{"action":"created","issue":{"url":"https://api.github.com/repos/bioconda/recipes/issues/200","labels_url":"https://api.github.com/repos/bioconda/recipes/issues/200/labels{/name}","comments_url":"https://api.github.com/repos/bioconda/recipes/issues/200/comments","events_url":"https://api.github.com/repos/bioconda/recipes/issues/200/events","html_url":"https://github.com/bioconda/recipes/issues/200","id":114859555,"number":200,"title":"Avoiding using Java as a run dependency","user":{"login":"chapmanb","id":39391,"avatar_url":"https://avatars.githubusercontent.com/u/39391?v=3","gravatar_id":"","url":"https://api.github.com/users/chapmanb","html_url":"https://github.com/chapmanb","followers_url":"https://api.github.com/users/chapmanb/followers","following_url":"https://api.github.com/users/chapmanb/following{/other_user}","gists_url":"https://api.github.com/users/chapmanb/gists{/gist_id}","starred_url":"https://api.github.com/users/chapmanb/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/chapmanb/subscriptions","organizations_url":"https://api.github.com/users/chapmanb/orgs","repos_url":"https://api.github.com/users/chapmanb/repos","events_url":"https://api.github.com/users/chapmanb/events{/privacy}","received_events_url":"https://api.github.com/users/chapmanb/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":9,"created_at":"2015-11-03T16:51:00Z","updated_at":"2015-11-13T10:55:04Z","closed_at":"2015-11-13T10:55:04Z","body":"The snpEff recipe @tomkinsc created is great, and I'd love to include it in our installations but I'm a bit worried about the Java dependency. It's pretty heavy-weight and also introduces Java 8 into the environment which can create issues with tools like GATK that only support older Java versions.\r\n\r\nCould we leave Java as something that we assume exists in the base system (or allow users to manually install it via conda)? What does everyone think?"},"comment":{"url":"https://api.github.com/repos/bioconda/recipes/issues/comments/156396234","html_url":"https://github.com/bioconda/recipes/issues/200#issuecomment-156396234","issue_url":"https://api.github.com/repos/bioconda/recipes/issues/200","id":156396234,"user":{"login":"chapmanb","id":39391,"avatar_url":"https://avatars.githubusercontent.com/u/39391?v=3","gravatar_id":"","url":"https://api.github.com/users/chapmanb","html_url":"https://github.com/chapmanb","followers_url":"https://api.github.com/users/chapmanb/followers","following_url":"https://api.github.com/users/chapmanb/following{/other_user}","gists_url":"https://api.github.com/users/chapmanb/gists{/gist_id}","starred_url":"https://api.github.com/users/chapmanb/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/chapmanb/subscriptions","organizations_url":"https://api.github.com/users/chapmanb/orgs","repos_url":"https://api.github.com/users/chapmanb/repos","events_url":"https://api.github.com/users/chapmanb/events{/privacy}","received_events_url":"https://api.github.com/users/chapmanb/received_events","type":"User","site_admin":false},"created_at":"2015-11-13T10:55:04Z","updated_at":"2015-11-13T10:55:04Z","body":"Thanks for all the thoughts. I added the GATK framework package without an explicit java dependency for now and we can clean this up with regards to multiple versions once that is all in place. Thanks again for the discussion."}}