sci-libs:shogun-5.0.0-r1:20200407-213427.log

sci-libs:shogun-5.0.0-r1:20200407-213427.log (text/plain), 11.73 KB, created by Toralf Förster on 2020-04-08 07:06:49 UTC

 * Package:    sci-libs/shogun-5.0.0-r1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 cpu_flags_x86_sse elibc_glibc kernel_linux python_single_target_python3_6 userland_GNU
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking shogun-5.0.0.tar.bz2 to /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work
>>> Source unpacked in /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work
>>> Preparing source in /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0 ...
 * Applying shogun-5.0.0-fix-buildsystem.patch ...
 [ ok ]
 * Applying shogun-4.1.0-remove-C-linkage.patch ...
patching file src/interfaces/r_modular/sg_print_functions.cpp
Hunk #2 succeeded at 6 with fuzz 2.
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build"
cmake -C /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_SKIP_RPATH=ON -DCMAKE_SKIP_INSTALL_RPATH=ON -DLIB_INSTALL_DIR=lib64 -DENABLE_TESTING=no -DBUILD_EXAMPLES=no -DDISABLE_SSE=no -DCMAKE_DISABLE_FIND_PACKAGE_Pandoc=ON -DCMAKE_DISABLE_FIND_PACKAGE_Sphinx=ON -DCMAKE_DISABLE_FIND_PACKAGE_Doxygen=ON -DENABLE_COVERAGE=OFF -DENABLE_COLPACK=ON -DENABLE_PROTOBUF=ON -DENABLE_PYTHON_DEBUG=OFF -DENABLE_VIENNACL=no -DUSE_ARPREC=ON -DUSE_HDF5=ON -DJavaModular=OFF -DPerlModular=OFF -DCSharpModular=OFF -DLuaModular=no -DOctaveModular=no -DPythonModular=no -DRModular=no -DRubyModular=no -DBUNDLE_COLPACK=OFF -DBUNDLE_JSON=OFF -DBUNDLE_NLOPT=OFF -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build/gentoo_toolchain.cmake  /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0
loading initial cache file /var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build/gentoo_common_config.cmake
-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- 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 CCache: /usr/bin/ccache  
-- Performing Test _HAS_CXX11_FLAG
-- Performing Test _HAS_CXX11_FLAG - Success
-- Checking C++11 support for "__func__"
-- Checking C++11 support for "__func__": works
-- Checking C++11 support for "atomic"
-- Checking C++11 support for "atomic": works
-- Checking C++11 support for "auto"
-- Checking C++11 support for "auto": works
-- Checking C++11 support for "auto_ret_type"
-- Checking C++11 support for "auto_ret_type": works
-- Checking C++11 support for "class_override_final"
-- Checking C++11 support for "class_override_final": not supported
-- Checking C++11 support for "constexpr"
-- Checking C++11 support for "constexpr": works
-- Checking C++11 support for "cstdint"
-- Checking C++11 support for "cstdint": works
-- Checking C++11 support for "decltype"
-- Checking C++11 support for "decltype": works
-- Checking C++11 support for "initializer_list"
-- Checking C++11 support for "initializer_list": works
-- Checking C++11 support for "lambda"
-- Checking C++11 support for "lambda": works
-- Checking C++11 support for "long_long"
-- Checking C++11 support for "long_long": works
-- Checking C++11 support for "nullptr"
-- Checking C++11 support for "nullptr": works
-- Checking C++11 support for "regex"
-- Checking C++11 support for "regex": works
-- Checking C++11 support for "rvalue-references"
-- Checking C++11 support for "rvalue-references": works
-- Checking C++11 support for "sizeof_member"
-- Checking C++11 support for "sizeof_member": works
-- Checking C++11 support for "static_assert"
-- Checking C++11 support for "static_assert": works
-- Checking C++11 support for "variadic_templates"
-- Checking C++11 support for "variadic_templates": works
-- Looking for C++ include unordered_map
-- Looking for C++ include unordered_map - found
-- Using system's malloc
-- Looking for isfinite
-- Looking for isfinite - not found
-- Looking for isinf
-- Looking for isinf - not found
-- Looking for isnan
-- Looking for isnan - not found
-- Looking for signgam
-- Looking for signgam - found
-- Looking for fdopen
-- Looking for fdopen - found
-- Looking for log2
-- Looking for log2 - found
-- Looking for powl
-- Looking for powl - found
-- Looking for lgammal
-- Looking for lgammal - found
-- Looking for sqrtl
-- Looking for sqrtl - found
-- Looking for finite
-- Looking for finite - found
-- Looking for isfinite
-- Looking for isfinite - not found
-- Looking for isinf
-- Looking for isinf - found
-- Looking for isnan
-- Looking for isnan - found
-- Performing Test HAVE_STD_ISINF
-- Performing Test HAVE_STD_ISINF - Success
-- Performing Test HAVE_STD_ISFINITE
-- Performing Test HAVE_STD_ISFINITE - Success
-- Performing Test HAVE_STD_ISNAN
-- Performing Test HAVE_STD_ISNAN - Success
-- Looking for xmmintrin.h
CMake Warning (dev) at /usr/share/cmake/Modules/CheckIncludeFile.cmake:80 (message):
  Policy CMP0075 is not set: Include file check macros honor
  CMAKE_REQUIRED_LIBRARIES.  Run "cmake --help-policy CMP0075" for policy
  details.  Use the cmake_policy command to set the policy and suppress this
  warning.

