{"action":"created","issue":{"url":"https://api.github.com/repos/intermine/intermine/issues/1015","labels_url":"https://api.github.com/repos/intermine/intermine/issues/1015/labels{/name}","comments_url":"https://api.github.com/repos/intermine/intermine/issues/1015/comments","events_url":"https://api.github.com/repos/intermine/intermine/issues/1015/events","html_url":"https://github.com/intermine/intermine/issues/1015","id":78439625,"number":1015,"title":"Panther and Homologene - Mouse genes are not being merged correctly","user":{"login":"julie-sullivan","id":1663057,"avatar_url":"https://avatars.githubusercontent.com/u/1663057?v=3","gravatar_id":"","url":"https://api.github.com/users/julie-sullivan","html_url":"https://github.com/julie-sullivan","followers_url":"https://api.github.com/users/julie-sullivan/followers","following_url":"https://api.github.com/users/julie-sullivan/following{/other_user}","gists_url":"https://api.github.com/users/julie-sullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/julie-sullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/julie-sullivan/subscriptions","organizations_url":"https://api.github.com/users/julie-sullivan/orgs","repos_url":"https://api.github.com/users/julie-sullivan/repos","events_url":"https://api.github.com/users/julie-sullivan/events{/privacy}","received_events_url":"https://api.github.com/users/julie-sullivan/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/intermine/intermine/labels/bug","name":"bug","color":"fc2929"}],"state":"open","locked":false,"assignee":{"login":"julie-sullivan","id":1663057,"avatar_url":"https://avatars.githubusercontent.com/u/1663057?v=3","gravatar_id":"","url":"https://api.github.com/users/julie-sullivan","html_url":"https://github.com/julie-sullivan","followers_url":"https://api.github.com/users/julie-sullivan/followers","following_url":"https://api.github.com/users/julie-sullivan/following{/other_user}","gists_url":"https://api.github.com/users/julie-sullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/julie-sullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/julie-sullivan/subscriptions","organizations_url":"https://api.github.com/users/julie-sullivan/orgs","repos_url":"https://api.github.com/users/julie-sullivan/repos","events_url":"https://api.github.com/users/julie-sullivan/events{/privacy}","received_events_url":"https://api.github.com/users/julie-sullivan/received_events","type":"User","site_admin":false},"milestone":{"url":"https://api.github.com/repos/intermine/intermine/milestones/18","html_url":"https://github.com/intermine/intermine/milestones/InterMine%201.5.4","labels_url":"https://api.github.com/repos/intermine/intermine/milestones/18/labels","id":1142466,"number":18,"title":"InterMine 1.5.4","description":"Fixes for ESHG conference","creator":{"login":"julie-sullivan","id":1663057,"avatar_url":"https://avatars.githubusercontent.com/u/1663057?v=3","gravatar_id":"","url":"https://api.github.com/users/julie-sullivan","html_url":"https://github.com/julie-sullivan","followers_url":"https://api.github.com/users/julie-sullivan/followers","following_url":"https://api.github.com/users/julie-sullivan/following{/other_user}","gists_url":"https://api.github.com/users/julie-sullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/julie-sullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/julie-sullivan/subscriptions","organizations_url":"https://api.github.com/users/julie-sullivan/orgs","repos_url":"https://api.github.com/users/julie-sullivan/repos","events_url":"https://api.github.com/users/julie-sullivan/events{/privacy}","received_events_url":"https://api.github.com/users/julie-sullivan/received_events","type":"User","site_admin":false},"open_issues":4,"closed_issues":2,"state":"open","created_at":"2015-06-01T08:35:27Z","updated_at":"2015-06-01T09:33:02Z","due_on":"2015-06-03T23:00:00Z","closed_at":null},"comments":6,"created_at":"2015-05-20T09:01:22Z","updated_at":"2015-06-02T11:02:09Z","closed_at":null,"body":"@JoelRichardson @motenko\r\n\r\nMigrating from 1.3 to 1.5, mouse genes are not being merged correctly in these two sources.\r\n\r\nThis is a prime suspect: \r\nhttps://github.com/intermine/intermine/pull/850\r\n\r\nThe NCBI changed their identifier pattern to be \"MGI:MGI:\", so I added a bit to the ID resolver to chop off the first \"MGI:\". According to @motenko this is not working as expected."},"comment":{"url":"https://api.github.com/repos/intermine/intermine/issues/comments/107916282","html_url":"https://github.com/intermine/intermine/issues/1015#issuecomment-107916282","issue_url":"https://api.github.com/repos/intermine/intermine/issues/1015","id":107916282,"user":{"login":"julie-sullivan","id":1663057,"avatar_url":"https://avatars.githubusercontent.com/u/1663057?v=3","gravatar_id":"","url":"https://api.github.com/users/julie-sullivan","html_url":"https://github.com/julie-sullivan","followers_url":"https://api.github.com/users/julie-sullivan/followers","following_url":"https://api.github.com/users/julie-sullivan/following{/other_user}","gists_url":"https://api.github.com/users/julie-sullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/julie-sullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/julie-sullivan/subscriptions","organizations_url":"https://api.github.com/users/julie-sullivan/orgs","repos_url":"https://api.github.com/users/julie-sullivan/repos","events_url":"https://api.github.com/users/julie-sullivan/events{/privacy}","received_events_url":"https://api.github.com/users/julie-sullivan/received_events","type":"User","site_admin":false},"created_at":"2015-06-02T11:02:09Z","updated_at":"2015-06-02T11:02:09Z","body":"No, the 1.5 tagged code worked for me too. I can't seem to replicate your results and I don't know why. Can you clarify which sources you used?\r\n\r\nI checked my entrez file (the one used for resolving) and it's also dated 2015-04-23 and does have the wonky \"MGI:MGI:\" prefix:\r\n\r\n```\r\n10090   171504  Apobr   -       Apob-48r|Apob48r        MGI:MGI:2176230|Ensembl:ENSMUSG00000042759|Vega:OTTMUSG00000029445      7       7|7 F3  apolipoprotein B receptor       protein-coding  Apobr   apolipoprotein B receptor       O\r\n       apolipoprotein B-100 receptor|apolipoprotein B-48 receptor|apolipoprotein B48 receptor  20150317\r\n```\r\n\r\nSo what are you doing differently to me?\r\n\r\nI see you are using the target `clean` when running `build-db` - this is good. The idresolver caches its data file in `dbmodel/build`, and the `ant clean` gets rid of this file which is essential for our tests. You should also be doing a `clean-all` when switching between branches as you want to remove all the compiled code but you are also probably doing that already.\r\n\r\nAnyway, so if you could clarify your steps and which source is causing the problem under which conditions that would help. Because right now I can't replicate your error using Panther or Homologene using InterMine 1.5 code and the same (?) data files."}}