{"action":"created","issue":{"url":"https://api.github.com/repos/galaxyproject/galaxy/issues/3187","repository_url":"https://api.github.com/repos/galaxyproject/galaxy","labels_url":"https://api.github.com/repos/galaxyproject/galaxy/issues/3187/labels{/name}","comments_url":"https://api.github.com/repos/galaxyproject/galaxy/issues/3187/comments","events_url":"https://api.github.com/repos/galaxyproject/galaxy/issues/3187/events","html_url":"https://github.com/galaxyproject/galaxy/pull/3187","id":189846158,"number":3187,"title":"Make sam to bam converter tool compatible with samtools >= 1.3","user":{"login":"mvdbeek","id":6804901,"avatar_url":"https://avatars.githubusercontent.com/u/6804901?v=3","gravatar_id":"","url":"https://api.github.com/users/mvdbeek","html_url":"https://github.com/mvdbeek","followers_url":"https://api.github.com/users/mvdbeek/followers","following_url":"https://api.github.com/users/mvdbeek/following{/other_user}","gists_url":"https://api.github.com/users/mvdbeek/gists{/gist_id}","starred_url":"https://api.github.com/users/mvdbeek/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mvdbeek/subscriptions","organizations_url":"https://api.github.com/users/mvdbeek/orgs","repos_url":"https://api.github.com/users/mvdbeek/repos","events_url":"https://api.github.com/users/mvdbeek/events{/privacy}","received_events_url":"https://api.github.com/users/mvdbeek/received_events","type":"User","site_admin":false},"labels":[{"id":282144995,"url":"https://api.github.com/repos/galaxyproject/galaxy/labels/area/tools","name":"area/tools","color":"006b75","default":false},{"id":180024669,"url":"https://api.github.com/repos/galaxyproject/galaxy/labels/kind/bug","name":"kind/bug","color":"84b6eb","default":false},{"id":276566862,"url":"https://api.github.com/repos/galaxyproject/galaxy/labels/status/review","name":"status/review","color":"fbca04","default":false}],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":{"url":"https://api.github.com/repos/galaxyproject/galaxy/milestones/5","html_url":"https://github.com/galaxyproject/galaxy/milestones/16.10","labels_url":"https://api.github.com/repos/galaxyproject/galaxy/milestones/5/labels","id":1777285,"number":5,"title":"16.10","description":"Tentative freeze date for Galaxy 16.10 release","creator":{"login":"martenson","id":1814954,"avatar_url":"https://avatars.githubusercontent.com/u/1814954?v=3","gravatar_id":"","url":"https://api.github.com/users/martenson","html_url":"https://github.com/martenson","followers_url":"https://api.github.com/users/martenson/followers","following_url":"https://api.github.com/users/martenson/following{/other_user}","gists_url":"https://api.github.com/users/martenson/gists{/gist_id}","starred_url":"https://api.github.com/users/martenson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/martenson/subscriptions","organizations_url":"https://api.github.com/users/martenson/orgs","repos_url":"https://api.github.com/users/martenson/repos","events_url":"https://api.github.com/users/martenson/events{/privacy}","received_events_url":"https://api.github.com/users/martenson/received_events","type":"User","site_admin":false},"open_issues":4,"closed_issues":257,"state":"open","created_at":"2016-05-19T18:04:36Z","updated_at":"2016-11-16T21:36:42Z","due_on":"2016-10-10T04:00:00Z","closed_at":null},"comments":1,"created_at":"2016-11-16T21:11:13Z","updated_at":"2016-11-16T22:05:44Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/galaxyproject/galaxy/pulls/3187","html_url":"https://github.com/galaxyproject/galaxy/pull/3187","diff_url":"https://github.com/galaxyproject/galaxy/pull/3187.diff","patch_url":"https://github.com/galaxyproject/galaxy/pull/3187.patch"},"body":"I have taken over the commits from #3026 (many thanks @ieguinoa) and made sure this work with samtools 0.1.19, 1.0.0 and 1.3 and fails with a nice error message if samtools is not installed.\r\nThe issue here is that the legacy samtools syntax was supported up to samtools 1.2, but 1.3 eliminates this.\r\n\r\nI have also added a test-tool that triggers the implicit conversion. (Tests will only work interactively with planemo serve)."},"comment":{"url":"https://api.github.com/repos/galaxyproject/galaxy/issues/comments/261087380","html_url":"https://github.com/galaxyproject/galaxy/pull/3187#issuecomment-261087380","issue_url":"https://api.github.com/repos/galaxyproject/galaxy/issues/3187","id":261087380,"user":{"login":"dannon","id":155398,"avatar_url":"https://avatars.githubusercontent.com/u/155398?v=3","gravatar_id":"","url":"https://api.github.com/users/dannon","html_url":"https://github.com/dannon","followers_url":"https://api.github.com/users/dannon/followers","following_url":"https://api.github.com/users/dannon/following{/other_user}","gists_url":"https://api.github.com/users/dannon/gists{/gist_id}","starred_url":"https://api.github.com/users/dannon/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dannon/subscriptions","organizations_url":"https://api.github.com/users/dannon/orgs","repos_url":"https://api.github.com/users/dannon/repos","events_url":"https://api.github.com/users/dannon/events{/privacy}","received_events_url":"https://api.github.com/users/dannon/received_events","type":"User","site_admin":false},"created_at":"2016-11-16T22:05:44Z","updated_at":"2016-11-16T22:05:44Z","body":"+1, I'll merge this once travis finishes, and am branching 16.10 at that point."}}
{"actor":{"display_login":"dannon"}}