OK so, I've been trying to get SimpleElastix compiling under Ubuntu 14.04 x64 and have

OK so, figured it out: You were correct in <a c

Error while building sitkSimpleElastix.cxx under Linux about simpleelastix HOT 2 CLOSED

superelastix commented on July 18, 2024

Error while building sitkSimpleElastix.cxx under Linux

from simpleelastix.

Comments (2)

talmo commented on July 18, 2024

OK so, figured it out:

You were correct in #15 that I was trying to compile from the develop branch while using an older version of elastix (the current public branch one). I switched back to SimpleElastix and just added in the auth for the svn.
It seems like there's an issue with cmake(?) or something but it was incorrectly using cc and c++ instead of gcc and g++ to build, so all the functions using C++11 features were failing. I fixed that by explicitly setting the compiler paths:

cmake -DCMAKE_CXX_COMPILER=$(which g++) -DCMAKE_C_COMPILER=$(which gcc) ../SimpleElastix-SimpleElastix/SuperBuild
make CXX=$(which g++) CC=$(which gcc) -j6

The python wrapper wasn't building. I'm using anaconda and it seems like even if the paths are set in my environment, cmake still won't pick up on them, so I ended up setting them explicitly, to yield the final calls:


cd ~/SimpleElastix/SimpleElastix-SimpleElastix_build/ && rm -rf * && cmake 
    -DCMAKE_CXX_COMPILER=$(which g++) 
    -DCMAKE_C_COMPILER=$(which gcc) 
    -DWRAP_PYTHON=ON 
    -DPYTHON_INCLUDE_DIR=/home/talmo/anaconda/include/python2.7/ 
    -DPYTHON_INCLUDE_DIR2=/home/talmo/anaconda/include/python2.7 
    -DPYTHON_LIBRARY=/home/talmo/anaconda/lib/libpython2.7.so 
    -DPYTHON_LIBRARY_DEBUG=/home/talmo/anaconda/lib/libpython2.7.so 
    -DPYTHON_LIBRARY_RELEASE=/home/talmo/anaconda/lib/libpython2.7.so
    ../SimpleElastix-SimpleElastix/SuperBuild

make CXX=$(which g++) CC=$(which gcc) -j6

Now it works :)

from simpleelastix.

commented on July 18, 2024

Hello,

I've tried to compiled under ubuntu 14.04 x64 as well, running into a similar error:

[...]

[ 26%] Built target ITKJPEG-all
[ 26%] Generating tif_fax3sm.c
/bin/sh: 1: ./itkmkg3states: Permission denied
make[5]: *** [Modules/ThirdParty/TIFF/src/itktiff/tif_fax3sm.c] Error 126
make[4]: *** [Modules/ThirdParty/TIFF/src/itktiff/CMakeFiles/itktiff.dir/all] Error 2
make[4]: *** Waiting for unfinished jobs....
[ 38%] Built target itkhdf5
[ 51%] Built target itkvnl
[ 67%] Built target itkv3p_netlib
make[3]: *** [all] Error 2
make[2]: *** [ITK-prefix/src/ITK-stamp/ITK-install] Error 2
make[1]: *** [CMakeFiles/ITK.dir/all] Error 2
make: *** [all] Error 2

I've googled around already, but I do not a have a clue what to change.
I would appreciate any help.

Thanks in advance!

from simpleelastix.

Recommend Projects