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119 Commits
Author SHA1 Message Date
Almar 644ab324dd Added test for ball and octahedton selems. 
Note that only the center slice (in each dimension is tested)
since there is no reference data available for these selems.
I did visualize the 3D shapes to see whether they look right.
 2013-03-28 10:03:02 +01:00
Almar 77192b6e9a Adding octahedron selem (3D equivalent of diamond). 2013-03-28 09:48:25 +01:00
Almar fa6a30198c Fix typo in docstring of disk(). 2013-03-27 21:54:49 +01:00
Almar 42c72ab106 Add ball selem. I verified in 2D that this usage of np.mgrid yields the exact same results as np.meshgrid (np.meshgrid is not available for 3D). 2013-03-27 21:52:07 +01:00
Almar cbf1657ee7 Add cube selem. 2013-03-27 21:50:08 +01:00
Juan Nunez-Iglesias b306f9b70f Revert remove_small_objects to raise TypeError 2013-03-10 19:23:04 +11:00
Christoph Gohlke 19e938a3de Fix ValueError: Buffer dtype mismatch on win-amd64 2013-03-04 17:29:44 -08:00
Stefan van der Walt f3924da90b DOC: Fix typo in remove_small_objects docstring. 2013-03-04 18:36:32 +02:00
Stefan van der Walt dae9b7adfd STY: Minor cleanup. 2013-03-04 11:30:19 +02:00
Juan Nunez-Iglesias 3249faf308 Add specific error messages and exceptions 2013-03-04 16:54:29 +11:00
Juan Nunez-Iglesias 6b9ecd80b9 Add raise and labeled image tests 2013-03-04 01:32:05 +11:00
Juan Nunez-Iglesias b07f7fd9bd Rename function to remove_small_objects 2013-03-04 01:32:05 +11:00
Juan Nunez-Iglesias d6c5ba38ef Improve docstring for remove_small_connected_components 
- Explain behavior if input is of int type.
- Add `Raises` section for possible errors.
- Remove explicit numpy import from example.
 2013-03-04 01:32:05 +11:00
Juan Nunez-Iglesias 5222fb5ff7 Add tests for remove_small_connected_components 2013-03-04 01:32:05 +11:00
Juan Nunez-Iglesias 24b14508c8 Add examples to docstring 2013-03-04 01:32:05 +11:00
Juan Nunez-Iglesias 5686e11c97 Add funct to remove small connected compononents 2013-03-04 01:32:04 +11:00
Stefan van der Walt 6e0112f449 BUG: Recast label output to satisfy ndimage on 32-bit platforms. 2013-03-03 15:34:09 +02:00
Johannes Schönberger 62d83ad42c Globally change np to cnp if cimported 2013-02-24 14:14:14 +01:00
Johannes Schönberger 614023b941 Replace ssize_t with Py_ssize_t globally 2013-02-22 17:05:38 +01:00
Johannes Schönberger 2c90aa70e5 Use np.intp rather than ssize_t for ndarrays 2013-02-22 17:05:11 +01:00
Johannes Schönberger c9f72e93d6 Change type to ssize_t for all index and size variables 2013-02-22 17:05:10 +01:00
Johannes Schönberger 11f32577ab Fix wrong include paths for shared subpackage 2013-01-23 14:54:33 +01:00
Tony S Yu a641ce6a0e BUG: Move import inside deprecated function 
Fixes circular import
 2012-12-15 15:59:14 -05:00
Josh Warner (Mac) 45a91aa9c5 doc: deprecated string and docstring formatting fixes in is_local_maximum 2012-11-25 22:56:45 -06:00
Josh Warner (Mac) d2262227d9 BUG - rank_order now imported. 
Also changed (peak.py):
  * Standardized documentation as requested.
  * Removed `threshold` as an optional kwarg.
  * Removed extra line break incorrect by PEP8 standards.

