{"action":"created","issue":{"url":"https://api.github.com/repos/GMOD/Apollo/issues/1069","repository_url":"https://api.github.com/repos/GMOD/Apollo","labels_url":"https://api.github.com/repos/GMOD/Apollo/issues/1069/labels{/name}","comments_url":"https://api.github.com/repos/GMOD/Apollo/issues/1069/comments","events_url":"https://api.github.com/repos/GMOD/Apollo/issues/1069/events","html_url":"https://github.com/GMOD/Apollo/pull/1069","id":157077304,"number":1069,"title":"user list should be unique, empty permissions will be deleted, non-or…","user":{"login":"nathandunn","id":751274,"avatar_url":"https://avatars.githubusercontent.com/u/751274?v=3","gravatar_id":"","url":"https://api.github.com/users/nathandunn","html_url":"https://github.com/nathandunn","followers_url":"https://api.github.com/users/nathandunn/followers","following_url":"https://api.github.com/users/nathandunn/following{/other_user}","gists_url":"https://api.github.com/users/nathandunn/gists{/gist_id}","starred_url":"https://api.github.com/users/nathandunn/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nathandunn/subscriptions","organizations_url":"https://api.github.com/users/nathandunn/orgs","repos_url":"https://api.github.com/users/nathandunn/repos","events_url":"https://api.github.com/users/nathandunn/events{/privacy}","received_events_url":"https://api.github.com/users/nathandunn/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/GMOD/Apollo/labels/Workingon","name":"Workingon","color":"009800"}],"state":"closed","locked":false,"assignee":null,"milestone":{"url":"https://api.github.com/repos/GMOD/Apollo/milestones/23","html_url":"https://github.com/GMOD/Apollo/milestones/2.0.3","labels_url":"https://api.github.com/repos/GMOD/Apollo/milestones/23/labels","id":1299980,"number":23,"title":"2.0.3","description":"Bugfixes and Chado re-implementation.\r\n\r\n- Closed issued: https://github.com/GMOD/Apollo/issues?q=is%3Apr+milestone%3A2.0.3+is%3Aclosed\r\n- Closed pull requests: https://github.com/GMOD/Apollo/pulls?q=is%3Apr+milestone%3A2.0.3+is%3Aclosed","creator":{"login":"nathandunn","id":751274,"avatar_url":"https://avatars.githubusercontent.com/u/751274?v=3","gravatar_id":"","url":"https://api.github.com/users/nathandunn","html_url":"https://github.com/nathandunn","followers_url":"https://api.github.com/users/nathandunn/followers","following_url":"https://api.github.com/users/nathandunn/following{/other_user}","gists_url":"https://api.github.com/users/nathandunn/gists{/gist_id}","starred_url":"https://api.github.com/users/nathandunn/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nathandunn/subscriptions","organizations_url":"https://api.github.com/users/nathandunn/orgs","repos_url":"https://api.github.com/users/nathandunn/repos","events_url":"https://api.github.com/users/nathandunn/events{/privacy}","received_events_url":"https://api.github.com/users/nathandunn/received_events","type":"User","site_admin":false},"open_issues":30,"closed_issues":112,"state":"open","created_at":"2015-09-10T19:58:08Z","updated_at":"2016-05-27T18:17:57Z","due_on":null,"closed_at":null},"comments":13,"created_at":"2016-05-26T20:56:16Z","updated_at":"2016-05-27T18:20:44Z","closed_at":"2016-05-27T18:17:57Z","pull_request":{"url":"https://api.github.com/repos/GMOD/Apollo/pulls/1069","html_url":"https://github.com/GMOD/Apollo/pull/1069","diff_url":"https://github.com/GMOD/Apollo/pull/1069.diff","patch_url":"https://github.com/GMOD/Apollo/pull/1069.patch"},"body":"This should fix #1067 and the remnants of #1061 . . . \r\n\r\nNot sure if it passes the integration test, though due to issues with Chado. \r\n\r\nGetting a weird error locally, though:\r\n\r\n```\r\n| Running 13 integration tests... 2 of 13\r\nERROR:  permission denied for relation cvterm\r\nSTATEMENT:  select count(*) as y0_ from cvterm this_\r\n| Error 2016-05-26 13:48:22,955 [main] ERROR spi.SqlExceptionHelper  - ERROR: permission denied for relation cvterm\r\n| Failure:  test CHADO export for standard annotations(org.bbop.apollo.ChadoHandlerServiceIntegrationSpec)\r\n|  org.springframework.jdbc.BadSqlGrammarException: Hibernate operation: could not extract ResultSet; bad SQL grammar [n/a]; nested exception is org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.grails.datastore.gorm.GormStaticApi.getCount(GormStaticApi.groovy:385)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__checkForOntologies(ChadoHandlerService.groovy:1443)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__writeFeatures(ChadoHandlerService.groovy:54)\r\n\tat org.bbop.apollo.ChadoHandlerServiceIntegrationSpec.test CHADO export for standard annotations(ChadoHandlerServiceIntegrationSpec.groovy:112)\r\nCaused by: org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2161)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:1890)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:255)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.execute(AbstractJdbc2Statement.java:559)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeWithFlags(AbstractJdbc2Statement.java:417)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeQuery(AbstractJdbc2Statement.java:302)\r\n\t... 4 more\r\n| Running 13 integration tests... 