[skimage] annotated tag debian/0.10.1-1 created (now 9ea956b)
Andreas Tille
tille at debian.org
Fri Dec 23 08:22:10 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a change to annotated tag debian/0.10.1-1
in repository skimage.
at 9ea956b (tag)
tagging 6e24c58d964c03a977ec79b3f814c461b90d748e (commit)
replaces debian/0.9.3-4
tagged by Yaroslav Halchenko
on Wed Aug 27 04:03:49 2014 -0400
- Log -----------------------------------------------------------------
skimage Debian release 0.10.1-1
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Almar Klein (16):
Make mcp evolution algorithm a bit more readable.
Improve speed of MPC by about 30%
MCP: turn while loop into for loop to prevent infinite looping.
MCP: add sampling attribute: deal with anisotropic data.
MCP: refactored to use typed memoryviews
update-mcp: Refactor MCP algorithm in prep for MCP subclasses
update-mcp: Add MCP_Connect class
update-mcp: Add MCP_Flexible subclass.
update-mcp: Small fix.
update-mcp: Change when examine_neighbors is called.
update-mcp: add new MCP classes to skimage.graph namespace
update-mcp: added tests for newly added features.
update-mcp: improvements to docstrings.
update-mcp: add tests for MCP_Flexible
Update MCP: Put back the traceback() method.
PEP8 stuff.
Andreas Mueller (2):
FIX add missing min_size parameter, add regression test.
slight performance improvement.
Ankit Agrawal (80):
Quick initial implementation of ORB descriptor in Python
Quick Python implementation of FAST corner detector
Implemented FAST corner detector
Adding docstrings and commenting the code
Adding high speed test for n>=12
Making various minor optimizations
Transferring all the FAST code to corner.py and corner_cy.pyx
Using inline function in corner_cy._corner_fast
Deleting FAST files
Converting image to float
Adding additional parameter for setting shape for Non-max suppression
Wrapping lines; returning corner_response at a pixel
Returning the corner response
More optimizations
Quick initial implementation of ORB descriptor in Python
Quick Python implementation of FAST corner detector
Implemented FAST corner detector
Adding docstrings and commenting the code
Adding high speed test for n>=12
Making various minor optimizations
Transferring all the FAST code to corner.py and corner_cy.pyx
Using inline function in corner_cy._corner_fast
Deleting FAST files
Converting image to float
Adding additional parameter for setting shape for Non-max suppression
Wrapping lines; returning corner_response at a pixel
Returning the corner response
More optimizations
More clear docs; Wiki reference; removing rebase leftover
Implemented corner_fast_orientation function
Using Py_ssize_t and np.intp for cfast_corners
Adding tests for corner_fast and corner_fast_orientation
Speeding up corner_fast_orientation
Speeding up corner_fast_implementation : 2
Adding an example; removing redundant stuff and more
Making changes in test_corner
Making the example more explicit
Inserting corners in the corner_orientaions example
Implementing keypoints_orb without using Harris response
Returning best_keypoints
Docstrings; Stacking lists; removing redundancy in corner_orientations
Adding explicit test for corner_orientations
Implementing descriptor_orb; for loop in Cython
Returning keypoints; Adding docstrings
Minor doc change
Better naming of arguments
Writing better Cython code
Stacking lists in descriptos_orb
Adding example in descriptor_orb
Converting descriptors dtype to bool
Minor optimizations; Renaming variables; Docstring corrections
Adding square examples in keypoints_orb, descriptor_orb
Introducing the _prepare_grayscale_input_2D function in feature.util
Making pos0 and pos1 as global variables
Fixing the import issue
Better wrapping of lines; making ofast_mask a global constant
Improved match_binary_descriptors function
ORB matching example
Minor code changes; Explicit docs
Changing values of default parameters and OFAST_MASK
Correcting the orientation bug
Making matching graphics more clear
Documenting the example code
Minor doc change
Minor doc changes
Incorporating mat_binary_descriptors changes in test_brief
tests for match_binary_descriptors; many corrections and changes
Cleaning util.py
Adding tests for orb; fixing some bugs
Fix missing import
Absolute path fix
Introducing recarray for storing keypoint variables
Made recarray changes in docstrings and tests
Extending recarray changes to BRIEF
Incorporating recarray changes to match.py
Made recarray changes in the brief docstring
Recarray changes made in example
Correcting the strides of response in _filter_image
Fix regionprops doc typo
Adding test to check Censure works on any 2D shape
Christoph Deil (1):
Some improvements to new deconvolution code
François Boulogne (26):
DOC: remove deprecated paramter
DOC: viewer: some corrections
MAINT: populate __init__.py
MAINT: remove 2 weird lines
MAINT: remove blank lines
TEST: add test on step
DOC: specify range for step
TEST: add unittest about ValueError
MAINT: use asset_allclose instead of round
remove extra )
remove '' around ValueError
MIN: typo
DOC: typo
PEP8
FIX bug #832 + testcase
MAINT: python3 compat.
MAINT: use region.bbox
MAINT: use region.area
DOC: simplify the code (Thx Stefan)
update info about PIL
forgot a aword
add step 4: review
Stefan's comments
Add Juan's comments
Merge pull request #3 from stefanv/contributing
fix typo
François Orieux (44):
Add deconvolution module to skimage.
Rename test to tests
Remove anfft and fftw dependency
Use assert_allclose for testing.
Remove __author__ line and add in CONTRIBUTORS.txt
Change copyright to scikit-image team
Add a small note explaining the wiener filter.
Add pdf paper
Inline crandn function.
Whitespace...
Fix the bad results of unsupervised deconvolution.
Typo fix.
