{"action":"opened","number":338,"pull_request":{"url":"https://api.github.com/repos/Ensembl/ensembl/pulls/338","id":232360512,"node_id":"MDExOlB1bGxSZXF1ZXN0MjMyMzYwNTEy","html_url":"https://github.com/Ensembl/ensembl/pull/338","diff_url":"https://github.com/Ensembl/ensembl/pull/338.diff","patch_url":"https://github.com/Ensembl/ensembl/pull/338.patch","issue_url":"https://api.github.com/repos/Ensembl/ensembl/issues/338","number":338,"state":"open","locked":false,"title":"RefSeqGPFFParser update, no ensembl-io","user":{"login":"tgrego","id":5013470,"node_id":"MDQ6VXNlcjUwMTM0NzA=","avatar_url":"https://avatars2.githubusercontent.com/u/5013470?v=4","gravatar_id":"","url":"https://api.github.com/users/tgrego","html_url":"https://github.com/tgrego","followers_url":"https://api.github.com/users/tgrego/followers","following_url":"https://api.github.com/users/tgrego/following{/other_user}","gists_url":"https://api.github.com/users/tgrego/gists{/gist_id}","starred_url":"https://api.github.com/users/tgrego/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tgrego/subscriptions","organizations_url":"https://api.github.com/users/tgrego/orgs","repos_url":"https://api.github.com/users/tgrego/repos","events_url":"https://api.github.com/users/tgrego/events{/privacy}","received_events_url":"https://api.github.com/users/tgrego/received_events","type":"User","site_admin":false},"body":"## Description\r\n\r\nUpdate to the RefSeqGPFFParser as part of the efforts of the xref sprint.\r\nSee ENSCORESW-2898.\r\n\r\nThis pull request is a follow up on https://github.com/Ensembl/ensembl/pull/336\r\nkeeping the refactoring, but removing the ensembl-io dependency.\r\n\r\nWormbaseCElegansRefSeqGPFFParser depends on RefSeqGPFFParser and is non-functional with this pull request, thus requiring changes.\r\n\r\n## Testing\r\n\r\nNo unit tests for this parser directly.\r\nTested with subset of rat, however related xrefs were absent.\r\nOngoing testing with full dataset.\r\nWormbaseCElegansRefSeqGPFFParser has tests in modules/t/xref_parser.t\r\nthese will be temporarily silenced until changes are committed to WormbaseCElegansRefSeqGPFFParser\r\n","created_at":"2018-11-20T15:34:04Z","updated_at":"2018-11-20T15:34:04Z","closed_at":null,"merged_at":null,"merge_commit_sha":null,"assignee":null,"assignees":[],"requested_reviewers":[],"requested_teams":[],"labels":[],"milestone":null,"commits_url":"https://api.github.com/repos/Ensembl/ensembl/pulls/338/commits","review_comments_url":"https://api.github.com/repos/Ensembl/ensembl/pulls/338/comments","review_comment_url":"https://api.github.com/repos/Ensembl/ensembl/pulls/comments{/number}","comments_url":"https://api.github.com/repos/Ensembl/ensembl/issues/338/comments","statuses_url":"https://api.github.com/repos/Ensembl/ensembl/statuses/4f89877089e686a454587d3158d2ed61e4b0ca8b","head":{"label":"Ensembl:xref_RefSeqGPFFParser_no_eio","ref":"xref_RefSeqGPFFParser_no_eio","sha":"4f89877089e686a454587d3158d2ed61e4b0ca8b","user":{"login":"Ensembl","id":5832463,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU4MzI0NjM=","avatar_url":"https://avatars3.githubusercontent.com/u/5832463?v=4","gravatar_id":"","url":"https://api.github.com/users/Ensembl","html_url":"https://github.com/Ensembl","followers_url":"https://api.github.com/users/Ensembl/followers","following_url":"https://api.github.com/users/Ensembl/following{/other_user}","gists_url":"https://api.github.com/users/Ensembl/gists{/gist_id}","starred_url":"https://api.github.com/users/Ensembl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Ensembl/subscriptions","organizations_url":"https://api.github.com/users/Ensembl/orgs","repos_url":"https://api.github.com/users/Ensembl/repos","events_url":"https://api.github.com/users/Ensembl/events{/privacy}","received_events_url":"https://api.github.com/users/Ensembl/received_events