]> Creatis software - clitk.git/log
clitk.git
13 years agoCompatibility with itk4, dont check image physical space (VerifyInputInformation)
David Sarrut [Fri, 2 Sep 2011 10:56:44 +0000 (12:56 +0200)]
Compatibility with itk4, dont check image physical space (VerifyInputInformation)

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Thu, 1 Sep 2011 14:21:45 +0000 (16:21 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

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 agoMerge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Tue, 30 Aug 2011 08:03:42 +0000 (10:03 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

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
David Sarrut [Mon, 29 Aug 2011 06:33:45 +0000 (08:33 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

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 agoPut in this file all commands related to S2RL
David Sarrut [Fri, 29 Jul 2011 13:20:13 +0000 (15:20 +0200)]
Put in this file all commands related to S2RL

13 years agoAdd options for S3A
David Sarrut [Fri, 29 Jul 2011 13:19:44 +0000 (15:19 +0200)]
Add options for S3A

13 years agoAdd options for threshold
David Sarrut [Fri, 29 Jul 2011 13:19:36 +0000 (15:19 +0200)]
Add options for threshold

13 years agoAdd option for threshold
David Sarrut [Fri, 29 Jul 2011 13:19:30 +0000 (15:19 +0200)]
Add option for threshold

13 years agoAdd options for S3A
David Sarrut [Fri, 29 Jul 2011 13:18:10 +0000 (15:18 +0200)]
Add options for S3A

13 years agoFinish first step of S3A.
David Sarrut [Fri, 29 Jul 2011 13:17:54 +0000 (15:17 +0200)]
Finish first step of S3A.

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

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Fri, 29 Jul 2011 12:31:40 +0000 (14:31 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

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 agoRemove unused variable
David Sarrut [Thu, 28 Jul 2011 13:41:16 +0000 (15:41 +0200)]
Remove unused variable

13 years agocorrect merge
David Sarrut [Thu, 28 Jul 2011 13:36:51 +0000 (15:36 +0200)]
correct merge

13 years agofirst trial
David Sarrut [Thu, 28 Jul 2011 10:59:47 +0000 (12:59 +0200)]
first trial

13 years ago first version of Image2DicomRT (dos not work)
David Sarrut [Thu, 28 Jul 2011 10:58:40 +0000 (12:58 +0200)]
 first version of Image2DicomRT (dos not work)

13 years agofirst version of UpdateDicomItem
David Sarrut [Thu, 28 Jul 2011 10:56:33 +0000 (12:56 +0200)]
first version of UpdateDicomItem

13 years agoMerge branch 'master' of /home/dsarrut/clitk3.server
David Sarrut [Thu, 28 Jul 2011 10:55:11 +0000 (12:55 +0200)]
Merge branch 'master' of /home/dsarrut/clitk3.server

13 years agoUse clitk version of the itkPasteImageFilter
David Sarrut [Thu, 28 Jul 2011 09:44:22 +0000 (11:44 +0200)]
Use clitk version of the itkPasteImageFilter

13 years agoI dont want to verify inputs information, override VerifyInputInformation
David Sarrut [Thu, 28 Jul 2011 09:44:03 +0000 (11:44 +0200)]
I dont want to verify inputs information, override VerifyInputInformation

13 years agoI dont want to verify inputs information, override VerifyInputInformation
David Sarrut [Thu, 28 Jul 2011 09:43:54 +0000 (11:43 +0200)]
I dont want to verify inputs information, override VerifyInputInformation

13 years agoAdd a clitk version of itkPasteImageFilter because, with itkv4, there is a new Verify...
David Sarrut [Thu, 28 Jul 2011 09:42:48 +0000 (11:42 +0200)]
Add a clitk version of itkPasteImageFilter because, with itkv4, there is a new VerifyInputInformation function that prevent filter to be used with images having different physical space, while I want to do that.

