GitHub stats for 2017/10/24 - 2018/05/01 (tag: 0.13.0) These lists are automatically generated, and may be incomplete or contain duplicates. The following 24 authors contributed 645 commits. Ariel Rokem Bago Amirbekian Bennet Fauber Conor Corbin David Reagan Eleftherios Garyfallidis Gabriel Girard Jean-Christophe Houde Jiri Borovec Jon Haitz Legarreta Gorroño Jon Mendoza Karandeep Singh Juneja Kesshi Jordan Kumar Ashutosh Marc-Alexandre Côté Matthew Brett Nil Goyette Pradeep Reddy Raamana Ricci Woo Serge Koudoro Shreyas Fadnavis Aman Arya Mauro Zucchelli We closed a total of 215 issues, 70 pull requests and 145 regular issues;
this is the full list (generated with the script
Pull Requests (70): PR #1504: Fix test_whole_brain_slr precision PR #1503: fix plotting issue on Mapmri example PR #1424: ENH: Use the CFIN dataset rather than the CENIR dataset. PR #1502: [DOC] Fix doc generation PR #1498: BF: fix bug in example of segment_quickbundles.py PR #1431: NF - Bootstrap Direction Getter (cythonized) PR #1443: RecoBundles - recognition of bundles PR #1398: Deform streamlines PR #1447: DOC: Link Coding Style Guide ref in CONTRIBUTING to the website. PR #1423: DOC: Fix reconst_mapmri example markup. PR #1493: Fix surface rendering bugs in VTK8 PR #1497: BF: fix bug in example of fiber_to_bundle_coherence.py PR #1496: BF: fix bug in example of streamline_tools.py PR #1495: BF: fix bug in example of sfm_reconst.py PR #1494: BF: fix bug in example of reconst_csd.py PR #1474: DOC: Fix typo on website & examples PR #1471: Code Cleaning PR #1457: Fix for “Sliders in examples don’t react properly to clicks” PR #1491: Fix documentation typos PR #1468: DOC: correct error when doing ‘make html’ PR #1484: DOC: Use the correct punctuation marks for et al.. PR #1475: Refactor demon registration - _iterate PR #1482: DOC: Fix typo in test_mapmri.py file. PR #1460: Fix for “DiskSlider does not rotate actor in opposite direction” PR #1452: actor.slicer.copy() copies opacity set via actor.slicer.opacity() PR #1466: DOC: Limit the DIPY logo height in README for better rendering. PR #1464: DOC: Use the correct DIPY logo as the banner in README. PR #1465: Fixed the Progit book link in doc PR #1451: DOC: Add the DIPY banner to the README file. PR #1379: New streamlines API integration on dipy examples PR #1445: repr and get methods for AffineMap, w/ precise exceptions PR #1450: [Fix] Manage multiple space delimiter PR #1425: DOC: Add different GitHub badges to the README.rst file. PR #1446: DOC: Fix bad hyperlink format to CONTRIBUTING.md from README.rst. PR #1437: DOC: Fix missing reference to QuickBundles paper. PR #1440: Raise Error when MDFmetric is used in QB or QBX PR #1428: Mapmri workflow rebased PR #1385: Enh textblock PR #1422: [MRG] Improves delimiter in read_bvals_bvecs PR #1434: QuickBundlesX PR #1430: BF - replaced non-ascii character in workflows/reconst.py PR #1421: DOC: Fix reStructuredText formatting issues in coding style guideline. PR #1416: Updated links PR #1413: BF::Fix inspect.getargspec deprecation warning in Python 3 PR #1393: Adds a DKI workflow. PR #1294: Suppress a warning in geometry. PR #1419: Suppress rcond warning PR #1358: Det track workflow rebased (merge) PR #1384: NF - Particle Filtering Tractography (merge) PR #1411: Added eddy_rotated_bvecs extension PR #1407: [MRG] Default colormap changed in examples PR #1408: Updated color map in reconst_csa.py and reconst_forecast.py PR #1406: [MRG] assert_true which checks for equality replaced with assert_equal PR #1347: Replacing fvtk by the new viz API PR #1322: Forecast PR #1326: BUG: Fix factorial import module in test_mapmri.py. PR #1400: BF: fixes #1399, removing an un-needed singleton dimension. PR #1391: Re-entering conflict-free typos from deleted PR 1331 PR #1386: Possible fix for the inline compilation problem PR #1165: Make vtk contour take an affine PR #1300: RF: Remove patch for older numpy ravel_multi_index. PR #1381: DOC - re-orientation of figures in the DKI example PR #1375: Fix piesno