{"action":"created","issue":{"url":"https://api.github.com/repos/veg/hyphy/issues/291","labels_url":"https://api.github.com/repos/veg/hyphy/issues/291/labels{/name}","comments_url":"https://api.github.com/repos/veg/hyphy/issues/291/comments","events_url":"https://api.github.com/repos/veg/hyphy/issues/291/events","html_url":"https://github.com/veg/hyphy/issues/291","id":78401779,"number":291,"title":"Installation path problem","user":{"login":"francicco","id":9006870,"avatar_url":"https://avatars.githubusercontent.com/u/9006870?v=3","gravatar_id":"","url":"https://api.github.com/users/francicco","html_url":"https://github.com/francicco","followers_url":"https://api.github.com/users/francicco/followers","following_url":"https://api.github.com/users/francicco/following{/other_user}","gists_url":"https://api.github.com/users/francicco/gists{/gist_id}","starred_url":"https://api.github.com/users/francicco/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/francicco/subscriptions","organizations_url":"https://api.github.com/users/francicco/orgs","repos_url":"https://api.github.com/users/francicco/repos","events_url":"https://api.github.com/users/francicco/events{/privacy}","received_events_url":"https://api.github.com/users/francicco/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/veg/hyphy/labels/Bug","name":"Bug","color":"e10c02"}],"state":"open","locked":false,"assignee":{"login":"stevenweaver","id":535261,"avatar_url":"https://avatars.githubusercontent.com/u/535261?v=3","gravatar_id":"","url":"https://api.github.com/users/stevenweaver","html_url":"https://github.com/stevenweaver","followers_url":"https://api.github.com/users/stevenweaver/followers","following_url":"https://api.github.com/users/stevenweaver/following{/other_user}","gists_url":"https://api.github.com/users/stevenweaver/gists{/gist_id}","starred_url":"https://api.github.com/users/stevenweaver/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/stevenweaver/subscriptions","organizations_url":"https://api.github.com/users/stevenweaver/orgs","repos_url":"https://api.github.com/users/stevenweaver/repos","events_url":"https://api.github.com/users/stevenweaver/events{/privacy}","received_events_url":"https://api.github.com/users/stevenweaver/received_events","type":"User","site_admin":false},"milestone":null,"comments":3,"created_at":"2015-05-20T06:58:04Z","updated_at":"2015-05-20T18:03:17Z","closed_at":null,"body":"All everyone,\r\n\r\nI'm trying to install HyPhy on a cluster machine. I follow the instruction executing cmake with the proper environment setting (-DINSTALL_PREFIX=my/local/directory) to install the software locally and everything went smooth without error. I tried to execute a bf file to check is everything is ok and I did:\r\n\r\nHYPHYMP BranchSiteREL.bf\r\n\r\nit returns me the following error:\r\n\r\nError:\r\nCould not read command file in ExecuteAFile.\r\nOriginal path: '/usr/local/lib/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def'.\r\nExpanded path: '/usr/local/lib/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def'\r\n\r\nFunction call stack\r\n1 : ExecuteAFile from file HYPHY_LIB_DIRECTORY+\"TemplateBatchFiles\"+DIRECTORY_SEPARATOR+\"TemplateModels\"+DIRECTORY_SEPARATOR+\"chooseGeneticCode.def\" using basepath /gpfs/scratch/c7701100/apps/hyphy-2.2.4/res/TemplateBatchFiles/.\r\n-------\r\nSegmentation fault\r\n\r\nIt look like there is a path problem. HyPhy is searching in a different folder with respect the one I specified during the cmake execution.\r\n\r\nHow could I fix it?\r\nThanks\r\nF"},"comment":{"url":"https://api.github.com/repos/veg/hyphy/issues/comments/103975983","html_url":"https://github.com/veg/hyphy/issues/291#issuecomment-103975983","issue_url":"https://api.github.com/repos/veg/hyphy/issues/291","id":103975983,"user":{"login":"stevenweaver","id":535261,"avatar_url":"https://avatars.githubusercontent.com/u/535261?v=3","gravatar_id":"","url":"https://api.github.com/users/stevenweaver","html_url":"https://github.com/stevenweaver","followers_url":"https://api.github.com/users/stevenweaver/followers","following_url":"https://api.github.com/users/stevenweaver/following{/other_user}","gists_url":"https://api.github.com/users/stevenweaver/gists{/gist_id}","starred_url":"https://api.github.com/users/stevenweaver/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/stevenweaver/subscriptions","organizations_url":"https://api.github.com/users/stevenweaver/orgs","repos_url":"https://api.github.com/users/stevenweaver/repos","events_url":"https://api.github.com/users/stevenweaver/events{/privacy}","received_events_url":"https://api.github.com/users/stevenweaver/received_events","type":"User","site_admin":false},"created_at":"2015-05-20T18:03:17Z","updated_at":"2015-05-20T18:03:17Z","body":"Hi Francesco, \r\n\r\nThe most probable cause is that you forgot to run `make install` after compilation. `make install` copies the library batch files into the directory specified by the CMake INSTALL_PREFIX environment variable.\r\n\r\nRegards,\r\nSteven "}}