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MPI-IS Mesh Processing Library
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fatal error: boost/config.hpp #17

Closed EoAelinr closed 4 years ago

EoAelinr commented 4 years ago

Hi,

Following the installation instructions, I strumble upon an error (fatal error: boost/config.hpp) when calling make

locate boost/config.hpp outputs

/home/oliviern/Software/anaconda2/pkgs/libboost-1.65.1-habcd387_4/include/boost/config.hpp
/home/oliviern/Software/anaconda3/envs/coma/include/boost/config.hpp
/home/oliviern/Software/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/include/boost/config.hpp
/usr/include/boost/config.hpp
/usr/local/cuda-10.1/samples/6_Advanced/interval/boost/config.hpp
/usr/local/cuda-8.0/samples/6_Advanced/interval/boost/config.hpp

echo $BOOST_ROOT outputs /usr/include/boost

What could explain this behavior ?

I have no issue compiling with g++ test.cpp a test.cpp file containing

#include <boost/config.hpp>
#include <iostream>
int main() {
    std::cout << "test" << std::endl;
}

Here is the full error :

\033[0;36m
********
********
******** mesh_package : Building the virtualenv for installation
********
********
\033[0m
Running virtualenv with interpreter /home/username/Software/anaconda3/envs/facet/bin/python2
New python executable in /home/username/Software/mesh/temporary_test/venv/bin/python2
Not overwriting existing python script /home/username/Software/mesh/temporary_test/venv/bin/python (you must use /home/username/Software/mesh/temporary_test/venv/bin/python2)
Installing setuptools, pkg_resources, pip, wheel...done.
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already up-to-date: pip in ./temporary_test/venv/lib/python2.7/site-packages (19.2.3)
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already up-to-date: virtualenv in ./temporary_test/venv/lib/python2.7/site-packages (16.7.5)
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already satisfied: nose2 in ./temporary_test/venv/lib/python2.7/site-packages (0.9.1)
Requirement already satisfied: coverage>=4.4.1 in ./temporary_test/venv/lib/python2.7/site-packages (from nose2) (4.5.4)
Requirement already satisfied: mock==2.0.0; python_version < "3.6" in ./temporary_test/venv/lib/python2.7/site-packages (from nose2) (2.0.0)
Requirement already satisfied: six>=1.7 in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (from nose2) (1.12.0)
Requirement already satisfied: funcsigs>=1; python_version < "3.3" in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (from mock==2.0.0; python_version < "3.6"->nose2) (1.0.2)
Requirement already satisfied: pbr>=0.11 in ./temporary_test/venv/lib/python2.7/site-packages (from mock==2.0.0; python_version < "3.6"->nose2) (5.4.3)
/home/username/Software/mesh/temporary_test/venv/bin/pip
pip 19.2.3 from /home/username/Software/mesh/temporary_test/venv/lib/python2.7/site-packages/pip (python 2.7)
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already up-to-date: setuptools in ./temporary_test/venv/lib/python2.7/site-packages (41.2.0)
/home/username/Software/mesh/temporary_test/venv/bin/pip
pip 19.2.3 from /home/username/Software/mesh/temporary_test/venv/lib/python2.7/site-packages/pip (python 2.7)
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already up-to-date: wheel in ./temporary_test/venv/lib/python2.7/site-packages (0.33.6)
/home/username/Software/mesh/temporary_test/venv/bin/pip
pip 19.2.3 from /home/username/Software/mesh/temporary_test/venv/lib/python2.7/site-packages/pip (python 2.7)
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7. More details about Python 2 support in pip, can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support
Requirement already satisfied: numpy in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (1.15.4)
Requirement already satisfied: scipy in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (0.19.1)
Requirement already satisfied: pyopengl in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (3.1.0)
Requirement already satisfied: pillow in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (4.2.1)
Requirement already satisfied: pyzmq in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (17.1.2)
Requirement already satisfied: pyyaml in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (3.13)
Requirement already satisfied: olefile in /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages (from pillow) (0.46)
/home/username/Software/mesh/temporary_test/venv/bin/pip
pip 19.2.3 from /home/username/Software/mesh/temporary_test/venv/lib/python2.7/site-packages/pip (python 2.7)
####### PACKAGE: creating SDIST target
\033[0;33m----- [ mesh_package ] Creating the source distribution\033[0m
[VERSION] read version is 0.1
running sdist
running check
warning: sdist: manifest template 'MANIFEST.in' does not exist (using default file list)

