habitat-sim
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Python 3.9 on RHEL 7 python setup.py install --user --headless fails with returned non-zero exit status 1.
Running python setup.py install --user --headless on RHEL 7 with with Python 3.9, fails with the following:
[124/868] Building CXX object deps/assimp/code/CMakeFiles/assimp.dir/LWO/LWOMaterial.cpp.o
/path/to/me/habitat-sim/src/deps/assimp/code/LWO/LWOMaterial.cpp: In member function ‘bool Assimp::LWOImporter::HandleTextures(aiMaterial*, const TextureList&, aiTextureType)’:
/path/to/me/habitat-sim/src/deps/assimp/code/LWO/LWOMaterial.cpp:141:9: warning: ‘mapping’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if (mapping != aiTextureMapping_UV) {
^
[240/868] Building CXX object _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o
FAILED: _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o
/usr/bin/c++ -I/path/to/me/habitat-sim/build/_deps/imath-build/src/Imath -I/path/to/me/habitat-sim/build/_deps/imath-src/src/Imath -I/path/to/me/habitat-sim/src/deps -I/path/to/me/habitat-sim/src/cmake/../deps/tinyxml2 -I/path/to/me/habitat-sim/build/_deps/imath-build/config -isystem /path/to/me/habitat-sim/src/cmake/../deps/eigen -isystem /path/to/me/habitat-sim/src/cmake/../deps/rapidjson/include -DVERSION_INFO=\"0.2.4\" -fvisibility=hidden -DBASISD_SUPPORT_BC7_MODE6_OPAQUE_ONLY=0 -DBASISD_SUPPORT_ATC=0 -DBASISD_SUPPORT_FXT1=0 -DBASISD_SUPPORT_PVRTC2=0 -O2 -g -DNDEBUG -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -std=c++1y -MD -MT _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o -MF _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o.d -o _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o -c /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.cpp
In file included from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathExport.h:9:0,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.h:21,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.cpp:13:
/path/to/me/habitat-sim/build/_deps/imath-build/config/ImathConfig.h:131:22: error: missing binary operator before token "("
# if __has_attribute(__type_visibility__)
^
[248/868] Building CXX object _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathColorAlgo.cpp.o
FAILED: _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathColorAlgo.cpp.o
/usr/bin/c++ -I/path/to/me/habitat-sim/build/_deps/imath-build/src/Imath -I/path/to/me/habitat-sim/build/_deps/imath-src/src/Imath -I/path/to/me/habitat-sim/src/deps -I/path/to/me/habitat-sim/src/cmake/../deps/tinyxml2 -I/path/to/me/habitat-sim/build/_deps/imath-build/config -isystem /path/to/me/habitat-sim/src/cmake/../deps/eigen -isystem /path/to/me/habitat-sim/src/cmake/../deps/rapidjson/include -DVERSION_INFO=\"0.2.4\" -fvisibility=hidden -DBASISD_SUPPORT_BC7_MODE6_OPAQUE_ONLY=0 -DBASISD_SUPPORT_ATC=0 -DBASISD_SUPPORT_FXT1=0 -DBASISD_SUPPORT_PVRTC2=0 -O2 -g -DNDEBUG -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -std=c++1y -MD -MT _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathColorAlgo.cpp.o -MF _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathColorAlgo.cpp.o.d -o _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathColorAlgo.cpp.o -c /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathColorAlgo.cpp
In file included from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathNamespace.h:49:0,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathColorAlgo.h:13,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathColorAlgo.cpp:12:
/path/to/me/habitat-sim/build/_deps/imath-build/config/ImathConfig.h:131:22: error: missing binary operator before token "("
# if __has_attribute(__type_visibility__)
^
[265/868] Building CXX object deps/assimp/code/CMakeFiles/assimp.dir/Importer/StepFile/StepFileGen1.cpp.o
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "/path/to/me/habitat-sim/setup.py", line 459, in <module>
setup(
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/__init__.py", line 108, in setup
return distutils.core.setup(**attrs)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 185, in setup
return run_commands(dist)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 201, in run_commands
dist.run_commands()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 969, in run_commands
self.run_command(cmd)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install.py", line 74, in run
self.do_egg_install()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install.py", line 123, in do_egg_install
self.run_command('bdist_egg')
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/bdist_egg.py", line 164, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/bdist_egg.py", line 150, in call_command
self.run_command(cmdname)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install_lib.py", line 11, in run
self.build()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/command/install_lib.py", line 111, in build
self.run_command('build_ext')
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/habitat-sim/setup.py", line 271, in run
self.build_extension(ext)
File "/path/to/me/habitat-sim/setup.py", line 375, in build_extension
subprocess.check_call(
File "/path/to//anaconda3-2021.11/lib/python3.9/subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['/path/to/me/.local/lib/python3.9/site-packages/cmake/data/bin/cmake', '--build', 'build', '--config', 'RelWithDebInfo', '--']' returned non-zero exit status 1.
Also this warning:
CMake Warning (dev) at /path/to/me/.local/lib/python3.9/site-packages/cmake/data/share/cmake-3.22/Modules/FindPackageHandleStandardArgs.cmake:438 (message):
The package name passed to `find_package_handle_standard_args` (rt) does
not match the name of the calling package (RT). 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):
deps/assimp/cmake-modules/FindRT.cmake:19 (find_package_handle_standard_args)
deps/assimp/code/CMakeLists.txt:1013 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.
