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Build error on EL6 (centos) #4

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dominikwerder opened this issue Jan 31, 2018 · 3 comments
Open

Build error on EL6 (centos) #4

dominikwerder opened this issue Jan 31, 2018 · 3 comments
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@dominikwerder
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The build of h5cpp/0.0.4-dm1@ess-dmsc/stable errors with a Boost::filesystem-related issue.

It seems to me that it can not find Boost even though it does produce all dependencies successfully including Boost.

$ conan install --build=outdated h5cpp/0.0.4-dm1@ess-dmsc/stable
h5cpp/0.0.4-dm1@ess-dmsc/stable: Installing package
Requirements
    Boost/1.62.0@ess-dmsc/stable from ess-dmsc
    gtest/3121b20-dm2@ess-dmsc/stable from ess-dmsc
    h5cpp/0.0.4-dm1@ess-dmsc/stable from ess-dmsc
    hdf5/1.10.1-dm3@ess-dmsc/stable from ess-dmsc
    zlib/1.2.11@conan/stable from conan-center
Packages
    Boost/1.62.0@ess-dmsc/stable:41b4a670ac66e314bb644198013c12a53602fa3d
    gtest/3121b20-dm2@ess-dmsc/stable:41b4a670ac66e314bb644198013c12a53602fa3d
    h5cpp/0.0.4-dm1@ess-dmsc/stable:934f9565c815bb4fa22e0b6195e60ce05950ae21
    hdf5/1.10.1-dm3@ess-dmsc/stable:baa12b33c0643f5a769ccc105324fa2a6bd3a784
    zlib/1.2.11@conan/stable:c6d75a933080ca17eb7f076813e7fb21aaa740f2

