[Vv] [clitk-commits-list] clitk branch master updated. v1.2.0-1252-g2b5b3e9
Simon Rit
simon.rit at creatis.insa-lyon.fr
Fri Jun 7 15:23:04 CEST 2013
Hi,
I tried to compile yesterday. It must be added that only a recent
version of GDCM will have the required feature (the system version on
our cluster did not have it for example) so I used the git version.
Moreover, one must use the option
GDCM_USE_VTK:BOOL=ON
when compiling GDCM. Finally, make sure that you use the same GDCM_DIR
when compiling itk and clitk.
I had to correct a few things but compilation seems to work fine now,
I have added a dashboard for itk4+system gdcm:
http://my.cdash.org/index.php?project=VV
Simon
On Tue, Jun 4, 2013 at 10:28 AM, David Sarrut
<David.Sarrut at creatis.insa-lyon.fr> wrote:
> Hello,
>
> opening dicom-rt struct did not work properly with itk4.
>
> Now works with itk4 if compiled with system GDCM (git version). You still
> need to specify the GDCM_DIR in the vv/clitk cmake. Still work with itk3 as
> previously.
>
> In VV, to open a dicom-rt-struct : choose Tools->Open ROI.
>
> David
>
>
> On Tue, Jun 4, 2013 at 10:24 AM, root <root at tux.creatis.insa-lyon.fr> wrote:
>>
>> This is an automated email from the git hooks/post-receive script. It was
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>> the project "Public Command Line ITK tools and VV".
>>
>> The branch, master has been updated
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>> via 26bcb2de1cbf158bdb6b76175a7c8db4b5f269dc (commit)
>> via 35620b6e7b940cbeea17a58411e2dbba04484b17 (commit)
>> via c25433eb0e15bbaacdc9b1a976c8e19e6b155073 (commit)
>> via fff86d41f8c202d2a457fb6c135adfbb19d3342f (commit)
>> via 004bcd39f231a113951c678008140722b0b28152 (commit)
>> via 3750a66140f2bce96943760132383b368178671d (commit)
>> via 58f48784852ac6897f690a9ccbb2519ab8e5d9b6 (commit)
>> via 6602236c0915f243de03923120ff358744eaec8f (commit)
>> via 6705f1ed6b49ab6beb5361f97289db44da1dc3bb (commit)
>> via 292caf3cde03e7d88a074282ead314b0e2688a83 (commit)
>> via 9850d1cd9cbe91c5e2b5e4fcf217d30cfcecc621 (commit)
>> via 6986b996d66273ab7818c12f51cbf5ae049ac04e (commit)
>> via 57499386d9ad93360c10b27b6cd6b75442089810 (commit)
>> via f203197b333c9d9ebe8ec479ce42979306c63b20 (commit)
>> via 89a8fa2bb1c1b40c20011729ee6dca940ce96496 (commit)
>> via 4dc4827f49ddaf109bfb70fb1da7740e35d23040 (commit)
>> via db358353c7af7e999daac01b0dce3ed72be10a65 (commit)
>> via 13f714ac5d39785777cef3a7da2baa4f56ddaa91 (commit)
>> via 96e6c44903f61cc6238d51d574f4799f62d40a4e (commit)
>> via 9ad40998f59e733989f28f05bed0299979848638 (commit)
>> via ef33edbce5ce9f897e3e6acbc5d36718407329c0 (commit)
>> via d679103224c795e1e99cc3c33dd1c07fe94151f6 (commit)
>> via 7eb8ed48509d44c5685ecd3e23231762c815dacc (commit)
>> via e7cb2c22122c17c3bbc356165ddfb75a8512c66e (commit)
>> via 0a1b1d047250635b1f69ec1f5ee93bc3a51eee59 (commit)
>> via 3d1a811fcee80cb36cb8938a529d69c482f4fea2 (commit)
>> via 355af9d476ce187bd11cd851b823a49a1b3face7 (commit)
>> via fddfefca695764eac5d921342d1f764a6465cbde (commit)
>> via 1541351548cbb579168c9f1a16fe967c42a8d66a (commit)
>> via 495e7bfd8f4975243c556d0de35a558fc18cabde (commit)
>> via 4951184c1f1b9f31b2df0bc5b15dd4ab1c39990b (commit)
>> via 521d8b525b85c3c29c990c1e1ea6a2055270aa40 (commit)
>> via 0255ca419966ffe3fd22609cdc8693673e3e4cff (commit)
>> via b5bdc1984fefe2d79ebd5d791daa363c52c0f19b (commit)
>> via 7d0158cf9f84d02f978de3132dd7ea1e507d1adc (commit)
>> via fb28336c3cac08742cd8175bf9f74534d114c295 (commit)
>> via 9259ccb7138d0a678a677c8fccd283563154036e (commit)
>> from 97bd2d609084c4540825aea14a0095a54f437624 (commit)
>>
>> Those revisions listed above that are new to this repository have
>> not appeared on any other notification email; so we list those
>> revisions in full, below.