","type":"Organization","site_admin":false},"repo":{"id":15257669,"node_id":"MDEwOlJlcG9zaXRvcnkxNTI1NzY2OQ==","name":"ensembl","full_name":"Ensembl/ensembl","private":false,"owner":{"login":"Ensembl","id":5832463,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU4MzI0NjM=","avatar_url":"https://avatars3.githubusercontent.com/u/5832463?v=4","gravatar_id":"","url":"https://api.github.com/users/Ensembl","html_url":"https://github.com/Ensembl","followers_url":"https://api.github.com/users/Ensembl/followers","following_url":"https://api.github.com/users/Ensembl/following{/other_user}","gists_url":"https://api.github.com/users/Ensembl/gists{/gist_id}","starred_url":"https://api.github.com/users/Ensembl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Ensembl/subscriptions","organizations_url":"https://api.github.com/users/Ensembl/orgs","repos_url":"https://api.github.com/users/Ensembl/repos","events_url":"https://api.github.com/users/Ensembl/events{/privacy}","received_events_url":"https://api.github.com/users/Ensembl/received_events","type":"Organization","site_admin":false},"html_url":"https://github.com/Ensembl/ensembl","description":"The Ensembl Core Perl API and SQL schema","fork":false,"url":"https://api.github.com/repos/Ensembl/ensembl","forks_url":"https://api.github.com/repos/Ensembl/ensembl/forks","keys_url":"https://api.github.com/repos/Ensembl/ensembl/keys{/key_id}","collaborators_url":"https://api.github.com/repos/Ensembl/ensembl/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/Ensembl/ensembl/teams","hooks_url":"https://api.github.com/repos/Ensembl/ensembl/hooks","issue_events_url":"https://api.github.com/repos/Ensembl/ensembl/issues/events{/number}","events_url":"https://api.github.com/repos/Ensembl/ensembl/events","assignees_url":"https://api.github.com/repos/Ensembl/ensembl/assignees{/user}","branches_url":"https://api.github.com/repos/Ensembl/ensembl/branches{/branch}","tags_url":"https://api.github.com/repos/Ensembl/ensembl/tags","blobs_url":"https://api.github.com/repos/Ensembl/ensembl/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/Ensembl/ensembl/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/Ensembl/ensembl/git/refs{/sha}","trees_url":"https://api.github.com/repos/Ensembl/ensembl/git/trees{/sha}","statuses_url":"https://api.github.com/repos/Ensembl/ensembl/statuses/{sha}","languages_url":"https://api.github.com/repos/Ensembl/ensembl/languages","stargazers_url":"https://api.github.com/repos/Ensembl/ensembl/stargazers","contributors_url":"https://api.github.com/repos/Ensembl/ensembl/contributors","subscribers_url":"https://api.github.com/repos/Ensembl/ensembl/subscribers","subscription_url":"https://api.github.com/repos/Ensembl/ensembl/subscription","commits_url":"https://api.github.com/repos/Ensembl/ensembl/commits{/sha}","git_commits_url":"https://api.github.com/repos/Ensembl/ensembl/git/commits{/sha}","comments_url":"https://api.github.com/repos/Ensembl/ensembl/comments{/number}","issue_comment_url":"https://api.github.com/repos/Ensembl/ensembl/issues/comments{/number}","contents_url":"https://api.github.com/repos/Ensembl/ensembl/contents/{+path}","compare_url":"https://api.github.com/repos/Ensembl/ensembl/compare/{base}...{head}","merges_url":"https://api.github.com/repos/Ensembl/ensembl/merges","archive_url":"https://api.github.com/repos/Ensembl/ensembl/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/Ensembl/ensembl/downloads","issues_url":"https://api.github.com/repos/Ensembl/ensembl/issues{/number}","pulls_url":"https://api.github.com/repos/Ensembl/ensembl/pulls{/number}","milestones_url":"https://api.github.com/repos/Ensembl/ensembl/milestones{/number}","notifications_url":"https://api.github.com/repos/Ensembl/ensembl/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/Ensembl/ensembl/labels{/name}","releases_url":"https://api.github