Text archives Help

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On 25/01/12 03:50, Ayla Khan wrote:

Hi Ramon,

We are not building the wxWidgets interface any more, but I remember
that we ran into similar problems with wxWidgets GTK 2.8.10. We patched
it for building on Linux - the source is still available:
wxGTK-2.8.10_gsocket_patch.tar.gz
<http://www.sci.utah.edu/devbuilds/seg3d/wxGTK-2.8.10_gsocket_patch.tar.gz>
if you want to have a look at it. If I recall correctly, we were
compiling with GCC 4.5.

Hi Ayla,

I have been trying this for the last week, using gcc 4.5, fresh check out, and fixes here and there, but it just doesn't want to compile.

A colleague is working on segmentation of fetuses arms, and they would like to try the spline tool (they do a lot of segmentations at the hospital, and this could speed them up). AFAIK, the only implementation available is in

https://code.sci.utah.edu/svn/cibc/cibc/branches/seg3d_spline_tool/SCIRun

as it was never merged back into trunk or ported to Seg3D2. Doing a checkout, and running

$ ./build.sh --seg3d-only

gives a couple of compilation errors that can be fixed by editing src/Externals/vispack/CMakeLists.txt from

FIND_PACKAGE(TEEM REQUIRED)

to

FIND_PACKAGE(Teem REQUIRED)

and also adding #include <stdio.h> to src/Externals/vispack/apps/distance/IOScalarField.h and src/Externals/vispack/apps/distance/ReconstructionField.cxx.

However, now I get a linking error (see at the bottom). I suspect, this is because external libraries changed, while the code in the branch remained fixed. Is there a way to checkout the source code of the externals as they were when my branch was last compilable?

On a related note, is there any actual plan to add the spline tool into Seg3D2, or is this something we should better consider a thing of the past (2 years after our visit to SCI ;) ) and just move on?


<ERROR>
Linking CXX executable ../../../../distance3
CMakeFiles/distance3.dir/volutils.o: In function `writeTensorVolumeFile(char*, VISVolume<VISMatrix> const&)':
volutils.cxx:(.text+0x44f): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x47e): undefined reference to `nrrdAlloc_va'
volutils.cxx:(.text+0x5b5): undefined reference to `nrrdSave'
volutils.cxx:(.text+0x5c4): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x5c9): undefined reference to `biffGetDone'
volutils.cxx:(.text+0x64a): undefined reference to `nrrdNuke'
CMakeFiles/distance3.dir/volutils.o: In function `writeTensorVolumeFile(char*, VISVolume<VISMatrix> const&, VISVolume<float> const&)':
volutils.cxx:(.text+0x6d3): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x704): undefined reference to `nrrdAlloc_va'
volutils.cxx:(.text+0x857): undefined reference to `nrrdSave'
volutils.cxx:(.text+0x866): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x86b): undefined reference to `biffGetDone'
volutils.cxx:(.text+0x8ec): undefined reference to `nrrdNuke'
CMakeFiles/distance3.dir/volutils.o: In function `readScalarVolumeFile(char*)':
volutils.cxx:(.text+0x9de): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x9ee): undefined reference to `nrrdLoad'
volutils.cxx:(.text+0xa16): undefined reference to `nrrdType'
volutils.cxx:(.text+0xa1b): undefined reference to `airEnumStr'
volutils.cxx:(.text+0xae3): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0xae8): undefined reference to `biffGetDone'
CMakeFiles/distance3.dir/volutils.o: In function `writeVectorVolumeFile(char*, VISVolume<VISVector> const&)':
volutils.cxx:(.text+0x111f): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x114e): undefined reference to `nrrdAlloc_va'
volutils.cxx:(.text+0x1215): undefined reference to `nrrdSave'
volutils.cxx:(.text+0x1224): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x1229): undefined reference to `biffGetDone'
volutils.cxx:(.text+0x12aa): undefined reference to `nrrdNuke'
CMakeFiles/distance3.dir/volutils.o: In function `writeScalarVolumeFile(char*, VISVolume<float> const&)':
volutils.cxx:(.text+0x1324): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x1343): undefined reference to `nrrdAlloc_va'
volutils.cxx:(.text+0x13bc): undefined reference to `nrrdSave'
volutils.cxx:(.text+0x13c8): undefined reference to `nrrdNuke'
volutils.cxx:(.text+0x13f3): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x13f8): undefined reference to `biffGetDone'
CMakeFiles/distance3.dir/volutils.o: In function `readTensorVolumeFile(char*)':
volutils.cxx:(.text+0x1484): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x1496): undefined reference to `nrrdLoad'
volutils.cxx:(.text+0x14d0): undefined reference to `nrrdType'
volutils.cxx:(.text+0x14d5): undefined reference to `airEnumStr'
volutils.cxx:(.text+0x159d): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x15a2): undefined reference to `biffGetDone'
volutils.cxx:(.text+0x165e): undefined reference to `nrrdType'
volutils.cxx:(.text+0x1663): undefined reference to `airEnumStr'
volutils.cxx:(.text+0x1695): undefined reference to `nrrdElementSize'
volutils.cxx:(.text+0x16a2): undefined reference to `nrrdElementNumber'
volutils.cxx:(.text+0x1a71): undefined reference to `nrrdNuke'
CMakeFiles/distance3.dir/volutils.o: In function `readVectorVolumeFile(char*)':
volutils.cxx:(.text+0x1fd4): undefined reference to `nrrdNew'
volutils.cxx:(.text+0x1fe4): undefined reference to `nrrdLoad'
volutils.cxx:(.text+0x2016): undefined reference to `nrrdType'
volutils.cxx:(.text+0x201b): undefined reference to `airEnumStr'
volutils.cxx:(.text+0x20e9): undefined reference to `nrrdBiffKey'
volutils.cxx:(.text+0x20ee): undefined reference to `biffGetDone'
volutils.cxx:(.text+0x216b): undefined reference to `nrrdType'
volutils.cxx:(.text+0x2170): undefined reference to `airEnumStr'
volutils.cxx:(.text+0x219b): undefined reference to `nrrdElementSize'
volutils.cxx:(.text+0x21a6): undefined reference to `nrrdElementNumber'
collect2: ld returned 1 exit status
make[2]: *** [distance3] Error 1
make[1]: *** [Externals/vispack/apps/distance/CMakeFiles/distance3.dir/all] Error 2
make: *** [all] Error 2
</ERROR>


Best regards,

Ramon.

--
Dr. Ramón Casero Cañas

Computational Biology
Department of Computer Science
University of Oxford
Wolfson Building, Parks Rd
Oxford OX1 3QD

tlf     +44 (0) 1865 610737
web     http://www.cs.ox.ac.uk/people/Ramon.CaseroCanas
photos  http://www.flickr.com/photos/rcasero/

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• [Seg3D] Re: Re: ubuntu 11.10 build error in Seg3D_1.12_20090930, Ramón Casero Cañas, 02/16/2012
  • [Seg3D] Re: Re: Re: ubuntu 11.10 build error in Seg3D_1.12_20090930, Ayla Khan, 02/17/2012

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