>>
>> - Log -----------------------------------------------------------------
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=2b5b3e906ee95519169e9b6d4bb2da9d2e00d8b3
>> commit 2b5b3e906ee95519169e9b6d4bb2da9d2e00d8b3
>> Merge: 26bcb2d 35620b6
>> Author: David Sarrut <david.sarrut at creatis.insa-lyon.fr>
>> Date: Tue Jun 4 10:24:32 2013 +0200
>>
>> Merge branch 'rtstruct-with-itk4'
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=26bcb2de1cbf158bdb6b76175a7c8db4b5f269dc
>> commit 26bcb2de1cbf158bdb6b76175a7c8db4b5f269dc
>> Merge: 0255ca4 97bd2d6
>> Author: David Sarrut <david.sarrut at creatis.insa-lyon.fr>
>> Date: Tue Jun 4 10:24:12 2013 +0200
>>
>> Merge branch 'master' of git.creatis.insa-lyon.fr:clitk
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=35620b6e7b940cbeea17a58411e2dbba04484b17
>> commit 35620b6e7b940cbeea17a58411e2dbba04484b17
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove debug
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=c25433eb0e15bbaacdc9b1a976c8e19e6b155073
>> commit c25433eb0e15bbaacdc9b1a976c8e19e6b155073
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Prevent to use deprecated function
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=fff86d41f8c202d2a457fb6c135adfbb19d3342f
>> commit fff86d41f8c202d2a457fb6c135adfbb19d3342f
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove debug.
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=004bcd39f231a113951c678008140722b0b28152
>> commit 004bcd39f231a113951c678008140722b0b28152
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Prevent to reload if contours from dicom-rt-struct
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=3750a66140f2bce96943760132383b368178671d
>> commit 3750a66140f2bce96943760132383b368178671d
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> cosmetic
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=58f48784852ac6897f690a9ccbb2519ab8e5d9b6
>> commit 58f48784852ac6897f690a9ccbb2519ab8e5d9b6
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove debug verbose
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=6602236c0915f243de03923120ff358744eaec8f
>> commit 6602236c0915f243de03923120ff358744eaec8f
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove open dicom struct -> use tool ROI instead
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=6705f1ed6b49ab6beb5361f97289db44da1dc3bb
>> commit 6705f1ed6b49ab6beb5361f97289db44da1dc3bb
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove open dicomstruct -> use tool ROI instead
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=292caf3cde03e7d88a074282ead314b0e2688a83
>> commit 292caf3cde03e7d88a074282ead314b0e2688a83
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove debug verbose
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=9850d1cd9cbe91c5e2b5e4fcf217d30cfcecc621
>> commit 9850d1cd9cbe91c5e2b5e4fcf217d30cfcecc621
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add GDCM lib
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=6986b996d66273ab7818c12f51cbf5ae049ac04e
>> commit 6986b996d66273ab7818c12f51cbf5ae049ac04e
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> First version to convert image to dicomrtstruct
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=57499386d9ad93360c10b27b6cd6b75442089810
>> commit 57499386d9ad93360c10b27b6cd6b75442089810
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove gdcm dep
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=f203197b333c9d9ebe8ec479ce42979306c63b20
>> commit f203197b333c9d9ebe8ec479ce42979306c63b20
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove debug
