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Creatis software - clitk.git/log
Gauthier Bouilhol [Wed, 28 Sep 2011 16:55:51 +0000 (18:55 +0200)]
print directory when no phase found
mpech [Wed, 28 Sep 2011 14:25:35 +0000 (16:25 +0200)]
forgot to uncomment...
mpech [Wed, 28 Sep 2011 14:23:57 +0000 (16:23 +0200)]
when a tool failed, no mhd was produced but the test still succeeded.
mpech [Wed, 28 Sep 2011 12:48:26 +0000 (14:48 +0200)]
testing tools doesnt require vv
mpech [Wed, 28 Sep 2011 09:25:17 +0000 (11:25 +0200)]
cl was not valid for setBackground
Gauthier Bouilhol [Tue, 27 Sep 2011 16:15:11 +0000 (18:15 +0200)]
search prefix and suffix
mpech [Tue, 27 Sep 2011 14:40:27 +0000 (16:40 +0200)]
clitkSetBackground and renaming binarize
Simon Rit [Mon, 26 Sep 2011 15:18:48 +0000 (17:18 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
mpech [Mon, 26 Sep 2011 09:25:08 +0000 (11:25 +0200)]
mhd files are compared ignoring the ITK_InputFilterName line added by itkv4
dbcache [Thu, 22 Sep 2011 12:42:38 +0000 (14:42 +0200)]
installation of more scripts
mpech [Wed, 21 Sep 2011 15:52:55 +0000 (17:52 +0200)]
morphoMath tests
mpech [Wed, 21 Sep 2011 14:31:21 +0000 (16:31 +0200)]
test for lung3d.mhd
mpech [Wed, 21 Sep 2011 09:29:06 +0000 (11:29 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Tue, 20 Sep 2011 16:47:52 +0000 (18:47 +0200)]
support for mha images
- another patch by Joël
mpech [Tue, 20 Sep 2011 15:28:53 +0000 (17:28 +0200)]
comparing raw files automatically. refFile can end with .mhd or not
mpech [Tue, 20 Sep 2011 13:53:11 +0000 (15:53 +0200)]
add tests for imageArithm
Romulo Pinho [Mon, 19 Sep 2011 11:56:11 +0000 (13:56 +0200)]
undoing StructureSet-related patch
- the one sent by Joël
Simon Rit [Sat, 17 Sep 2011 21:08:09 +0000 (17:08 -0400)]
Attempt to manually adjust the layout of the overlay panel for fusion to minimize its width
Simon Rit [Fri, 16 Sep 2011 16:29:36 +0000 (18:29 +0200)]
Files were not opened in binary mode which caused problems with vox files under windows
Simon Rit [Fri, 16 Sep 2011 16:22:02 +0000 (18:22 +0200)]
Do both OuputDebugString and standard output for DD on Windows
Romulo Pinho [Fri, 16 Sep 2011 09:23:42 +0000 (11:23 +0200)]
Bug/issue 704
- Made clitkPadImage generic (no support for 4D images for the moment).
mpech [Fri, 16 Sep 2011 09:12:43 +0000 (11:12 +0200)]
replacing \r\n by \n in generated mhd files when running toolTestRunner
Simon Rit [Wed, 14 Sep 2011 11:18:24 +0000 (13:18 +0200)]
No .gitignore file Joël! Put .gitignore in your .gitignore file.
Romulo Pinho [Tue, 13 Sep 2011 15:36:36 +0000 (17:36 +0200)]
finer control over fusion transparency
- addition of a spin box to set the values
Romulo Pinho [Tue, 13 Sep 2011 14:07:22 +0000 (16:07 +0200)]
applying another patch from Joel
Romulo Pinho [Tue, 13 Sep 2011 08:39:33 +0000 (10:39 +0200)]
patches sent from Joel Schaerer
Vivien Delmon [Mon, 12 Sep 2011 14:49:49 +0000 (16:49 +0200)]
itkv4 migration
- Add call to SetDirectionCollapseToSubmatrix needed by the
ExtractImageFilter.
