Project ID: plumID:21.033
Stderr for source: inside_path/plumed.3.dat
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#! 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">> WARNING: "core/Atoms.h" does not exist anymore in version >=2.10, you should change your code. ../PathCV.AoH8p9.cpp: In static member function ‘static void PLMD::function::PathCV::registerKeywords(PLMD::Keywords&)’: ../PathCV.AoH8p9.cpp:198:3: error: ‘componentsAreNotOptional’ was not declared in this scope 198 | componentsAreNotOptional(keys); | ^~~~~~~~~~~~~~~~~~~~~~~~ ../PathCV.AoH8p9.cpp:199:26: warning: ‘void PLMD::Keywords::addOutputComponent(const std::string&, const std::string&, const std::string&)’ is deprecated: Use addOutputComponent with four argument and specify valid types for value from scalar/vector/matrix/grid [-Wdeprecated-declarations] 199 | keys.addOutputComponent("s","default","the position on the path"); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/runner/opt/include/plumed_master/function/../core/Action.h:27, from /home/runner/opt/include/plumed_master/function/../core/ActionWithValue.h:25, from /home/runner/opt/include/plumed_master/function/Function.h:25, from ../PathCV.AoH8p9.cpp:22: /home/runner/opt/include/plumed_master/function/../core/../tools/Keywords.h:178:8: note: declared here 178 | void addOutputComponent( const std::string& name, const std::string& key, const std::string& descr ); | ^~~~~~~~~~~~~~~~~~ ../PathCV.AoH8p9.cpp:200:26: warning: ‘void PLMD::Keywords::addOutputComponent(const std::string&, const std::string&, const std::string&)’ is deprecated: Use addOutputComponent with four argument and specify valid types for value from scalar/vector/matrix/grid [-Wdeprecated-declarations] 200 | keys.addOutputComponent("z","default","the distance from the path"); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/runner/opt/include/plumed_master/function/../core/../tools/Keywords.h:178:8: note: declared here 178 | void addOutputComponent( const std::string& name, const std::string& key, const std::string& descr ); | ^~~~~~~~~~~~~~~~~~ ../PathCV.AoH8p9.cpp: In destructor ‘virtual PLMD::function::PathCV::~PathCV()’: ../PathCV.AoH8p9.cpp:208:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 208 | for(int i=0;i<mw_n_;++i){ | ~^~~~~~ ../PathCV.AoH8p9.cpp: In constructor ‘PLMD::function::PathCV::PathCV(const PLMD::ActionOptions&)’: ../PathCV.AoH8p9.cpp:236:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 236 | for(int i=0;i<mw_n_;++i){ | ~^~~~~~ ../PathCV.AoH8p9.cpp:259:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 259 | if(i==mw_id_) ifiles[i]->close(); | ~^~~~~~~~ ../PathCV.AoH8p9.cpp: In member function ‘void PLMD::function::PathCV::generatePath()’: ../PathCV.AoH8p9.cpp:483:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 483 | for(int inode=0;inode<nnodes;inode++){ | ~~~~~^~~~~~~ ../PathCV.AoH8p9.cpp: In member function ‘void PLMD::function::PathCV::readMultipleWalkers()’: ../PathCV.AoH8p9.cpp:941:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 941 | for(int i=0;i<mw_n_;++i){ | ~^~~~~~ ../PathCV.AoH8p9.cpp:942:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 942 | if(i==mw_id_) continue; | ~^~~~~~~~ ../PathCV.AoH8p9.cpp:957:5: error: invalid use of incomplete type ‘class PLMD::Communicator’ 957 | comm.Barrier(); | ^~~~ In file included from /home/runner/opt/include/plumed_master/function/../core/../tools/OFile.h:25, from /home/runner/opt/include/plumed_master/function/../core/../tools/Log.h:25, from /home/runner/opt/include/plumed_master/function/../core/Action.h:30: /home/runner/opt/include/plumed_master/function/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ ../PathCV.AoH8p9.cpp:958:5: error: invalid use of incomplete type ‘class PLMD::Communicator’ 958 | multi_sim_comm.Barrier(); | ^~~~~~~~~~~~~~ /home/runner/opt/include/plumed_master/function/../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:1292) void PLMD::PlumedMain::load(const std::string&) An error happened while executing command env PLUMED_ROOT='/home/runner/opt/lib/plumed_master' PLUMED_VERSION='2.11.0-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 ./../PathCV.2.11.0-dev.so ../PathCV.cpp [fv-az788-895:08349] *** Process received signal *** [fv-az788-895:08349] Signal: Aborted (6) [fv-az788-895:08349] Signal code: (-6) [fv-az788-895:08349] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x45320)[0x7f9c56845320] [fv-az788-895:08349] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x11c)[0x7f9c5689eb1c] [fv-az788-895:08349] [ 2] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x1e)[0x7f9c5684526e] [fv-az788-895:08349] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xdf)[0x7f9c568288ff] [fv-az788-895:08349] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa5ff5)[0x7f9c56ca5ff5] [fv-az788-895:08349] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xbb0da)[0x7f9c56cbb0da] [fv-az788-895:08349] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(_ZSt10unexpectedv+0x0)[0x7f9c56ca5a55] [fv-az788-895:08349] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa5a6f)[0x7f9c56ca5a6f] [fv-az788-895:08349] [ 8] plumed_master(+0x146dd)[0x55ada5f536dd] [fv-az788-895:08349] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x2a1ca)[0x7f9c5682a1ca] [fv-az788-895:08349] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x8b)[0x7f9c5682a28b] [fv-az788-895:08349] [11] plumed_master(+0x15365)[0x55ada5f54365] [fv-az788-895:08349] *** End of error message ***