Np 1.10 PR #640: MAPMRI PR #682: Created list of examples for available features and metrics PR #716: Refactor data module PR #699: Added gaussian noise option to estimate_sigma PR #712: DOC: API changes in gh707. PR #713: RF: In case a user just wants to use a single integer. PR #700: TEST: add tests for AffineMap PR #677: DKI PR3 - NF: Adding standard kurtosis statistics on module dki.py PR #721: TST: Verify that output of estimate_sigma is a proper input to nlmeans. PR #572: NF : nlmeans now support arrays of noise std PR #708: Check for bval dimensionality on read. PR #707: BF: Keep up with changes in scipy 0.16 PR #709: DOC: Use the identity variable in the resampling transformation. PR #703: Fix syn-3d example PR #705: Fix example in function compress_streamline PR #635: Select streamlines based on logical operations on ROIs PR #702: BF: Use only validated examples when building docs. PR #689: Streamlines compression PR #698: DOC: added NI citation PR #681: RF + DOC: Add MNI template reference. Also import it into the dipy.da… PR #696: Change title of piesno example PR #691: CENIR ‘HCP-like’ multi b-value data PR #661: Test DTI eigenvectors PR #690: BF: nan entries cause segfault PR #667: DOC: Remove Sourceforge related makefile things. Add the gh-pages upl… PR #676: TST: update Travis config to use container infrastructure. PR #533: MRG: some Cython refactorings PR #686: BF: Make buildbot Pyhon26-32 happy PR #683: Fixed initial estimation in piesno PR #654: Affine registration PR 3/3 PR #684: BF: Fixed memory leak in QuickBundles. PR #674: NF: Function to sample perpendicular directions relative to a given vector PR #679: BF + NF: Provide dipy version info when running dipy.get_info() PR #680: NF: Fetch and Read the MNI T1 and/or T2 template. PR #664: DKI fitting (DKI PR2) PR #671: DOC: move mailing list links to neuroimaging PR #663: changed samuel st-jean email to the usherbrooke one PR #648: Improve check of collinearity in vec2vec_rotmat PR #582: DKI project: PR#1 Simulations to test DKI PR #660: BF: If scalar-color input has len(shape)<4, need to fill that in. PR #612: BF: Differences in spherical harmonic calculations wrt scipy 0.15 PR #651: Added estimate_sigma bias correction + update example PR #659: BF: If n_frames is larger than one use path-numbering. PR #658: FIX: resaved npy file causing load error for py 33 PR #657: Fix compilation error caused by inline functions PR #628: Affine registration PR 2/3 PR #629: Quickbundles 2.1 PR #637: DOC: Fix typo in docstring of Identity class. PR #639: DOC: Render the following line in the code cell. PR #614: Seeds from mask random PR #633: BF - no import of TissueTypes PR #632: fixed typo in dti example PR #627: BF: Add missing opacity property to point actor PR #626: Use LooseVersion to check for scipy versions PR #625: DOC: Include the PIESNO example. PR #624: DOC: Corrected typos in Restore tutorial and docstring. PR #619: DOC: Added missing contributor to developer list PR #618: Update README file PR #616: Raise ValueError when invalid matrix is given PR #576: Piesno example PR #615: bugfix for double word in doc example issue #387 PR #610: Added figure with HBM 2015 PR #609: Update website documentation PR #607: DOC: Detailed github stats for 0.9 PR #606: Removed the word new PR #605: Release mode: updating Changelog and Authors PR #594: DOC + PEP8: Mostly just line-wrapping. Issues (138): #769: RF: Remove aniso2iso altogether. #772: DOC: Use xvfb when building the docs in a headless machine. #754: DOC: Should we add a side-car gitter chat to the website? #771: Should we remove the deprecated quickbundles module? #753: TST: Test DSI with b0s. #761: reading dconn.nii #723: WIP: Assign streamlines to an existing cluster map via QuickBundles #738: Import tkinter #767: Offscreen is False for test_slicer #752: TST: Install vtk and mesa on Travis to test the fvtk module. #768: Document dipy.reconst.dti.iter_fit_tensor params #763: Tensor Fitting Overflows Memory #766: Add fit_tensor iteration decorator #751: Reorient tracks according to ROI #765: BF: Typo in data file name. #764: 404: Not Found when loading Stanford labels #757: Optimize dipy.align.reslice #587: Fvtk 2.0 PR1 #286: WIP - FVTK refactor/cleanup #755: dipy.reconst.tests.test_shm.test_sf_to_sh: TypeError: Cannot cast ufunc add output from dtype(‘float64’) to dtype(‘uint16’) with casting rule ‘same_kind’ #749: Fixed deprecation warning in skimage #748: TST: added test for _to_voxel_tolerance. #678: BF: added tolerance for negative streamline coordinates checks #714: RF: use masks in predictions and cross-validation #739: Set number of OpenMP threads during runtime #733: Add RTOP, RTAP and RTPP and the relative test #743: BF: memleaks with typed memory views in Cython #737: Possibly set_number_of_points doesn’t delete memory #672: Power map #724: @sinkpoint’s power map - refactored #741: ENH: it is preferable to use choice rather than randint to not have #730: numpy 1.10 breaks master #727: Optimize tensor fitting #726: NF - CSD