Project ID: plumID:21.035
Stderr for source: CmuMD-NaCl/flat-plumed.dat
Download: zipped raw stdout - zipped raw stderr
#! Only the first 1000 rows of the error file are shown below #! To inspect the full error file, please download the zipped raw stderr file above WARNING: using a legacy ActionRegister.h include path, please use <<#include "core/ActionRegister.h">> Cmumd.H6V8CY.cpp: In member function ‘virtual void PLMD::colvar::CmuMD::calculate()’: Cmumd.H6V8CY.cpp:290:14: error: invalid use of incomplete type ‘class PLMD::Communicator’ 290 | stride=comm.Get_size(); //Number of processes | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:291:12: error: invalid use of incomplete type ‘class PLMD::Communicator’ 291 | rank=comm.Get_rank(); //Rank of present process | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:392:7: error: invalid use of incomplete type ‘class PLMD::Communicator’ 392 | comm.Sum(histz); | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:393:7: error: invalid use of incomplete type ‘class PLMD::Communicator’ 393 | comm.Sum(com_solv); | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:644:7: error: invalid use of incomplete type ‘class PLMD::Communicator’ 644 | comm.Sum(deriv); | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:645:7: error: invalid use of incomplete type ‘class PLMD::Communicator’ 645 | comm.Sum(n_CR); | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ Cmumd.H6V8CY.cpp:646:7: error: invalid use of incomplete type ‘class PLMD::Communicator’ 646 | comm.Sum(virial); | ^~~~ In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30, from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25, from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25, from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24, from Cmumd.H6V8CY.cpp:22: /home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ 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 ./Cmumd.2.10.0-dev.so Cmumd.cpp [fv-az654-382:06832] *** Process received signal *** [fv-az654-382:06832] Signal: Aborted (6) [fv-az654-382:06832] Signal code: (-6) [fv-az654-382:06832] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x42520)[0x7fc486042520] [fv-az654-382:06832] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x12c)[0x7fc4860969fc] [fv-az654-382:06832] [ 2] /lib/x86_64-linux-gnu/libc.so.6(raise+0x16)[0x7fc486042476] [fv-az654-382:06832] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xd3)[0x7fc4860287f3] [fv-az654-382:06832] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa2b9e)[0x7fc4864a2b9e] [fv-az654-382:06832] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae20c)[0x7fc4864ae20c] [fv-az654-382:06832] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae277)[0x7fc4864ae277] [fv-az654-382:06832] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(__cxa_rethrow+0x4b)[0x7fc4864ae52b] [fv-az654-382:06832] [ 8] plumed_master(+0x14274)[0x558d6909c274] [fv-az654-382:06832] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x29d90)[0x7fc486029d90] [fv-az654-382:06832] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x80)[0x7fc486029e40] [fv-az654-382:06832] [11] plumed_master(+0x14ed5)[0x558d6909ced5] [fv-az654-382:06832] *** End of error message ***