Project ID: plumID:20.015
Stderr for source: 2-EMMI/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">> EMMIVox.pYIYdI.cpp: In static member function ‘static void PLMD::isdb::EMMIVOX::registerKeywords(PLMD::Keywords&)’: EMMIVox.pYIYdI.cpp:242:3: error: ‘componentsAreNotOptional’ was not declared in this scope 242 | componentsAreNotOptional(keys); | ^~~~~~~~~~~~~~~~~~~~~~~~ EMMIVox.pYIYdI.cpp: In constructor ‘PLMD::isdb::EMMIVOX::EMMIVOX(const PLMD::ActionOptions&)’: EMMIVox.pYIYdI.cpp:328:52: warning: ‘double PLMD::PlumedMain::DeprecatedAtoms::getKBoltzmann() const’ is deprecated: Use Action::getKBoltzmann(). [-Wdeprecated-declarations] 328 | if(temp>0.0) kbt_=plumed.getAtoms().getKBoltzmann()*temp; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from EMMIVox.pYIYdI.cpp:24: /home/runner/opt/include/plumed_master/core/PlumedMain.h:102:12: note: declared here 102 | double getKBoltzmann() const ; | ^~~~~~~~~~~~~ EMMIVox.pYIYdI.cpp:329:37: warning: ‘double PLMD::PlumedMain::DeprecatedAtoms::getKbT() const’ is deprecated: Use Action::getkBT() N.B. this function also reads the TEMP keyword from the input for you. [-Wdeprecated-declarations] 329 | else kbt_=plumed.getAtoms().getKbT(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from EMMIVox.pYIYdI.cpp:24: /home/runner/opt/include/plumed_master/core/PlumedMain.h:104:12: note: declared here 104 | double getKbT() const ; | ^~~~~~ EMMIVox.pYIYdI.cpp: In member function ‘void PLMD::isdb::EMMIVOX::write_model_overlap(long int)’: EMMIVox.pYIYdI.cpp:536:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 536 | for(int i=0; i<ovmd_.size(); ++i) { | ~^~~~~~~~~~~~~ EMMIVox.pYIYdI.cpp: In member function ‘std::vector PLMD::isdb::EMMIVOX::read_exp_errors(std::string)’: EMMIVox.pYIYdI.cpp:670:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 670 | for(unsigned i=0; i<nexp; ++i) { | ~^~~~~ EMMIVox.pYIYdI.cpp: In member function ‘void PLMD::isdb::EMMIVOX::get_exp_data(std::string)’: EMMIVox.pYIYdI.cpp:801:22: warning: comparison of integer expressions of different signedness: ‘__gnu_cxx::__alloc_traits<std::allocator , int>::value_type’ {aka ‘int’} and ‘std::vector<std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 801 | if(GMM_d_beta_[i]>=GMM_d_grps_.size()) error("Check Beta values"); 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 ./EMMIVox.2.10.0-dev.so EMMIVox.cpp [fv-az1055-513:07688] *** Process received signal *** [fv-az1055-513:07688] Signal: Aborted (6) [fv-az1055-513:07688] Signal code: (-6) [fv-az1055-513:07688] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x42520)[0x7fa7bbc42520] [fv-az1055-513:07688] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x12c)[0x7fa7bbc969fc] [fv-az1055-513:07688] [ 2] /lib/x86_64-linux-gnu/libc.so.6(raise+0x16)[0x7fa7bbc42476] [fv-az1055-513:07688] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xd3)[0x7fa7bbc287f3] [fv-az1055-513:07688] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa2b9e)[0x7fa7bc0a2b9e] [fv-az1055-513:07688] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae20c)[0x7fa7bc0ae20c] [fv-az1055-513:07688] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xae277)[0x7fa7bc0ae277] [fv-az1055-513:07688] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(__cxa_rethrow+0x4b)[0x7fa7bc0ae52b] [fv-az1055-513:07688] [ 8] plumed_master(+0x14274)[0x555c6ed5e274] [fv-az1055-513:07688] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x29d90)[0x7fa7bbc29d90] [fv-az1055-513:07688] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x80)[0x7fa7bbc29e40] [fv-az1055-513:07688] [11] plumed_master(+0x14ed5)[0x555c6ed5eed5] [fv-az1055-513:07688] *** End of error message *** </pre>