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=89a8fa2bb1c1b40c20011729ee6dca940ce96496
>> commit 89a8fa2bb1c1b40c20011729ee6dca940ce96496
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Use vtkGDCMPolyDataReader to read mesh
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=4dc4827f49ddaf109bfb70fb1da7740e35d23040
>> commit 4dc4827f49ddaf109bfb70fb1da7740e35d23040
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Indicate that shift cuold be used on mac to grab image
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=db358353c7af7e999daac01b0dce3ed72be10a65
>> commit db358353c7af7e999daac01b0dce3ed72be10a65
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Allow to combine multiple elastix transfo
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=13f714ac5d39785777cef3a7da2baa4f56ddaa91
>> commit 13f714ac5d39785777cef3a7da2baa4f56ddaa91
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Compile with both itk3 and itk4
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=96e6c44903f61cc6238d51d574f4799f62d40a4e
>> commit 96e6c44903f61cc6238d51d574f4799f62d40a4e
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> remove file present in (system) gdcm
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=9ad40998f59e733989f28f05bed0299979848638
>> commit 9ad40998f59e733989f28f05bed0299979848638
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Read with vtkGDCMPolyDataReader
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=ef33edbce5ce9f897e3e6acbc5d36718407329c0
>> commit ef33edbce5ce9f897e3e6acbc5d36718407329c0
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Read dicom-rt with vtkGDCMPolyDataReader
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=d679103224c795e1e99cc3c33dd1c07fe94151f6
>> commit d679103224c795e1e99cc3c33dd1c07fe94151f6
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add gdcm lib is compiled with system gdcm
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=7eb8ed48509d44c5685ecd3e23231762c815dacc
>> commit 7eb8ed48509d44c5685ecd3e23231762c815dacc
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Check if itk was compiled with system_gdcm
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=e7cb2c22122c17c3bbc356165ddfb75a8512c66e
>> commit e7cb2c22122c17c3bbc356165ddfb75a8512c66e
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove unused option
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=0a1b1d047250635b1f69ec1f5ee93bc3a51eee59
>> commit 0a1b1d047250635b1f69ec1f5ee93bc3a51eee59
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Change tool description
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=3d1a811fcee80cb36cb8938a529d69c482f4fea2
>> commit 3d1a811fcee80cb36cb8938a529d69c482f4fea2
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Replace old gdcm code with vtkGDCMPolyData
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=355af9d476ce187bd11cd851b823a49a1b3face7
>> commit 355af9d476ce187bd11cd851b823a49a1b3face7
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> for vvToolROIManager, add link with gdcm-vtk
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=fddfefca695764eac5d921342d1f764a6465cbde
>> commit fddfefca695764eac5d921342d1f764a6465cbde
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Check if use system gdcm to include vtkGDCMPolyData
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=1541351548cbb579168c9f1a16fe967c42a8d66a
>> commit 1541351548cbb579168c9f1a16fe967c42a8d66a
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Remove verbose debug
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=495e7bfd8f4975243c556d0de35a558fc18cabde
>> commit 495e7bfd8f4975243c556d0de35a558fc18cabde