Any solution for this?
Interesting. I'm not sure where to start digging here. Likely we need more system information. Could be a system package or library version issue somewhere.
I tried again making sure to do the pip install -r requirements. Python 3.9.7, cmake 3.17.4, GCC 10.3. This is a RHEL 7 cluster where we can load various versions of software via modules.
check.warn(importable)
running build_ext
[3/605] Building CXX object _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o
FAILED: _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o
/usr/bin/c++ -I/path/to/me/habitat-sim/build/_deps/imath-build/src/Imath -I/path/to/me/habitat-sim/build/_deps/imath-src/src/Imath -I/path/to/me/habitat-sim/src/deps -I/path/to/me/habitat-sim/src/cmake/../deps/tinyxml2 -I/path/to/me/habitat-sim/build/_deps/imath-build/config -isystem /path/to/me/habitat-sim/src/cmake/../deps/eigen -isystem /path/to/me/habitat-sim/src/cmake/../deps/rapidjson/include -DVERSION_INFO=\"0.2.4\" -fvisibility=hidden -DBASISD_SUPPORT_BC7_MODE6_OPAQUE_ONLY=0 -DBASISD_SUPPORT_ATC=0 -DBASISD_SUPPORT_FXT1=0 -DBASISD_SUPPORT_PVRTC2=0 -O2 -g -DNDEBUG -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -std=c++1y -MD -MT _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o -MF _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o.d -o _deps/imath-build/src/Imath/CMakeFiles/Imath.dir/ImathRandom.cpp.o -c /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.cpp
In file included from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathExport.h:9:0,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.h:21,
from /path/to/me/habitat-sim/build/_deps/imath-src/src/Imath/ImathRandom.cpp:13:
/path/to/me/habitat-sim/build/_deps/imath-build/config/ImathConfig.h:131:22: error: missing binary operator before token "("
# if __has_attribute(__type_visibility__)
^
[4/605] Linking CXX static library deps/assimp/code/libassimp.a
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "/path/to/me/habitat-sim/setup.py", line 459, in <module>
setup(
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/__init__.py", line 108, in setup
return distutils.core.setup(**attrs)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 185, in setup
return run_commands(dist)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 201, in run_commands
dist.run_commands()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 969, in run_commands
self.run_command(cmd)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install.py", line 74, in run
self.do_egg_install()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install.py", line 123, in do_egg_install
self.run_command('bdist_egg')
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/bdist_egg.py", line 164, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/bdist_egg.py", line 150, in call_command
self.run_command(cmdname)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/command/install_lib.py", line 11, in run
self.build()
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/command/install_lib.py", line 111, in build
self.run_command('build_ext')
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/path/to/me/.local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/path/to/me/habitat-sim/setup.py", line 271, in run
self.build_extension(ext)
File "/path/to/me/habitat-sim/setup.py", line 375, in build_extension
subprocess.check_call(
File "/path/to/anaconda3-2021.11/lib/python3.9/subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['/path/to/me/.local/lib/python3.9/site-packages/cmake/data/bin/cmake', '--build', 'build', '--config', 'RelWithDebInfo', '--']' returned non-zero exit status 1.
(habitat) sz@sz-pr4908p:~/extra/JH_lzl/intro_package/habitat-sim$ python setup.py install /home/sz/extra/JH_lzl/intro_package/habitat-sim/setup.py:297: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead. assert StrictVersion( /home/sz/extra/JH_lzl/intro_package/habitat-sim/setup.py:299: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead. ) >= StrictVersion("3.6"), "Must use python3.6 or newer" running install /home/sz/anaconda3/envs/habitat/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer or other
standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!! self.initialize_options() /home/sz/anaconda3/envs/habitat/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated. !!
********************************************************************************
Please avoid running ``setup.py`` and ``easy_install``.
Instead, use pypa/build, pypa/installer or other
standards-based tools.
See https://github.com/pypa/setuptools/issues/917 for details.
********************************************************************************
!!
self.initialize_options()
running bdist_egg
running egg_info
writing habitat_sim.egg-info/PKG-INFO
writing dependency_links to habitat_sim.egg-info/dependency_links.txt
writing requirements to habitat_sim.egg-info/requires.txt
writing top-level names to habitat_sim.egg-info/top_level.txt
reading manifest file 'habitat_sim.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'habitat_sim.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
running build_ext
CMake Error: The current CMakeCache.txt directory /home/sz/extra/JH_lzl/intro_package/habitat-sim/build/CMakeCache.txt is different than the directory /home/aaai/extra/extra1/JH_lzl/intro-package/habitat-sim/build where CMakeCache.txt was created. This may result in binaries being created in the wrong place. If you are not sure, reedit the CMakeCache.txt
CMake Error: The source "/home/sz/extra/JH_lzl/intro_package/habitat-sim/src/CMakeLists.txt" does not match the source "/home/aaai/extra/extra1/JH_lzl/intro-package/habitat-sim/src/CMakeLists.txt" used to generate cache. Re-run cmake with a different source directory.
Traceback (most recent call last):
File "/home/sz/extra/JH_lzl/intro_package/habitat-sim/setup.py", line 313, in
How to solve this when python setup.py install
