{"action":"reopened","issue":{"url":"https://api.github.com/repos/BhallaLab/moose-core/issues/126","repository_url":"https://api.github.com/repos/BhallaLab/moose-core","labels_url":"https://api.github.com/repos/BhallaLab/moose-core/issues/126/labels{/name}","comments_url":"https://api.github.com/repos/BhallaLab/moose-core/issues/126/comments","events_url":"https://api.github.com/repos/BhallaLab/moose-core/issues/126/events","html_url":"https://github.com/BhallaLab/moose-core/issues/126","id":157819161,"number":126,"title":"Segault on multithreaded branch (reported by rahul g, on issue #124)","user":{"login":"dilawar","id":895681,"avatar_url":"https://avatars.githubusercontent.com/u/895681?v=3","gravatar_id":"","url":"https://api.github.com/users/dilawar","html_url":"https://github.com/dilawar","followers_url":"https://api.github.com/users/dilawar/followers","following_url":"https://api.github.com/users/dilawar/following{/other_user}","gists_url":"https://api.github.com/users/dilawar/gists{/gist_id}","starred_url":"https://api.github.com/users/dilawar/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dilawar/subscriptions","organizations_url":"https://api.github.com/users/dilawar/orgs","repos_url":"https://api.github.com/users/dilawar/repos","events_url":"https://api.github.com/users/dilawar/events{/privacy}","received_events_url":"https://api.github.com/users/dilawar/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/BhallaLab/moose-core/labels/build-system","name":"build-system","color":"eb6420"},{"url":"https://api.github.com/repos/BhallaLab/moose-core/labels/invalid","name":"invalid","color":"e6e6e6"},{"url":"https://api.github.com/repos/BhallaLab/moose-core/labels/status:resolved","name":"status:resolved","color":"bfe5bf"}],"state":"open","locked":false,"assignee":{"login":"dilawar","id":895681,"avatar_url":"https://avatars.githubusercontent.com/u/895681?v=3","gravatar_id":"","url":"https://api.github.com/users/dilawar","html_url":"https://github.com/dilawar","followers_url":"https://api.github.com/users/dilawar/followers","following_url":"https://api.github.com/users/dilawar/following{/other_user}","gists_url":"https://api.github.com/users/dilawar/gists{/gist_id}","starred_url":"https://api.github.com/users/dilawar/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dilawar/subscriptions","organizations_url":"https://api.github.com/users/dilawar/orgs","repos_url":"https://api.github.com/users/dilawar/repos","events_url":"https://api.github.com/users/dilawar/events{/privacy}","received_events_url":"https://api.github.com/users/dilawar/received_events","type":"User","site_admin":false},"milestone":null,"comments":2,"created_at":"2016-06-01T04:03:52Z","updated_at":"2016-06-01T05:58:54Z","closed_at":null,"body":"Reported by @rahulgayatri23 \r\n\r\nOn nargis, moose does not compile unless the MPI flag is set. Otherwise it gives the following error.\r\n\r\n```\r\nIn file included from /cluster/share/software/hdf51813/include/hdf5.h:24,\r\nfrom /home/rahulg/Work/moose-core-boost/moose-core/builtins/InputVariable.cpp:50:\r\n/cluster/share/software/hdf51813/include/H5public.h:61:20: error: mpi.h: No such file or directory\r\n/cluster/share/software/hdf51813/include/H5public.h:63:21: error: mpio.h: No such file or directory\r\nIn file included from /cluster/share/software/hdf51813/include/H5FDmpi.h:59,\r\nfrom /cluster/share/software/hdf51813/include/hdf5.h:46,\r\nfrom /home/rahulg/Work/moose-core-boost/moose-core/builtins/InputVariable.cpp:50:\r\n/cluster/share/software/hdf51813/include/H5FDmpio.h:51: error: 'MPI_Comm' has not been declared\r\n/cluster/share/software/hdf51813/include/H5FDmpio.h:51: error: 'MPI_Info' has not been declared\r\n/cluster/share/software/hdf51813/include/H5FDmpio.h:52: error: 'MPI_Comm' has not been declared\r\n/cluster/share/software/hdf51813/include/H5FDmpio.h:53: error: 'MPI_Info' has not been declared\r\nmake[2]: *** [builtins/CMakeFiles/moose_builtins.dir/InputVariable.cpp.o] Error 1\r\nmake[1]: *** [builtins/CMakeFiles/moose_builtins.dir/all] Error 2\r\nmake: *** [all] Error 2\r\n\r\nAnd also when I set the MPI flag, it gives a the following segmentation fault when I run this script.