warning: sdist: standard file not found: should have one of README, README.txt

writing manifest file 'MANIFEST'
[SDIST] file list is:
[SDIST]     "setup.py"
[SDIST]     "mesh/__init__.py"
[SDIST]     "mesh/arcball.py"
[SDIST]     "mesh/colors.py"
[SDIST]     "mesh/errors.py"
[SDIST]     "mesh/fonts.py"
[SDIST]     "mesh/landmarks.py"
[SDIST]     "mesh/lines.py"
[SDIST]     "mesh/mesh.py"
[SDIST]     "mesh/meshviewer.py"
[SDIST]     "mesh/processing.py"
[SDIST]     "mesh/search.py"
[SDIST]     "mesh/sphere.py"
[SDIST]     "mesh/texture.py"
[SDIST]     "mesh/utils.py"
[SDIST]     "mesh/version.py"
[SDIST]     "mesh/geometry/__init__.py"
[SDIST]     "mesh/geometry/barycentric_coordinates_of_projection.py"
[SDIST]     "mesh/geometry/cross_product.py"
[SDIST]     "mesh/geometry/rodrigues.py"
[SDIST]     "mesh/geometry/tri_normals.py"
[SDIST]     "mesh/geometry/triangle_area.py"
[SDIST]     "mesh/geometry/vert_normals.py"
[SDIST]     "mesh/serialization/__init__.py"
[SDIST]     "mesh/serialization/serialization.py"
[SDIST]     "mesh/src/aabb_normals.cpp"
[SDIST]     "mesh/src/plyutils.c"
[SDIST]     "mesh/src/py_loadobj.cpp"
[SDIST]     "mesh/src/py_visibility.cpp"
[SDIST]     "mesh/src/rply.c"
[SDIST]     "mesh/src/spatialsearchmodule.cpp"
[SDIST]     "mesh/src/visibility.cpp"
[SDIST]     "mesh/topology/__init__.py"
[SDIST]     "mesh/topology/connectivity.py"
[SDIST]     "mesh/topology/decimation.py"
[SDIST]     "mesh/topology/linear_mesh_transform.py"
[SDIST]     "mesh/topology/subdivision.py"
[SDIST]     "psbody-mesh-namespace/__init__.py"
[SDIST]     "mesh/thirdparty/CGAL-4.7.tar.gz"
[SDIST]     "tests/test_aabb_n_tree.py"
[SDIST]     "tests/unittest_extensions.py"
[SDIST]     "tests/test_topology.py"
[SDIST]     "tests/test_arcball.py"
[SDIST]     "tests/test_visibility.py"
[SDIST]     "tests/__init__.py"
[SDIST]     "tests/test_meshviewer.py"
[SDIST]     "tests/test_geometry.py"
[SDIST]     "tests/test_mesh.py"
[SDIST]     "tests/test_spheres.py"
creating psbody-mesh-0.1
creating psbody-mesh-0.1/mesh
creating psbody-mesh-0.1/mesh/geometry
creating psbody-mesh-0.1/mesh/serialization
creating psbody-mesh-0.1/mesh/src
creating psbody-mesh-0.1/mesh/thirdparty
creating psbody-mesh-0.1/mesh/topology
creating psbody-mesh-0.1/psbody-mesh-namespace
creating psbody-mesh-0.1/tests
making hard links in psbody-mesh-0.1...
hard linking setup.py -> psbody-mesh-0.1
hard linking mesh/__init__.py -> psbody-mesh-0.1/mesh
hard linking mesh/arcball.py -> psbody-mesh-0.1/mesh
hard linking mesh/colors.py -> psbody-mesh-0.1/mesh
hard linking mesh/errors.py -> psbody-mesh-0.1/mesh
hard linking mesh/fonts.py -> psbody-mesh-0.1/mesh
hard linking mesh/landmarks.py -> psbody-mesh-0.1/mesh
hard linking mesh/lines.py -> psbody-mesh-0.1/mesh
hard linking mesh/mesh.py -> psbody-mesh-0.1/mesh
hard linking mesh/meshviewer.py -> psbody-mesh-0.1/mesh
hard linking mesh/processing.py -> psbody-mesh-0.1/mesh
hard linking mesh/search.py -> psbody-mesh-0.1/mesh
hard linking mesh/sphere.py -> psbody-mesh-0.1/mesh
hard linking mesh/texture.py -> psbody-mesh-0.1/mesh
hard linking mesh/utils.py -> psbody-mesh-0.1/mesh
hard linking mesh/version.py -> psbody-mesh-0.1/mesh
hard linking mesh/geometry/__init__.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/barycentric_coordinates_of_projection.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/cross_product.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/rodrigues.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/tri_normals.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/triangle_area.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/geometry/vert_normals.py -> psbody-mesh-0.1/mesh/geometry