response from a mask #729: BF: tensor predict #736: Added installation of python-tk package for VTK travis bot #735: Added comment on nlmeans example about selecting one volume #732: WIP: Test with vtk on Travis #734: WIP: Fvtk 2.0 with travis vtk support #688: dipy.test() fails on centos 6.x / python2.6 #731: Np 1.10 #725: WIP: TST: Install vtk on travis with conda. #640: MAPMRI #611: OSX test fail ‘we check the default value of lambda …’ #715: In current segment_quickbundles tutorial there is no example for changing number of points #719: Fixes #715 #682: Created list of examples for available features and metrics #716: Refactor data module #699: Added gaussian noise option to estimate_sigma #712: DOC: API changes in gh707. #713: RF: In case a user just wants to use a single integer. #700: TEST: add tests for AffineMap #677: DKI PR3 - NF: Adding standard kurtosis statistics on module dki.py #721: TST: Verify that output of estimate_sigma is a proper input to nlmeans. #693: WIP: affine map tests #694: Memory errors / timeouts with affine registration on Windows #572: NF : nlmeans now support arrays of noise std #708: Check for bval dimensionality on read. #697: dipy.io.gradients read_bvals_bvecs does not check bvals length #707: BF: Keep up with changes in scipy 0.16 #710: Test dipy.core.tests.test_sphere.test_interp_rbf fails fails on Travis #709: DOC: Use the identity variable in the resampling transformation. #649: ROI seeds not placed at the center of the voxels #656: Build-bot status #701: Changes in syn_registration_3d example #703: Fix syn-3d example #705: Fix example in function compress_streamline #704: Buildbots failure: related to streamline compression? #635: Select streamlines based on logical operations on ROIs #702: BF: Use only validated examples when building docs. #689: Streamlines compression #698: DOC: added NI citation #621: piesno example not rendering correctly on the website #650: profiling hyp1f1 #681: RF + DOC: Add MNI template reference. Also import it into the dipy.da… #696: Change title of piesno example #691: CENIR ‘HCP-like’ multi b-value data #661: Test DTI eigenvectors #690: BF: nan entries cause segfault #667: DOC: Remove Sourceforge related makefile things. Add the gh-pages upl… #676: TST: update Travis config to use container infrastructure. #533: MRG: some Cython refactorings #686: BF: Make buildbot Pyhon26-32 happy #622: Fast shm from scipy 0.15.0 does not work on rc version #683: Fixed initial estimation in piesno #233: WIP: Dki #654: Affine registration PR 3/3 #684: BF: Fixed memory leak in QuickBundles. #674: NF: Function to sample perpendicular directions relative to a given vector #679: BF + NF: Provide dipy version info when running dipy.get_info() #680: NF: Fetch and Read the MNI T1 and/or T2 template. #664: DKI fitting (DKI PR2) #539: WIP: BF: Catching initial fodf creation of SDT #671: DOC: move mailing list links to neuroimaging #663: changed samuel st-jean email to the usherbrooke one #287: Fvtk sphere origin #648: Improve check of collinearity in vec2vec_rotmat #582: DKI project: PR#1 Simulations to test DKI #660: BF: If scalar-color input has len(shape)<4, need to fill that in. #612: BF: Differences in spherical harmonic calculations wrt scipy 0.15 #651: Added estimate_sigma bias correction + update example #659: BF: If n_frames is larger than one use path-numbering. #652: MAINT: work around scipy bug in sph_harm #653: Revisit naming when Matthew is back from Cuba #658: FIX: resaved npy file causing load error for py 33 #657: Fix compilation error caused by inline functions #655: Development documentation instructs to remove master #628: Affine registration PR 2/3 #629: Quickbundles 2.1 #638: tutorial example, code in text format #637: DOC: Fix typo in docstring of Identity class. #639: DOC: Render the following line in the code cell. #614: Seeds from mask random #633: BF - no import of TissueTypes #632: fixed typo in dti example #630: Possible documentation bug (?) #627: BF: Add missing opacity property to point actor #459: streamtubes opacity kwarg #626: Use LooseVersion to check for scipy versions #625: DOC: Include the PIESNO example. #623: DOC: Include the PIESNO example in the documentation. #624: DOC: Corrected typos in Restore tutorial and docstring. #619: DOC: Added missing contributor to developer list #604: Retired ARM buildbot #613: Possible random failure in test_vector_fields.test_reorient_vector_field_2d #618: Update README file #616: Raise ValueError when invalid matrix is given #617: Added build status icon to readme #576: Piesno example #615: bugfix for double word in doc example issue #387 #600: Use of nanmean breaks dipy for numpy < 1.8 #610: Added figure with HBM 2015 #609: Update website documentation #390: WIP: New PIESNO example and small corrections #607: DOC: Detailed github stats for 0.9 #606: Removed the word new #605: Release mode: updating Changelog and Authors #594: DOC + PEP8: Mostly just line-wrapping.Release notes for DIPY version 0.10
tools/github_stats.py):