{"action":"created","issue":{"url":"https://api.github.com/repos/bcgsc/orca/issues/57","repository_url":"https://api.github.com/repos/bcgsc/orca","labels_url":"https://api.github.com/repos/bcgsc/orca/issues/57/labels{/name}","comments_url":"https://api.github.com/repos/bcgsc/orca/issues/57/comments","events_url":"https://api.github.com/repos/bcgsc/orca/issues/57/events","html_url":"https://github.com/bcgsc/orca/issues/57","id":338759099,"node_id":"MDU6SXNzdWUzMzg3NTkwOTk=","number":57,"title":"Singularity build ","user":{"login":"suujia","id":22860428,"node_id":"MDQ6VXNlcjIyODYwNDI4","avatar_url":"https://avatars1.githubusercontent.com/u/22860428?v=4","gravatar_id":"","url":"https://api.github.com/users/suujia","html_url":"https://github.com/suujia","followers_url":"https://api.github.com/users/suujia/followers","following_url":"https://api.github.com/users/suujia/following{/other_user}","gists_url":"https://api.github.com/users/suujia/gists{/gist_id}","starred_url":"https://api.github.com/users/suujia/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/suujia/subscriptions","organizations_url":"https://api.github.com/users/suujia/orgs","repos_url":"https://api.github.com/users/suujia/repos","events_url":"https://api.github.com/users/suujia/events{/privacy}","received_events_url":"https://api.github.com/users/suujia/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":{"login":"suujia","id":22860428,"node_id":"MDQ6VXNlcjIyODYwNDI4","avatar_url":"https://avatars1.githubusercontent.com/u/22860428?v=4","gravatar_id":"","url":"https://api.github.com/users/suujia","html_url":"https://github.com/suujia","followers_url":"https://api.github.com/users/suujia/followers","following_url":"https://api.github.com/users/suujia/following{/other_user}","gists_url":"https://api.github.com/users/suujia/gists{/gist_id}","starred_url":"https://api.github.com/users/suujia/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/suujia/subscriptions","organizations_url":"https://api.github.com/users/suujia/orgs","repos_url":"https://api.github.com/users/suujia/repos","events_url":"https://api.github.com/users/suujia/events{/privacy}","received_events_url":"https://api.github.com/users/suujia/received_events","type":"User","site_admin":false},"assignees":[{"login":"suujia","id":22860428,"node_id":"MDQ6VXNlcjIyODYwNDI4","avatar_url":"https://avatars1.githubusercontent.com/u/22860428?v=4","gravatar_id":"","url":"https://api.github.com/users/suujia","html_url":"https://github.com/suujia","followers_url":"https://api.github.com/users/suujia/followers","following_url":"https://api.github.com/users/suujia/following{/other_user}","gists_url":"https://api.github.com/users/suujia/gists{/gist_id}","starred_url":"https://api.github.com/users/suujia/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/suujia/subscriptions","organizations_url":"https://api.github.com/users/suujia/orgs","repos_url":"https://api.github.com/users/suujia/repos","events_url":"https://api.github.com/users/suujia/events{/privacy}","received_events_url":"https://api.github.com/users/suujia/received_events","type":"User","site_admin":false}],"milestone":null,"comments":6,"created_at":"2018-07-05T23:37:46Z","updated_at":"2018-07-11T23:32:09Z","closed_at":null,"author_association":"CONTRIBUTOR","body":"[shub:bcgsc/orca](https://www.singularity-hub.org/containers/1167/log)\r\n[shub:suujia/orca](https://www.singularity-hub.org/containers/3402/log)\r\n\r\nNot sure how to trigger a rebuild for the bcgsc/orca shub. The error message I got with a build on suujia/orca shub was: \r\n```\r\n+ su -c brew install perl -v linuxbrew\r\nError: /home/linuxbrew/.linuxbrew/Homebrew is not writable. You should change the\r\nownership and permissions of /home/linuxbrew/.linuxbrew/Homebrew back to your\r\nuser account:\r\nsudo chown -R $(whoami) /home/linuxbrew/.linuxbrew/Homebrew\r\nError: Cannot write to /home/linuxbrew/.linuxbrew\r\nABORT: Aborting with RETVAL=255\r\n```\r\n\r\nI think I'll start with getting it to build locally first and updating singularity file to align with orca dockerfile. "},"comment":{"url":"https://api.github.com/repos/bcgsc/orca/issues/comments/404342347","html_url":"https://github.com/bcgsc/orca/issues/57#issuecomment-404342347","issue_url":"https://api.github.com/repos/bcgsc/orca/issues/57","id":404342347,"node_id":"MDEyOklzc3VlQ29tbWVudDQwNDM0MjM0Nw==","user":{"login":"sjackman","id":291551,"node_id":"MDQ6VXNlcjI5MTU1MQ==","avatar_url":"https://avatars3.githubusercontent.com/u/291551?v=4","gravatar_id":"","url":"https://api.github.com/users/sjackman","html_url":"https://github.com/sjackman","followers_url":"https://api.github.com/users/sjackman/followers","following_url":"https://api.github.com/users/sjackman/following{/other_user}","gists_url":"https://api.github.com/users/sjackman/gists{/gist_id}","starred_url":"https://api.github.com/users/sjackman/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sjackman/subscriptions","organizations_url":"https://api.github.com/users/sjackman/orgs","repos_url":"https://api.github.com/users/sjackman/repos","events_url":"https://api.github.com/users/sjackman/events{/privacy}","received_events_url":"https://api.github.com/users/sjackman/received_events","type":"User","site_admin":false},"created_at":"2018-07-11T23:32:09Z","updated_at":"2018-07-11T23:32:09Z","author_association":"MEMBER","body":"> Brew can't be run as sudo (due to error above) which is why it's ran as linuxbrew user:\r\n\r\nAh, got it. Can the whole script be run as the Linuxbrew user rather than `root`? Or separate it into two parts, the `root` part and then then `linuxbrew` part, and switch users between those two parts. See here for an example in a Dockerfile. I'm not sure how this works in Singularity.\r\n\r\nhttps://github.com/Linuxbrew/brew/blob/master/Dockerfile#L18"}}
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