type PR #1342: Cythonize DirectionGetter and whatnot PR #1378: Fix: numpy legacy print again… PR #1377: FIX: update printing format for numpy 1.14 PR #1374: FIX: Viz test correction PR #1368: DOC: Update developers’ affiliations. PR #1370: TST - add tracking tests for PeaksAndMetricsDirectionGetter PR #1369: MRG: add procedure for building, uploading wheels Issues (145): #1504: Fix test_whole_brain_slr precision #1418: Adding parallel_voxel_fit decorator #1503: fix plotting issue on Mapmri example #1291: Existing MAPMRI tutorial does not render correctly and MAPL looks hidden in the existing tutorial. #1424: ENH: Use the CFIN dataset rather than the CENIR dataset. #1502: [DOC] Fix doc generation #1498: BF: fix bug in example of segment_quickbundles.py #1431: NF - Bootstrap Direction Getter (cythonized) #1443: RecoBundles - recognition of bundles #644: Dipy visualization: it does not seem possible to position tensor ellipsoid slice in fvtk #1398: Deform streamlines #1447: DOC: Link Coding Style Guide ref in CONTRIBUTING to the website. #1423: DOC: Fix reconst_mapmri example markup. #1493: Fix surface rendering bugs in VTK8 #1490: Streamtube visualization problem with vtk 8.1 #1469: Errors in generating documents (.rst) of examples #1497: BF: fix bug in example of fiber_to_bundle_coherence.py #1496: BF: fix bug in example of streamline_tools.py #1495: BF: fix bug in example of sfm_reconst.py #1494: BF: fix bug in example of reconst_csd.py #1474: DOC: Fix typo on website & examples #1485: BF: Fix bug in example of segment_quickbundles.py #1483: BF: Fix bug in example of fiber_to_bundle_coherence.py #1480: BF: Fix bug in example of streamline_tool.py #1479: BF: Fix bug in example of sfm_reconst.py #1477: BF: Fix bug in example of reconst_csd.py #1448: Enh ui components positioning #1471: Code Cleaning #1481: BF: Fix bug of no attribute ‘GlobalImmediateModeRenderingOn’ in actor.py #1454: Sliders in examples don’t react properly to clicks #1457: Fix for “Sliders in examples don’t react properly to clicks” #1491: Fix documentation typos #1468: DOC: correct error when doing ‘make html’ #1467: Error on “from dipy.core.gradients import gradient_table” #1488: Unexpected behavior in the DIPY workflow script #1484: DOC: Use the correct punctuation marks for et al.. #1475: Refactor demon registration - _iterate #1482: DOC: Fix typo in test_mapmri.py file. #1478: DOC: Add comment about package CVXPY in example of reconst_mapmri.py #1476: BF: Fix bug in example of reconst_csd.py #1470: simplify SDR iterate #1458: DiskSlider does not rotate actor in opposite direction #1460: Fix for “DiskSlider does not rotate actor in opposite direction” #1452: actor.slicer.copy() copies opacity set via actor.slicer.opacity() #1438: actor.slicer.copy() doesn’t copy opacity if set via actor.slicer.opacity() #1473: Uploading Windows wheels #1466: DOC: Limit the DIPY logo height in README for better rendering. #1472: Invalid dims failure in 32-bit Python on Windows #1464: DOC: Use the correct DIPY logo as the banner in README. #1462: Logo/banner on README not the correct one! #1461: Broken link in Documentation: Git Resources #1465: Fixed the Progit book link in doc #1463: Fixed the Progit book link in the docs #1455: Using pyautogui to adapt to users’ monitor size in viz examples #1459: Fix for “DiskSlider does not rotate actor in opposite direction” #1456: Fix for “Sliders in examples don’t react properly to clicks” #1453: changed window.record() to a large value #1451: DOC: Add the DIPY banner to the README file. #1379: New streamlines API integration on dipy examples #1339: Deprecate dipy.io.trackvis? #1445: repr and get methods for AffineMap, w/ precise exceptions #1441: Cleaning UI and improving positioning of Panel2D #1450: [Fix] Manage multiple space delimiter #1449: read_bvals_bvecs crash with bvec rotated eddy #1425: DOC: Add different GitHub badges to the README.rst file. #1446: DOC: Fix bad hyperlink format to CONTRIBUTING.md from README.rst. #1437: DOC: Fix missing reference