Add test for Richardson Lucy.
Add the reference image for Richardson Lucy test.
Fix example.
Fix relative uft import for travis-ci pass
You shall not pass !
Use skimage.img_as_float for travis-ci test
Diminish rtol to 1e-5 for travis-ci
rtol to 1e-3 for travis-ci.
Rename deconvolution to restoration
Fix test_restoration.py rename.
Fix skimage/setup.py
Typo and doc fixs.
Fix doctest
Fix circshift. Rename wiener.py to deconvolution (no API change).
Small cleanup, keywords changes.
PR review.
Blank line remove
Docstring convention about "Input image".
Remove import numpy from docstring doctest
PR fixs.
Fix iscomplex to iscomplexobj. Replace circshift with numpy roll.
Add doctest to uft.
Change example scaling. Fix ref in doc.
Better handle of non real case. Some docstring fix.
Better docstring. Better test coverage.
Add tests, coverage improvement.
Fix travis test
Fix python3 test and real values image.
Docstring fix. Clip parameter addition.
Remove own licence for skimage licence
Update test file because of the new clip param default to True
Remove credit field (and others). Pep8 small fix.
Gregor Thalhammer (18):
unwrap: initial commit
unwrap: compiles, test passes
unwrap: cleanups
unwrap: compiles ok
unwrap: moved global variables (wrap_around) to params struct
unwrap: implemented wrap_around arguments
unwrap: changed mask values to numpy.ma convention
unwrap: variable renaming
unwrap: accept (and return if given) an masked array as input argument
unwrap: added original 3D unwrapped code
unwrap: moved pure python code from unwrap2D.pyx to unwrap.py, allocate output array in pure python
unwrap: removed use of global variables
unwrap: added 3D unwrapping (untested)
unwrap: unified 2d-3d interface, 2d tested ok,
unwrap: 3d tested ok
unwrap: made it compile with MSVC (but crashes), still ok with gcc
unwrap: added numpy test cases
unwrap: add unwrap.py to python modules in setup.py
Guillem Palou (4):
Enforce SLIC superpixels connectivity
Changed SLIC superpixels so that connectivity is enforced optionally.
Added max_size as a parameter
Changed tests to begin segment label at 1 instead of 0
Guillem Palou Visa (8):
Changed coding style to be compliant with PEP8
Fixing some code, minor revision
Changed variable names for readbility, fixed PEP8 compliance
fixing tests
Merge branch 'slic-connectivity' of https://github.com/guillempalou/scikit-image into slic-connectivity
Labels start at 0, for backward compatibility
Fixed minor documentation issues
Added deprecation warning
JDWarner (4):
ENH: Add `doctest_skip_parser` allowing conditional skipping of doctests
FIX: New versions of FreeImage report software as "I", not "ImageMagick ..."
FIX: Skip `viewer.show()` commands which hang Travis
FIX: Specify field index for Python 2.6 compatible use of str.format()
Jaidev Deshpande (1):
Fix typo in docstring
Jeremy Metz (4):
QH6228 Bug fix - remove offset from coords
Added new convex_hull_image qhull test
Removed trailing whitespaces
Fixed PEP8 spaces
Johannes L. Schönberger (9):
Merge pull request #970 from stefanv/doc/peak_local_max
Merge pull request #978 from jni/more-deprecations
Merge pull request #930 from vighneshbirodkar/doh
Merge pull request #973 from stefanv/coveralls_other
Merge pull request #971 from stefanv/bug/views_are_copies
Merge pull request #997 from stefanv/build/travis_numpy_py3
Merge pull request #984 from JDWarner/randwalk_trivialcheck
Merge pull request #1004 from jni/viewer-examples
Merge pull request #992 from stefanv/warp_safe_output_shape
Johannes Schönberger (300):
Fix bug in homography detection
Explicitly cast image shape to integer value
Add some more comments
Re-enable clipping which was accidentally removed
Do not derive piecewise affine from projective transform
Merge pull request #600 from tonysyu/novice-package
Merge pull request #807 from josteinbf/regionprops-label-sequence
Add rank filter tests as data dir
Fix 16bit rank filter test in python 3.x
Merge pull request #801 from stefanv/six_external
Add make instruction for doctest
Let travis run doctests
Fix corner doc tests
Fix corner_subpix function for corners near border
Add example for corner_subpix function
Fix doctest of remove_small_objects
Fix watershed doctest
Fix hough_line_peaks doctest
Fix block_reduce doctest
Fix RANSAC doctest
Use NORMALIZE_WHITESPACE directive for block_reduce doctest
Fix montage2d doctest
Remove plotter from doctest and use comparison to np.histogram instead
Fix precision of output in hough_line_peaks doctest
Install nose from PyPI
Remove unnecessary coverage directive
Install PyQt4 for doctests
Install Cython from apt
Fix PyQt4 for python 3
Install xserver
Install Cython via pip
Use xvfb rather than xorg
Do not change into a separate directory for testing
Build extensions in-place
Fix duplicate percentile names rank namespace
Fix duplicate find_contours names in namespace
Remove numpy prefix from pad function examples
Skip ransac doctests
Only build in-place
Update bento.info
Fix novice doctests
Fix multi image doctest
Explicitly cast window extent to integer for python 3
Fix novice doctest
Fix corner_foerstner doctest
Fix python 3 syntax error
Also run doc tests for files with a leading underscore
Temporarily disable brief test cases and ignore test files with a leading underscore
Fix rank order doc test
Fix marching_cubes doctest
Fix regionprops doctest
Fix medial_axis and skeletonize doctests
Fix geometric doctests
Fix downscale_local_means doctest
Fix hough_line_peaks doctest
Fix data type issue in python 3
Improve usage of doctest directives
Use a better way to comment out the brief examples temporarily
Revert ellipsis to skip directive
Use travis-ci python config
Discard pip installation and install matplotlib from PyPI
