]> Creatis software - clitk.git/log
clitk.git
13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Vivien Delmon [Mon, 5 Sep 2011 15:17:56 +0000 (17:17 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agolocale bug in vv with French
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...

13 years ago[BUG] Use POSIX local before call to GDCM
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

13 years agoRevert "itkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform"
Vivien Delmon [Mon, 5 Sep 2011 10:01:35 +0000 (12:01 +0200)]
Revert "itkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform"

This reverts commit ba207d8b674671e4e3e1ce6d4171e84474c4cfd9.

13 years agoitkv4 propagate Transform<*>::NumberOfParametersType
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.

13 years agoitkv4 Replace ITK_TYPENAME by typename
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.

13 years agoVTK 5.8.0 introduced a bug with overlay and fusion: default values for
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.

13 years agoRemoved unused files
Simon Rit [Wed, 31 Aug 2011 12:49:38 +0000 (14:49 +0200)]
Removed unused files

13 years agoRemove clitkBSplineDeformableRegistration from CMakeLists also...
Simon Rit [Wed, 31 Aug 2011 12:21:57 +0000 (14:21 +0200)]
Remove clitkBSplineDeformableRegistration from CMakeLists also...

13 years agoRemoved clitkBSplineDeformableRegistration which was not supported
Simon Rit [Wed, 31 Aug 2011 12:11:36 +0000 (14:11 +0200)]
Removed clitkBSplineDeformableRegistration which was not supported
anymore. Prefer using clitkBLUTDIR --itkbspline.

13 years agoAdded option itkbspline to use itk::BSpline instead of multilabels BLUTs
Simon Rit [Wed, 31 Aug 2011 09:56:30 +0000 (11:56 +0200)]
Added option itkbspline to use itk::BSpline instead of multilabels BLUTs

13 years agoAdded Get function for the vector of transforms
Simon Rit [Wed, 31 Aug 2011 08:44:27 +0000 (10:44 +0200)]
Added Get function for the vector of transforms

13 years agouint compilation error on Windows
Simon Rit [Tue, 30 Aug 2011 16:27:45 +0000 (18:27 +0200)]
uint compilation error on Windows

13 years agoRemove /lib from INSTALL_RPATH properties
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

13 years agoMerge commit '488f24aa984ae24adc9458bf5fbf3b2351415742'
Vivien Delmon [Tue, 30 Aug 2011 13:24:27 +0000 (15:24 +0200)]
Merge commit '488f24aa984ae24adc9458bf5fbf3b2351415742'

Conflicts:
registration/clitkBSplineDeformableRegistrationGenericFilter.txx

13 years agomerge master
Vivien Delmon [Tue, 30 Aug 2011 11:34:16 +0000 (13:34 +0200)]
merge master

13 years agoAttempt to make clitkBSplineDeformableRegistration work
Simon Rit [Tue, 30 Aug 2011 10:59:42 +0000 (12:59 +0200)]
Attempt to make clitkBSplineDeformableRegistration work

13 years agoitk4 Renaming
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

13 years agoitk4 Rename DeformationField to DisplacementField when necessary
Vivien Delmon [Mon, 29 Aug 2011 15:56:18 +0000 (17:56 +0200)]
itk4 Rename DeformationField to DisplacementField when necessary

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Wed, 24 Aug 2011 09:45:12 +0000 (11:45 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoBug in clitkMedianTemporalDimension
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...

13 years agoLimit uniformity test to first 3 dimensions (usually the spatial ones)
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

13 years agoAllow unlinking of window/level of overlay, enable ctrl+w for local
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

13 years agoAdded compression option to clitkImageConvert
Simon Rit [Tue, 23 Aug 2011 11:51:46 +0000 (13:51 +0200)]
Added compression option to clitkImageConvert

13 years ago[BUG] clitkImageInfo wasn't installed
Vivien Delmon [Tue, 16 Aug 2011 12:47:46 +0000 (14:47 +0200)]
[BUG] clitkImageInfo wasn't installed

- Replace clitkDicom2Image by clitkImageInfo CMakeLists

13 years agoclitkTransformLandmarks
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)

