{"action":"created","issue":{"url":"https://api.github.com/repos/peastman/openmm-plumed/issues/18","repository_url":"https://api.github.com/repos/peastman/openmm-plumed","labels_url":"https://api.github.com/repos/peastman/openmm-plumed/issues/18/labels{/name}","comments_url":"https://api.github.com/repos/peastman/openmm-plumed/issues/18/comments","events_url":"https://api.github.com/repos/peastman/openmm-plumed/issues/18/events","html_url":"https://github.com/peastman/openmm-plumed/issues/18","id":335539418,"node_id":"MDU6SXNzdWUzMzU1Mzk0MTg=","number":18,"title":"Installation with openmm on anaconda 3","user":{"login":"linusyukwong","id":39145532,"node_id":"MDQ6VXNlcjM5MTQ1NTMy","avatar_url":"https://avatars2.githubusercontent.com/u/39145532?v=4","gravatar_id":"","url":"https://api.github.com/users/linusyukwong","html_url":"https://github.com/linusyukwong","followers_url":"https://api.github.com/users/linusyukwong/followers","following_url":"https://api.github.com/users/linusyukwong/following{/other_user}","gists_url":"https://api.github.com/users/linusyukwong/gists{/gist_id}","starred_url":"https://api.github.com/users/linusyukwong/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/linusyukwong/subscriptions","organizations_url":"https://api.github.com/users/linusyukwong/orgs","repos_url":"https://api.github.com/users/linusyukwong/repos","events_url":"https://api.github.com/users/linusyukwong/events{/privacy}","received_events_url":"https://api.github.com/users/linusyukwong/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-06-25T19:36:05Z","updated_at":"2018-06-27T15:24:16Z","closed_at":"2018-06-27T15:24:16Z","author_association":"NONE","body":"I installed both openmm 7.3.2 and plumed 2.3.3 with anaconda, but encountered the following when installing openmm-plumed from source:\r\n[  3%] Building CXX object CMakeFiles/OpenMMPlumed.dir/openmmapi/src/PlumedForce.cpp.o\r\n[  7%] Building CXX object CMakeFiles/OpenMMPlumed.dir/openmmapi/src/PlumedForceImpl.cpp.o\r\n[ 11%] Building CXX object CMakeFiles/OpenMMPlumed.dir/serialization/src/PlumedForceProxy.cpp.o\r\n[ 15%] Building CXX object CMakeFiles/OpenMMPlumed.dir/serialization/src/PlumedSerializationProxyRegistration.cpp.o\r\n[ 19%] Linking CXX shared library libOpenMMPlumed.so\r\n[ 19%] Built target OpenMMPlumed\r\n[ 23%] Building CXX object serialization/tests/CMakeFiles/TestSerializePlumedForce.dir/TestSerializePlumedForce.cpp.o\r\n[ 26%] Linking CXX executable TestSerializePlumedForce\r\nCMakeFiles/TestSerializePlumedForce.dir/TestSerializePlumedForce.cpp.o: In function `testSerialization()':\r\nTestSerializePlumedForce.cpp:(.text+0x1f5): undefined reference to `OpenMM::throwException(char const*, int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'\r\nCMakeFiles/TestSerializePlumedForce.dir/TestSerializePlumedForce.cpp.o: In function `void OpenMM::XmlSerializer::serialize<PlumedPlugin::PlumedForce>(PlumedPlugin::PlumedForce const*, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::ostream&)':\r\nTestSerializePlumedForce.cpp:(.text._ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo[_ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo]+0x72): undefined reference to `OpenMM::SerializationNode::setName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'\r\nTestSerializePlumedForce.cpp:(.text._ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo[_ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo]+0xe1): undefined reference to `OpenMM::SerializationNode::hasProperty(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'\r\nTestSerializePlumedForce.cpp:(.text._ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo[_ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo]+0x121): undefined reference to `OpenMM::SerializationProxy::getTypeName[abi:cxx11]() const'\r\nTestSerializePlumedForce.cpp:(.text._ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo[_ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo]+0x17d): undefined reference to `OpenMM::SerializationProxy::getTypeName[abi:cxx11]() const'\r\nTestSerializePlumedForce.cpp:(.text._ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo[_ZN6OpenMM13XmlSerializer9serializeIN12PlumedPlugin11PlumedForceEEEvPKT_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERSo]+0x1c3): undefined reference to `OpenMM::SerializationNode::setStringProperty(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'\r\n../../libOpenMMPlumed.so: undefined reference to `OpenMM::Platform::createKernel(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, OpenMM::ContextImpl&) const'\r\n../../libOpenMMPlumed.so: undefined reference to `OpenMM::SerializationNode::getIntProperty(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'\r\n../../libOpenMMPlumed.so: undefined reference to `OpenMM::SerializationNode::getStringProperty(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'\r\n../../libOpenMMPlumed.so: undefined reference to `OpenMM::SerializationNode::setIntProperty(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, int)'\r\n../../libOpenMMPlumed.so: undefined reference to `OpenMM::SerializationProxy::SerializationProxy(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'\r\ncollect2: error: ld returned 1 exit status\r\nserialization/tests/CMakeFiles/TestSerializePlumedForce.dir/build.make:84: recipe for target 'serialization/tests/TestSerializePlumedForce' failed\r\nmake[2]: *** [serialization/tests/TestSerializePlumedForce] Error 1\r\nCMakeFiles/Makefile2:122: recipe for target 'serialization/tests/CMakeFiles/TestSerializePlumedForce.dir/all' failed\r\nmake[1]: *** [serialization/tests/CMakeFiles/TestSerializePlumedForce.dir/all] Error 2\r\nMakefile:140: recipe for target 'all' failed\r\nmake: *** [all] Error 2"},"comment":{"url":"https://api.github.com/repos/peastman/openmm-plumed/issues/comments/400714761","html_url":"https://github.com/peastman/openmm-plumed/issues/18#issuecomment-400714761","issue_url":"https://api.github.com/repos/peastman/openmm-plumed/issues/18","id":400714761,"node_id":"MDEyOklzc3VlQ29tbWVudDQwMDcxNDc2MQ==","user":{"login":"linusyukwong","id":39145532,"node_id":"MDQ6VXNlcjM5MTQ1NTMy","avatar_url":"https://avatars2.githubusercontent.com/u/39145532?v=4","gravatar_id":"","url":"https://api.github.com/users/linusyukwong","html_url":"https://github.com/linusyukwong","followers_url":"https://api.github.com/users/linusyukwong/followers","following_url":"https://api.github.com/users/linusyukwong/following{/other_user}","gists_url":"https://api.github.com/users/linusyukwong/gists{/gist_id}","starred_url":"https://api.github.com/users/linusyukwong/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/linusyukwong/subscriptions","organizations_url":"https://api.github.com/users/linusyukwong/orgs","repos_url":"https://api.github.com/users/linusyukwong/repos","events_url":"https://api.github.com/users/linusyukwong/events{/privacy}","received_events_url":"https://api.github.com/users/linusyukwong/received_events","type":"User","site_admin":false},"created_at":"2018-06-27T15:24:16Z","updated_at":"2018-06-27T15:24:16Z","author_association":"NONE","body":"Solved by installing openmm and plumed from souce"}}
{"actor":{"display_login":"linusyukwong"}}