Simplify travis config
Touch non-existent matplotlibrc
Fix matplotlibrc configuration
Add python 2.6 and 3.3 environments
Remove python 2.6 and 3.3
Cast label_field to integer dtype for float intput
Fix label2rgb bug
Fix misspelled sections
Fix doc string syntax errors
Reduce runtime of daisy visualization test case
Reduce runtime of radon test cases
Explicitly set sigma value to 0 to avoid warning
Skip show commands for doc tests
Add note about disabled doctests
Enable doc tests of ransac function
Add doctest function to skimage
Use skimage test functions instead of nose commandline
Add --exe directive to doc test
Return correct exit code for tests
Make sure stdlib io is not shadowed by skimage.io
Skip failing ransac doctest
Reduce runtime of long doctests
Fix indentation
Use explicit interger division
Merge pull request #819 from stefanv/coverall_support
Merge pull request #804 from tonysyu/viewer-color-hist-fix
Remove duplicate greycomatrix function definitions
Add test case for *_boundaries functions
Test invalid inplace operation
Add missing deprecation removal to todo
Add missing deprecation removal to todo
Add test case for union of heterogenous tform types
Add test cases for abstract geometric base class
Test invalid input
Test scale determination for 0 rotation
Add missing test coverage of polynomial tform
Add test case for estimate_transform
Add matrix_transform function to namespace
Deprecate reverse_map parameter and add to future removal list
Add test case for invalid image dimensions
Fix bug in inverse warping and add test case
Rename test to enable hidden line model test
Increase test coverage of regionprops
Add test for invalid parameter combination
Add test case for eps corner_harris method
Add test for mask output of corner_peaks
Add missing removal of deprecated function to todo
Add test for negative input image
Add test for neggative gamma parameter
Add test case for explicit use of radii and sigmas parameters
Fix error in line model test
Merge pull request #827 from stefanv/coveralls_nomain
Merge pull request #821 from JDWarner/add_conditional_doctest_decorator
Fix some performance regressions in Cython implementation of FAST
Fix some performance regressions in Cython implementation of FAST
Fix invalid circle coordinates
Fix some performance regressions in Cython implementation of FAST
Fix some performance regressions in Cython implementation of FAST
Fix invalid circle coordinates
Transform corner_fast_orientations for application to arbitrary corner types
Move FAST corner function to other corner functions
Make structure tensor function public and add function to compute hessian matrix
Add missing imports
Add test cases for structure tensor and hessian matrix functions
Add functions to compute eigen values of structure tensor and hessian matrix
Add examples for structure tensor and hessian matrix functions
Add test cases for eigen value functions of structure tensor and hessian matrix
Miscellaneous fixes and improvements
Finish create_keypoint_recarray helper function
Improve BRIEF and various tweaks
Improve FAST example output
Add comments to FAST implementation
Improve corner_orientations example output
Implement object oriented interface for BRIEF
Reactive BRIEF test cases
Add test case for border keypoints
Improve example output of corner_moravec
Implement CenSurE detector in object oriented interface
Refactor ORB
Refactor match_descriptors and fix small bugs in ORB
Use dynamic pad-width for arbitrary mask shapes
Fix test cases
Update bento.info
Fix legacy import
Update BRIEF example
Add example to ORB doc string
Add note about usage of ORB
Add example to doc string of CenSurE
Fix corner doctests
Add test cases for feature utilities
Fix imports for Python 3
Add test for unsupported mode
Add short description to ORB example
Add convenience function for plotting matches
Use new plot_matches function for plot_matching example script
Remove prints in test function
Fix wrong parameter name in doc string
Convert shape to list to allow for in place modification
Add example script for BRIEF
Add example script for CenSurE
Improve layout of gabor example plot
Fix and improve circular hough hough transform example script
Fix overlapping text
Fix overlapping text
Improve local otsu example script
Fix overlapping xtick labels
Show hidden text
Improve ssim example
Attempt to fix Python 3 error
Add tests for plot_matches
Fix parameter list in doc string of plot_matches
Combine match indices in one array
Recover hidden test cases caused by duplicate function names
Speedup corner orientations
Fix plot_matching example
Add missing plot directive
Fix description
Fix typo
Add missing optional description for kwargs
Fix bug in array padding, template matching
Fix doctests
Update arraypad tests
Add support for 3-D template matching
Reuse 2D sum in 3D sum
Add tests for 3-D template matching
Add tests for wrong input shapes
Move inlined function definitions to header for actual inlining
Fix doc tests
Avoid temporary array allocations
Add missing bracket in doc tests
Re-order input checks
Fix test case
Fix ndim test
Improve description of match_template
Refactor final slicing
Add test for reflected padding
Fix and improve doc string
Merge pull request #852 from jni/rgrid-int-steps
Merge pull request #844 from odebeir/add_rank_sum
Improve doc strings of generic rank filters
Improve doc strings of bilateral rank filters
Improve doc strings of percentile rank filters
Fix pop_bilateral doc test
Clarify that it is the local histogram
Readd note about overflow
Use 2 empty lines between functions
Merge pull request #860 from jaidevd/jd_skimeasure_typo
Add note about dtype overflow
Fix input test of template matching
Merge pull request #843 from tonysyu/refactor/io
