{"action":"created","issue":{"url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/98","repository_url":"https://api.github.com/repos/BD2KGenomics/toil-scripts","labels_url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/98/labels{/name}","comments_url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/98/comments","events_url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/98/events","html_url":"https://github.com/BD2KGenomics/toil-scripts/pull/98","id":131752442,"number":98,"title":"BWA-HaplotypeCaller Pipeline","user":{"login":"jpfeil","id":12463956,"avatar_url":"https://avatars.githubusercontent.com/u/12463956?v=3","gravatar_id":"","url":"https://api.github.com/users/jpfeil","html_url":"https://github.com/jpfeil","followers_url":"https://api.github.com/users/jpfeil/followers","following_url":"https://api.github.com/users/jpfeil/following{/other_user}","gists_url":"https://api.github.com/users/jpfeil/gists{/gist_id}","starred_url":"https://api.github.com/users/jpfeil/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jpfeil/subscriptions","organizations_url":"https://api.github.com/users/jpfeil/orgs","repos_url":"https://api.github.com/users/jpfeil/repos","events_url":"https://api.github.com/users/jpfeil/events{/privacy}","received_events_url":"https://api.github.com/users/jpfeil/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/labels/in%20progress","name":"in progress","color":"ededed"},{"url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/labels/needs%20work","name":"needs work","color":"e11d21"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2016-02-05T20:52:56Z","updated_at":"2016-02-08T22:37:23Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/pulls/98","html_url":"https://github.com/BD2KGenomics/toil-scripts/pull/98","diff_url":"https://github.com/BD2KGenomics/toil-scripts/pull/98.diff","patch_url":"https://github.com/BD2KGenomics/toil-scripts/pull/98.patch"},"body":"I added a new directory called gatk_pipeline. Now, everything starts from align-and-call which downloads shared reference files and then calls the other modules using a static dag. @heuermh  @fnothaft @almussel @jvivian @hannes-ucsc @benedictpaten    "},"comment":{"url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/comments/181603563","html_url":"https://github.com/BD2KGenomics/toil-scripts/pull/98#issuecomment-181603563","issue_url":"https://api.github.com/repos/BD2KGenomics/toil-scripts/issues/98","id":181603563,"user":{"login":"hannes-ucsc","id":5143256,"avatar_url":"https://avatars.githubusercontent.com/u/5143256?v=3","gravatar_id":"","url":"https://api.github.com/users/hannes-ucsc","html_url":"https://github.com/hannes-ucsc","followers_url":"https://api.github.com/users/hannes-ucsc/followers","following_url":"https://api.github.com/users/hannes-ucsc/following{/other_user}","gists_url":"https://api.github.com/users/hannes-ucsc/gists{/gist_id}","starred_url":"https://api.github.com/users/hannes-ucsc/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/hannes-ucsc/subscriptions","organizations_url":"https://api.github.com/users/hannes-ucsc/orgs","repos_url":"https://api.github.com/users/hannes-ucsc/repos","events_url":"https://api.github.com/users/hannes-ucsc/events{/privacy}","received_events_url":"https://api.github.com/users/hannes-ucsc/received_events","type":"User","site_admin":false},"created_at":"2016-02-08T22:37:23Z","updated_at":"2016-02-08T22:37:23Z","body":"Setting the needs_work label. Feel free to remove it again if you think I'm in error and this is actually ready to go. I do remember asking @jpfeil to submit a PR with unfinished work just so it gets exposed to the team's collective expertise. Remove the label when you think it should be merged."}}