hard linking mesh/serialization/__init__.py -> psbody-mesh-0.1/mesh/serialization
hard linking mesh/serialization/serialization.py -> psbody-mesh-0.1/mesh/serialization
hard linking mesh/src/aabb_normals.cpp -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/plyutils.c -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/py_loadobj.cpp -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/py_visibility.cpp -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/rply.c -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/spatialsearchmodule.cpp -> psbody-mesh-0.1/mesh/src
hard linking mesh/src/visibility.cpp -> psbody-mesh-0.1/mesh/src
hard linking mesh/topology/__init__.py -> psbody-mesh-0.1/mesh/topology
hard linking mesh/topology/connectivity.py -> psbody-mesh-0.1/mesh/topology
hard linking mesh/topology/decimation.py -> psbody-mesh-0.1/mesh/topology
hard linking mesh/topology/linear_mesh_transform.py -> psbody-mesh-0.1/mesh/topology
hard linking mesh/topology/subdivision.py -> psbody-mesh-0.1/mesh/topology
hard linking psbody-mesh-namespace/__init__.py -> psbody-mesh-0.1/psbody-mesh-namespace
hard linking mesh/thirdparty/CGAL-4.7.tar.gz -> psbody-mesh-0.1/mesh/thirdparty
hard linking tests/test_aabb_n_tree.py -> psbody-mesh-0.1/tests
hard linking tests/unittest_extensions.py -> psbody-mesh-0.1/tests
hard linking tests/test_topology.py -> psbody-mesh-0.1/tests
hard linking tests/test_arcball.py -> psbody-mesh-0.1/tests
hard linking tests/test_visibility.py -> psbody-mesh-0.1/tests
hard linking tests/__init__.py -> psbody-mesh-0.1/tests
hard linking tests/test_meshviewer.py -> psbody-mesh-0.1/tests
hard linking tests/test_geometry.py -> psbody-mesh-0.1/tests
hard linking tests/test_mesh.py -> psbody-mesh-0.1/tests
hard linking tests/test_spheres.py -> psbody-mesh-0.1/tests
Creating tar archive
removing 'psbody-mesh-0.1' (and everything under it)
####### PACKAGE: creating WHEEL target
\033[0;33m----- [ mesh_package ] Creating the wheel distribution\033[0m
[VERSION] read version is 0.1
running bdist_wheel
running build
running build_py
not copying psbody-mesh-namespace/__init__.py (output up-to-date)
not copying mesh/mesh.py (output up-to-date)
not copying mesh/meshviewer.py (output up-to-date)
not copying mesh/sphere.py (output up-to-date)
not copying mesh/landmarks.py (output up-to-date)
not copying mesh/errors.py (output up-to-date)
not copying mesh/colors.py (output up-to-date)
not copying mesh/fonts.py (output up-to-date)
not copying mesh/arcball.py (output up-to-date)
not copying mesh/utils.py (output up-to-date)
not copying mesh/texture.py (output up-to-date)
not copying mesh/__init__.py (output up-to-date)
not copying mesh/processing.py (output up-to-date)
not copying mesh/search.py (output up-to-date)
not copying mesh/version.py (output up-to-date)
not copying mesh/lines.py (output up-to-date)
not copying mesh/topology/linear_mesh_transform.py (output up-to-date)
not copying mesh/topology/decimation.py (output up-to-date)
not copying mesh/topology/subdivision.py (output up-to-date)
not copying mesh/topology/connectivity.py (output up-to-date)
not copying mesh/topology/__init__.py (output up-to-date)
not copying mesh/geometry/tri_normals.py (output up-to-date)
not copying mesh/geometry/cross_product.py (output up-to-date)
not copying mesh/geometry/triangle_area.py (output up-to-date)
not copying mesh/geometry/vert_normals.py (output up-to-date)