Merge pull request #831 from astrofrog/use-cythonize
Merge pull request #857 from guillempalou/slic-connectivity
Save feature information in attributes for consistency
Use public attribute for parameter values
Use public attribute for parameter values
Add tests for deprecated attributes
Remove wrong comment location
Fix typo
Use None as default for estimated params
Use consistent params_ attribute across all estimators
Fix match tests
Fix geometric example
Fix BRIEF doc test
Get rid of trailing underscore for params attribute
Document params attribute for each class
Fix and improve BRIEF example
Improve ORB example
Improve BRIEF doc string
Get rid of trailing underscores
Fix parameter notation in doc string
Rename CenSurE to CENSURE
Fix match tests
Fix ORB example script
Merge pull request #870 from stefanv/bugs/windows-round
Merge pull request #887 from stefanv/docs/gh-pages
Implement missing max_distance parameter
Merge pull request #889 from sciunto/tuto
Remove six copy in _shared as it is a required dependency
Fix peak_local_max doc string
Add test case for 3D images
Add test case for 4D images
Merge pull request #911 from cgohlke/patch-5
Merge pull request #910 from cgohlke/patch-4
Merge pull request #908 from cgohlke/patch-2
Merge pull request #909 from cgohlke/patch-3
Merge pull request #912 from cgohlke/patch-6
Fix warp doctest and example
Fix regular grid doctest
Always Skip doctests which depend on Qt and are in the class doc string
Improve function name in warp example
Move phase unwrapping algorithms to restoration submodule
Move denoise functions to restoration submodule
Fix restoration example imports
Update bento
Add denoise deprecation removal to TODO.txt
Merge pull request #882 from JDWarner/correct_mesh_orientation
Extract changes by @synesthesiam in PR #797
Upgrade numpydoc to version 0.4
Merge pull request #947 from stefanv/build/contribs
Merge pull request #948 from stefanv/bug/plot_matches-cmap-interp
Merge pull request #957 from sciunto/fixdoc
Merge pull request #946 from synesthesiam/master
Warn about matplotlib backend in skimage.viewer
Merge pull request #960 from sciunto/doc_enhan
Temporarily remove video plugin
Update subpackage descriptions
Homogenize subpackage description
Document removed skimage.io.video in API changes
Merge pull request #956 from vighneshbirodkar/issue945
Remove deprecated skimage.exposure.exposure
Remove deprecated skimage.morphology.greyscale_*
Remove deprecated skimage.segmentation.visualize_boundaries
Remove legacy todo item for BRIEF, which has been addressed
Remove deprecated skimage.filter.median_filter
Remove deprecated logger function in skimage/__init__.py
Remove backwards-compatability of skimage.measure.regionprops
Use new regionprops interface in hough_line_peaks
Use new equalize_hist function in rank filter example
Fix deprecation warnings in matching example
Fix deprecation warnings
Update rank filter example
Fix novice doc test
Remove print statement
Fix cython compilation warnings
Fix custom six issue in scipy 0.14 on python 3.4
Test invalid input for seed
Test invalid input for selem
Add full test coverage for corner_subpix and fix bug
Test union of differing geometric transforms
Test 90deg rotation for similarity transform
Fix docstring of skimage.filter.rank.threshold_percentile
Test invalid input for unwrap_phase
Comment special case when local patch around is constant
Improve description of subpixel corner localization
Move removal of deprated functionality by one version
Set version 0.10
Add 0.10 to docs
Change to http git protocol
Update release instructions for building docs
Josh Warner (4):
Merge pull request #847 from ahojnnes/template
Merge pull request #907 from cgohlke/patch-1
Merge pull request #926 from sivapvarma/plt-subplots-examples
Merge pull request #991 from stefanv/apigen_origin_license
Josh Warner (Mac) (23):
FEAT: Add function to correct mesh face orientations
Add correct_mesh_orientation to skimage.measure imports
DOC: correct misspelling in comment
TST: Add unit test for mesh orientation correction.
FIX: Slight speed decrease for backwards compatibility
FIX: correct other instance of np.linalg.norm, clarify comments
DOC: Clarify UMFPACK warning; use if statements instead of assert
FIX: Shortcut output or catch trivial cases in random_walker
TST: Add unit test for length-2 spacing with rank-2 input
STY: More elegant and maintainable style per code review
FEAT: Shared function for safe int casting
Remove check for non-numeric values in spacing.
Convert name to _safe_as_int, output np.int64, expand Examples
FIX: Remove unnecessary .transpose introduced in PR #984
failUnless -> assertTrue
FIX: Address non-int DeprecationWarning from NumPy
FIX: Non-integer indexing deprecation warnings
Fix documentation, handle internal variable more efficiently.
Remove incorrect np.round statement (directly cast `m`)
Use safe_as_int for input checking.
Merge branch 'master' of git://github.com/scikit-image/scikit-image into int_idx_patch
Remove unnecessary double import.
FIX: Use //= instead of /= to fix deprecation warnings in adapthist
Jostein Bø Fløystad (62):
Bug: Fix label sequence in regionprops.
unwrap: Move files to skimage directory tree.
unwrap: Delete old setup script.
unwrap: Remove executable bit.
unwrap: Rename cython files to skimage conventions.
unwrap: Add setup script to build extensions.
unwrap: Use new imports in python module.
Make unwrap visible in the exposure package.
unwrap: refactor tests.
unwrap: Whitespace fixes.
unwrap: Move imports to module level.
unwrap: Fix whitespace in c code.
unwrap: Add unfinished docstrings.
unwrap: Refactor wrap_around argument.
unwrap: Refactor to skimage-style variable names.
unwrap: Add docstring.