Boost/1.62.0@ess-dmsc/stable: Package is up to date
gtest/3121b20-dm2@ess-dmsc/stable: Package is up to date
zlib/1.2.11@conan/stable: Package is up to date
hdf5/1.10.1-dm3@ess-dmsc/stable: Package is up to date
Boost/1.62.0@ess-dmsc/stable: Already installed!
gtest/3121b20-dm2@ess-dmsc/stable: Already installed!
zlib/1.2.11@conan/stable: Already installed!
hdf5/1.10.1-dm3@ess-dmsc/stable: Already installed!
h5cpp/0.0.4-dm1@ess-dmsc/stable: Installing build requirements of: h5cpp/0.0.4-dm1@ess-dmsc/stable
h5cpp/0.0.4-dm1@ess-dmsc/stable: Build requires: [cmake_installer/3.10.0@conan/stable]
h5cpp/0.0.4-dm1@ess-dmsc/stable: Requirements
h5cpp/0.0.4-dm1@ess-dmsc/stable:     cmake_installer/3.10.0@conan/stable from conan-center
h5cpp/0.0.4-dm1@ess-dmsc/stable: Packages
h5cpp/0.0.4-dm1@ess-dmsc/stable:     cmake_installer/3.10.0@conan/stable:44fcf6b9a7fb86b2586303e3db40189d3b511830
h5cpp/0.0.4-dm1@ess-dmsc/stable: 
cmake_installer/3.10.0@conan/stable: Package is up to date
cmake_installer/3.10.0@conan/stable: Already installed!
h5cpp/0.0.4-dm1@ess-dmsc/stable: Installed build requirements of: h5cpp/0.0.4-dm1@ess-dmsc/stable
h5cpp/0.0.4-dm1@ess-dmsc/stable: Building your package in /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21
h5cpp/0.0.4-dm1@ess-dmsc/stable: Copying sources to build folder
h5cpp/0.0.4-dm1@ess-dmsc/stable: Generator cmake created conanbuildinfo.cmake
h5cpp/0.0.4-dm1@ess-dmsc/stable: Calling build()
-- The CXX compiler identification is GNU 4.9.3
-- The C compiler identification is GNU 4.9.3
-- Check for working CXX compiler: /home/scratch/software/gcc-4.9.3-install/bin/g++
-- Check for working CXX compiler: /home/scratch/software/gcc-4.9.3-install/bin/g++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Check for working C compiler: /home/scratch/software/gcc-4.9.3-install/bin/gcc
-- Check for working C compiler: /home/scratch/software/gcc-4.9.3-install/bin/gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Build type: Release
-- Using existing conanbuildinfo.cmake file
-- Conan: called by CMake conan helper
-- Conan: Checking correct version: 4.9
-- Conan: Using cmake global configuration
-- Conan: C++ stdlib: libstdc++
-- ==============================================================
-- Installation directories for Linux: 
-- Prefix is: unknown
-- Libraries: lib64
-- Binaries:  bin
-- Headers :  include
-- Data:      share
-- Docs:      share/doc/h5cpp-0.0.4
-- CMake PKG: lib64/cmake/h5cpp-0.0.4
-- ==============================================================
-- ==============================================================
-- Build output directories:
-- Write runtime files to: /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21/h5cpp-0.0.4/build/bin
-- Write library files to: /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21/h5cpp-0.0.4/build/lib
-- Write archive files to: /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21/h5cpp-0.0.4/build/lib
-- ==============================================================
fatal: Not a git repository (or any parent up to mount point /)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
fatal: Not a git repository (or any parent up to mount point /)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
fatal: Not a git repository (or any parent up to mount point /)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
-- Looking for thes phinx documentation generator
-- Could not find sphinx executable
-- HDF5: Using hdf5 compiler wrapper to determine C configuration
-- Found HDF5: /home/scratch/cache/conan_user_home/.conan/data/hdf5/1.10.1-dm3/ess-dmsc/stable/package/baa12b33c0643f5a769ccc105324fa2a6bd3a784/lib/libhdf5.so;/usr/lib64/librt.so;/usr/lib64/libdl.so;/usr/lib64/libm.so;/home/scratch/cache/conan_user_home/.conan/data/zlib/1.2.11/conan/stable/package/c6d75a933080ca17eb7f076813e7fb21aaa740f2/lib/libz.a  found components:  C 
-- Found HDF5 libraries in: 
-- Found HDF5 libraries: /home/scratch/cache/conan_user_home/.conan/data/hdf5/1.10.1-dm3/ess-dmsc/stable/package/baa12b33c0643f5a769ccc105324fa2a6bd3a784/lib/libhdf5.so;/usr/lib64/librt.so;/usr/lib64/libdl.so;/usr/lib64/libm.so;/home/scratch/cache/conan_user_home/.conan/data/zlib/1.2.11/conan/stable/package/c6d75a933080ca17eb7f076813e7fb21aaa740f2/lib/libz.a
-- Found HDF5 headers: /include;/home/scratch/cache/conan_user_home/.conan/data/zlib/1.2.11/conan/stable/package/c6d75a933080ca17eb7f076813e7fb21aaa740f2/include
-- Found HDF5 definitions: -DNDEBUG;-D_GLIBCXX_USE_CXX11_ABI=0
-- Boost 1.41 found.
-- Found Boost components:
   filesystem
-- Cannot enable coverage for target: h5cpp. Code coverage not enabled (COV=0).
-- Add sphinx source: conf.py
-- Add sphinx source: index.rst
-- Add sphinx source: attribute_manager_uml.png
-- Add sphinx source: base_classes_uml.png
-- Add sphinx source: hyperslab_uml.png
-- Add sphinx source: property_lists_uml.png
-- Add sphinx source: selection_classes.png
-- Add sphinx source: hdf5_attributes.svg
-- Add sphinx source: hdf5_basic_tree.svg
-- Add sphinx source: hdf5_links.svg
-- Add sphinx source: hdf5_package_overview.svg
-- Add sphinx source: hdf5_node_types.svg
-- Add sphinx source: hdf5_dataspaces.svg
-- Add sphinx source: hdf5_selections.svg
-- Add sphinx source: static_dataspace.svg
-- Add sphinx source: dynamic_dataspace_bounded.svg
-- Add sphinx source: dynamic_dataspace_unbounded.svg
-- Add sphinx source: hdf5_selection_manager.svg
-- Add sphinx source: memory_buffer_40byte.svg
-- Add sphinx source: 32bit_integer.svg
-- Add sphinx source: dataspace_high_level.svg
-- Add sphinx source: storage_models.svg
-- Add sphinx source: memory_storage_example.svg
-- Add sphinx source: hyperslab_1.svg
-- Add sphinx source: hyperslab_2.svg
-- Add sphinx source: hyperslab_3.svg
-- Add sphinx source: node_types.svg
-- Add sphinx source: node.svg
-- Add sphinx source: h5cpp_link.svg
-- Add sphinx source: index.rst
-- Add sphinx source: installing.rst
-- Add sphinx source: using.rst
-- Add sphinx source: files.rst
-- Add sphinx source: groups.rst
-- Add sphinx source: overview.rst
-- Add sphinx source: dataspace.rst
-- Add sphinx source: dataspace_custom_types.rst
-- Add sphinx source: dataspace_selections.rst
-- Add sphinx source: attributes.rst
-- Add sphinx source: index.rst
-- Add sphinx source: index.rst
-- Add sphinx source: user_data.rst
-- Add sphinx source: io.rst
-- Add sphinx source: cpp_datastructures.rst
-- Add sphinx source: hdf5_handlers.rst
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- 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 GTest: /home/scratch/cache/conan_user_home/.conan/data/gtest/3121b20-dm2/ess-dmsc/stable/package/41b4a670ac66e314bb644198013c12a53602fa3d/lib/libgtest.so  
-- Cannot enable coverage for target: unit_tests. Code coverage not enabled (COV=0).
-- Configuring done
CMake Error at src/h5cpp/CMakeLists.txt:21 (add_library):
  Target "h5cpp" links to target "Boost::filesystem" but the target was not
  found.  Perhaps a find_package() call is missing for an IMPORTED target, or
  an ALIAS target is missing?