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Vivien Delmon [Tue, 9 Aug 2011 08:49:30 +0000 (10:49 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoitkv4 migration: Rename DifferenceImageFilter to ComparisonImageFilter
Vivien Delmon [Tue, 9 Aug 2011 08:41:41 +0000 (10:41 +0200)]
itkv4 migration: Rename DifferenceImageFilter to ComparisonImageFilter

13 years agoitkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform
Vivien Delmon [Tue, 9 Aug 2011 08:37:52 +0000 (10:37 +0200)]
itkv4 migration: Rename itkBSplineDeformableTransform to itkBSplineTransform

13 years agobug in create_mid_masks-2.0.sh
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

13 years agoregistration script more robust to parallelization
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

13 years agomore name conflicts
Romulo Pinho [Fri, 5 Aug 2011 10:51:45 +0000 (12:51 +0200)]
more name conflicts

13 years agoresolving script name conflicts
Romulo Pinho [Fri, 5 Aug 2011 09:37:04 +0000 (11:37 +0200)]
resolving script name conflicts

13 years agonew midP related scripts
Romulo Pinho [Fri, 5 Aug 2011 09:15:31 +0000 (11:15 +0200)]
new midP related scripts

- they are also installed when make-installing

13 years agosolved locale related bug
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

13 years agorenaming filetest name
mpech [Fri, 29 Jul 2011 13:12:36 +0000 (15:12 +0200)]
renaming filetest name

13 years agotest for binarizeImage FG, lower 0.1556
mpech [Fri, 29 Jul 2011 09:11:01 +0000 (11:11 +0200)]
test for binarizeImage FG, lower 0.1556

13 years agotest --mode BG for binarizeImage
mpech [Thu, 28 Jul 2011 16:04:01 +0000 (18:04 +0200)]
test --mode BG for binarizeImage

13 years agotmpnam_s for windows
mpech [Tue, 26 Jul 2011 14:14:14 +0000 (16:14 +0200)]
tmpnam_s for windows

13 years agodefinition of test_Tool_Path
mpech [Tue, 26 Jul 2011 09:33:55 +0000 (11:33 +0200)]
definition of test_Tool_Path

13 years agoremove toolsTest using google framework
mpech [Tue, 26 Jul 2011 09:06:47 +0000 (11:06 +0200)]
remove toolsTest using google framework

13 years agoremove vvTests because of google framework...
mpech [Tue, 26 Jul 2011 08:35:01 +0000 (10:35 +0200)]
remove vvTests because of google framework...

13 years agoremoving warnings: unused variable, tmpnam
mpech [Mon, 25 Jul 2011 14:22:15 +0000 (16:22 +0200)]
removing warnings: unused variable, tmpnam

13 years agoAdd RemoveTag
David Sarrut [Mon, 25 Jul 2011 07:18:36 +0000 (09:18 +0200)]
Add RemoveTag

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Mon, 25 Jul 2011 07:17:54 +0000 (09:17 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoAdd SliceBySliceSetBackgroundFromPoints, GetMinMaxBoundary, FillRegionWithValue
David Sarrut [Mon, 25 Jul 2011 07:15:47 +0000 (09:15 +0200)]
Add SliceBySliceSetBackgroundFromPoints, GetMinMaxBoundary, FillRegionWithValue

13 years agoChange 3 by ImageDimension
David Sarrut [Mon, 25 Jul 2011 07:14:37 +0000 (09:14 +0200)]
Change 3 by ImageDimension

13 years agoobsolete since the user manually update his repo
mpech [Fri, 22 Jul 2011 15:23:24 +0000 (17:23 +0200)]
obsolete since the user manually update his repo

13 years agoThe data repository must be cloned and pulled by the user
mpech [Fri, 22 Jul 2011 15:05:17 +0000 (17:05 +0200)]
The data repository must be cloned and pulled by the user

13 years agocorrections for RPATH in clitk's make install
Romulo Pinho [Thu, 21 Jul 2011 12:28:41 +0000 (14:28 +0200)]
corrections for RPATH in clitk's make install

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Thu, 21 Jul 2011 09:18:46 +0000 (11:18 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agosmall changes in scripts
Romulo Pinho [Thu, 21 Jul 2011 09:18:15 +0000 (11:18 +0200)]
small changes in scripts

13 years agomake install clitk (only what was built)
Romulo Pinho [Thu, 21 Jul 2011 09:17:28 +0000 (11:17 +0200)]
make install clitk (only what was built)

13 years agonightly start time is only needed when scripting.
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

13 years agoreplaces round by itk:Math:Round (because round not found in Msvc2008)
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)

13 years agocreate_mhd_4D
Romulo Pinho [Mon, 18 Jul 2011 15:00:21 +0000 (17:00 +0200)]
create_mhd_4D

- avoid recusrive directory searches
+ find -maxdepth 1 ...