Add example for phase unwrapping.
unwrap: Use relative imports
unwrap: Correct use of relative imports.
unwrap: Format references correctly.
unwrap: Remove plotting code.
unwrap: Add citation for 3D.
unwrap: reformat references
unwrap: Remove unused imports
unwrap: Simplify handling of masked arrays.
unwrap: Test wrap_around functionality.
unwrap: Refactor and fix wrap around functionality.
unwrap: Whitespace fixes and comment removal.
unwrap: rename cython functions.
unwrap: PEP8 fixes for cython extensions.
unwrap: rename variables in cython extensions
unwrap: Update bento.info.
unwrap: Python 3 compatibility.
unwrap: PEP8 fixes.
unwrap: Reduce duplication in tests.
unwrap: Reduce code duplication.
unwrap: Make sure test data wraps along all dimensions.
unwrap: Delete "example" from the test file.
unwrap: Add test for unwrapping masked images.
unwrap: Simplify example.
unwrap: PEP8 fixes.
unwrap: Small style-like fixes.
unwrap: Rename function unwrap() -> unwrap_phase().
unwrap: Warn about singleton dimensions in 3D arrays.
unwrap: Add docstring example.
unwrap: Rename C files.
unwrap: Add naive 1D unwrapper.
unwrap: Use constants from math.h in C code.
unwrap: Convert 2D C code from float to double.
unwrap: Use UNIX line endings.
unwrap: Change 2D wrapper code from float to double.
unwrap: Change 3D C code from float to double.
unwrap: Change 3D wrapper code from float to double.
unwrap: Change 1D unwrapper from float to double.
unwrap: Simplify code after completing float->double.
unwrap example: cleanup.
unwrap example: Mention dimensionalities available.
unwrap example: Include masking and wrap around.
unwrap tests: PEP8 fixes.
unwrap: Do not include debug symbols in extension builds.
Less verbose entry in CONTRIBUTORS.
Add contributors for phase unwrapping.
Juan Nunez-Iglesias (68):
Modify mpl_image_to_rgba to allow RGB input image
Add plugin return values for ImageViewer
Allow OverlayPlugin to return the current overlay
Incorporate @tonysyu's suggestions re:docstrings
Add output for color histogram plugin
Merge pull request #839 from rtack/match_template_DOC
Explicity cast start, step to int in regular_grid
Merge pull request #856 from ahojnnes/rank-sum
Merge pull request #862 from tonysyu/refactor/imread_collection
Add profile_line to measure package
Use the new profile_line function from `measure`
Change profile line API to use src and dst points
Update lineprofile plugin to use new API
rename x-y to col-row to be less ambiguous
Merge pull request #864 from romaniukm/slico-rebase
Update _calc_vert for simplicity
Return 1D array for single channel images
Allow multichannel images with >3 channels
Fix doctest string and output shape
Reparameterize profile_line to avoid the _calc_vert hack
Update interactive lineprofile tool to new API
Simplify parameters even more
Add 'order' kwarg for interpolation in profile_line()
Polish coordinate system
Add numerous (14) tests for profile_line()
Remove unnecessary if clause
Change default interpolation order to 1
Output line drawing and scan data from plugin
Update docstring according to @stefanv's comments
Merge pull request #873 from jmetz/convex_hull_image_qhull_precision_fix
Merge pull request #875 from blink1073/lineprofile-overlay
Merge pull request #886 from stefanv/bug/pil-fromstring_to_bytes
Merge pull request #846 from stefanv/coverage-oneversiononly
Merge pull request #897 from tonysyu/named-rescale_intensity-params
Merge pull request #913 from jaimefrio/quicker-sort
Merge pull request #932 from sciunto/weird
Merge pull request #934 from sciunto/coverage2
Merge pull request #963 from tonysyu/feature/tinting-example
Merge pull request #964 from ahojnnes/submods
Merge pull request #968 from sciunto/req
Remove deprecated `ratio` keyword in SLIC
Remove deprecated sigma default warning in SLIC
Remove SLIC deprecations for 0.10 from TODO.txt
Remove 'ratio' kwarg from SLIC example
Remove is_gray and is_rgb
Remove finished entry from TODO.txt
Remove all deprecated rank filter functions
Remove removing deprecated rank functions in to-do
Remove deprecated parameter in LineProfile
Remove another finished line from todo
Change default mode cascade in random_walker seg
Remove deprecated depth parameter in random_walker
Remove `depth` from random_walker tests
Remove deprecated bullet point about deprecations
Merge pull request #972 from stefanv/test/travis_warnings
Remove deprecated function from applications
Fix `plot_segmentations` example text for SLIC
Update viewer example to use plugin outputs
Update lineprofile examples to use returned output
Update plugin class doc example to use output
Update Canny examples
Merge pull request #1001 from JDWarner/rw_transpose
Update variable name for RGB line profile
Merge pull request #1002 from JDWarner/asserttrue
Update description of viewer output in docs
Very minor text change
Merge pull request #1006 from stefanv/doc/regionprop_out
Merge pull request #1003 from JDWarner/join_dep_warning
Julian Taylor (1):
improve performance of equalize example
Matthew Trentacoste (9):
Luv colorspace conversions
Adding references regarding Lab and Luv spaces to docstring
Removing unneeded division checking code
renaming machineEps to eps to match convention
flake8-compliant formatting
Cleaning up docstrings
docstring changes to correctly format input/output, clarifying XYZ and reference white
Adding note for Luv colorspace to top docstring
Merge pull request #1 from stefanv/luv-colorspace
Maximilian Albert (1):
Fix copy/paste error in docstring.
