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Re: [moose-devel] Compile problem
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From: Dilawar S. <dil...@gm...> - 2014-05-01 18:03:42
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Thanks a lot Saeed,
Libxml2 turns out to be unnecessary. It has been removed now from cmake.
Removed some of the compiler flags specific to gcc-4.8. This should compile
now. Moose also compiles with clang++.
A couple to tests might fail on default tests enabled in cmake.
Dilawar
On Thu, May 01, 2014 at 11:36:56AM -0300, Saeed Shariati wrote:
>Thank you Dilawar.
>
>The CMake build system needs also libxml2-dev package to be installed
>and after executing, produce the outputs which is attached to this
>email.
>
>On 05/01/2014 01:35 AM, Dilawar Singh wrote:
>>Hi Saeed,
>>
>>Fixed. Added missing files.
>>
>>Also there is a cmake based build system. I'd be happy if you can test it on
>>your system and let me know how it went. You need to install cmake and do the
>>following in async branch.
>>
>> $ cd buildMooseUsingCmake
>> $ ./build_me.sh
>>
>>Dilawar
>>
>>
>>------------------------------------------------------------------------------
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>>
>
>Removing any accidentally created cmake files.
>-- The C compiler identification is GNU
>-- The CXX compiler identification is GNU
>-- Check for working C compiler: /usr/bin/gcc
>-- Check for working C compiler: /usr/bin/gcc -- works
>-- Detecting C compiler ABI info
>-- Detecting C compiler ABI info - done
>-- Check for working CXX compiler: /usr/bin/c++
>-- Check for working CXX compiler: /usr/bin/c++ -- works
>-- Detecting CXX compiler ABI info
>-- Detecting CXX compiler ABI info - done
>/usr
>-- Using GSL from /usr
>++ Unit testing enabled.
>++ Verbosity of output is 1
>-- Found: /usr/lib/libhdf5.so
>-- Could NOT find BZip2 (missing: BZIP2_LIBRARIES BZIP2_INCLUDE_DIR)
>--
>-- Could NOT find LIBSBML (missing: LIBSBML_LIBRARY LIBSBML_INCLUDE_DIR)
>-- Found Curses: /usr/lib/x86_64-linux-gnu/libcurses.so
>-- Could NOT find Readline (missing: Readline_INCLUDE_DIR)
>-- Found LibXML2: /usr/lib/x86_64-linux-gnu/libxml2.so
>-- Found PythonInterp: /usr/bin/python (found version "2.7.3")
>-- Found NumPy: version "1.6.1" /usr/lib/python2.7/dist-packages/numpy/core/include
>-- Found PythonLibs: optimized;/usr/lib/libpython2.7.so.1;debug;/usr/lib/libpython2.7.so.1 (found version "2.7")
>++ PYTHONPATH is set to /home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/python
>-- Configuring done
>-- Generating done
>-- Build files have been written to: /home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/buildMooseUsingCmake
>Scanning dependencies of target utility
>[ 1%] Building CXX object utility/CMakeFiles/utility.dir/strutil.cpp.o
>[ 1%] Building CXX object utility/CMakeFiles/utility.dir/types.cpp.o
>[ 2%] Building CXX object utility/CMakeFiles/utility.dir/setupenv.cpp.o
>[ 2%] Building CXX object utility/CMakeFiles/utility.dir/numutil.cpp.o
>[ 3%] Building CXX object utility/CMakeFiles/utility.dir/Annotator.cpp.o
>[ 4%] Building CXX object utility/CMakeFiles/utility.dir/Vec.cpp.o
>Linking CXX static library libutility.a
>[ 4%] Built target utility
>Scanning dependencies of target debug_print
>[ 4%] Building CXX object external/debug/CMakeFiles/debug_print.dir/print_function.cc.o
>Linking CXX static library libdebug_print.a
>[ 4%] Built target debug_print
>Scanning dependencies of target biophysics
>[ 4%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SpikeRingBuffer.cpp.o