Vivien Delmon [Mon, 12 Sep 2011 14:45:03 +0000 (16:45 +0200)]
itk4 Remove ITK_USE_OPTIMIZED_REGISTRATION_METHODS
- Bypass all ITK_USE_OPTIMIZED_REGISTRATION_METHODS with ITK 4. All
optimized version are now the normal version in itk4.
- Include itkImageToImageMetric.h instead of itkOptImageToImageMetric.h
- Rename GetJacobian to ComputeJacobianWithRespectToParameters.
Romulo Pinho [Fri, 9 Sep 2011 09:03:42 +0000 (11:03 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Fri, 9 Sep 2011 09:03:00 +0000 (11:03 +0200)]
error in the install of segmentation tools
Vivien Delmon [Tue, 6 Sep 2011 09:42:38 +0000 (11:42 +0200)]
itk4 Rename DeformationField to DisplacementField
Vivien Delmon [Mon, 5 Sep 2011 15:20:05 +0000 (17:20 +0200)]
Revert "[BUG] Use POSIX local before call to GDCM"
This reverts commit
a1dbb1f955409410f9402f9f257482a03bb5d5d6 .
Corrected by
98eb0c23b8066792d7a77e571fb7d48c9fe02db6 .
Vivien Delmon [Mon, 5 Sep 2011 15:17:56 +0000 (17:17 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Mon, 5 Sep 2011 15:16:02 +0000 (17:16 +0200)]
locale bug in vv with French
- An error when resetting the locale to its original value caused the previous setting to be undone...
Vivien Delmon [Mon, 5 Sep 2011 15:15:45 +0000 (17:15 +0200)]
[BUG] Use POSIX local before call to GDCM
- Force the use of POSIX local to read dicom headers with gdcm
Vivien Delmon [Mon, 5 Sep 2011 10:01:35 +0000 (12:01 +0200)]
Revert "itkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform"
This reverts commit
ba207d8b674671e4e3e1ce6d4171e84474c4cfd9 .
Vivien Delmon [Mon, 5 Sep 2011 09:34:19 +0000 (11:34 +0200)]
itkv4 propagate Transform<*>::NumberOfParametersType
- Propagate itk::Transform<*>::NumberOfParametersType typedef into our
homemade transforms.
Vivien Delmon [Mon, 5 Sep 2011 09:06:10 +0000 (11:06 +0200)]
itkv4 Replace ITK_TYPENAME by typename
- ITK_TYPENAME disappeared in itkv4. It was in itkv3 to remove some warning
with MS VC++ 6.0 which is not supported by itk anymore.
Simon Rit [Fri, 2 Sep 2011 12:01:38 +0000 (14:01 +0200)]
VTK 5.8.0 introduced a bug with overlay and fusion: default values for
output origin and spacing of vtkImageReslice had changed and the proper
functions were not used for their initialization. Fixed.
Simon Rit [Wed, 31 Aug 2011 12:49:38 +0000 (14:49 +0200)]
Removed unused files
Simon Rit [Wed, 31 Aug 2011 12:21:57 +0000 (14:21 +0200)]
Remove clitkBSplineDeformableRegistration from CMakeLists also...
Simon Rit [Wed, 31 Aug 2011 12:11:36 +0000 (14:11 +0200)]
Removed clitkBSplineDeformableRegistration which was not supported
anymore. Prefer using clitkBLUTDIR --itkbspline.