Michael Hansen (16):
Added novice submodule after rebase
Novice module can open images from a url
Switching to RGBA
Fixed Python 3 import errors, added alpha and rgba properties
Trying to get imports working with both Python 2 and 3
Merge branch 'master' of https://github.com/scikit-image/scikit-image
Fixed import of urlparse and rebase on upstream
Removed extraneous trys for six imports
Merged with upstream
Merged with master
Merge branch 'master' of https://github.com/scikit-image/scikit-image
Merge branch 'master' of https://github.com/scikit-image/scikit-image
Merged with ahojnnes novice
Merge branch 'master' of https://github.com/scikit-image/scikit-image
Merge branch 'master' of https://github.com/scikit-image/scikit-image
Convert incoming novice images to ubyte
Michal Romaniuk (5):
Added SLIC-zero to SLIC and changed SLIC implementation slightly
Bug fix: removed temporary debug code
Merged the separate loops for SLIC-zero and SLIC into one, and some minor improvements based on feedback on Github.
Some changes based on feedback from discussion on Github.
Added a test for slic_zero and some other changes based on feedback from Github.
Neeraj Gangwar (13):
added a functionality to fetch images from URL in _novice.py
added description and exmaple for new functionality
changed test url in example for the Picture(object)
changed the method of checking if a string is URL
added a dummy useragent in Picture class while fetching image
changed urlparse library from six.moves.urllib_parse
corrected syntax for error handling while fetching image from
changed the method of fetching images in Picture class
removed unnecessary imports from _novice.py
made minor changes in syntax
corrected the formula to calculate the location of
minor changes in syntax in _glcm_loop method.
added testcases for greycomatrix
Olivier Debeir (11):
add rank filter sum
shorten line
fix:rank.sum docstring
fix:rank.sum docstring
fix:rank.sum docstring
fix:indent
add:rank.sum_percentile
add:rank.sum_bilateral
fix:rank.sum docstrings
fix:docstring in sum_bilateral
fix:rtank.__init__
Pietro Berkes (3):
Fix LBP variance calculation.
Fix random seed for test stability.
No need to take the center of the results twice.
Raphael Ackermann (1):
changing docstring to make clear that only 2-D images are currently supported
Rishabh Raj (31):
Adds functionality to generate ipython notebooks for the gallery examples
Fixes for making code more pythonic, follow conventions
added Notebook class for creating IPython notebooks, better name for main object variable
fixes use of camel case
added newline at end of file
moves everything related to generating the IPython notebook, to a different file
updated import statement for creating ipython notebooks, better name in place for jsonify
adds documentation
removes redundant passing of an extra parameter
Fix PEP8
Fix camel case, more descriptive function name
Fix typo, better function name and docstring summary
Fix PEP8, line lengths for comments
Add __all__ to specify modules which should be imported
Add default value for adding cell, better naming for type of value
Remove sample.ipynb, template now inline
Add and improve docstrings, JSON dumping and duplicate removal generalised
Improve docstring for add_cell
Fix to incorporate a more generalised duplicate removal and JSON dump to string
Improve docstring for consecutive duplicate removal, more readable
Remove extra spaces
Remove fetch_key, an overkill
Add string options to the docstring
More pythonic
Add class to __all__, remove duplicates now private
Remove segment_number, directly change the last cell
Fix PEP8, more readable
More generic Notebook class
More pythonic if statements
Add warning, consistent use of quotes, correction in docs
Remove use of redundant variables, cleanup
Siva Prasad Varma (15):
used plt.subplots everywhere
changed colorbars
changed to fig.colorbar
changed to plt.subplots()
fixed plot in plot_glcm.py
made plot loop more readable
changed to plt.subplots
changed to fig.subplots_adjust()
changed to fig.subplots_adjust()
changed to fig.subplots_adjust()
changed to fig.subplots_adjust()
changed to fig.subplots_adjust()
changed f to fig
changed f to fig in applications
changed io to ax
Stefan van der Walt (118):
Update manifest not to include gh-pages in docs.
Set version numbers for 0.10 development cycle.
Update website update instructions for release.
Correctly determine dev version for doc building.
Get rid of that inherited 's' once and for all.
Merge pull request #795 from amueller/fix_felsenszwalb_minsize
Merge pull request #796 from ahojnnes/warp-fix
Make six an external dependency.
Add python-six as Travis dependency.
Install six from PyPi. Travis version is too old.
Format color conversion docstrings.
Merge pull request #809 from ahojnnes/rank-setup
Update pip requirements.
Merge pull request #811 from ahojnnes/doctests
Add coverall support
Execute coveralls without flags.
Change to test directory before running coveralls
Ignore setup. No need for tmp dir any longer.
Fix invocation of nosetests.
Merge pull request #822 from JDWarner/fix_freeimage_metadata_test
Merge pull request #798 from matttrent/luv-colorspace
Merge pull request #823 from JDWarner/novice_py26_compatible
Ignore main sections of library code
Merge pull request #644 from josteinbf/phase-unwrap
Merge pull request #825 from ahojnnes/coverage
Merge pull request #848 from ahojnnes/warps
Merge pull request #800 from orieux/wiener-deconvolution
Merge pull request #854 from almarklein/update-mcp
Merge pull request #859 from radioxoma/threshold
Merge pull request #824 from tonysyu/fix/hough-circle-regression
Merge pull request #840 from ahojnnes/estimator-params
Merge pull request #834 from ahojnnes/orb
Replace Cython's round with a VC2010 compatible version
Merge pull request #865 from jni/profile-line
Use frombytes instead of fromstring on PIL images, since the latter is now deprecated
Add '--all' flag to placify newer versions of git
Fix Image.frombytes for older version of Python/PIL
Only run coverage for Python 3.
Exit with status zero under Python 2
Travis-ci doesn't like 'if-else'?
