sci-chemistry:openbabel-2.3.2-r1:20160917-180617.log

sci-chemistry:openbabel-2.3.2-r1:20160917-180617.log (text/plain), 9.17 KB, created by Toralf Förster on 2016-09-17 22:26:23 UTC

 * Package:    sci-chemistry/openbabel-2.3.2-r1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux openmp userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking openbabel-2.3.2.tar.gz to /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2 ...
 * Applying openbabel-2.3.2-test_lib_path.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build"
cmake --no-warn-unused-cli -C /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DOPENBABEL_USE_SYSTEM_INCHI=ON -DENABLE_OPENMP=ON -DBUILD_GUI=OFF -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_INSTALL_DO_STRIP=OFF -DCMAKE_USER_MAKE_RULES_OVERRIDE=/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/gentoo_rules.cmake -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/gentoo_toolchain.cmake  /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2
Not searching for unused variables given on the command line.
loading initial cache file /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/gentoo_common_config.cmake
-- The C compiler identification is GNU 6.2.0
-- The CXX compiler identification is GNU 6.2.0
-- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc
-- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++
-- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found INCHI: /usr/lib64/libinchi.so  
-- Found LibXml2: /usr/lib64/libxml2.so (found version "2.9.4") 
-- Found ZLIB: /usr/lib64/libz.so (found version "1.2.8") 
-- Could NOT find wxWidgets (missing:  wxWidgets_LIBRARIES wxWidgets_INCLUDE_DIRS) 
-- Looking for conio.h
-- Looking for conio.h - not found
-- Looking for sys/time.h
-- Looking for sys/time.h - found
-- Looking for time.h
-- Looking for time.h - found
-- Looking for strings.h
-- Looking for strings.h - found
-- Looking for rpc/xdr.h
-- Looking for rpc/xdr.h - found
-- Looking for regex.h
-- Looking for regex.h - found
-- Looking for C++ include sstream
-- Looking for C++ include sstream - found
-- Looking for rint
-- Looking for rint - not found
-- Looking for snprintf
-- Looking for snprintf - found
-- Looking for sranddev
-- Looking for sranddev - not found
-- Looking for strcasecmp
-- Looking for strcasecmp - found
-- Looking for strncasecmp
-- Looking for strncasecmp - found
-- Looking for dlopen in dl
-- Looking for dlopen in dl - found
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of clock_t
-- Check size of clock_t - done
CMake Error at cmake/modules/MacroEnsureVersion.cmake:76 (MATH):
  math cannot parse the expression: "x86_646*10000 + x86_642*100 + x86_640":
  syntax error, unexpected exp_NUMBER, expecting $end (8)
Call Stack (most recent call first):
  cmake/modules/MacroEnsureVersion.cmake:95 (NORMALIZE_VERSION)
  CMakeLists.txt:231 (macro_ensure_version)


CMake Error at cmake/modules/MacroEnsureVersion.cmake:76 (MATH):
  math cannot parse the expression: "x86_646*10000 + x86_642*100 + x86_640":
  syntax error, unexpected exp_NUMBER, expecting $end (8)
Call Stack (most recent call first):
  cmake/modules/MacroEnsureVersion.cmake:95 (NORMALIZE_VERSION)
  CMakeLists.txt:232 (macro_ensure_version)


CMake Error at cmake/modules/MacroEnsureVersion.cmake:76 (MATH):
  math cannot parse the expression: "x86_646*10000 + x86_642*100 + x86_640":
  syntax error, unexpected exp_NUMBER, expecting $end (8)
Call Stack (most recent call first):
  cmake/modules/MacroEnsureVersion.cmake:95 (NORMALIZE_VERSION)
  CMakeLists.txt:233 (macro_ensure_version)


-- Performing Test SCANDIR_NEEDS_CONST
-- Performing Test SCANDIR_NEEDS_CONST - Failed
-- Performing Test HAVE_GCC_VISIBILITY
-- Performing Test HAVE_GCC_VISIBILITY - Success
-- Boost version: 1.61.0
-- Try OpenMP C flag = [-fopenmp]
-- Performing Test OpenMP_FLAG_DETECTED
-- Performing Test OpenMP_FLAG_DETECTED - Success
-- Try OpenMP CXX flag = [-fopenmp]
-- Performing Test OpenMP_FLAG_DETECTED
-- Performing Test OpenMP_FLAG_DETECTED - Success
-- Found OpenMP: -fopenmp  
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") 
-- Found PkgConfig: /usr/bin/x86_64-pc-linux-gnu-pkg-config (found version "0.29.1") 
-- Checking for module 'cairo'
--   Found cairo, version 1.14.6
-- Found Cairo: /usr/lib64/libcairo.so  
-- Cairo found. PNG output will be supported.
-- Looking for getopt
-- Looking for getopt - found
-- GUI will not be built
CMake Warning (dev) in cmake/modules/UsePythonTest.cmake:
  Syntax Warning in cmake code at

    /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:54:14

  Argument not separated from preceding token by whitespace.
Call Stack (most recent call first):
  test/CMakeLists.txt:171 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in cmake/modules/UsePythonTest.cmake:
  Syntax Warning in cmake code at

    /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:54:31

  Argument not separated from preceding token by whitespace.
Call Stack (most recent call first):
  test/CMakeLists.txt:171 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in cmake/modules/UsePythonTest.cmake:
  Syntax Warning in cmake code at

    /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:57:25

  Argument not separated from preceding token by whitespace.
Call Stack (most recent call first):
  test/CMakeLists.txt:171 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Warning (dev) in cmake/modules/UsePythonTest.cmake:
  Syntax Warning in cmake code at

    /var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:57:39

  Argument not separated from preceding token by whitespace.
Call Stack (most recent call first):
  test/CMakeLists.txt:171 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Found PythonInterp: /usr/bin/python (found version "2.7.12") 
-- <<< Gentoo configuration >>>
Build type      Gentoo
Install path    /usr
Compiler flags:
C               -march=native -O2 -pipe  -fopenmp
C++             -march=native -O2 -pipe  -fopenmp
Linker flags:
Executable      -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc  -Wl,-O1 -Wl,--as-needed 
Module          -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc  -Wl,-O1 -Wl,--as-needed
Shared          -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc  -Wl,-O1 -Wl,--as-needed

-- Configuring incomplete, errors occurred!
See also "/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/CMakeFiles/CMakeOutput.log".
See also "/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build/CMakeFiles/CMakeError.log".
 * ERROR: sci-chemistry/openbabel-2.3.2-r1::gentoo failed (configure phase):
 *   cmake failed
 * 
 * Call stack:
 *     ebuild.sh, line  115:  Called src_configure
 *   environment, line 3003:  Called cmake-utils_src_configure
 *   environment, line  807:  Called _cmake_execute_optionally 'src_configure'
 *   environment, line  304:  Called enable_cmake-utils_src_configure
 *   environment, line 1151:  Called die
 * The specific snippet of code:
 *       "${CMAKE_BINARY}" "${cmakeargs[@]}" "${CMAKE_USE_DIR}" || die "cmake failed";
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/openbabel-2.3.2-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/openbabel-2.3.2-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:openbabel-2.3.2-r1:20160917-180617.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2_build'
 * S: '/var/tmp/portage/sci-chemistry/openbabel-2.3.2-r1/work/openbabel-2.3.2'