{"action":"created","issue":{"url":"https://api.github.com/repos/hammerlab/cohorts/issues/165","repository_url":"https://api.github.com/repos/hammerlab/cohorts","labels_url":"https://api.github.com/repos/hammerlab/cohorts/issues/165/labels{/name}","comments_url":"https://api.github.com/repos/hammerlab/cohorts/issues/165/comments","events_url":"https://api.github.com/repos/hammerlab/cohorts/issues/165/events","html_url":"https://github.com/hammerlab/cohorts/pull/165","id":196171325,"number":165,"title":"Add more granular variant specification and other minor changes","user":{"login":"tavinathanson","id":322932,"avatar_url":"https://avatars.githubusercontent.com/u/322932?v=3","gravatar_id":"","url":"https://api.github.com/users/tavinathanson","html_url":"https://github.com/tavinathanson","followers_url":"https://api.github.com/users/tavinathanson/followers","following_url":"https://api.github.com/users/tavinathanson/following{/other_user}","gists_url":"https://api.github.com/users/tavinathanson/gists{/gist_id}","starred_url":"https://api.github.com/users/tavinathanson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tavinathanson/subscriptions","organizations_url":"https://api.github.com/users/tavinathanson/orgs","repos_url":"https://api.github.com/users/tavinathanson/repos","events_url":"https://api.github.com/users/tavinathanson/events{/privacy}","received_events_url":"https://api.github.com/users/tavinathanson/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":{"login":"jburos","id":923453,"avatar_url":"https://avatars.githubusercontent.com/u/923453?v=3","gravatar_id":"","url":"https://api.github.com/users/jburos","html_url":"https://github.com/jburos","followers_url":"https://api.github.com/users/jburos/followers","following_url":"https://api.github.com/users/jburos/following{/other_user}","gists_url":"https://api.github.com/users/jburos/gists{/gist_id}","starred_url":"https://api.github.com/users/jburos/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jburos/subscriptions","organizations_url":"https://api.github.com/users/jburos/orgs","repos_url":"https://api.github.com/users/jburos/repos","events_url":"https://api.github.com/users/jburos/events{/privacy}","received_events_url":"https://api.github.com/users/jburos/received_events","type":"User","site_admin":false},"assignees":[{"login":"jburos","id":923453,"avatar_url":"https://avatars.githubusercontent.com/u/923453?v=3","gravatar_id":"","url":"https://api.github.com/users/jburos","html_url":"https://github.com/jburos","followers_url":"https://api.github.com/users/jburos/followers","following_url":"https://api.github.com/users/jburos/following{/other_user}","gists_url":"https://api.github.com/users/jburos/gists{/gist_id}","starred_url":"https://api.github.com/users/jburos/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jburos/subscriptions","organizations_url":"https://api.github.com/users/jburos/orgs","repos_url":"https://api.github.com/users/jburos/repos","events_url":"https://api.github.com/users/jburos/events{/privacy}","received_events_url":"https://api.github.com/users/jburos/received_events","type":"User","site_admin":false}],"milestone":null,"comments":7,"created_at":"2016-12-16T22:48:22Z","updated_at":"2016-12-17T19:47:34Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/hammerlab/cohorts/pulls/165","html_url":"https://github.com/hammerlab/cohorts/pull/165","diff_url":"https://github.com/hammerlab/cohorts/pull/165.diff","patch_url":"https://github.com/hammerlab/cohorts/pull/165.patch"},"body":"Added a few things to support some of my melanoma and lung work.\r\n\r\nIn this PR:\r\n\r\n* Biggest change is removing `snv_vcf_paths` and `indel_vcf_paths` and replacing with a dictionary from `snv` to a list of VCF paths or MAF paths or `VariantCollection`s.\r\n* Allow `filter`ing of a `Cohort`.\r\n* Allow users to grab *all* effects, not just top priority ones.\r\n* Add a `.genome` property.\r\n\r\nSince removing `snv_vcf_paths` will break things, I'd be bumping the release up to `0.5.0`. Also need to do more manual/automated testing to confirm no issues."},"comment":{"url":"https://api.github.com/repos/hammerlab/cohorts/issues/comments/267782958","html_url":"https://github.com/hammerlab/cohorts/pull/165#issuecomment-267782958","issue_url":"https://api.github.com/repos/hammerlab/cohorts/issues/165","id":267782958,"user":{"login":"jburos","id":923453,"avatar_url":"https://avatars.githubusercontent.com/u/923453?v=3","gravatar_id":"","url":"https://api.github.com/users/jburos","html_url":"https://github.com/jburos","followers_url":"https://api.github.com/users/jburos/followers","following_url":"https://api.github.com/users/jburos/following{/other_user}","gists_url":"https://api.github.com/users/jburos/gists{/gist_id}","starred_url":"https://api.github.com/users/jburos/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jburos/subscriptions","organizations_url":"https://api.github.com/users/jburos/orgs","repos_url":"https://api.github.com/users/jburos/repos","events_url":"https://api.github.com/users/jburos/events{/privacy}","received_events_url":"https://api.github.com/users/jburos/received_events","type":"User","site_admin":false},"created_at":"2016-12-17T19:47:34Z","updated_at":"2016-12-17T19:47:34Z","body":"LGTM - thanks Tavi! Really like the out-of-date cache check."}}
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