Merge pull request #888 from ankit-maverick/issue885
Merge pull request #894 from blink1073/viewer_docstring
Merge pull request #903 from vighneshbirodkar/dog
Merge pull request #906 from ahojnnes/peak-fix
Merge pull request #890 from ahojnnes/matching
Make doc/gh-pages executable
Merge pull request #922 from juliantaylor/doc-improve
Merge pull request #915 from vighneshbirodkar/blob_det
Merge pull request #923 from ahojnnes/doctests
Merge pull request #916 from neerajgangwar/master
Merge pull request #924 from ahojnnes/restoration
Merge pull request #937 from sciunto/doc
Merge pull request #938 from sciunto/draw
Merge pull request #939 from sciunto/py3
Merge pull request #935 from neerajgangwar/fix-greycomatrix
Remove debug print in contribs
Use nearest neighbor interpolation and a gray-level color map for plotting feature matches
Merge pull request #958 from ahojnnes/numpydoc
Merge pull request #961 from ahojnnes/video
Merge pull request #967 from pberkes/fix/lbp-variance
Merge pull request #955 from neerajgangwar/add-test-greycomatrix
Fix parameter documentation in corner_peaks (closes #901)
Do not allow view_as_* to return copies (closes #866)
Take a softer approach and raise a warning when a non-contiguous input is provided
Update view_as_windows docstring
Print warnings while testing
Fix typo in docstring
Merge pull request #975 from jni/isrgb-depr
Merge pull request #974 from jni/slic-depr
Distinguish between executable Python and Python version for apt-get
Merge pull request #977 from ahojnnes/todo-0.10
Fix coverage config specification in nosetests invocation
Use coveralls instead of python-coveralls
Rename _remove_consecutive_duplicates to _squash_repeats
Update Notebook docstring
Add unit tests
Add tests for notebook. Remove python_to_notebook utility function.
Update plot2rst to generate notebooks
Merge pull request #936 from sharky93/ipython-notebookcreation
Make another pass through contributing guidelines
Merge pull request #982 from sciunto/contributing
Merge pull request #830 from astrofrog/use-astropy
Add all_warnings context manager
Update shape tests to use all_warnings
In all_warnings context manager, return warnings for examination
Move all_warnings to skimage._shared.utils
Copy list of modules since it may change during iteration
Add some PEP8
Fix broken link to origin apigen source
Merge pull request #986 from vighneshbirodkar/blob_example
Replace broken _import_tools from numpy with Git version
Print versions of software used in Travis output
Remove deprecated --use-mirrors from pip calls
Rename heading -> header
Don't fail if .matplotlib dir already exists
Merge pull request #998 from ahojnnes/python34
Always interpret provided shapes as int. Add a note on using output_shape for color images.
Add unit test to catch non-integer output shape bug
Clarify regionprops output
Merge pull request #8 from JDWarner/safe_int_casting
Use safe_as_int to check provided output shape
Move safe_as_int into utils
Merge pull request #1008 from ahojnnes/coverage
Merge pull request #1005 from JDWarner/int_idx_patch
Merge pull request #1014 from tonysyu/update-EPD-link
Merge pull request #1015 from maxalbert/master
Move label to measure module (with deprecation). Warn that background parameter will default to 0 in v0.12.
Move implementation of label to measure submodule
Fix imports and suppress deprecation warnings
Update bento build
Fix broken and circular imports
Mention which parameters to label are optional. Simplify label deprecation.
Avoid circular imports
Correctly apply catch_warnings()
Update MANIFEST to include all test data
Fix markup in DEPENDS
Add release notes for 0.10
Release v0.10.1
Thomas Robitaille (4):
Use ``cythonize`` instead of hard-coding Cython commands. Fixes #829.
Only require Cython if using a developer version
Use Astropy by default if possible
Added entry for Astropy in DEPENDS.txt
Tony S Yu (107):
Fix whitespace
Cleanups to imports and line wrapping
Clean up novice __init__
Change test class to test functions
Speed up test
Cleanup docstrings.
Remove color scraping script and intermediate data file
Change inflate/inflation to rescale/scale.
Clean up docstrings.
Remove unnecessary functions.
Fix `modified` flag behavior
Clean up color_dict definition
Reuse colors from skimage.color.
Rename novice package as per convention
Switch argument order for clarity
Clean up testing
Fix validation bug and add test
Rename image to array
Remove color and size from Picture.__init__
Remove `from_path` and `from_array` methods
Simplify data access and add tests
Remove unnecessary try-except.
Simplify private docstrings
Refactor and add error tests
Rename for clarity
Simplify indexing
Change PixelGroup to inherit from Picture
Move methods from PixelGroup to Picture parent class
Move key validation for clarity
Make xy_array public
Remove PixelGroup dependence on pic and key attrs
Fix setter for xy_array and reuse.
Rename for clarity
Remove PixelGroup and just return a Picture
Fix doctests and cleanup `repr`s
Replace use of elephant pic with Chelsea the cat
Simplify interface
Speed up doctest
Remove old image reference
Add docstring for arrays
Rename image for clarity.
Simplify docstrings
Ensure that image shows when not run interactively
Fix display in IPython notebook
Remove extra newline
Fix Python 3 incompatibility
Fix the same Py3 incompatibility in a different place
Fix Py3 range incompatibilities
Add support for negative indexes/slices.
Add support for non-unit step
Fix ColorHistogram to work with Open File
Merge pull request #802 from jni/allow-rgb-save
Merge pull request #810 from jni/viewer-returns-overlays
Fix hough_circle regression on windows
Merge pull request #838 from ahojnnes/gallery
Move image stack to its own module
Move __init__ functions to submodules.
