Johannes Schönberger
61ab5ed077
Fix convolution bug in perimeter function
2012-12-22 20:08:06 +01:00
Johannes Schönberger
257cf9585b
Fix typo bug in perimeter function
2012-12-22 20:07:36 +01:00
Tony S Yu
7c0424fd83
Merge pull request #378 from sergeyk/master
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Fixed RGB<->XYZ conversion (was incorrect before).
2012-12-18 07:57:06 -08:00
Stefan van der Walt
98a5b2ed79
Merge pull request #368 from tonysyu/imread-url
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ENH: Allow URLs in imread.
2012-12-17 12:17:50 -08:00
Tony S Yu
08da07b1cd
Merge pull request #377 from jni/jni-segmentation-join
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Add functions to join and relabel segmentations
2012-12-17 06:44:47 -08:00
Juan Nunez-Iglesias
2ebac38c4d
Rename ar to label_field for clarity
2012-12-17 16:37:41 +11:00
Tony S Yu
a641ce6a0e
BUG: Move import inside deprecated function
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Fixes circular import
2012-12-15 15:59:14 -05:00
Johannes Schönberger
746d815dfa
Fix recursion problem with nose test suite
2012-12-15 20:08:18 +01:00
Johannes Schönberger
e0f4cd0978
Fix double space in warning message
2012-12-15 19:35:49 +01:00
Johannes Schönberger
450eaee4d9
Hide functools and imp packages in global skimage namespace
2012-12-15 19:35:17 +01:00
Steven Silvester
a8dcb32b60
STY: Replaced indent with original formatting, no need to change.
2012-12-15 09:19:26 -06:00
Steven Silvester
49119524e3
Fixed indent on nose.run, so it will run when verbose is False
2012-12-15 09:17:39 -06:00
Steven Silvester
b620c0ade6
STY: Added newline at the end of file
2012-12-15 07:40:04 -06:00
Steven Silvester
cb1527bbe8
STY: Fixed indent on docstring.
2012-12-15 07:24:31 -06:00
Steven Silvester
380e27e60d
Lazily import nose for testing, makes skimge load in 1/3 time.
2012-12-14 16:38:48 -06:00
Tony S Yu
abc1d2095f
BUG: Fix file URI in test (2nd attempt)
2012-12-13 13:42:11 -05:00
Tony S Yu
a6d4b6e7fa
BUG: Fix file separators for windows
2012-12-12 11:06:15 -05:00
Juan Nunez-Iglesias
e3951a2a78
Rename ar_relabeled to relabeled for simplicity
2012-12-12 14:31:05 +11:00
Johannes Schönberger
33c58ad854
Fix some doc string formatting issues of random walker
2012-12-09 23:19:42 +01:00
Johannes Schönberger
a410f1c47e
UmfPack warning is now only raised if random walker is explicitly called
2012-12-09 23:17:06 +01:00
Johannes Schönberger
81c01eac0f
Fix confused parameters in doc string of peak_local_max
2012-12-09 17:39:15 +01:00
Stefan van der Walt
95f7177708
Merge pull request #376 from JDWarner/unify_peak_finder_backend
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ENH: Unify peak finder backend.
2012-12-08 20:36:18 -08:00
Josh Warner (Mac)
5cba69a4fa
test: add additional tests for 100% coverage of new peak_local_max
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Also fix minor bug in label reordering.
2012-12-08 21:12:26 -06:00
Josh Warner (Mac)
4f68f1cd36
doc: fix and clarify peak_local_max docstring
2012-12-03 20:23:01 -06:00
Johannes Schönberger
50c0399aa7
Merge pull request #379 from cpsaltis/fix_rotate
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Fix resize argument handling in rotate.
2012-12-03 14:48:52 -08:00
Stefan van der Walt
68c2ab205e
BUG: WindowsError not defined under Linux.
2012-12-03 08:49:35 -08:00
Christos Psaltis
298abe1ac0
Add test for resize option in rotate
2012-12-03 15:54:26 +02:00
Sergey Karayev
6953785eab
added rgb2lab test
2012-12-02 22:51:16 -08:00
Tony S Yu
bf28a38f6e
ENH: Make black the default boundary color for mark_boundaries.
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This improves visibility in light-colored image regions. Note also that the new behavior matches the behavior from the 0.7 release.
2012-12-02 16:02:27 -05:00
Christos Psaltis
22f94d8707
Fix resize argument handling in rotate.
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It used to have exactly the opposite effect that it supposed to.
2012-12-01 12:30:40 +02:00
Andreas Mueller
b5d1e9f209
FIX quickshift nosetest with different xyz color conversion
2012-11-30 15:36:01 +01:00
Sergey Karayev
43eb33d26b
flake8 on colorconv.py and removed unneeded .copy()
2012-11-30 01:30:59 -08:00
Sergey Karayev
5108d8c346
Fixed RGB<->XYZ conversion.
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Now correctly follows the algorithm from EasyRGB.
Also fixed a XYZ<->Lab conversion issue by adding
a .copy().
2012-11-29 12:06:01 -08:00
Juan Nunez-Iglesias
b906082034
Add testing functions for join and relabel
2012-11-28 12:48:13 +11:00
Juan Nunez-Iglesias
dc377970f5
Add functions to join and relabel segmentations
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The join of two segmentations is the segmentation in which two voxels
are in the same segment if and only if they are in the same segment in
both input segmentations.
2012-11-28 12:22:14 +11:00
Josh Warner (Mac)
98ce475113
style: initialize out at beginning of function
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* remove API compatibility comment
* remove unnecessary `del maskim`
2012-11-25 23:09:06 -06:00
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.
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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
Luis Pedro Coelho
38f699471e
TST Remove unneeded test
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Per stefanv's comment on github, this was testing functionality higher
up in skimage.io
2012-11-24 19:04:55 +00:00
Luis Pedro Coelho
10ce9b89ab
RFCT Use skimage.utils.convert for type conversion
2012-11-24 19:04:16 +00:00
Luis Pedro Coelho
6ebc43bad8
ENH Add imread io plugin
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This relies on imread (https://github.com/luispedro/imread ) which
supports a few microscopy formats otherwise hard to read (LSM and
MetaMorph STK) as well as basic ones.
2012-11-24 19:04:01 +00:00
Josh Warner (Mac)
e7288f9140
BUG - Dtype conversion to Boolean in a new code path not included in current tests.
2012-11-20 01:17:42 -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)
233b368195
BUG - Fixed a bug where the image was not properly masked for each unique label.
2012-11-20 00:45:01 -06:00
Josh Warner (Mac)
33c9514062
BUG - Fixed a bug where, when indices = False, output was not Boolean.
2012-11-20 00:36:12 -06:00
Josh Warner (Mac)
226eaaff92
FEAT - Unified peak finder backend
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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()
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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
13c61b9694
Merge pull request #361 from ahojnnes/hough-peaks
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Add hough transform peak detection
2012-11-17 07:30:08 -08:00
Johannes Schönberger
80a9a5aba5
Apply numpy reference style to rank filter descriptions
2012-11-14 08:33:27 +01:00
Olivier Debeir
70f2b67ef7
fix: ref and test_otsu doc
2012-11-14 08:00:59 +01:00
Johannes Schönberger