13 years agoChange reading. Add possibility to update dicom info (before writing dicom)
David Sarrut [Wed, 27 Jul 2011 09:49:05 +0000 (11:49 +0200)]
Change reading. Add possibility to update dicom info (before writing dicom)

13 years agoSimplify (!) DicomRT reading. Store Reader to be able to write later.
David Sarrut [Wed, 27 Jul 2011 09:48:30 +0000 (11:48 +0200)]
Simplify (!) DicomRT reading. Store Reader to be able to write later.

13 years agoReplace ListOfROI (vector) by MapOfROI to avoid ambiguity between the ROI number...
David Sarrut [Wed, 27 Jul 2011 09:44:13 +0000 (11:44 +0200)]
Replace ListOfROI (vector) by MapOfROI to avoid ambiguity between the ROI number and the index.
Remplace GetROI with GetROIFromROINumber

13 years agoReplace ListOfROI (vector) by MapOfROI to avoid ambiguity between the ROI number...
David Sarrut [Wed, 27 Jul 2011 09:43:33 +0000 (11:43 +0200)]
Replace ListOfROI (vector) by MapOfROI to avoid ambiguity between the ROI number and the index

13 years agoChange GetROI by GetROIFromROINumber
David Sarrut [Wed, 27 Jul 2011 09:42:43 +0000 (11:42 +0200)]
Change GetROI by GetROIFromROINumber

13 years agoIndicate that --radius option is multiple. User can set one radius by dimension
David Sarrut [Wed, 27 Jul 2011 09:41:47 +0000 (11:41 +0200)]
Indicate that --radius option is multiple. User can set one radius by dimension

13 years agoRemove fucking windows ^M
David Sarrut [Wed, 27 Jul 2011 09:41:03 +0000 (11:41 +0200)]
Remove fucking windows ^M

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 agoUpdate supports & stations 3A,3P
David Sarrut [Mon, 25 Jul 2011 12:49:25 +0000 (14:49 +0200)]
Update supports & stations 3A,3P

13 years agoAdd clitkDicomRTStruct2Image and clitkImage2DicomRTStruct
David Sarrut [Mon, 25 Jul 2011 12:48:46 +0000 (14:48 +0200)]
Add clitkDicomRTStruct2Image and clitkImage2DicomRTStruct

13 years agoAdd clitkImage2DicomRTStruct executable to convert a binary image into a dicom-rt...
David Sarrut [Mon, 25 Jul 2011 08:28:01 +0000 (10:28 +0200)]
Add clitkImage2DicomRTStruct executable to convert a binary image into a dicom-rt struct

13 years agoAdd clitkImage2DicomRTStructFilter to convert an image into a dicom-rt-struct
David Sarrut [Mon, 25 Jul 2011 08:27:28 +0000 (10:27 +0200)]
Add clitkImage2DicomRTStructFilter to convert an image into a dicom-rt-struct

13 years agoRename clitkDicomRT_ROI_ConvertToImageFilter into clitkDicomRTStruct2ImageFilter
David Sarrut [Mon, 25 Jul 2011 08:27:00 +0000 (10:27 +0200)]
Rename clitkDicomRT_ROI_ConvertToImageFilter into clitkDicomRTStruct2ImageFilter

13 years agoAdd Write function (still to be defined)
David Sarrut [Mon, 25 Jul 2011 08:26:02 +0000 (10:26 +0200)]
Add Write function (still to be defined)

13 years agoRename clitkDicomRTStruct2BinaryImage in clitkDicomRTStruct2Image
David Sarrut [Mon, 25 Jul 2011 07:37:31 +0000 (09:37 +0200)]
Rename clitkDicomRTStruct2BinaryImage in clitkDicomRTStruct2Image

13 years agoRename clitkDicomRT_ROI_ConvertToImageFilter into clitkDicomRTStruct2ImageFilter
David Sarrut [Mon, 25 Jul 2011 07:36:25 +0000 (09:36 +0200)]
Rename clitkDicomRT_ROI_ConvertToImageFilter into clitkDicomRTStruct2ImageFilter

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