[Debian-med-packaging] Bug#698386: Is there a future for ITKSNAP?

[Paul Yushkevich]

Hi Gert,

I am going to try looking into this problem this week. I have been building
on Centos, and there the Qt plugins are being picked up just fine. I
suspect the crash is due to the missing plugin, but I am not sure.

Could you tell me why including all VTK libs and GDCM libs was required?

Thanks!
Paul

On Thu, Oct 16, 2014 at 7:33 AM, Gert Wollny <gw.fossdev at gmail.com> wrote:

> Hello Paul,
>
> in Debian we are currently at ITK 4.6 and VTK 6.1 and AFAICS this is
> what will go into Jessie. Hence, if you could get a version released
> that can be compiled with these two libraries, we could update it,
> Note however, that the freeze for Jessie is only a few weeks away.
>
>
> > Here is a table of version compatibility between versions of ITK-SNAP,
> ITK,
> > VTK and Qt.
> >
> http://www.itksnap.org/pmwiki/pmwiki.php?n=Documentation.BuildingITK-SNAP.
>
> With the latest dev32 branch I get
>
>  get_property could not find TARGET Qt5::QXcbIntegrationPlugin.
>   Perhaps it has not yet been created.
>
>
> CMake Error at CMakeLists.txt:1134 (get_property):
>   get_property could not find TARGET Qt5::QGifPlugin.  Perhaps it has
>   not yet been created.
>
> and I just don't know whether this is a problem with itksnap not
> properly searching or because the QT5 packages (>5.3) don't include
> these plugins for some reason. I  have
>   /usr/lib/x86_64-linux-gnu/qt5/plugins/imageformats/libqgif.so
> and
>   /usr/lib/x86_64-linux-gnu/qt5/plugins/platforms/libqxcb.so
>
> --
>
> Well, after some fiddling I got the attached patch that makes it build.
>
> This patch does the following:
>
> * revert dd5b67 (this is where above plug-ins are searched for)
> * Add a Find_package for gdcm and gdcmCommon to the link_libraries.
> * Use all vtk libraries
>
> With this the software as of commit 32eaf0+patch builds with the warning
> about libjpeg.so.62 and libjpeg.so.8 being pulled in at the same time
> (The first is  the fault of libtiff  and should go away when a new
> libtiff gets build against libjpeg.so.8 )
>
> The resulting executable segfaults though:
>
> ./ITK-SNAP(_Z24SegmentationFaultHandleri+0x7b)[0x74b25b]
> /lib/x86_64-linux-gnu/libpthread.so.0(+0xf8d0)[0x7f60494958d0]
> /lib/x86_64-linux-gnu/libc.so.6(strlen+0x2a)[0x7f60272d4a3a]
>
> /usr/lib/x86_64-linux-gnu/libQt5Core.so.5(_ZN16QCoreApplication9argumentsEv+0xb1)[0x7f6027df4b41]
>
> /usr/lib/x86_64-linux-gnu/qt5/plugins/platforms/libqxcb.so(+0x3260f)[0x7f600caa160f]
>
> /usr/lib/x86_64-linux-gnu/qt5/plugins/platforms/libqxcb.so(+0x32923)[0x7f600caa1923]
>
> /usr/lib/x86_64-linux-gnu/qt5/plugins/platforms/libqxcb.so(+0x40f3c)[0x7f600caaff3c]
>
> /usr/lib/x86_64-linux-gnu/qt5/plugins/platforms/libqxcb.so(+0x32061)[0x7f600caa1061]
> /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5(_ZN14QWindowPrivate6createEb
> +0x66)[0x7f602833a4b6]
>
> /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5(_ZN10QGLContext13chooseContextEPKS_+0x133)[0x7f6029481423]
> /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5(_ZN10QGLContext6createEPKS_
> +0x26)[0x7f6029459c36]
>
> /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5(_ZN9QGLWidget10setContextEP10QGLContextPKS0_b+0xaf)[0x7f6029480e8f]
>
> /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5(_ZN16QGLWidgetPrivate11initContextEP10QGLContextPK9QGLWidget+0x7f)[0x7f602945e1cf]
>
> /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5(_ZN9QGLWidgetC2EP7QWidgetPKS_6QFlagsIN2Qt10WindowTypeEE+0x10a)[0x7f602945df2a]
> ./ITK-SNAP(_ZN19QtAbstractOpenGLBoxC1EP7QWidget+0xd)[0x7fa46d]
> ./ITK-SNAP(_ZN16GenericSliceViewC2EP7QWidget+0x12)[0x7f4212]
> ./ITK-SNAP(_ZN17Ui_SliceViewPanel7setupUiEP7QWidget+0x2154)[0x7ed1f4]
> ./ITK-SNAP(_ZN14SliceViewPanelC1EP7QWidget+0x55)[0x7e6ad5]
> ./ITK-SNAP(_ZN18Ui_MainImageWindow7setupUiEP11QMainWindow
> +0x250b)[0x781c6b]
> ./ITK-SNAP(_ZN15MainImageWindowC2EP7QWidget+0x64)[0x772f24]
> ./ITK-SNAP(main+0x1c0)[0x744f00]
> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf5)[0x7f6027274b45]
> ./ITK-SNAP[0x74b0f7]
>
>
>
> Best
> Gert
>
>


-- 
Paul A. Yushkevich, Ph.D.
Associate Professor
Penn Image Computing and Science Laboratory
Department of Radiology
University of Pennsylvania
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