  CMAKE_REQUIRED_LIBRARIES is set to:

    m

  For compatibility with CMake 3.11 and below this check is ignoring it.
Call Stack (most recent call first):
  CMakeLists.txt:470 (CHECK_INCLUDE_FILE)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Looking for xmmintrin.h - found
-- Looking for emmintrin.h
-- Looking for emmintrin.h - found
-- Looking for arc4random
-- Looking for arc4random - not found
-- Could NOT find GDB (missing: GDB_COMMAND GDB_VERSION) 
CMake Warning (dev) at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:272 (message):
  The package name passed to `find_package_handle_standard_args` (MOSEK) does
  not match the name of the calling package (Mosek).  This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  cmake/FindMosek.cmake:515 (find_package_handle_standard_args)
  CMakeLists.txt:490 (FIND_PACKAGE)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Could NOT find MOSEK (missing: MOSEK_DIR MOSEK_INCLUDE_DIR MOSEK_LIBRARY) 
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Found OpenMP_C: -fopenmp (found version "4.5") 
-- Found OpenMP_CXX: -fopenmp (found version "4.5") 
-- Found OpenMP: TRUE (found version "4.5")  
-- Found PkgConfig: x86_64-pc-linux-gnu-pkg-config (found version "1.6.3") 
-- Checking for module 'lapack'
--   Found lapack, version 3.8.0
-- Found LAPACK: /usr/lib64/liblapack.so  
-- Could NOT find Atlas (missing: Atlas_CLAPACK_INCLUDE_DIR Atlas_BLAS_LIBRARY Atlas_LAPACK_LIBRARY) 
-- Found CBLAS: /usr/lib64/libcblas.so  
-- Looking for cblas_dsyrk in /usr/lib64/libcblas.so
-- Looking for cblas_dsyrk in /usr/lib64/libcblas.so - found
-- Found GLPK: /usr/lib64/libglpk.so  
-- Could NOT find CPLEX (missing: CPLEX_LIBRARY CPLEX_INCLUDE_DIR) 
-- Found Arpack : /usr/lib64/libarpack.so
-- Found Eigen3: /usr/include/eigen3 (found suitable version "3.3.7", minimum required is "3.1.2") 
CMake Warning (dev) at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:272 (message):
  The package name passed to `find_package_handle_standard_args` (OPENCL)
  does not match the name of the calling package (OpenCL).  This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  cmake/FindOpenCL.cmake:61 (find_package_handle_standard_args)
  cmake/FindViennaCL.cmake:15 (find_package)
  CMakeLists.txt:598 (FIND_PACKAGE)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Found OPENCL: /usr/lib64/libOpenCL.so  
-- Could NOT find ViennaCL (missing: VIENNACL_INCLUDE_DIR VIENNACL_ENCODED_VERSION) (Required is at least version "1.5.0")
-- Checking for one of the modules 'libColPack>=1.0.9;ColPack>=1.0.9'
CMake Warning (dev) at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:272 (message):
  The package name passed to `find_package_handle_standard_args` (NLOPT) does
  not match the name of the calling package (NLopt).  This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  cmake/FindNLopt.cmake:22 (FIND_PACKAGE_HANDLE_STANDARD_ARGS)
  CMakeLists.txt:644 (FIND_PACKAGE)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Found NLOPT: /usr/lib64/libnlopt.so  
CMake Warning (dev) at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:272 (message):
  The package name passed to `find_package_handle_standard_args` (LPSOLVE)
  does not match the name of the calling package (LpSolve).  This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  cmake/FindLpSolve.cmake:23 (find_package_handle_standard_args)
  CMakeLists.txt:652 (FIND_PACKAGE)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Found LPSOLVE: /usr/lib64/liblpsolve55.so  
-- Found ColPack: /usr/lib64/libColPack.so  
-- Found ARPREC: /usr/lib64/libarprec.so  
-- Found PythonInterp: /usr/bin/python (found version "3.8.2") 
CMake Warning at cmake/FindPLY.cmake:24 (message):
  ply import failure:

Call Stack (most recent call first):
  CMakeLists.txt:698 (FIND_PACKAGE)


CMake Error at CMakeLists.txt:700 (message):
  Python module ply required for meta examples.  Disable meta examples or
  install python-ply


-- Configuring incomplete, errors occurred!
See also "/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build/CMakeFiles/CMakeOutput.log".
See also "/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build/CMakeFiles/CMakeError.log".
 * ERROR: sci-libs/shogun-5.0.0-r1::gentoo failed (configure phase):
 *   cmake failed
 * 
 * Call stack:
 *     ebuild.sh, line  125:  Called src_configure
 *   environment, line 3995:  Called cmake-utils_src_configure
 *   environment, line 1356:  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-libs/shogun-5.0.0-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-libs/shogun-5.0.0-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-libs:shogun-5.0.0-r1:20200407-213427.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-libs/shogun-5.0.0-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-libs/shogun-5.0.0-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0_build'
 * S: '/var/tmp/portage/sci-libs/shogun-5.0.0-r1/work/shogun-5.0.0'