to QuickBundles paper. #1371: Quickbundles tutorials miss reference #1362: Make more use of TextBlock2D constructor #1440: Raise Error when MDFmetric is used in QB or QBX #1395: Mapmri workflow #1428: Mapmri workflow rebased #1385: Enh textblock #1436: Fixed delimiter issue #1417 #1422: [MRG] Improves delimiter in read_bvals_bvecs #1417: Improve delimiter on read_bvals_bvecs() #1435: compilation failed with the new cython version (0.28) #1439: BF: Avoid using memview in struct (Cython 0.28) #1434: QuickBundlesX #1184: Bootstrap direction getter #1380: WIP: QuickBundlesX #1429: BUG - SyntaxError (Non-ASCII character ‘xe2’ in file dipy/workflows/reconst.py on line 596 #1430: BF - replaced non-ascii character in workflows/reconst.py #1421: DOC: Fix reStructuredText formatting issues in coding style guideline. #1390: coding_style_guideline.rst does not render correctly #1427: Add delimiter to read_bvals_bvecs() #1426: Add delimiter parameter to numpy.loadtxt #1416: Updated links #987: Practical FAQs don’t have hyperlinks to modules/libraries. #1327: Fix inspect.getargspec deprecation warning in Python 3 #1413: BF::Fix inspect.getargspec deprecation warning in Python 3 #1393: Adds a DKI workflow. #1294: Suppress a warning in geometry. #1181: peaks warning while CSD reconstructing #1419: Suppress rcond warning #1150: Line-based version of streamline_mapping #1358: Det track workflow rebased (merge) #1384: NF - Particle Filtering Tractography (merge) #1409: create documentation in multiple languages #1415: NF: check compiler flags before compiling #1117: .eddy_rotated_bvecs file throws error from io.gradients read_bvals_bvecs function #1411: Added eddy_rotated_bvecs extension #1412: BF:Fix inspect.getargspec deprecation warning in Python 3 #791: Possible divide by zero in reconst.sfm.py #1410: BF: Added .eddy_rotated_bvecs extension support #1407: [MRG] Default colormap changed in examples #1403: Avoid promoting jet color map in examples #1408: Updated color map in reconst_csa.py and reconst_forecast.py #1406: [MRG] assert_true which checks for equality replaced with assert_equal #1387: Assert equality, instead of asserting that a == b is true #1405: Error using CSD model on data #1347: Replacing fvtk by the new viz API #1402: [Question] rint() or round() #1321: mapfit_laplacian_aniso (high non-Gaussianity, NG values in CSF) #1161: fvtk volume doesn’t handle affine (crashes notebook) #1394: Deprecation warning in newer versions of scipy, because scipy.misc is going away #1382: is there any defined function that reads locally stored data or is all downloaded? I refer to nii or nifti files #1322: Forecast #1326: BUG: Fix factorial import module in test_mapmri.py. #1399: New test errors on Python 3 Travis bots #1400: BF: fixes #1399, removing an un-needed singleton dimension. #1350: WIP: Add mapmri flow #1392: Gitter chat box not visible on chrome? #1391: Re-entering conflict-free typos from deleted PR 1331 #1331: Update gradients_spheres.py #1388: Mapmri workflow #1386: Possible fix for the inline compilation problem #1165: Make vtk contour take an affine #1340: NF - Particle Filtering Tractography #1383: Mmriflow #1299: test_rmi on 32 bit: invalid dims: array size defined by dims is larger than the maximum possible size. #1300: RF: Remove patch for older numpy ravel_multi_index. #1381: DOC - re-orientation of figures in the DKI example #1301: Brains need re-orientation in plotting in DKI example #1375: Fix piesno type #1342: Cythonize DirectionGetter and whatnot #1378: Fix: numpy legacy print again… #1376: New test failures with pre-release numpy #1377: FIX: update printing format for numpy 1.14 #1343: ActiveAx model fitting using MIX framework #1374: FIX: Viz test correction #1282: Tests fail on viz module #1368: DOC: Update developers’ affiliations. #1370: TST - add tracking tests for PeaksAndMetricsDirectionGetter #1369: MRG: add procedure for building, uploading wheelsRelease notes for DIPY version 0.14
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