13 years agocompilation of clitkPadImage
Romulo Pinho [Mon, 18 Jul 2011 14:42:15 +0000 (16:42 +0200)]
compilation of clitkPadImage

13 years agoclitkExtractPatient's memory use...
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

13 years agofine tuning clitkPadImage
Romulo Pinho [Mon, 18 Jul 2011 12:16:04 +0000 (14:16 +0200)]
fine tuning clitkPadImage

13 years agocorrections in padding tool
Romulo Pinho [Mon, 18 Jul 2011 11:41:15 +0000 (13:41 +0200)]
corrections in padding tool

13 years agoadd final opening
dsarrut [Tue, 12 Jul 2011 06:16:48 +0000 (08:16 +0200)]
add final opening

13 years agoAdd initial step: select BB supports.
dsarrut [Tue, 12 Jul 2011 06:14:58 +0000 (08:14 +0200)]
Add initial step: select BB supports.

13 years agoAdd clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue
dsarrut [Tue, 12 Jul 2011 06:14:17 +0000 (08:14 +0200)]
Add clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue

13 years agoAdd clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue
dsarrut [Tue, 12 Jul 2011 06:14:10 +0000 (08:14 +0200)]
Add clitkAnd, SliceBySliceSetBackgroundFromSingleLine, FillRegionWithValue

13 years agoAdd post limits with VertebralBody and ant limits with Sternum.
dsarrut [Tue, 12 Jul 2011 06:13:24 +0000 (08:13 +0200)]
Add post limits with VertebralBody and ant limits with Sternum.

13 years agoadd final opening
dsarrut [Tue, 12 Jul 2011 06:12:47 +0000 (08:12 +0200)]
add final opening

13 years agoadd final opening
dsarrut [Tue, 12 Jul 2011 06:12:39 +0000 (08:12 +0200)]
add final opening

13 years agoAdd final open
dsarrut [Tue, 12 Jul 2011 06:12:20 +0000 (08:12 +0200)]
Add final open

13 years agoAdd initialisation to avoid warning
dsarrut [Tue, 12 Jul 2011 06:11:29 +0000 (08:11 +0200)]
Add initialisation to avoid warning

13 years agoChange default (bug): CCLSelection is off by default (we do not consider a single...
dsarrut [Tue, 12 Jul 2011 06:11:14 +0000 (08:11 +0200)]
Change default (bug): CCLSelection is off by default (we do not consider a single Connected Component Label in the object)

13 years agoCorrect bug: when crop is only performed along a single direction.
dsarrut [Tue, 12 Jul 2011 06:10:21 +0000 (08:10 +0200)]
Correct bug: when crop is only performed along a single direction.

13 years agoadd initialisation to avoid warning
dsarrut [Tue, 12 Jul 2011 06:09:20 +0000 (08:09 +0200)]
add initialisation to avoid warning

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
mpech [Fri, 8 Jul 2011 12:22:58 +0000 (14:22 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

Conflicts:
tests/tools/CMakeLists.txt

13 years agotests for clitkGet*
mpech [Fri, 8 Jul 2011 12:19:23 +0000 (14:19 +0200)]
tests for clitkGet*

13 years agoupdate of TOOLS_PATH in tests
mpech [Fri, 8 Jul 2011 12:06:21 +0000 (14:06 +0200)]
update of TOOLS_PATH in tests

13 years agotests for getSpacing and getInfo
mpech [Fri, 8 Jul 2011 11:13:31 +0000 (13:13 +0200)]
tests for getSpacing and getInfo

13 years agogetSpacing
mpech [Fri, 8 Jul 2011 10:51:44 +0000 (12:51 +0200)]
getSpacing

