Project ID: plumID:21.005
Stderr for source: SF-prof/plumed_structure_factor_OO.dat
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WARNING: using a legacy ActionRegister.h include path, please use <<#include "core/ActionRegister.h">>
../codes/StructureFactor_sphericallyAveraged.a0fr8L.cpp: In constructor ‘PLMD::colvar::StructureFactor_sphericallyAveraged::StructureFactor_sphericallyAveraged(const PLMD::ActionOptions&)’:
../codes/StructureFactor_sphericallyAveraged.a0fr8L.cpp:184:41: warning: ‘int PLMD::PlumedMain::DeprecatedAtoms::getNatoms() const’ is deprecated [-Wdeprecated-declarations]
184 | NumAtom_=plumed.getAtoms().getNatoms();
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
In file included from ../codes/StructureFactor_sphericallyAveraged.a0fr8L.cpp:8:
/home/runner/opt/include/plumed_master/core/PlumedMain.h:106:9: note: declared here
106 | int getNatoms() const ;
| ^~~~~~~~~
../codes/StructureFactor_sphericallyAveraged.a0fr8L.cpp:190:108: warning: ‘int PLMD::PlumedMain::DeprecatedAtoms::getNatoms() const’ is deprecated [-Wdeprecated-declarations]
190 | log.printf(" over a total of N_tot=%d, considering a number of atoms N=%d\n",plumed.getAtoms().getNatoms(),NumAtom_);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
In file included from ../codes/StructureFactor_sphericallyAveraged.a0fr8L.cpp:8:
/home/runner/opt/include/plumed_master/core/PlumedMain.h:106:9: note: declared here
106 | int getNatoms() const ;
| ^~~~~~~~~
Assembler messages:
Fatal error: can't create plumed_mklib.yAO8Lp/../codes/StructureFactor_sphericallyAveraged.o: No such file or directory
terminate called after throwing an instance of 'PLMD::Plumed::ExceptionError'
what():
(core/PlumedMain.cpp:1282) void PLMD::PlumedMain::load(const string&)
An error happened while executing command env PLUMED_ROOT='/home/runner/opt/lib/plumed_master' PLUMED_VERSION='2.10.0-dev' PLUMED_HTMLDIR='/home/runner/opt/share/doc/plumed_master' PLUMED_INCLUDEDIR='/home/runner/opt/include' PLUMED_PROGRAM_NAME='plumed_master' PLUMED_IS_INSTALLED='yes' "/home/runner/opt/lib/plumed_master"/scripts/mklib.sh -n -o ./../codes/StructureFactor_sphericallyAveraged.2.10.0-dev.so ../codes/StructureFactor_sphericallyAveraged.cpp
[fv-az654-382:08175] *** Process received signal ***
[fv-az654-382:08175] Signal: Aborted (6)
[fv-az654-382:08175] Signal code: (-6)
[fv-az654-382:08175] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x42520)[0x7f6682c42520]
[fv-az654-382:08175] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x12c)[0x7f6682c969fc]
[fv-az654-382:08175] [ 2] /lib/x86_64-linux-gnu/libc.so.6(raise+0x16)[0x7f6682c42476]
[fv-az654-382:08175] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xd3)[0x7f6682c287f3]
[fv-az654-382:08175] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa2b9e)[0x7f66830a2b9e]
[fv-az654-382:08175] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae20c)[0x7f66830ae20c]
[fv-az654-382:08175] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae277)[0x7f66830ae277]
[fv-az654-382:08175] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(__cxa_rethrow+0x4b)[0x7f66830ae52b]
[fv-az654-382:08175] [ 8] plumed_master(+0x14274)[0x55bec427f274]
[fv-az654-382:08175] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x29d90)[0x7f6682c29d90]
[fv-az654-382:08175] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x80)[0x7f6682c29e40]
[fv-az654-382:08175] [11] plumed_master(+0x14ed5)[0x55bec427fed5]
[fv-az654-382:08175] *** End of error message ***