.com/repos/Ensembl/ensembl/releases{/id}","deployments_url":"https://api.github.com/repos/Ensembl/ensembl/deployments","created_at":"2013-12-17T15:11:49Z","updated_at":"2018-11-19T12:20:48Z","pushed_at":"2018-11-20T15:32:49Z","git_url":"git://github.com/Ensembl/ensembl.git","ssh_url":"git@github.com:Ensembl/ensembl.git","clone_url":"https://github.com/Ensembl/ensembl.git","svn_url":"https://github.com/Ensembl/ensembl","homepage":"http://www.ensembl.org","size":56024,"stargazers_count":45,"watchers_count":45,"language":"Perl","has_issues":false,"has_projects":false,"has_downloads":true,"has_wiki":false,"has_pages":false,"forks_count":51,"mirror_url":null,"archived":false,"open_issues_count":8,"license":{"key":"apache-2.0","name":"Apache License 2.0","spdx_id":"Apache-2.0","url":"https://api.github.com/licenses/apache-2.0","node_id":"MDc6TGljZW5zZTI="},"forks":51,"open_issues":8,"watchers":45,"default_branch":"release/94"}},"base":{"label":"Ensembl:feature/xref_sprint","ref":"feature/xref_sprint","sha":"3bd3bfb353eb8a8ef7050ceea5ea059be2e2d368","user":{"login":"Ensembl","id":5832463,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU4MzI0NjM=","avatar_url":"https://avatars3.githubusercontent.com/u/5832463?v=4","gravatar_id":"","url":"https://api.github.com/users/Ensembl","html_url":"https://github.com/Ensembl","followers_url":"https://api.github.com/users/Ensembl/followers","following_url":"https://api.github.com/users/Ensembl/following{/other_user}","gists_url":"https://api.github.com/users/Ensembl/gists{/gist_id}","starred_url":"https://api.github.com/users/Ensembl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Ensembl/subscriptions","organizations_url":"https://api.github.com/users/Ensembl/orgs","repos_url":"https://api.github.com/users/Ensembl/repos","events_url":"https://api.github.com/users/Ensembl/events{/privacy}","received_events_url":"https://api.github.com/users/Ensembl/received_events","type":"Organization","site_admin":false},"repo":{"id":15257669,"node_id":"MDEwOlJlcG9zaXRvcnkxNTI1NzY2OQ==","name":"ensembl","full_name":"Ensembl/ensembl","private":false,"owner":{"login":"Ensembl","id":5832463,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU4MzI0NjM=","avatar_url":"https://avatars3.githubusercontent.com/u/5832463?v=4","gravatar_id":"","url":"https://api.github.com/users/Ensembl","html_url":"https://github.com/Ensembl","followers_url":"https://api.github.com/users/Ensembl/followers","following_url":"https://api.github.com/users/Ensembl/following{/other_user}","gists_url":"https://api.github.com/users/Ensembl/gists{/gist_id}","starred_url":"https://api.github.com/users/Ensembl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Ensembl/subscriptions","organizations_url":"https://api.github.com/users/Ensembl/orgs","repos_url":"https://api.github.com/users/Ensembl/repos","events_url":"https://api.github.com/users/Ensembl/events{/privacy}","received_events_url":"https://api.github.com/users/Ensembl/received_events","type":"Organization","site_admin":false},"html_url":"https://github.com/Ensembl/ensembl","description":"The Ensembl Core Perl API and SQL schema","fork":false,"url":"https://api.github.com/repos/Ensembl/ensembl","forks_url":"https://api.github.com/repos/Ensembl/ensembl/forks","keys_url":"https://api.github.com/repos/Ensembl/ensembl/keys{/key_id}","collaborators_url":"https://api.github.com/repos/Ensembl/ensembl/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/Ensembl/ensembl/teams","hooks_url":"https://api.github.com/repos/Ensembl/ensembl/hooks","issue_events_url":"https://api.github.com/repos/Ensembl/ensembl/issues/events{/number}","events_url":"https://api.github.com/repos/Ensembl/ensembl/events","assignees_url":"https://api.github.com/repos/Ensembl/ensembl/assignees{/user}","branches_url":"https://api.github.com/repos/Ensembl/ensembl/branches{/branch