13 years agoAdded FindGengetopt.cmake which compiles gengetopt if not installed.
Simon Rit [Thu, 7 Jul 2011 13:03:26 +0000 (15:03 +0200)]
Added FindGengetopt.cmake which compiles gengetopt if not installed.
Also upgraded cmake version required to 2.8 because was solving issues
regarding ADD_DEFINITION with quoted strings

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Simon Rit [Thu, 7 Jul 2011 13:02:04 +0000 (15:02 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoPadding tool
Romulo Pinho [Thu, 7 Jul 2011 11:27:07 +0000 (13:27 +0200)]
Padding tool

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Simon Rit [Wed, 6 Jul 2011 11:39:26 +0000 (13:39 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
Romulo Pinho [Wed, 6 Jul 2011 11:35:37 +0000 (13:35 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agooptional opening after 1st step in ExtractPatient
Romulo Pinho [Wed, 6 Jul 2011 11:27:26 +0000 (13:27 +0200)]
optional opening after 1st step in ExtractPatient

- controlled by the radius given on the cmd line

13 years agomacro for SET_IF_NOT_SET
mpech [Wed, 6 Jul 2011 09:43:25 +0000 (11:43 +0200)]
macro for SET_IF_NOT_SET

13 years agoAllow submit to other dashboard than vv's dashboard
mpech [Wed, 6 Jul 2011 09:05:29 +0000 (11:05 +0200)]
Allow submit to other dashboard than vv's dashboard

13 years agoclitkImageInfo tests
mpech [Fri, 1 Jul 2011 13:30:24 +0000 (15:30 +0200)]
clitkImageInfo tests

13 years agoobsolete dartConfig file
mpech [Fri, 1 Jul 2011 10:53:57 +0000 (12:53 +0200)]
obsolete dartConfig file

13 years agorenaming clitk_data_path in clitk_test_data_path
mpech [Wed, 29 Jun 2011 16:02:26 +0000 (18:02 +0200)]
renaming clitk_data_path in clitk_test_data_path
"factorizing" git repo in CTestConfig

13 years agopublishing to vv's dashboard
mpech [Wed, 29 Jun 2011 15:29:36 +0000 (17:29 +0200)]
publishing to vv's dashboard

13 years agotesting with a simple executable
mpech [Wed, 29 Jun 2011 12:00:19 +0000 (14:00 +0200)]
testing with a simple executable

13 years agofetch data pull or clone
mpech [Wed, 29 Jun 2011 11:58:55 +0000 (13:58 +0200)]
fetch data pull or clone

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
mpech [Wed, 29 Jun 2011 11:34:41 +0000 (13:34 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoscripts to pull data
mpech [Wed, 29 Jun 2011 11:32:57 +0000 (13:32 +0200)]
scripts to pull data
todo : pull instead of clone if it already exists

13 years agoModification for nightly builds
mpech [Wed, 29 Jun 2011 11:31:10 +0000 (13:31 +0200)]
Modification for nightly builds

13 years agoAdded mha next to mhd (similar but in one file)
Simon Rit [Wed, 29 Jun 2011 10:00:39 +0000 (12:00 +0200)]
Added mha next to mhd (similar but in one file)

13 years agoMinor gui text corrections
Simon Rit [Tue, 28 Jun 2011 07:41:19 +0000 (09:41 +0200)]
Minor gui text corrections

13 years agotransform_grid option was not working for flips
Simon Rit [Mon, 27 Jun 2011 16:53:16 +0000 (18:53 +0200)]
transform_grid  option was not working for flips

13 years agoFix for bug Bug #670: closing and opening do the same as successive
Simon Rit [Mon, 27 Jun 2011 11:11:47 +0000 (13:11 +0200)]
Fix for bug Bug #670: closing and opening do the same as successive
erosion/dilation

13 years agoRemoved call to UpdateOrientation in SetFusion and SetOverlay to avoid
Simon Rit [Mon, 27 Jun 2011 09:48:47 +0000 (11:48 +0200)]
Removed call to UpdateOrientation in SetFusion and SetOverlay to avoid
changing slice when reloading.

13 years agoNo need for typename outside template declarations (compiling error on
Simon Rit [Mon, 27 Jun 2011 08:02:22 +0000 (10:02 +0200)]
No need for typename outside template declarations (compiling error on
        msvc++)