not copying mesh/geometry/barycentric_coordinates_of_projection.py (output up-to-date)
not copying mesh/geometry/__init__.py (output up-to-date)
not copying mesh/geometry/rodrigues.py (output up-to-date)
not copying mesh/serialization/serialization.py (output up-to-date)
not copying mesh/serialization/__init__.py (output up-to-date)
running build_ext
[CGAL] deflating cgal from "mesh/thirdparty/CGAL-4.7.tar.gz" to "/home/username/Software/mesh/build/temp.linux-x86_64-2.7"
building 'psbody.mesh.aabb_normals' extension
/home/username/Software/anaconda3/envs/facet/bin/x86_64-conda_cos6-linux-gnu-cc -DNDEBUG -fwrapv -O3 -Wall -Wstrict-prototypes -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -fPIC -DNDEBUG=1 -DCGAL_NDEBUG=1 -DMESH_CGAL_AVOID_COMPILED_VERSION=1 -DCGAL_HAS_NO_THREADS=1 -DCGAL_NO_AUTOLINK_CGAL=1 -Imesh/src -I/home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages/numpy/core/include -I/home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include -I/home/username/Software/anaconda3/envs/facet/include/python2.7 -c mesh/src/aabb_normals.cpp -o build/temp.linux-x86_64-2.7/mesh/src/aabb_normals.o -O3 -fopenmp
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++
In file included from /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1823:0,
                 from /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
                 from /home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from mesh/src/aabb_normals.cpp:7:
/home/username/Software/anaconda3/envs/facet/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^~~~~~~
In file included from /home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include/CGAL/Profile_counter.h:53:0,
                 from /home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include/CGAL/internal/AABB_tree/AABB_node.h:24,
                 from /home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include/CGAL/internal/AABB_tree/AABB_traversal_traits.h:24,
                 from /home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include/CGAL/AABB_tree.h:26,
                 from mesh/src/AABB_n_tree.h:12,
                 from mesh/src/aabb_normals.cpp:13:
/home/username/Software/mesh/build/temp.linux-x86_64-2.7/CGAL-4.7/include/CGAL/config.h:85:10: fatal error: boost/config.hpp: No such file or directory
 #include <boost/config.hpp>
          ^~~~~~~~~~~~~~~~~~
compilation terminated.
error: command '/home/username/Software/anaconda3/envs/facet/bin/x86_64-conda_cos6-linux-gnu-cc' failed with exit status 1
Makefile:48: recipe for target 'temporary_test/package_creation' failed
make: *** [temporary_test/package_creation] Error 1
EoAelinr commented 4 years ago

I solved the problem by using sudo make instead of make. Unsure if that it meant to be done.

ioreshnikov commented 4 years ago

@EoAelinr Hi! Sorry for the late reply. Glad that you found a workaround, but to properly figure out what is going on can you please try the default installation process outside of anaconda environment? I have a suspicion that conda might mess up some of the path variables used by the installation process.

jcpassy commented 4 years ago

Hi @EoAelinr and @ioreshnikov , I think the issue is due to your BOOST_PATH environment variable, which is one level too deep I believe. Could you please try: BOOST_ROOT=/usr/include make all

and let us know? Also, please use Python 3. Python 2.7 is not supported anymore.

HoBeedzc commented 1 year ago

I solved the problem by using sudo make instead of make. Unsure if that it meant to be done.

it's seems that work for me.