Johannes Schönberger
dc27babee2
Merge pull request #546 from jni/3d-slic
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Add support for 3D images in SLIC segmentation
2013-07-14 23:50:38 -07:00
Juan Nunez-Iglesias
8736a66504
Fix typo using assert_raises in test_colorconv.py
2013-07-13 09:49:38 +10:00
Juan Nunez-Iglesias
858f7411d7
Complete test_regular_grid coverage
2013-07-13 01:34:51 +02:00
Juan Nunez-Iglesias
6221ce6e3b
Add test coverage for guess_spatial_dimensions()
2013-07-13 01:27:17 +02:00
Juan Nunez-Iglesias
f0ecc4d00d
Rename regular_grid.py
2013-07-12 18:28:11 +02:00
Juan Nunez-Iglesias
e80dd18d7e
Add tests for 'regular_grid()'
2013-07-12 18:26:11 +02:00
Jostein Bø Fløystad
4d307f5315
iradon_sart: Fix docstring typo.
2013-07-09 11:44:28 +02:00
Jostein Bø Fløystad
1cc42bd943
iradon_sart: Reformat references.
2013-07-09 11:44:03 +02:00
Jostein Bø Fløystad
18a06a0add
iradon_sart: Format docs correctly.
2013-07-08 14:50:06 +02:00
Juan Nunez-Iglesias
48d78c09d9
Improve doc for regular_grid.py
2013-07-08 14:41:42 +02:00
Jostein Bø Fløystad
bea50aa608
iradon: use util.pad for sinogram padding.
2013-07-06 20:55:54 +02:00
Jostein Bø Fløystad
b3746b9090
iradon: Cleanup by locating related code in one place.
2013-07-06 20:55:54 +02:00
Jostein Bø Fløystad
643a1bc1f5
iradon: Add test for cubic interpolation.
2013-07-06 20:55:53 +02:00
Jostein Bø Fløystad
b90ba783ef
iradon: Only allow interpolation methods working well.
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Of the interpolation methods provided by scipy.interpolate.interp1d,
only cubic has been found to work well with the tests in skimage (other
methods are either identical to linear or nearest, or they produce bad
reconstructions).
2013-07-06 20:55:53 +02:00
Jostein Bø Fløystad
2be327815e
radon: Use numpy.interp/scipy.interpolate.
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Scipy supports all interpolation kinds (nearest, linear) we need, while
numpy supports only linear interpolation. The numpy interpolation is
substantially faster, so this is used even though it complicates the
code slightly.
2013-07-06 20:55:53 +02:00
Jostein Bø Fløystad
5955e4e612
iradon: Reduce code duplication.
2013-07-06 20:55:53 +02:00
Jostein Bø Fløystad
ac460a9777
iradon: Use util.pad for array padding.
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This depends on util.pad accepting 0s in pad_width, which has a proposed
solution in gh-634.
2013-07-06 20:55:53 +02:00
Jostein Bø Fløystad
237fb989b0
radon: Use util.pad for array padding.
2013-07-06 20:55:53 +02:00
Josh Warner
6edd707a1b
Merge pull request #637 from sciunto/minorfix
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STYLE : PEP8 + import fix in hough_transform tests
2013-07-06 11:06:48 -07:00
Emmanuelle Gouillart
15ed7bdf59
Merge pull request #584 from josteinbf/iradon-algebraic
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SART algorithm for tomography reconstruction
2013-07-06 10:24:24 -07:00
François Boulogne
cf3efba3c1
use previous import
2013-07-06 16:12:09 +02:00
François Boulogne
de9d2662b1
MIN: fix pep8
2013-07-06 14:45:54 +02:00
François Boulogne
f316abbfbe
DOC: add doctrings
2013-07-06 14:34:55 +02:00
François Boulogne
e74b971335
erode & dilate -> private functions
2013-07-06 14:30:17 +02:00
François Boulogne
2dfeab83df
PEP8 + import
2013-07-06 13:49:01 +02:00
Jostein Bø Fløystad
794a4d7dae
arraypad: allow padding with zero entries (i.e. no padding).
2013-07-05 14:29:09 +02:00
Jostein Bø Fløystad
3cdfeccc7a
iradon_sart: flip signs to reflect changes to radon.
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The changes to radon were introduced in gh-596.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
af47941435
iradon_sart: fix comment spelling.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
f2790d658c
iradon_sart: redefine projection center.
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This reflects the bugfixes related to issue gh-592 implemented in
gh-596.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
06857d3b92
Radon tests: Check the correct error metric.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
a4870242b6
iradon_sart: Test clip functionality and add a test for it.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
dde4288865
test_radon_transform: Style fixes.
2013-07-05 13:14:39 +02:00
Jostein Bø Fløystad
266b202226
iradon_sart: Style fixes.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
116e1dd571
iradon_sart: Also test accuracy with a missing wedge.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
ace07a0b18
iradon_sart: Add test for order_angles_golden_ratio.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
2082b57e41
iradon_sart: Order angles using a golden ratio approach.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
dcd31c1882
radon_transform: Declare encoding.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
8d4b1e6710
iradon_sart: Add Kaczmarz reference and reformat citations.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
89f227c5ff
iradon_sart: Remove needless memoryview/ndarray conversion.
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image_update is not manipulated in sart_projection_update and the
conversion to memoryview will happen when it is passed to the
subroutines anyway.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
5baaf78564
iradon_sart: Reduce code duplication in interpolation.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
91aeb658dd
iradon_sart's cython exts: Use typed memoryviews, not ndarrays.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
c977c5974d
iradon_sart: Improve argument checking.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
59bdb24c92
iradon_sart: Clean up cython code to minimize python calls.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
1b620a0a12
Tests for iradon_sart: Robust path handling.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
94eba1c911
iradon_sart: Clarify how constants are chosen.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
496902145f
iradon_sart: Add wikipedia reference to Kaczmarz method.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
372f0127f9
transform.iradon_sart: Clean up code for ordering projections.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
b474804654
Fix docstrings for transform.iradon_sart with subroutines.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
d5f323eec0
Tests for the projection_shifts functionality of iradon_sart.
2013-07-05 13:14:38 +02:00
Jostein Bø Fløystad
1e1dd180d2
Implement projection shifts.
2013-07-05 13:14:38 +02:00
Johannes Schönberger