3 of 13\r\nERROR:  permission denied for relation cvterm\r\nSTATEMENT:  select count(*) as y0_ from cvterm this_\r\n| Error 2016-05-26 13:48:23,488 [main] ERROR spi.SqlExceptionHelper  - ERROR: permission denied for relation cvterm\r\n| Failure:  test CHADO export for annotations with additional information(org.bbop.apollo.ChadoHandlerServiceIntegrationSpec)\r\n|  org.springframework.jdbc.BadSqlGrammarException: Hibernate operation: could not extract ResultSet; bad SQL grammar [n/a]; nested exception is org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.grails.datastore.gorm.GormStaticApi.getCount(GormStaticApi.groovy:385)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__checkForOntologies(ChadoHandlerService.groovy:1443)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__writeFeatures(ChadoHandlerService.groovy:54)\r\n\tat org.bbop.apollo.ChadoHandlerServiceIntegrationSpec.test CHADO export for annotations with additional information(ChadoHandlerServiceIntegrationSpec.groovy:233)\r\nCaused by: org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2161)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:1890)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:255)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.execute(AbstractJdbc2Statement.java:559)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeWithFlags(AbstractJdbc2Statement.java:417)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeQuery(AbstractJdbc2Statement.java:302)\r\n\t... 4 more\r\n| Running 13 integration tests... 4 of 13\r\nERROR:  permission denied for relation cvterm\r\nSTATEMENT:  select count(*) as y0_ from cvterm this_\r\n| Error 2016-05-26 13:48:24,210 [main] ERROR spi.SqlExceptionHelper  - ERROR: permission denied for relation cvterm\r\n| Failure:  test CHADO export and re-export(org.bbop.apollo.ChadoHandlerServiceIntegrationSpec)\r\n|  org.springframework.jdbc.BadSqlGrammarException: Hibernate operation: could not extract ResultSet; bad SQL grammar [n/a]; nested exception is org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.grails.datastore.gorm.GormStaticApi.getCount(GormStaticApi.groovy:385)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__checkForOntologies(ChadoHandlerService.groovy:1443)\r\n\tat org.bbop.apollo.ChadoHandlerService.$tt__writeFeatures(ChadoHandlerService.groovy:54)\r\n\tat org.bbop.apollo.ChadoHandlerServiceIntegrationSpec.test CHADO export and re-export(ChadoHandlerServiceIntegrationSpec.groovy:337)\r\nCaused by: org.postgresql.util.PSQLException: ERROR: permission denied for relation cvterm\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2161)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:1890)\r\n\tat org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:255)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.execute(AbstractJdbc2Statement.java:559)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeWithFlags(AbstractJdbc2Statement.java:417)\r\n\tat org.postgresql.jdbc2.AbstractJdbc2Statement.executeQuery(AbstractJdbc2Statement.java:302)\r\n\t... 4 more\r\n| Running 13 integration tests... 8 of 13\r\n2016-05-26 13:48:25,446 [main] WARN  apollo.FeatureEventService  - Can not undo any further\r\n| Running 13 integration tests... 20 of 20\r\n2016-05-26 13:48:31,273 [main] WARN  apollo.FeatureService  - No proper type for the CV is set {\"cv\":{\"name\":\"feature_property\"}}\r\n2016-05-26 13:48:31,275 [main] WARN  apollo.FeatureService  - No proper type for the CV is set {\"cv\":{\"name\":\"feature_property\"}}\r\n2016-05-26 13:48:31,276 [main] WARN  apollo.FeatureService  - No proper type for the CV is set {\"cv\":{\"name\":\"feature_property\"}}\r\n2016-05-26 13:48:31,277 [main] WARN  apollo.FeatureService  - No proper type for the CV is set {\"cv\r\n```"},"comment":{"url":"https://api.github.com/repos/GMOD/Apollo/issues/comments/222218452","html_url":"https://github.com/GMOD/Apollo/pull/1069#issuecomment-222218452","issue_url":"https://api.github.com/repos/GMOD/Apollo/issues/1069","id":222218452,"user":{"login":"erasche","id":458683,"avatar_url":"https://avatars.githubusercontent.com/u/458683?v=3","gravatar_id":"","url":"https://api.github.com/users/erasche","html_url":"https://github.com/erasche","followers_url":"https://api.github.com/users/erasche/followers","following_url":"https://api.github.com/users/erasche/following{/other_user}","gists_url":"https://api.github.com/users/erasche/gists{/gist_id}","starred_url":"https://api.github.com/users/erasche/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/erasche/subscriptions","organizations_url":"https://api.github.com/users/erasche/orgs","repos_url":"https://api.github.com/users/erasche/repos","events_url":"https://api.github.com/users/erasche/events{/privacy}","received_events_url":"https://api.github.com/users/erasche/received_events","type":"User","site_admin":false},"created_at":"2016-05-27T18:20:44Z","updated_at":"2016-05-27T18:20:44Z","body":"@nathandunn this is fine. Fixes my main issue :)"}}
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