FS#50672 - [cmake] error in FindHDF5.cmake module
Attached to Project:
Arch Linux
Opened by Michele Mocciola (mickele) - Monday, 05 September 2016, 22:16 GMT
Last edited by Felix Yan (felixonmars) - Tuesday, 04 April 2017, 17:17 GMT
Opened by Michele Mocciola (mickele) - Monday, 05 September 2016, 22:16 GMT
Last edited by Felix Yan (felixonmars) - Tuesday, 04 April 2017, 17:17 GMT
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Details
Description:
Module FindHDF5.cmake creates wrong HDF5_DEFINITIONS variable. On my system it should be equale to "-D_FORTIFY_SOURCE=2", but it is equal to "_FORTIFY_SOURCE=2". Module removes -D. This issue causes an error at compile time. Attached patch solves the issue. Additional info: * version 3.6 * compile KERNEL module of http://www.salome-platform.org/ Steps to reproduce: download src.7.8.0.tar.gz from "http://files.salome-platform.org/Salome/Salome7.8.0/src7.8.0.tar.gz" Install Untar tha package and enter KERNEL_SRC/ After installing 'python2-numpy' 'boost' 'omniorb416' 'omniorbpy36' 'omninotify-omniorb416' 'hdf5_18' 'graphviz' 'libxml2' 'cppunit' 'lapack' 'net-tools' 'openmpi' launch cmake . \ -DCMAKE_BUILD_TYPE=Debug \ -DCMAKE_VERBOSE_MAKEFILE=On \ -DSALOME_CMAKE_DEBUG=On \ -DSALOME_USE_LIBBATCH=On \ -DSALOME_USE_MPI=On \ -DMPI_ROOT_DIR=/usr \ -DHDF5_C_COMPILER_EXECUTABLE=/usr/bin/h5cc_18 \ -DHDF5_C_LIBRARY_hdf5=/usr/lib/hdf5_18/libhdf5.so \ -DHDF5_DIFF_EXECUTABLE=/usr/bin/h5diff_18 \ -DHDF5_INCLUDE_DIR=/usr/include/hdf5_18 \ -DPYTHON_EXECUTABLE=/usr/bin/python2 \ -DPTHREAD_ROOT_DIR=/usr \ -DBOOST_ROOT_DIR=/usr \ -DCPPUNIT_ROOT_DIR=/usr \ -DDOXYGEN_ROOT_DIR=/usr \ -DGRAPHVIZ_ROOT_DIR=/usr \ -DSPHINX_EXECUTABLE=/usr/bin/sphinx-build2 \ -DSPHINX_APIDOC_EXECUTABLE=/usr/bin/sphinx-apidoc2 \ -DOMNIORB_ROOT_DIR=/usr \ -DOMNIORBPY_ROOT_DIR=/usr \ -DSWIG_EXECUTABLE=/usr/bin/swig-2 \ -DLIBXML2_ROOT_DIR=/usr \ -DLibXml2_DIR=/usr/lib/cmake/libxml2 \ -DLIBXML2_INCLUDE_DIR=/usr/include/libxml2 and subsequently make You'll have error [ 15%] Building C object src/HDFPersist/CMakeFiles/SalomeHDFPersist.dir/HDFarrayClose.c.o cd /home/mickele/aur-work/salome-kernel/src/KERNEL_SRC/build/src/HDFPersist && /usr/bin/cc -DH5_USE_16_API -DPCLINUX64 -DSalomeHDFPersist_EXPORTS -DWITH_PORTMANAGER -D_DEBUG_ -I/usr/include/hdf5_18 -I/usr/lib/include -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -g -fPIC _FORTIFY_SOURCE=2 -o CMakeFiles/SalomeHDFPersist.dir/HDFarrayClose.c.o -c /home/mickele/aur-work/salome-kernel/src/KERNEL_SRC/src/HDFPersist/HDFarrayClose.c cc: error: _FORTIFY_SOURCE=2: File o directory not found |
This task depends upon
Closed by Felix Yan (felixonmars)
Tuesday, 04 April 2017, 17:17 GMT
Reason for closing: Upstream
Additional comments about closing: 3.7.2
Tuesday, 04 April 2017, 17:17 GMT
Reason for closing: Upstream
Additional comments about closing: 3.7.2
For me this bug can be closed.