{"action":"created","issue":{"url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/1","repository_url":"https://api.github.com/repos/PacificBiosciences/stsPlots","labels_url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/1/comments","events_url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/1/events","html_url":"https://github.com/PacificBiosciences/stsPlots/issues/1","id":141321215,"number":1,"title":"Error when running > runStsPlot","user":{"login":"el42008","id":16650584,"avatar_url":"https://avatars.githubusercontent.com/u/16650584?v=3","gravatar_id":"","url":"https://api.github.com/users/el42008","html_url":"https://github.com/el42008","followers_url":"https://api.github.com/users/el42008/followers","following_url":"https://api.github.com/users/el42008/following{/other_user}","gists_url":"https://api.github.com/users/el42008/gists{/gist_id}","starred_url":"https://api.github.com/users/el42008/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/el42008/subscriptions","organizations_url":"https://api.github.com/users/el42008/orgs","repos_url":"https://api.github.com/users/el42008/repos","events_url":"https://api.github.com/users/el42008/events{/privacy}","received_events_url":"https://api.github.com/users/el42008/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":0,"created_at":"2016-03-16T16:08:37Z","updated_at":"2016-03-16T16:57:53Z","closed_at":null,"body":"Hi, I am trying the script in a single csv file). the plots seem to be generated and also the pdf files, but I can not open it. It says is corrupted\r\n> runStsPlots(c(\"-folder\",\"/home/el42208/PacBio_assembly/StsPlots/\"))\r\n[1] \"prueba_p0.sts.csv\"\r\n[1] \"prueba_p0.sts.csv\"\r\n[1] \"plot 1 done\"\r\n[1] \"plot 2 done\"\r\n[1] \"plot 3 done\"\r\n[1] \"plot 4 done\"\r\n`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.\r\n[1] \"plot 5 done\"\r\n`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.\r\n[1] \"plot 6 done\"\r\n[1] \"plot 7 done\"\r\n`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.\r\n[1] \"plot 8 done\"\r\nError: Unknown parameters: theme\r\n \r\nI do not understand the error because ggplot2 should use theme now instead of opts so I do not know where the problem is.\r\n\r\nThank you in advance for your help\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/comments/197423559","html_url":"https://github.com/PacificBiosciences/stsPlots/issues/1#issuecomment-197423559","issue_url":"https://api.github.com/repos/PacificBiosciences/stsPlots/issues/1","id":197423559,"user":{"login":"rhallPB","id":3695432,"avatar_url":"https://avatars.githubusercontent.com/u/3695432?v=3","gravatar_id":"","url":"https://api.github.com/users/rhallPB","html_url":"https://github.com/rhallPB","followers_url":"https://api.github.com/users/rhallPB/followers","following_url":"https://api.github.com/users/rhallPB/following{/other_user}","gists_url":"https://api.github.com/users/rhallPB/gists{/gist_id}","starred_url":"https://api.github.com/users/rhallPB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rhallPB/subscriptions","organizations_url":"https://api.github.com/users/rhallPB/orgs","repos_url":"https://api.github.com/users/rhallPB/repos","events_url":"https://api.github.com/users/rhallPB/events{/privacy}","received_events_url":"https://api.github.com/users/rhallPB/received_events","type":"User","site_admin":false},"created_at":"2016-03-16T16:57:53Z","updated_at":"2016-03-16T16:57:53Z","body":"Can you confirm that you are using the validated versions of the required modules?\r\nR version 3.0.3 (2014-03-06)\r\nggplot2_0.9.3.1\r\nplyr_1.8.1\r\nHmisc_3.14-3       \r\nBiostrings_2.30.1\r\n\r\nUnfortunately this is an old script, that hasn't been widely tested across multiple versions.\r\n"}}