{"action":"opened","issue":{"url":"https://api.github.com/repos/aowen87/BAR/issues/149","repository_url":"https://api.github.com/repos/aowen87/BAR","labels_url":"https://api.github.com/repos/aowen87/BAR/issues/149/labels{/name}","comments_url":"https://api.github.com/repos/aowen87/BAR/issues/149/comments","events_url":"https://api.github.com/repos/aowen87/BAR/issues/149/events","html_url":"https://github.com/aowen87/BAR/issues/149","id":336492363,"node_id":"MDU6SXNzdWUzMzY0OTIzNjM=","number":149,"title":"PDB Reader segfaults trying to read ProteinDataBank file","user":{"login":"aowen87","id":11658578,"node_id":"MDQ6VXNlcjExNjU4NTc4","avatar_url":"https://avatars0.githubusercontent.com/u/11658578?v=4","gravatar_id":"","url":"https://api.github.com/users/aowen87","html_url":"https://github.com/aowen87","followers_url":"https://api.github.com/users/aowen87/followers","following_url":"https://api.github.com/users/aowen87/following{/other_user}","gists_url":"https://api.github.com/users/aowen87/gists{/gist_id}","starred_url":"https://api.github.com/users/aowen87/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/aowen87/subscriptions","organizations_url":"https://api.github.com/users/aowen87/orgs","repos_url":"https://api.github.com/users/aowen87/repos","events_url":"https://api.github.com/users/aowen87/events{/privacy}","received_events_url":"https://api.github.com/users/aowen87/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":{"login":"aowen87","id":11658578,"node_id":"MDQ6VXNlcjExNjU4NTc4","avatar_url":"https://avatars0.githubusercontent.com/u/11658578?v=4","gravatar_id":"","url":"https://api.github.com/users/aowen87","html_url":"https://github.com/aowen87","followers_url":"https://api.github.com/users/aowen87/followers","following_url":"https://api.github.com/users/aowen87/following{/other_user}","gists_url":"https://api.github.com/users/aowen87/gists{/gist_id}","starred_url":"https://api.github.com/users/aowen87/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/aowen87/subscriptions","organizations_url":"https://api.github.com/users/aowen87/orgs","repos_url":"https://api.github.com/users/aowen87/repos","events_url":"https://api.github.com/users/aowen87/events{/privacy}","received_events_url":"https://api.github.com/users/aowen87/received_events","type":"User","site_admin":false},"assignees":[{"login":"aowen87","id":11658578,"node_id":"MDQ6VXNlcjExNjU4NTc4","avatar_url":"https://avatars0.githubusercontent.com/u/11658578?v=4","gravatar_id":"","url":"https://api.github.com/users/aowen87","html_url":"https://github.com/aowen87","followers_url":"https://api.github.com/users/aowen87/followers","following_url":"https://api.github.com/users/aowen87/following{/other_user}","gists_url":"https://api.github.com/users/aowen87/gists{/gist_id}","starred_url":"https://api.github.com/users/aowen87/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/aowen87/subscriptions","organizations_url":"https://api.github.com/users/aowen87/orgs","repos_url":"https://api.github.com/users/aowen87/repos","events_url":"https://api.github.com/users/aowen87/events{/privacy}","received_events_url":"https://api.github.com/users/aowen87/received_events","type":"User","site_admin":false}],"milestone":{"url":"https://api.github.com/repos/aowen87/BAR/milestones/19","html_url":"https://github.com/aowen87/BAR/milestone/19","labels_url":"https://api.github.com/repos/aowen87/BAR/milestones/19/labels","id":3458318,"node_id":"MDk6TWlsZXN0b25lMzQ1ODMxOA==","number":19,"title":"2.7","description":null,"creator":{"login":"aowen87","id":11658578,"node_id":"MDQ6VXNlcjExNjU4NTc4","avatar_url":"https://avatars0.githubusercontent.com/u/11658578?v=4","gravatar_id":"","url":"https://api.github.com/users/aowen87","html_url":"https://github.com/aowen87","followers_url":"https://api.github.com/users/aowen87/followers","following_url":"https://api.github.com/users/aowen87/following{/other_user}","gists_url":"https://api.github.com/users/aowen87/gists{/gist_id}","starred_url":"https://api.github.com/users/aowen87/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/aowen87/subscriptions","organizations_url":"https://api.github.com/users/aowen87/orgs","repos_url":"https://api.github.com/users/aowen87/repos","events_url":"https://api.github.com/users/aowen87/events{/privacy}","received_events_url":"https://api.github.com/users/aowen87/received_events","type":"User","site_admin":false},"open_issues":1,"closed_issues":0,"state":"closed","created_at":"2018-06-28T04:00:07Z","updated_at":"2018-06-28T06:40:02Z","due_on":null,"closed_at":"2018-06-28T04:00:07Z"},"comments":0,"created_at":"2018-06-28T06:40:02Z","updated_at":"2018-06-28T06:40:02Z","closed_at":null,"author_association":"OWNER","body":"Our automatic file-type guesser based on extension has the PDB reader being tried before ProteinDataBank files, and it segfaults.  This is probably why the ProteinDataBank test is failing.\r\n\r\nFrom the mdserver log file:\r\n\r\nTrying to open the file with the PDB file format, strict mode is on\r\nTesting if file contains PF3D data\r\nTesting if file contains Flash ST data\r\nPP_ZFileReader::Identify()\r\n\t meshDimensionsKnown=false\r\n\t validFile=false\r\nTesting if file contains Flash MT data\r\nPP_ZFileReader::Identify()\r\n\t meshDimensionsKnown=false\r\n\t validFile=false\r\nTesting if file contains LEOS data\r\nTesting if file contains JM data\r\nJMFileFormat::Identify: The file did not contain cycle\r\nJMFileFormat::Identify: false\r\nsignalhandler_core: SIGSEGV!\n\n\n\n-----------------------REDMINE MIGRATION-----------------------\nThis ticket was migrated from Redmine. The following information\ncould not be accurately captured in the new ticket:\n\nOriginal author: Kathleen Biagas\nOriginal creation: 02/14/2013 12:47 pm\nOriginal update: 02/14/2013 01:39 pm\nTicket number: 1337"}}
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