Also changed (watershed.py):
  * Added @deprecated decorator and import statement
 2012-11-24 17:24:14 -06:00
Josh Warner (Mac) da5a2a8221 BUG - Now parsing all unique labels != 0 properly, and set threshold_rel=0 in is_local_maximum() wrapper. 2012-11-20 01:11:31 -06:00
Josh Warner (Mac) 226eaaff92 FEAT - Unified peak finder backend 
Detailed changelist:
  * Fully documented new API for peak_local_max()
  * Removed commented-out old code for is_local_maximum()
  * Added "See also" and "Notes" to is_local_maximum() redirecting to peak_local_max()
 2012-11-20 00:12:47 -06:00
Josh Warner (Mac) 63b5c5a4a0 FEAT - combined API from is_local_maximum() into peak_local_max() 
is_local_maximum() is a wrapper function for peak_local_max()
is_local_maximum() runs much faster (~20% of prior runtime, nearly = to peak_local_max())
All tests in .feature and .morphology subpackages pass as written with these changes.

Todo:
  * Fully document API
  * remove commented-out old algorithm in is_local_maximum()
  * add new tests for full coverage of new, more complex peak_local_max()
 2012-11-19 23:38:58 -06:00
Tony S Yu c17ffe6c32 Merge pull request #351 from ahojnnes/test-coverage 
Test coverage
 2012-10-09 14:51:23 -07:00
Johannes Schönberger 9b5cb1ca8a Merge pull request #360 from tonysyu/fix-doctest-imports 
DOC: Add imports to doctests to fix errors
 2012-10-08 22:50:38 -07:00
Tony S Yu ab2411cd19 DOC: Add imports to doctests to fix errors 2012-10-08 20:30:33 -04:00
Paul Ivanov b4b090271d complete singularization of scikit-image 
I've updated references in the code and documentation to the new name.
 2012-10-08 16:29:55 -07:00
Johannes Schönberger 0ab93bbf36 Remove redundant dtype conversion 2012-10-06 21:54:12 +02:00
Johannes Schönberger 48572fd0a3 Remove obsolete license note as code has been refactored 2012-10-06 21:52:15 +02:00
Andreas Mueller 6c59e04714 MISC remove unused imports, some pep8 corrections. 2012-09-27 20:01:45 +01:00
Tony S Yu 538ce329a5 DOC: fix numpy dtype print out. 
This fix may be very dependent on numpy version since print out has change over time.
 2012-09-11 23:47:18 -04:00
Johannes Schönberger 56b1476789 Add test case for non-square images 2012-09-11 20:27:18 +02:00
Johannes Schönberger f478b6a397 Fix bug in binary dilation and test case 2012-09-11 20:11:55 +02:00
Johannes Schönberger b1d99be735 Fix bug in grey erosion and dilation 2012-09-11 09:09:10 +02:00
Tony S Yu 84ac91927d DOC: Fix citation syntax 2012-09-02 18:03:55 -04:00
Tony S Yu 8b15656feb Change import to silence import errors in docs. 
`import skimage` in submodules seems to cause issues with Sphinx autodocs. (Maybe some sort of circular import issue.) Note the `ImportErrors` fixed by this commit don't actually cause sphinx build errors; Sphinx seems to capture the errors, but it's annoyingly noisy, nonetheless.
 2012-09-02 12:23:52 -04:00
Johannes Schönberger aa08e8a559 Fix for predefined output array 2012-09-02 13:41:25 +02:00
Johannes Schönberger 2c37c70ca3 Fix support for predefined output array 2012-09-02 13:35:12 +02:00
Johannes Schönberger 373b3293ee Use numpy testing functions 2012-09-02 13:28:07 +02:00
Johannes Schönberger de47332bd2 Add fast morphological operations for binary images 2012-09-02 13:25:52 +02:00
Johannes Schönberger 2842515dc3 Improve doc string layout 2012-09-02 10:34:09 +02:00
Johannes Schönberger 224fcb5d01 Convert selem to uint8 2012-09-02 09:58:02 +02:00
Johannes Schönberger a5fe574bd9 Remove unused imports and add missing types 2012-09-01 14:57:56 +02:00
Johannes Schönberger b05c062d24 Refactor erosion and dilation for better performance 2012-09-01 14:54:17 +02:00
Emmanuelle Gouillart 0644026250 Fixed two tests that were failing because of draw imports 2012-08-27 12:04:30 +02:00