Dear Amber Community,
Compillation is failing at the very end with the following message. I previously compiled Amber22 without a problem not he same workstation. Can you please help me resolve the issue?
[ 92%] Building pytraj native library
sys.argv ['setup.py', 'build', '--disable-openmp']
Original compiler envs
CXX = /usr/bin/g++
CC = /usr/bin/gcc
COMPILER =
use_pip = False, cpptraj_home =
compile_c_extension = True
2.0.6
use_prebuilt_cythonized_files = False
pytraj is inside AMBERHOME
using environment: CC=/usr/bin/gcc, CXX=/usr/bin/g++
using CC=/usr/bin/gcc, CXX=/usr/bin/g++
Final compiler envs
CXX = /usr/bin/g++
CC = /usr/bin/gcc
COMPILER =
install = True
set rpath to /usr/local/amber22_cphmd/amber22_src/build/AmberTools/src/cpptraj/src
/usr/local/amber22_cphmd/amber22_src/build/CMakeFiles/miniconda/install/lib/python3.11/site-packages/setuptools/dist.py:498: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in future
versions. Please use the underscore name 'description_file' instead.
This deprecation is overdue, please update your project and remove deprecated
calls to avoid build errors in the future.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details.
********************************************************************************
!!
opt = self.warn_dash_deprecation(opt, section)
running build
running build_py
copying pytraj/version.py -> build/lib.linux-x86_64-cpython-311/pytraj
running build_ext
building 'pytraj.core.parameter_types' extension
/usr/bin/gcc -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /usr/local/amber22_cphmd/amber22_src/build/CMakeFiles/miniconda/install/include -fPIC -O2 -isystem /usr/local/amber22_cphmd/amber22_src/build/CMakeFiles/miniconda/install/include -fPIC -I/usr/local/amber22_cphmd/amber22_src/AmberTools/src/pytraj/../cpptraj/src -I/usr/local/amber22_cphmd/amber22_src/AmberTools/src/pytraj/pytraj -I/usr/local/amber22_cphmd/amber22_src/build/CMakeFiles/miniconda/install/include/python3.11 -c pytraj/core/parameter_types.cpp -o build/temp.linux-x86_64-cpython-311/pytraj/core/parameter_types.o -O0 -ggdb -Wl,-rpath=/usr/local/amber22_cphmd/amber22_src/build/AmberTools/src/cpptraj/src
pytraj/core/parameter_types.cpp:212:12: fatal error: longintrepr.h: No such file or directory
212 | #include "longintrepr.h"
| ^~~~~~~~~~~~~~~
compilation terminated.
error: command '/usr/bin/gcc' failed with exit code 1
make[2]: *** [AmberTools/src/pytraj/CMakeFiles/pytraj.dir/build.make:521: AmberTools/src/pytraj/CMakeFiles/python-build/pytraj-build.stamp] Error 1
make[1]: *** [CMakeFiles/Makefile2:7203: AmberTools/src/pytraj/CMakeFiles/pytraj.dir/all] Error 2
make: *** [Makefile:152: all] Error 2
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Tue Jan 02 2024 - 23:00:02 PST
