Dear Amber users/developers
I am trying to install Amber20 and AmberTools21 on my machine but it
failed after about 74% of the installation.
My specifications:
- Ubuntu 20.04.5
- gcc version 9.4.0
#####################################
[ 74%] Built target mmpbsa_py_energy
set rpath to /usr/local/amber/amber20_src/build/AmberTools/src/cpptraj/src
running build
running build_py
copying pytraj/version.py ->
/usr/local/amber/amber20_src/build/AmberTools/src/pytraj/CMakeFiles/python-build/lib.linux-x86_64-3.10/pytraj
running build_ext
building 'pytraj.analysis.c_analysis.c_analysis' extension
/usr/bin/gcc -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall
-fPIC -O2 -isystem
/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include
-fPIC -O2 -isystem
/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include
-fPIC -I/usr/local/amber/amber20_src/AmberTools/src/pytraj/../cpptraj/src
-I/usr/local/amber/amber20_src/AmberTools/src/pytraj/pytraj
-I/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include/python3.10
-c pytraj/analysis/c_analysis/c_analysis.cpp -o
/usr/local/amber/amber20_src/build/AmberTools/src/pytraj/CMakeFiles/python-build/temp.linux-x86_64-3.10/pytraj/analysis/c_analysis/c_analysis.o
-O0 -ggdb
-Wl,-rpath=/usr/local/amber/amber20_src/build/AmberTools/src/cpptraj/src
In file included from
/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include/python3.10/Python.h:74,
from pytraj/analysis/c_analysis/c_analysis.cpp:18:
pytraj/analysis/c_analysis/c_analysis.cpp: In function ‘void
__pyx_tp_dealloc_6pytraj_8analysis_10c_analysis_10c_analysis_Analysis(PyObject*)’:
/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include/python3.10/object.h:133:58:
error: lvalue required as increment operand
133 | #define Py_REFCNT(ob) _Py_REFCNT(_PyObject_CAST_CONST(ob))
| ^
pytraj/analysis/c_analysis/c_analysis.cpp:28873:7: note: in expansion of
macro ‘Py_REFCNT’
28873 | ++Py_REFCNT(o);
| ^~~~~~~~~
/usr/local/amber/amber20_src/build/CMakeFiles/miniconda/install/include/python3.10/object.h:133:58:
error: lvalue required as decrement operand
133 | #define Py_REFCNT(ob) _Py_REFCNT(_PyObject_CAST_CONST(ob))
| ^
....
Error: Symbol ‘atompositions_fce’ at (1) has no IMPLICIT type
/usr/local/amber/amber20_src/AmberTools/src/rism/amber_rism_interface.F90:1476:24:
1476 | atomPositions_fce = atomPositions_md
| 1
Error: Symbol ‘atompositions_fce’ at (1) has no IMPLICIT type; did you mean
‘atompositions_md’?
/usr/local/amber/amber20_src/AmberTools/src/rism/amber_rism_interface.F90:1344:26:
1344 | atomPositions_fce => safemem_realloc(atomPositions_fce, 3,
rism_3d%solute%numAtoms)
| 1
Error: Symbol ‘atompositions_fce’ at (1) has no IMPLICIT type
make[2]: ***
[AmberTools/src/rism/CMakeFiles/sander_rism_interface.dir/build.make:63:
AmberTools/src/rism/CMakeFiles/sander_rism_interface.dir/amber_rism_interface.F90.o]
Error 1
make[1]: *** [CMakeFiles/Makefile2:5148:
AmberTools/src/rism/CMakeFiles/sander_rism_interface.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
error: command '/usr/bin/gcc' failed with exit code 1
make[2]: *** [AmberTools/src/pytraj/CMakeFiles/pytraj.dir/build.make:620:
AmberTools/src/pytraj/CMakeFiles/python-build/pytraj-build.stamp] Error 1
make[1]: *** [CMakeFiles/Makefile2:6734:
AmberTools/src/pytraj/CMakeFiles/pytraj.dir/all] Error 2
make: *** [Makefile:152: all] Error 2
#################################################
Any suggestions?
Thanks,
Renato
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Received on Wed Feb 15 2023 - 13:30:02 PST
