{"action":"created","issue":{"url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/1","labels_url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/1/comments","events_url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/1/events","html_url":"https://github.com/ucscCancer/varscan-tool/pull/1","id":102817044,"number":1,"title":"Wrap VarScan","user":{"login":"ernfrid","id":397990,"avatar_url":"https://avatars.githubusercontent.com/u/397990?v=3","gravatar_id":"","url":"https://api.github.com/users/ernfrid","html_url":"https://github.com/ernfrid","followers_url":"https://api.github.com/users/ernfrid/followers","following_url":"https://api.github.com/users/ernfrid/following{/other_user}","gists_url":"https://api.github.com/users/ernfrid/gists{/gist_id}","starred_url":"https://api.github.com/users/ernfrid/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ernfrid/subscriptions","organizations_url":"https://api.github.com/users/ernfrid/orgs","repos_url":"https://api.github.com/users/ernfrid/repos","events_url":"https://api.github.com/users/ernfrid/events{/privacy}","received_events_url":"https://api.github.com/users/ernfrid/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":9,"created_at":"2015-08-24T15:16:27Z","updated_at":"2015-09-02T21:28:59Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/ucscCancer/varscan-tool/pulls/1","html_url":"https://github.com/ucscCancer/varscan-tool/pull/1","diff_url":"https://github.com/ucscCancer/varscan-tool/pull/1.diff","patch_url":"https://github.com/ucscCancer/varscan-tool/pull/1.patch"},"body":"This is an attempt to fix TCGA validation errors by running VarScan through a wrapper. I also attempted to update the XML file. Please let me know if you run into any problems or notice any part of this that looks problematic or incorrect. I have tested on chr21 for a test BAM."},"comment":{"url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/comments/137249891","html_url":"https://github.com/ucscCancer/varscan-tool/pull/1#issuecomment-137249891","issue_url":"https://api.github.com/repos/ucscCancer/varscan-tool/issues/1","id":137249891,"user":{"login":"ernfrid","id":397990,"avatar_url":"https://avatars.githubusercontent.com/u/397990?v=3","gravatar_id":"","url":"https://api.github.com/users/ernfrid","html_url":"https://github.com/ernfrid","followers_url":"https://api.github.com/users/ernfrid/followers","following_url":"https://api.github.com/users/ernfrid/following{/other_user}","gists_url":"https://api.github.com/users/ernfrid/gists{/gist_id}","starred_url":"https://api.github.com/users/ernfrid/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ernfrid/subscriptions","organizations_url":"https://api.github.com/users/ernfrid/orgs","repos_url":"https://api.github.com/users/ernfrid/repos","events_url":"https://api.github.com/users/ernfrid/events{/privacy}","received_events_url":"https://api.github.com/users/ernfrid/received_events","type":"User","site_admin":false},"created_at":"2015-09-02T21:28:59Z","updated_at":"2015-09-02T21:28:59Z","body":"My internal test is working fine with 2.4.0 in terms of the SNP file. I'm launching a larger test and I'll see if I can replicate."}}