Simon Rit [Wed, 31 Aug 2011 09:56:30 +0000 (11:56 +0200)]
Added option itkbspline to use itk::BSpline instead of multilabels BLUTs
Simon Rit [Wed, 31 Aug 2011 08:44:27 +0000 (10:44 +0200)]
Added Get function for the vector of transforms
Simon Rit [Tue, 30 Aug 2011 16:27:45 +0000 (18:27 +0200)]
uint compilation error on Windows
Vivien Delmon [Tue, 30 Aug 2011 13:36:27 +0000 (15:36 +0200)]
Remove /lib from INSTALL_RPATH properties
- only needed on my computer with itkv4
Vivien Delmon [Tue, 30 Aug 2011 13:24:27 +0000 (15:24 +0200)]
Merge commit '
488f24aa984ae24adc9458bf5fbf3b2351415742 '
Conflicts:
registration/clitkBSplineDeformableRegistrationGenericFilter.txx
Vivien Delmon [Tue, 30 Aug 2011 11:34:16 +0000 (13:34 +0200)]
merge master
Simon Rit [Tue, 30 Aug 2011 10:59:42 +0000 (12:59 +0200)]
Attempt to make clitkBSplineDeformableRegistration work
Vivien Delmon [Mon, 29 Aug 2011 16:08:01 +0000 (18:08 +0200)]
itk4 Renaming
- Rename GetJacobian to ComputeJacobianWithRespectToParameters
- Call Transform constructor without OutputDimension parameter
- Rename m_Jacobian to m_SharedDataBSplineJacobian and declare it
Vivien Delmon [Mon, 29 Aug 2011 15:56:18 +0000 (17:56 +0200)]
itk4 Rename DeformationField to DisplacementField when necessary
Romulo Pinho [Wed, 24 Aug 2011 09:45:12 +0000 (11:45 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Wed, 24 Aug 2011 09:42:49 +0000 (11:42 +0200)]
Bug in clitkMedianTemporalDimension
- median taken was one position before or after the real median. results were actually unpredictable...
- also optimized the code a bit...
Simon Rit [Tue, 23 Aug 2011 17:16:48 +0000 (19:16 +0200)]
Limit uniformity test to first 3 dimensions (usually the spatial ones)
to avoid problems when spacing was randomly assigned in 4th
dimension
Simon Rit [Tue, 23 Aug 2011 17:05:58 +0000 (19:05 +0200)]
Allow unlinking of window/level of overlay, enable ctrl+w for local
windowing of fusion and overlay image
Simon Rit [Tue, 23 Aug 2011 11:51:46 +0000 (13:51 +0200)]
Added compression option to clitkImageConvert
Vivien Delmon [Tue, 16 Aug 2011 12:47:46 +0000 (14:47 +0200)]
[BUG] clitkImageInfo wasn't installed
- Replace clitkDicom2Image by clitkImageInfo CMakeLists
Romulo Pinho [Tue, 9 Aug 2011 14:58:58 +0000 (16:58 +0200)]
clitkTransformLandmarks
- can now transform using a matrix (file) and/or spacing (cmd line)
Vivien Delmon [Tue, 9 Aug 2011 08:49:30 +0000 (10:49 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Vivien Delmon [Tue, 9 Aug 2011 08:41:41 +0000 (10:41 +0200)]
itkv4 migration: Rename DifferenceImageFilter to ComparisonImageFilter
Vivien Delmon [Tue, 9 Aug 2011 08:37:52 +0000 (10:37 +0200)]
itkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform
Romulo Pinho [Mon, 8 Aug 2011 12:51:51 +0000 (14:51 +0200)]
bug in create_mid_masks-2.0.sh
- "source ./variables" was in the wrong place
Romulo Pinho [Fri, 5 Aug 2011 11:09:21 +0000 (13:09 +0200)]
registration script more robust to parallelization
- elastix's parameter file is now created with a suffix
Romulo Pinho [Fri, 5 Aug 2011 10:51:45 +0000 (12:51 +0200)]
more name conflicts
Romulo Pinho [Fri, 5 Aug 2011 09:37:04 +0000 (11:37 +0200)]
resolving script name conflicts
Romulo Pinho [Fri, 5 Aug 2011 09:15:31 +0000 (11:15 +0200)]
new midP related scripts
- they are also installed when make-installing
Romulo Pinho [Fri, 5 Aug 2011 07:43:39 +0000 (09:43 +0200)]
solved locale related bug
- problem appeared when opening dicom files in a "French" machine
mpech [Fri, 29 Jul 2011 13:12:36 +0000 (15:12 +0200)]
renaming filetest name
mpech [Fri, 29 Jul 2011 09:11:01 +0000 (11:11 +0200)]
test for binarizeImage FG, lower 0.1556
mpech [Thu, 28 Jul 2011 16:04:01 +0000 (18:04 +0200)]
test --mode BG for binarizeImage
mpech [Tue, 26 Jul 2011 14:14:14 +0000 (16:14 +0200)]
tmpnam_s for windows
mpech [Tue, 26 Jul 2011 09:33:55 +0000 (11:33 +0200)]
definition of test_Tool_Path
mpech [Tue, 26 Jul 2011 09:06:47 +0000 (11:06 +0200)]
remove toolsTest using google framework
mpech [Tue, 26 Jul 2011 08:35:01 +0000 (10:35 +0200)]
remove vvTests because of google framework...
