{"action":"closed","issue":{"url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/issues/124","repository_url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook","labels_url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/issues/124/labels{/name}","comments_url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/issues/124/comments","events_url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/issues/124/events","html_url":"https://github.com/galaxyproject/usegalaxy-playbook/issues/124","id":322959222,"node_id":"MDU6SXNzdWUzMjI5NTkyMjI=","number":124,"title":"Update htseq_count to version 0.9.1 on Main to fix a bug - original bug fixed, new one introduced in solution, no updated tool revision (yet)","user":{"login":"jennaj","id":8999735,"node_id":"MDQ6VXNlcjg5OTk3MzU=","avatar_url":"https://avatars0.githubusercontent.com/u/8999735?v=4","gravatar_id":"","url":"https://api.github.com/users/jennaj","html_url":"https://github.com/jennaj","followers_url":"https://api.github.com/users/jennaj/followers","following_url":"https://api.github.com/users/jennaj/following{/other_user}","gists_url":"https://api.github.com/users/jennaj/gists{/gist_id}","starred_url":"https://api.github.com/users/jennaj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jennaj/subscriptions","organizations_url":"https://api.github.com/users/jennaj/orgs","repos_url":"https://api.github.com/users/jennaj/repos","events_url":"https://api.github.com/users/jennaj/events{/privacy}","received_events_url":"https://api.github.com/users/jennaj/received_events","type":"User","site_admin":false},"labels":[{"id":126670747,"node_id":"MDU6TGFiZWwxMjY2NzA3NDc=","url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/labels/bug","name":"bug","color":"fc2929","default":true},{"id":953929444,"node_id":"MDU6TGFiZWw5NTM5Mjk0NDQ=","url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/labels/fixathon%2006/18","name":"fixathon 06/18","color":"bfd4f2","default":false},{"id":884122431,"node_id":"MDU6TGFiZWw4ODQxMjI0MzE=","url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/labels/install%20on%20Main","name":"install on Main","color":"ed68d2","default":false},{"id":936350957,"node_id":"MDU6TGFiZWw5MzYzNTA5NTc=","url":"https://api.github.com/repos/galaxyproject/usegalaxy-playbook/labels/test/retest-fail","name":"test/retest-fail","color":"fbca04","default":false}],"state":"closed","locked":false,"assignee":{"login":"jennaj","id":8999735,"node_id":"MDQ6VXNlcjg5OTk3MzU=","avatar_url":"https://avatars0.githubusercontent.com/u/8999735?v=4","gravatar_id":"","url":"https://api.github.com/users/jennaj","html_url":"https://github.com/jennaj","followers_url":"https://api.github.com/users/jennaj/followers","following_url":"https://api.github.com/users/jennaj/following{/other_user}","gists_url":"https://api.github.com/users/jennaj/gists{/gist_id}","starred_url":"https://api.github.com/users/jennaj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jennaj/subscriptions","organizations_url":"https://api.github.com/users/jennaj/orgs","repos_url":"https://api.github.com/users/jennaj/repos","events_url":"https://api.github.com/users/jennaj/events{/privacy}","received_events_url":"https://api.github.com/users/jennaj/received_events","type":"User","site_admin":false},"assignees":[{"login":"jennaj","id":8999735,"node_id":"MDQ6VXNlcjg5OTk3MzU=","avatar_url":"https://avatars0.githubusercontent.com/u/8999735?v=4","gravatar_id":"","url":"https://api.github.com/users/jennaj","html_url":"https://github.com/jennaj","followers_url":"https://api.github.com/users/jennaj/followers","following_url":"https://api.github.com/users/jennaj/following{/other_user}","gists_url":"https://api.github.com/users/jennaj/gists{/gist_id}","starred_url":"https://api.github.com/users/jennaj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jennaj/subscriptions","organizations_url":"https://api.github.com/users/jennaj/orgs","repos_url":"https://api.github.com/users/jennaj/repos","events_url":"https://api.github.com/users/jennaj/events{/privacy}","received_events_url":"https://api.github.com/users/jennaj/received_events","type":"User","site_admin":false}],"milestone":null,"comments":5,"created_at":"2018-05-14T20:00:06Z","updated_at":"2018-06-06T22:12:09Z","closed_at":"2018-06-06T22:12:09Z","author_association":"MEMBER","body":"Fixes a bug where the tool always produced the BAM output. When it is empty, shows up in the history with a metadata problem (cannot be indexed).\r\n\r\n I noticed the empty BAM from this tool before (and with other tools) but didn't know it could be triggered by this tool option bug with htseq. Empty BAMs are not entirely uncommon and could still be produced by this tool if the user doesn't exclude the BAM output specifically.\r\n\r\nHow to better handle empty BAMs -- globally -- is a different question/solution.\r\n\r\nHTseq Fix: https://github.com/galaxyproject/tools-iuc/pull/1857/files\r\nMTS: https://toolshed.g2.bx.psu.edu/view/lparsons/htseq_count/7f5a8d427b39\r\nGitter: https://gitter.im/galaxyproject/Lobby?at=5af9cbdae1cf621dba1bb3d7\r\n\r\nping @martenson @davebx "}}
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