{"action":"created","issue":{"url":"https://api.github.com/repos/morrislab/phylowgs/issues/68","repository_url":"https://api.github.com/repos/morrislab/phylowgs","labels_url":"https://api.github.com/repos/morrislab/phylowgs/issues/68/labels{/name}","comments_url":"https://api.github.com/repos/morrislab/phylowgs/issues/68/comments","events_url":"https://api.github.com/repos/morrislab/phylowgs/issues/68/events","html_url":"https://github.com/morrislab/phylowgs/issues/68","id":252954483,"number":68,"title":"Error in Write_results.py, assertion error","user":{"login":"dtm2117","id":20116103,"avatar_url":"https://avatars1.githubusercontent.com/u/20116103?v=4","gravatar_id":"","url":"https://api.github.com/users/dtm2117","html_url":"https://github.com/dtm2117","followers_url":"https://api.github.com/users/dtm2117/followers","following_url":"https://api.github.com/users/dtm2117/following{/other_user}","gists_url":"https://api.github.com/users/dtm2117/gists{/gist_id}","starred_url":"https://api.github.com/users/dtm2117/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dtm2117/subscriptions","organizations_url":"https://api.github.com/users/dtm2117/orgs","repos_url":"https://api.github.com/users/dtm2117/repos","events_url":"https://api.github.com/users/dtm2117/events{/privacy}","received_events_url":"https://api.github.com/users/dtm2117/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2017-08-25T16:29:05Z","updated_at":"2018-02-06T20:05:59Z","closed_at":null,"author_association":"NONE","body":"Hello,\r\n\r\nI'm recently upgraded to the newest verison of phylowgs from cloning the master branch. I'm receiving this error: \r\n\r\n25 Superclone: {'num_ssms': 97, 'num_cnvs': 8, 'cellular_prevalence': [0.046772500000000002]} actual clone: {'num_ssms': 618, 'num_cnvs': 0, 'cellular_prevalence': [0.0019817099999999998]}\r\n25 New clonal node: {'num_ssms': 715, 'num_cnvs': 8, 'cellular_prevalence': [0.0080582227692307679]}\r\n121 Superclone: {'num_ssms': 129, 'num_cnvs': 8, 'cellular_prevalence': [0.018942199999999999]} actual clone: {'num_ssms': 586, 'num_cnvs': 0, 'cellular_prevalence': [0.0039054599999999999]}\r\n121 New clonal node: {'num_ssms': 715, 'num_cnvs': 8, 'cellular_prevalence': [0.0066183823216783219]}\r\n123 Superclone: {'num_ssms': 47, 'num_cnvs': 7, 'cellular_prevalence': [0.077607400000000007]} actual clone: {'num_ssms': 668, 'num_cnvs': 1, 'cellular_prevalence': [0.022573599999999999]}\r\n123 New clonal node: {'num_ssms': 715, 'num_cnvs': 8, 'cellular_prevalence': [0.026191206433566431]}\r\nTraceback (most recent call last):\r\n  File \"/data1/software/phylowgs-master/write_results.py\", line 41, in <module>\r\n    main()\r\n  File \"/data1/software/phylowgs-master/write_results.py\", line 32, in main\r\n    munger.remove_superclones()\r\n  File \"/data1/software/phylowgs-master/pwgsresults/result_munger.py\", line 29, in remove_superclones\r\n    assert len(structure[root_idx]) > 0\r\nAssertionError\r\n\r\nAny Idea why this is happening? It has worked for other samples perfectly so far. \r\n\r\nBest,\r\nDavid"},"comment":{"url":"https://api.github.com/repos/morrislab/phylowgs/issues/comments/363548404","html_url":"https://github.com/morrislab/phylowgs/issues/68#issuecomment-363548404","issue_url":"https://api.github.com/repos/morrislab/phylowgs/issues/68","id":363548404,"user":{"login":"jwintersinger","id":266021,"avatar_url":"https://avatars0.githubusercontent.com/u/266021?v=4","gravatar_id":"","url":"https://api.github.com/users/jwintersinger","html_url":"https://github.com/jwintersinger","followers_url":"https://api.github.com/users/jwintersinger/followers","following_url":"https://api.github.com/users/jwintersinger/following{/other_user}","gists_url":"https://api.github.com/users/jwintersinger/gists{/gist_id}","starred_url":"https://api.github.com/users/jwintersinger/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jwintersinger/subscriptions","organizations_url":"https://api.github.com/users/jwintersinger/orgs","repos_url":"https://api.github.com/users/jwintersinger/repos","events_url":"https://api.github.com/users/jwintersinger/events{/privacy}","received_events_url":"https://api.github.com/users/jwintersinger/received_events","type":"User","site_admin":false},"created_at":"2018-02-06T20:05:59Z","updated_at":"2018-02-06T20:05:59Z","author_association":"CONTRIBUTOR","body":"Hi David,\r\n\r\nYour cellular prevalences seem extremely low -- should your clonal node actually have only a CP of 0.078?\r\n\r\nCan you send us your data, please? We'll try to replicate the issue on our end.\r\n\r\nThanks!"}}
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