Use explicit imports
Remove debugging statement
Remove unnecessary class
Remove unnecessary initialization
Refactor io doc building code
Factor out table formatting code.
Minor rename
Fix wrapping of plugin descriptions
Factor out config-file parsing for clarity
Add comment for clarification
Factor out url handling for unified file/url behavior
Add test that error gets raised when no plugin available
PEP8
Fix test so it doesn't have side-effects
Change InheritedConfig so a key is contained if a parent key is contained
Move tests to separate file.
Change plugin_store to use InheritedConfig
Use InheritedConfig for plugin_store
Add test for loading preferred plugins.
Make preferred_plugins a dict
Refactor load_preferred_plugins
Move io._plugins.plugin to io.manage_plugins
Modest attempt at normalizing file extensions
Remove inherited config and file-type-specific code.
Fix failing doctest on systems w/o PIL
Slight clean up of tests
Revert previous 3 commits to test Travis CI failures.
Un-revert "Fix failing doctest on systems w/o PIL" commit
Un-revert commits added to test Travis CI failures
Fix doctest which causes side-effects.
Test Image._repr_png_
Test null plugin
Attempt to fix failing test on Python 3 buildbot
Add dynamic creation of imread_collection function
Add comments about how plugins are managed.
Move wrapper function
Factor out function injection
Remove outdated function
Clean up test
Merge pull request #881 from blink1073/fix-labelpainter-609
Merge pull request #891 from sciunto/tuto2
Merge pull request #895 from blink1073/fix-canny-py3k
Add string inputs for range parameters of `rescale_intensity`
Merge pull request #896 from ahojnnes/shared-six
Add tests for uint12 and uint14 limits
Merge pull request #959 from ahojnnes/viewer-backend
Add example of tinting a grayscale image
Incorporate PR feedback
Fix a couple of grammar typos
Change EPD link to Enthought Canopy
Vighnesh Birodkar (68):
added blob_dog
doctest
added test_blob
doc string
typo
threshold
Changed formula, this improves detected size accuracy
Made get_local_maxima_3d public
changed params and functionality of get_local_maxima
added get_local_maxima to feature
removed get_local_maxima, now using peak_local_max
rectified __all__
added names in CONTRIBUTIRS.txt
added blob_log
added test_blob_log
comments
migrated from area to sigma
removed print
doc changes
doc rectify
typo
overrided __eq__ method of region props
removed blankline
added tests, accounted for nan case
added nan case
pep8
reverted irrelevant changes:
reverted irrelevant changes
reverted irrelevant changes
reverted irrelevant changes
removed array cast, added not equals test
formatting, used assert_equals in test
added cython file
made methods private
doc strings
pep8 cython file
added python call and doc strings
removed print
tests and minor corrections
notes change
bento change
minor doc changes
added full paper desc.
corrections to cython file, switched dtype to double
doc test
indexing
made hessian_det_appx public
moved public interface of hessian determinant to corner.py
doc string change
extra line and spelling mistake
improved test coverage
changed parameter of hessian_matrix_det
removed whitespaces
removed blanklines in doc strings
Added Hubble Deep Field image.
Added example and pep8 changes.
Corrected spellings.
Grammar corrections.
Grammar corrections.
Changed travis.yml to install pillow.
pip command correction.
Tab to spaces.
hubble_deep_filed doc string changes.
Changed example to make code compact.
Changed example and hubble_deep_field doc string
autopep8 changes.
Corrected comment in example.
Added method reference to example.
Yaroslav Halchenko (11):
Merge tag 'v0.9.0' into releases
Merge tag 'v0.9.1' into releases
Merge tag 'v0.9.2' into releases
Merge tag 'v0.9.3' into releases
Merge tag 'v0.10.0' into releases
Merge commit '0ffbf00db5f7815988061d8e1c1d7d71b7b8e356' into debian
Merge branch 'releases' into debian
changelog entry for the new release
adding closes for the fresh revision bug report
Merge tag 'v0.10.1' into debian
Absorbing the patch from Julian
blink1073 (12):
Add shaded polygon to lineprofile output
Refactor perp_lines behavior
Add test for LineProfiler tool
Fix aliasing and update docstring
Update test now that aliasing has been removed
Use division consistently between PY2 and PY3
Update test to use floating point images and with updated values
Update the paint tool shape with the viewer image changes
Add a shape property that gracefully accomodates a new image size
Add viewer to main docstring.
Add py3k compatibility for core widget and overlayplugin.
Use the more idiomatic list().
cgohlke (12):
unwrap: Fix crash on Windows
unwrap: Fix crash on Windows
unwrap: Fix crash on Windows
unwrap: Fix crash on Windows
unwrap: Fix unicode
Fix ValueError: Buffer dtype mismatch, expected 'Py_ssize_t' but got 'long' on win-amd64
Define M_PI (not part of C89)
Define M_PI (not part of C89)
Fix test_novice.test_update_on_save failure on Windows
Use os.pathsep to sepatate multiple ImageCollection load_pattern
Skip viewer tests if no Qt API is available
Fix TypeError: __class__ assignment: 'TestFlexibleMCP' object layout differs from 'UnboundSelf'
jaimefrio (1):
BUG: wrong search for pivot in `quicker_sort`
odebeir (1):
fix:indentation
radioxoma (8):
fix threshold_yen import
fix yen blank image bug
Add ISODATA threshold with tests
contrib
Unit-tests and small fixes
fix tests
Adding comments
Explanation by ahojnnes
sharky93 (1):
Merge pull request #1 from stefanv/ipython-notebookcreation
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