{"action":"created","issue":{"url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/24","repository_url":"https://api.github.com/repos/OpenTreeOfLife/propinquity","labels_url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/24/labels{/name}","comments_url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/24/comments","events_url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/24/events","html_url":"https://github.com/OpenTreeOfLife/propinquity/issues/24","id":162220906,"number":24,"title":"id repeated as a tip in subproblems ","user":{"login":"mtholder","id":136067,"avatar_url":"https://avatars.githubusercontent.com/u/136067?v=3","gravatar_id":"","url":"https://api.github.com/users/mtholder","html_url":"https://github.com/mtholder","followers_url":"https://api.github.com/users/mtholder/followers","following_url":"https://api.github.com/users/mtholder/following{/other_user}","gists_url":"https://api.github.com/users/mtholder/gists{/gist_id}","starred_url":"https://api.github.com/users/mtholder/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mtholder/subscriptions","organizations_url":"https://api.github.com/users/mtholder/orgs","repos_url":"https://api.github.com/users/mtholder/repos","events_url":"https://api.github.com/users/mtholder/events{/privacy}","received_events_url":"https://api.github.com/users/mtholder/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":3,"created_at":"2016-06-24T20:03:42Z","updated_at":"2016-06-27T15:42:34Z","closed_at":null,"body":"I think that this is a bug in the makefile.\r\n@kcranston is seeing a \r\n\r\n    terminate called after throwing an instance of 'otc::OTCError'\r\n    what():  OTT Id 896444 occurs at multiple tips!\r\n\r\nmessage from the  `otc-graft-solutions` step. grepping for the ID yields:\r\n\r\n    $ grep -ri 896444 subproblem_solutions\r\n    subproblem_solutions/ott401858.tre:((((ott458064,ott458073),ott896448),ott1085187),(((((((((((((ott1034611,ott3112175),ott1034618),(ott984234,ott1024619)),(ott358146,ott866243)),ott984231),(ott358148,ott984238)),((((ott145708,ott984232),ott145706),(ott984236,ott984241)),ott896444)),(((ott407989,ott984240),ott3112140),ott407988)),(((ott372033,ott1034613),ott5788860),ott145710)),ott5788861),(((((((((ott407976,ott408705),ott407977),ott62066),(ott1034608,ott1034617)),ott407987),ott259140),(ott259142,ott300602)),ott407983),((((((ott366825,ott759359),ott1034610),ott759356),ott866241),ott372038),((ott984230,ott1034615),ott1079994)))),ott1034614),(ott81494,ott1085184)))ott401858;\r\n    subproblem_solutions/ott896444.tre:((ott39468,ott372028),ott933277)ott896444;\r\n    subproblem_solutions/ott81506.tre:(ott896444,ott1034608)ott81506;\r\n    subproblem_solutions/paths.txt:./subproblem_solutions/ott896444.tre\r\n    subproblem_solutions/solution-ids.txt:ott896444.tre\r\n\r\nBut `ott401858` is not a leaf in any subproblem. I think that it is probably cruft from a previous run. But it should not be listed in `subproblem_solutions/solution-ids.txt` So the bug is probably in the creation of that file.\r\n\r\n\r\n**markdown fixed.\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/comments/228785191","html_url":"https://github.com/OpenTreeOfLife/propinquity/issues/24#issuecomment-228785191","issue_url":"https://api.github.com/repos/OpenTreeOfLife/propinquity/issues/24","id":228785191,"user":{"login":"bredelings","id":140268,"avatar_url":"https://avatars.githubusercontent.com/u/140268?v=3","gravatar_id":"","url":"https://api.github.com/users/bredelings","html_url":"https://github.com/bredelings","followers_url":"https://api.github.com/users/bredelings/followers","following_url":"https://api.github.com/users/bredelings/following{/other_user}","gists_url":"https://api.github.com/users/bredelings/gists{/gist_id}","starred_url":"https://api.github.com/users/bredelings/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bredelings/subscriptions","organizations_url":"https://api.github.com/users/bredelings/orgs","repos_url":"https://api.github.com/users/bredelings/repos","events_url":"https://api.github.com/users/bredelings/events{/privacy}","received_events_url":"https://api.github.com/users/bredelings/received_events","type":"User","site_admin":false},"created_at":"2016-06-27T15:42:34Z","updated_at":"2016-06-27T15:42:34Z","body":"I added some corresponding propinquity changes and tested the fix.  It \nseems to fix the problem, so I merged the otcetera branch.\n\nAs a side effect, the subproblem ids are no longer sorted.  This could \nbe fixed separately.\n\n-BenRI\n\n\nOn 06/24/2016 04:31 PM, Mark T. Holder wrote:\n>\n> I see where to fix this in otcetera. Simple fix, but I won't get to it \n> for a bit...\n>\n> —\n> You are receiving this because you are subscribed to this thread.\n> Reply to this email directly, view it on GitHub \n> <https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_OpenTreeOfLife_propinquity_issues_24-23issuecomment-2D228454623&d=CwMCaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=yDQgdhRIVlGWlo1dehDX4FDHdLhgFHI_XNBo6vRcIuw&m=1pidXs_2XSttZuDmQ33e8mHq36B4MTMo3NrTKZYOLB8&s=qYZUfglB8HsVZfYFaLnM0WEriTojUHW5iW-FPCm__yU&e=>, \n> or mute the thread \n> <https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_notifications_unsubscribe_AAIj7LrIjmOjkh5RxJuBHTT2JRNrPul3ks5qPD6sgaJpZM4I-2DFRw&d=CwMCaQ&c=imBPVzF25OnBgGmVOlcsiEgHoG1i6YHLR0Sj_gZ4adc&r=yDQgdhRIVlGWlo1dehDX4FDHdLhgFHI_XNBo6vRcIuw&m=1pidXs_2XSttZuDmQ33e8mHq36B4MTMo3NrTKZYOLB8&s=nRIwb7V3aH8RxtMuK48LPyW6BZwsRGdqQYn3T4Mk7Gs&e=>.\n>\n\n"}}
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