}","tags_url":"https://api.github.com/repos/Ensembl/ensembl/tags","blobs_url":"https://api.github.com/repos/Ensembl/ensembl/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/Ensembl/ensembl/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/Ensembl/ensembl/git/refs{/sha}","trees_url":"https://api.github.com/repos/Ensembl/ensembl/git/trees{/sha}","statuses_url":"https://api.github.com/repos/Ensembl/ensembl/statuses/{sha}","languages_url":"https://api.github.com/repos/Ensembl/ensembl/languages","stargazers_url":"https://api.github.com/repos/Ensembl/ensembl/stargazers","contributors_url":"https://api.github.com/repos/Ensembl/ensembl/contributors","subscribers_url":"https://api.github.com/repos/Ensembl/ensembl/subscribers","subscription_url":"https://api.github.com/repos/Ensembl/ensembl/subscription","commits_url":"https://api.github.com/repos/Ensembl/ensembl/commits{/sha}","git_commits_url":"https://api.github.com/repos/Ensembl/ensembl/git/commits{/sha}","comments_url":"https://api.github.com/repos/Ensembl/ensembl/comments{/number}","issue_comment_url":"https://api.github.com/repos/Ensembl/ensembl/issues/comments{/number}","contents_url":"https://api.github.com/repos/Ensembl/ensembl/contents/{+path}","compare_url":"https://api.github.com/repos/Ensembl/ensembl/compare/{base}...{head}","merges_url":"https://api.github.com/repos/Ensembl/ensembl/merges","archive_url":"https://api.github.com/repos/Ensembl/ensembl/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/Ensembl/ensembl/downloads","issues_url":"https://api.github.com/repos/Ensembl/ensembl/issues{/number}","pulls_url":"https://api.github.com/repos/Ensembl/ensembl/pulls{/number}","milestones_url":"https://api.github.com/repos/Ensembl/ensembl/milestones{/number}","notifications_url":"https://api.github.com/repos/Ensembl/ensembl/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/Ensembl/ensembl/labels{/name}","releases_url":"https://api.github.com/repos/Ensembl/ensembl/releases{/id}","deployments_url":"https://api.github.com/repos/Ensembl/ensembl/deployments","created_at":"2013-12-17T15:11:49Z","updated_at":"2018-11-19T12:20:48Z","pushed_at":"2018-11-20T15:32:49Z","git_url":"git://github.com/Ensembl/ensembl.git","ssh_url":"git@github.com:Ensembl/ensembl.git","clone_url":"https://github.com/Ensembl/ensembl.git","svn_url":"https://github.com/Ensembl/ensembl","homepage":"http://www.ensembl.org","size":56024,"stargazers_count":45,"watchers_count":45,"language":"Perl","has_issues":false,"has_projects":false,"has_downloads":true,"has_wiki":false,"has_pages":false,"forks_count":51,"mirror_url":null,"archived":false,"open_issues_count":8,"license":{"key":"apache-2.0","name":"Apache License 2.0","spdx_id":"Apache-2.0","url":"https://api.github.com/licenses/apache-2.0","node_id":"MDc6TGljZW5zZTI="},"forks":51,"open_issues":8,"watchers":45,"default_branch":"release/94"}},"_links":{"self":{"href":"https://api.github.com/repos/Ensembl/ensembl/pulls/338"},"html":{"href":"https://github.com/Ensembl/ensembl/pull/338"},"issue":{"href":"https://api.github.com/repos/Ensembl/ensembl/issues/338"},"comments":{"href":"https://api.github.com/repos/Ensembl/ensembl/issues/338/comments"},"review_comments":{"href":"https://api.github.com/repos/Ensembl/ensembl/pulls/338/comments"},"review_comment":{"href":"https://api.github.com/repos/Ensembl/ensembl/pulls/comments{/number}"},"commits":{"href":"https://api.github.com/repos/Ensembl/ensembl/pulls/338/commits"},"statuses":{"href":"https://api.github.com/repos/Ensembl/ensembl/statuses/4f89877089e686a454587d3158d2ed61e4b0ca8b"}},"author_association":"MEMBER","merged":false,"mergeable":null,"rebaseable":null,"mergeable_state":"unknown","merged_by":null,"comments":0,"review_comments":0,"maintainer_can_modify":false,"commits":7,"additions":280,"deletions":273,"changed_files":2}}
{"actor":{"display_login":"tgrego"}}