CMake Error at test/CMakeLists.txt:36 (add_executable):
  Target "unit_tests" links to target "Boost::filesystem" but the target was
  not found.  Perhaps a find_package() call is missing for an IMPORTED
  target, or an ALIAS target is missing?


CMake Error at src/h5cpp/CMakeLists.txt:21 (add_library):
  Target "h5cpp" links to target "Boost::filesystem" but the target was not
  found.  Perhaps a find_package() call is missing for an IMPORTED target, or
  an ALIAS target is missing?


-- Generating done
-- Build files have been written to: /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21/h5cpp-0.0.4/build
h5cpp/0.0.4-dm1@ess-dmsc/stable: 
h5cpp/0.0.4-dm1@ess-dmsc/stable: ERROR: Package '934f9565c815bb4fa22e0b6195e60ce05950ae21' build failed
h5cpp/0.0.4-dm1@ess-dmsc/stable: WARN: Build folder /home/scratch/cache/conan_user_home/.conan/data/h5cpp/0.0.4-dm1/ess-dmsc/stable/build/934f9565c815bb4fa22e0b6195e60ce05950ae21
ERROR: h5cpp/0.0.4-dm1@ess-dmsc/stable: Error in build() method, line 67
	cmake.configure(source_dir="..", build_dir=".")
	ConanException: Error 256 while executing cd '.' && cmake -G "Unix Makefiles" -DCMAKE_BUILD_TYPE="Release" -DCONAN_EXPORTED="1" -DCONAN_COMPILER="gcc" -DCONAN_COMPILER_VERSION="4.9" -DCONAN_CXX_FLAGS="-m64" -DCONAN_SHARED_LINKER_FLAGS="-m64" -DCONAN_C_FLAGS="-m64" -DCONAN_LIBCXX="libstdc++" -DCMAKE_INSTALL_PREFIX="" -Wno-dev '..'
pc12205 werder_d .../build/tmp-234 $
@dominikwerder
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Further evidence that the build does not find the boost-dependency:

When I remove any pre-installed boost from the machine then conan succeeds, cmake succeeds as well, but the build itself still fails to link against boost:

[ 73%] Linking CXX executable ../kafka-to-nexus
/usr/bin/ld: cannot find -lBoost::filesystem
collect2: error: ld returned 1 exit status

@martukas
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I guess this has now been solved after the switch to the bincrafters package? Can we close this @dominikwerder ?

@dominikwerder
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We did upgrade to EL7.

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@martukas @dominikwerder