mpech [Mon, 25 Jul 2011 14:22:15 +0000 (16:22 +0200)]
removing warnings: unused variable, tmpnam
David Sarrut [Mon, 25 Jul 2011 07:18:36 +0000 (09:18 +0200)]
Add RemoveTag
David Sarrut [Mon, 25 Jul 2011 07:17:54 +0000 (09:17 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Mon, 25 Jul 2011 07:15:47 +0000 (09:15 +0200)]
Add SliceBySliceSetBackgroundFromPoints, GetMinMaxBoundary, FillRegionWithValue
David Sarrut [Mon, 25 Jul 2011 07:14:37 +0000 (09:14 +0200)]
Change 3 by ImageDimension
mpech [Fri, 22 Jul 2011 15:23:24 +0000 (17:23 +0200)]
obsolete since the user manually update his repo
mpech [Fri, 22 Jul 2011 15:05:17 +0000 (17:05 +0200)]
The data repository must be cloned and pulled by the user
Romulo Pinho [Thu, 21 Jul 2011 12:28:41 +0000 (14:28 +0200)]
corrections for RPATH in clitk's make install
Romulo Pinho [Thu, 21 Jul 2011 09:18:46 +0000 (11:18 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Thu, 21 Jul 2011 09:18:15 +0000 (11:18 +0200)]
small changes in scripts
Romulo Pinho [Thu, 21 Jul 2011 09:17:28 +0000 (11:17 +0200)]
make install clitk (only what was built)
mpech [Thu, 21 Jul 2011 08:57:22 +0000 (10:57 +0200)]
nightly start time is only needed when scripting.
No reasons to let it here
unknown [Wed, 20 Jul 2011 14:39:26 +0000 (16:39 +0200)]
replaces round by itk:Math:Round (because round not found in Msvc2008)
replaces uint by clitk::uint because uint not available in windows
replaces typename outside template declaration (msvc compilation error)
Romulo Pinho [Mon, 18 Jul 2011 15:00:21 +0000 (17:00 +0200)]
create_mhd_4D
- avoid recusrive directory searches
+ find -maxdepth 1 ...
Romulo Pinho [Mon, 18 Jul 2011 14:42:15 +0000 (16:42 +0200)]
compilation of clitkPadImage
Romulo Pinho [Mon, 18 Jul 2011 14:38:37 +0000 (16:38 +0200)]
clitkExtractPatient's memory use...
...has been improved by releasing intermediate image data
- special cases may still use a lot of memory, but this is an ITK issue
Romulo Pinho [Mon, 18 Jul 2011 12:16:04 +0000 (14:16 +0200)]
fine tuning clitkPadImage
Romulo Pinho [Mon, 18 Jul 2011 11:41:15 +0000 (13:41 +0200)]
corrections in padding tool
dsarrut [Tue, 12 Jul 2011 06:16:48 +0000 (08:16 +0200)]
add final opening
dsarrut [Tue, 12 Jul 2011 06:14:58 +0000 (08:14 +0200)]
Add initial step: select BB supports.
dsarrut [Tue, 12 Jul 2011 06:14:17 +0000 (08:14 +0200)]
Add clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue
dsarrut [Tue, 12 Jul 2011 06:14:10 +0000 (08:14 +0200)]
Add clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue
dsarrut [Tue, 12 Jul 2011 06:13:24 +0000 (08:13 +0200)]
Add post limits with VertebralBody and ant limits with Sternum.
dsarrut [Tue, 12 Jul 2011 06:12:47 +0000 (08:12 +0200)]
add final opening
dsarrut [Tue, 12 Jul 2011 06:12:39 +0000 (08:12 +0200)]
add final opening
dsarrut [Tue, 12 Jul 2011 06:12:20 +0000 (08:12 +0200)]
Add final open