Project ID: plumID:21.049
Stderr for source: 1ad_multi/plumed.1.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">> WARNING: "core/Atoms.h" does not exist anymore in version >=2.10, you should change your code. ../PathCV.I5Yj3Z.cpp: In static member function ‘static void PLMD::function::PathCV::registerKeywords(PLMD::Keywords&)’: ../PathCV.I5Yj3Z.cpp:198:3: error: ‘componentsAreNotOptional’ was not declared in this scope 198 | componentsAreNotOptional(keys); | ^~~~~~~~~~~~~~~~~~~~~~~~ ../PathCV.I5Yj3Z.cpp:199:26: warning: ‘void PLMD::Keywords::addOutputComponent(const string&, const string&, const 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.I5Yj3Z.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.I5Yj3Z.cpp:200:26: warning: ‘void PLMD::Keywords::addOutputComponent(const string&, const string&, const 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"); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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.I5Yj3Z.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.I5Yj3Z.cpp: In destructor ‘virtual PLMD::function::PathCV::~PathCV()’: ../PathCV.I5Yj3Z.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.I5Yj3Z.cpp: In constructor ‘PLMD::function::PathCV::PathCV(const PLMD::ActionOptions&)’: ../PathCV.I5Yj3Z.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.I5Yj3Z.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.I5Yj3Z.cpp: In member function ‘void PLMD::function::PathCV::generatePath()’: ../PathCV.I5Yj3Z.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.I5Yj3Z.cpp: In member function ‘void PLMD::function::PathCV::readMultipleWalkers()’: ../PathCV.I5Yj3Z.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.I5Yj3Z.cpp:942:9: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 942 | if(i==mw_id_) continue; | ~^~~~~~~~ ../PathCV.I5Yj3Z.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, 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.I5Yj3Z.cpp:22: /home/runner/opt/include/plumed_master/function/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’ 29 | class Communicator; | ^~~~~~~~~~~~ ../PathCV.I5Yj3Z.cpp:958:5: error: invalid use of incomplete type ‘class PLMD::Communicator’ 958 | multi_sim_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, 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.I5Yj3Z.cpp:22: /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 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-az1016-785:06867] *** Process received signal *** [fv-az1016-785:06867] Signal: Aborted (6) [fv-az1016-785:06867] Signal code: (-6) [fv-az1016-785:06867] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x42520)[0x7fb5b0842520] [fv-az1016-785:06867] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x12c)[0x7fb5b08969fc] [fv-az1016-785:06867] [ 2] /lib/x86_64-linux-gnu/libc.so.6(raise+0x16)[0x7fb5b0842476] [fv-az1016-785:06867] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xd3)[0x7fb5b08287f3] [fv-az1016-785:06867] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa2b9e)[0x7fb5b0ca2b9e] [fv-az1016-785:06867] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae20c)[0x7fb5b0cae20c] [fv-az1016-785:06867] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae277)[0x7fb5b0cae277] [fv-az1016-785:06867] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(__cxa_rethrow+0x4b)[0x7fb5b0cae52b] [fv-az1016-785:06867] [ 8] plumed_master(+0x14254)[0x55bd37a7c254] [fv-az1016-785:06867] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x29d90)[0x7fb5b0829d90] [fv-az1016-785:06867] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x80)[0x7fb5b0829e40] [fv-az1016-785:06867] [11] plumed_master(+0x14eb5)[0x55bd37a7ceb5] [fv-az1016-785:06867] *** End of error message ***