>[ 5%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SynHandler.cpp.o
>[ 6%] Building CXX object biophysics/CMakeFiles/biophysics.dir/IntFire.cpp.o
>[ 6%] Building CXX object biophysics/CMakeFiles/biophysics.dir/Synapse.cpp.o
>[ 7%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SpikeGen.cpp.o
>[ 7%] Building CXX object biophysics/CMakeFiles/biophysics.dir/Compartment.cpp.o
>[ 8%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SymCompartment.cpp.o
>[ 8%] Building CXX object biophysics/CMakeFiles/biophysics.dir/ChanBase.cpp.o
>[ 9%] Building CXX object biophysics/CMakeFiles/biophysics.dir/HHChannel.cpp.o
>[ 10%] Building CXX object biophysics/CMakeFiles/biophysics.dir/HHGate.cpp.o
>[ 10%] Building CXX object biophysics/CMakeFiles/biophysics.dir/CaConc.cpp.o
>[ 11%] Building CXX object biophysics/CMakeFiles/biophysics.dir/Neuron.cpp.o
>[ 11%] Building CXX object biophysics/CMakeFiles/biophysics.dir/ReadCell.cpp.o
>[ 12%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SynChanBase.cpp.o
>[ 13%] Building CXX object biophysics/CMakeFiles/biophysics.dir/SynChan.cpp.o
>[ 13%] Building CXX object biophysics/CMakeFiles/biophysics.dir/testBiophysics.cpp.o
>[ 14%] Building CXX object biophysics/CMakeFiles/biophysics.dir/IzhikevichNrn.cpp.o
>Linking CXX static library libbiophysics.a
>[ 14%] Built target biophysics
>Scanning dependencies of target basecode
>[ 15%] Building CXX object basecode/CMakeFiles/basecode.dir/consts.cpp.o
>[ 15%] Building CXX object basecode/CMakeFiles/basecode.dir/Element.cpp.o
>[ 16%] Building CXX object basecode/CMakeFiles/basecode.dir/DataElement.cpp.o
>[ 16%] Building CXX object basecode/CMakeFiles/basecode.dir/GlobalDataElement.cpp.o
>[ 17%] Building CXX object basecode/CMakeFiles/basecode.dir/LocalDataElement.cpp.o
>[ 18%] Building CXX object basecode/CMakeFiles/basecode.dir/Eref.cpp.o
>[ 18%] Building CXX object basecode/CMakeFiles/basecode.dir/Finfo.cpp.o
>[ 19%] Building CXX object basecode/CMakeFiles/basecode.dir/DestFinfo.cpp.o
>[ 19%] Building CXX object basecode/CMakeFiles/basecode.dir/Cinfo.cpp.o
>In file included from /home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/header.h:17:0,
> from /home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/Cinfo.cpp:10:
>/home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/../external/debug/print_function.h: In function ???std::string mapToString(const std::map<A, B>&, bool) [with A = std::basic_string<char>, B = Cinfo*, std::string = std::basic_string<char>]???:
>/home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/Cinfo.cpp:208:55: instantiated from here
>/home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/../external/debug/print_function.h:110:18: error: comparison between signed and unsigned integer expressions [-Werror=sign-compare]
>/home/saeed/src/cuda-workspace/moose-code/moose/branches/async13/basecode/../external/debug/print_function.h:112:9: error: comparison between signed and unsigned integer expressions [-Werror=sign-compare]
>At global scope:
>cc1plus: error: unrecognized command line option "-Wno-unused-private-field" [-Werror]
>cc1plus: error: unrecognized command line option "-Wno-return-type-c-linkage" [-Werror]
>cc1plus: all warnings being treated as errors
>make[2]: *** [basecode/CMakeFiles/basecode.dir/Cinfo.cpp.o] Error 1
>make[1]: *** [basecode/CMakeFiles/basecode.dir/all] Error 2
>make: *** [all] Error 2
>------------------------------------------------------------------------------
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