\r\n\r\n[nargis:114519] Signal: Segmentation fault (11)\r\n[nargis:114519] Signal code: Address not mapped (1)\r\n[nargis:114519] Failing at address: 0x88\r\n[nargis:114519] [ 0] /lib64/libpthread.so.0() [0x3d8640f500]\r\n[nargis:114519] [ 1] /home/rahulg/Work/moose-core-boost/moose-core/build/python/moose/_moose.so(_ZN2mu17ParserTokenReader6ReInitEv+0xd) [0x7ff0efe87e3d]\r\n[nargis:114519] [ 2] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZNK2mu10ParserBase6ReInitEv+0x9b) [0x7ff0efe8cf3b]\r\n[nargis:114519] [ 3] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN2mu10ParserBase9DefineVarERKSsPd+0x253) [0x7ff0efe913f3]\r\n[nargis:114519] [ 4] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN8FuncTerm16setReactantIndexERKSt6vectorIjSaIjEE+0x1dc) [0x7ff0f01a959c]\r\n[nargis:114519] [ 5] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN8FuncTermaSERKS+0x59) [0x7ff0f01a9d39]\r\n[nargis:114519] [ 6] /home/rahulg/Work/moose-core-boost/moose-core/build/python/moose/_moose.so(_ZNK8FuncReac18copyWithVolScalingEddd+0x212) [0x7ff0f01c1de2]\r\n[nargis:114519] [ 7] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN14GssaVoxelPools18updateAllRateTermsERKSt6vectorIP8RateTermSaIS2_EEj+0xf8) [0x7ff0f01a6958]\r\n[nargis:114519] [ 8] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN6Gsolve15updateRateTermsEj+0x145) [0x7ff0f01d0b05]\r\n[nargis:114519] [ 9] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN6Stoich8setElistERK4ErefRKSt6vectorI5ObjIdSaIS4_EE+0x2e1) [0x7ff0f01bda71]\r\n[nargis:114519] [10] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN6Stoich7setPathERK4ErefSs+0xe1) [0x7ff0f01bdca1]\r\n[nargis:114519] [11] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZNK7EpFunc1I6StoichSsE2opERK4ErefSs+0x68) [0x7ff0f01becc8]\r\n[nargis:114519] [12] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_ZN7SetGet1ISsE3setERK5ObjIdRKSsSs+0x1d1) [0x7ff0efd3c531]\r\n[nargis:114519] [13] /home/rahulg/Work/moose-core-boost/moose-core/_build/python/moose/_moose.so(_Z20moose_ObjId_setattroP6_ObjIdP7_objectS2+0x13a9) [0x7ff0efd2de79]\r\n[nargis:114519] [14] /usr/local/lib/libpython2.7.so.1.0(PyObject_SetAttr+0x87) [0x7ff0f9914077]\r\n[nargis:114519] [15] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x292d) [0x7ff0f997592d]\r\n[nargis:114519] [16] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x88e) [0x7ff0f997a4ae]\r\n[nargis:114519] [17] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x565a) [0x7ff0f997865a]\r\n[nargis:114519] [18] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x88e) [0x7ff0f997a4ae]\r\n[nargis:114519] [19] /usr/local/lib/libpython2.7.so.1.0(+0x77778) [0x7ff0f98f8778]\r\n[nargis:114519] [20] /usr/local/lib/libpython2.7.so.1.0(PyObject_Call+0x53) [0x7ff0f98c91a3]\r\n[nargis:114519] [21] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x414a) [0x7ff0f997714a]\r\n[nargis:114519] [22] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x88e) [0x7ff0f997a4ae]\r\n[nargis:114519] [23] /usr/local/lib/libpython2.7.so.1.0(PyEval_EvalCode+0x32) [0x7ff0f997a5c2]\r\n[nargis:114519] [24] /usr/local/lib/libpython2.7.so.1.0(PyRun_FileExFlags+0xb0) [0x7ff0f999a2a0]\r\n[nargis:114519] [25] /usr/local/lib/libpython2.7.so.1.0(PyRun_SimpleFileExFlags+0xef) [0x7ff0f999a47f]\r\n[nargis:114519] [26] /usr/local/lib/libpython2.7.so.1.0(Py_Main+0xc74) [0x7ff0f99afc44]\r\n[nargis:114519] [27] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3d8581ecdd]\r\n[nargis:114519] [28] python() [0x400649]\r\n[nargis:114519] *** End of error message **\r\n````"}}
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