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add variable CLITK_USE_SYSTEM_GDCM
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=4951184c1f1b9f31b2df0bc5b15dd4ab1c39990b
>> commit 4951184c1f1b9f31b2df0bc5b15dd4ab1c39990b
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add libvtkgdcm to clitkDicomRTStructLib
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=521d8b525b85c3c29c990c1e1ea6a2055270aa40
>> commit 521d8b525b85c3c29c990c1e1ea6a2055270aa40
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add option to link with external gdcm (forrt-struct + itk4)
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=0255ca419966ffe3fd22609cdc8693673e3e4cff
>> commit 0255ca419966ffe3fd22609cdc8693673e3e4cff
>> Merge: b5bdc19 05c1da2
>> Author: David Sarrut <david.sarrut at creatis.insa-lyon.fr>
>> Date: Tue May 21 08:50:16 2013 +0200
>>
>> Merge branch 'master' of git.creatis.insa-lyon.fr:clitk
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=b5bdc1984fefe2d79ebd5d791daa363c52c0f19b
>> commit b5bdc1984fefe2d79ebd5d791daa363c52c0f19b
>> Merge: 7d0158c 37b378b
>> Author: David Sarrut <david.sarrut at creatis.insa-lyon.fr>
>> Date: Wed Apr 24 08:21:28 2013 +0200
>>
>> Merge branch 'master' of git.creatis.insa-lyon.fr:clitk
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=7d0158cf9f84d02f978de3132dd7ea1e507d1adc
>> commit 7d0158cf9f84d02f978de3132dd7ea1e507d1adc
>> Merge: fb28336 7f45687
>> Author: David Sarrut <david.sarrut at creatis.insa-lyon.fr>
>> Date: Fri Apr 19 13:22:58 2013 +0200
>>
>> Merge branch 'master' of git.creatis.insa-lyon.fr:clitk
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=fb28336c3cac08742cd8175bf9f74534d114c295
>> commit fb28336c3cac08742cd8175bf9f74534d114c295
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Deal with options --like and --spacinglike at the same time
>>
>>
>>
>> http://git.creatis.insa-lyon.fr/pubgit/?p=clitk.git;a=commitdiff;h=9259ccb7138d0a678a677c8fccd283563154036e
>> commit 9259ccb7138d0a678a677c8fccd283563154036e
>> Author: David Sarrut <david.sarrut at gmail.com>
>> Date: Fri Feb 3 07:57:12 2012 +0100
>>
>> Add option "spacinglike"
>>
>>
>> -----------------------------------------------------------------------
>>
>> Summary of changes:
>> cmake/build_opt.cmake | 1 +
>> cmake/dependencies.cmake | 19 +
>> common/CMakeLists.txt | 31 +-
>> common/clitkConfiguration.h.in | 1 +
>> common/clitkDicomRTStruct2ImageFilter.cxx | 10 +-
>> common/clitkDicomRT_ROI.cxx | 83 ++-
>> common/clitkDicomRT_ROI.h | 10 +
>> common/clitkDicomRT_StructureSet.cxx | 42 +-
>> common/clitkDicomRT_StructureSet.h | 8 +
>> common/clitkImage2DicomRTStructFilter.h | 11 +-
>> common/clitkImage2DicomRTStructFilter.txx | 159 +++++-
>> common/vtkGDCMPolyDataReader.cxx | 826
>> ----------------------------
>> common/vtkGDCMPolyDataReader.h | 101 ----
>> itk/clitkBinaryImageToMeshFilter.h | 131 +++++
>> itk/clitkBinaryImageToMeshFilter.txx | 194 +++++++
>> itk/clitkExtractSliceFilter.txx | 5 +-
>> tools/clitkAffineTransform.ggo | 3 +-
>> tools/clitkAffineTransformGenericFilter.h | 2 +-
>> tools/clitkAffineTransformGenericFilter.txx | 164 ++++--
>> vv/CMakeLists.txt | 17 +-
>> vv/qt_ui/vvHelpDialog.ui | 44 +-
>> vv/qt_ui/vvMainWindow.ui | 3 +-
>> vv/vvMainWindow.cxx | 4 +-
>> vv/vvMeshReader.cxx | 285 ++++++----
>> vv/vvToolROIManager.cxx | 14 +-
>> 25 files changed, 996 insertions(+), 1172 deletions(-)
>> delete mode 100644 common/vtkGDCMPolyDataReader.cxx
>> delete mode 100644 common/vtkGDCMPolyDataReader.h
>> create mode 100644 itk/clitkBinaryImageToMeshFilter.h
>> create mode 100644 itk/clitkBinaryImageToMeshFilter.txx
>>
>>
>> hooks/post-receive
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