{"action":"created","comment":{"url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/comments/177909023","pull_request_review_id":107873408,"id":177909023,"diff_hunk":"@@ -199,11 +199,6 @@ def _get_invalid_file_contents(self):\n             '#CHROM\tPOS\tID\tREF\tALT\tQUAL\tFILTER\tINFO\tFORMAT\tSample\\n',\n             '1    1  '\n         ],\n-        # Missing \"GT:GQ\" format, but GQ is provided.","path":"gcp_variant_transforms/beam_io/vcfio_test.py","position":4,"original_position":4,"commit_id":"45e955677b00d1e316c6035e71f3a165d5aff2f5","original_commit_id":"45e955677b00d1e316c6035e71f3a165d5aff2f5","user":{"login":"samanvp","id":28307198,"avatar_url":"https://avatars1.githubusercontent.com/u/28307198?v=4","gravatar_id":"","url":"https://api.github.com/users/samanvp","html_url":"https://github.com/samanvp","followers_url":"https://api.github.com/users/samanvp/followers","following_url":"https://api.github.com/users/samanvp/following{/other_user}","gists_url":"https://api.github.com/users/samanvp/gists{/gist_id}","starred_url":"https://api.github.com/users/samanvp/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/samanvp/subscriptions","organizations_url":"https://api.github.com/users/samanvp/orgs","repos_url":"https://api.github.com/users/samanvp/repos","events_url":"https://api.github.com/users/samanvp/events{/privacy}","received_events_url":"https://api.github.com/users/samanvp/received_events","type":"User","site_admin":false},"body":"This test is failing when pyvcf uses cython, this is a known issue:\r\nhttps://github.com/apache/beam/pull/4221\r\n\r\nWe have to remove it otherwise test does not pass.","created_at":"2018-03-28T22:29:04Z","updated_at":"2018-03-28T22:29:04Z","html_url":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161#discussion_r177909023","pull_request_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161","author_association":"NONE","_links":{"self":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/comments/177909023"},"html":{"href":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161#discussion_r177909023"},"pull_request":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161"}},"in_reply_to_id":177907361},"pull_request":{"url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161","id":178178975,"html_url":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161","diff_url":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161.diff","patch_url":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161.patch","issue_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/161","number":161,"state":"open","locked":false,"title":"Make pyvcf to use cython","user":{"login":"samanvp","id":28307198,"avatar_url":"https://avatars1.githubusercontent.com/u/28307198?v=4","gravatar_id":"","url":"https://api.github.com/users/samanvp","html_url":"https://github.com/samanvp","followers_url":"https://api.github.com/users/samanvp/followers","following_url":"https://api.github.com/users/samanvp/following{/other_user}","gists_url":"https://api.github.com/users/samanvp/gists{/gist_id}","starred_url":"https://api.github.com/users/samanvp/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/samanvp/subscriptions","organizations_url":"https://api.github.com/users/samanvp/orgs","repos_url":"https://api.github.com/users/samanvp/repos","events_url":"https://api.github.com/users/samanvp/events{/privacy}","received_events_url":"https://api.github.com/users/samanvp/received_events","type":"User","site_admin":false},"body":"Tested: I made sure the tests were failing before removing those 5 lines from vcfio_test.py","created_at":"2018-03-28T22:13:00Z","updated_at":"2018-03-28T22:29:04Z","closed_at":null,"merged_at":null,"merge_commit_sha":"3f9e7e36d9fbb14431fd29ea55472e2b66c7f141","assignee":null,"assignees":[],"requested_reviewers":[],"requested_teams":[],"labels":[],"milestone":null,"commits_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161/commits","review_comments_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161/comments","review_comment_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/comments{/number}","comments_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/161/comments","statuses_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/statuses/45e955677b00d1e316c6035e71f3a165d5aff2f5","head":{"label":"samanvp:cython","ref":"cython","sha":"45e955677b00d1e316c6035e71f3a165d5aff2f5","user":{"login":"samanvp","id":28307198,"avatar_url":"https://avatars1.githubusercontent.com/u/28307198?v=4","gravatar_id":"","url":"https://api.github.com/users/samanvp","html_url":"https://github.com/samanvp","followers_url":"https://api.github.com/users/samanvp/followers","following_url":"https://api.github.com/users/samanvp/following{/other_user}","gists_url":"https://api.github.com/users/samanvp/gists{/gist_id}","starred_url":"https://api.github.com/users/samanvp/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/samanvp/subscriptions","organizations_url":"https://api.github.com/users/samanvp/orgs","repos_url":"https://api.github.com/users/samanvp/repos","events_url":"https://api.github.com/users/samanvp/events{/privacy}","received_events_url":"https://api.github.com/users/samanvp/received_events","type":"User","site_admin":false},"repo":{"id":127033687,"name":"gcp-variant-transforms","full_name":"samanvp/gcp-variant-transforms","owner":{"login":"samanvp","id":28307198,"avatar_url":"https://avatars1.githubusercontent.com/u/28307198?v=4","gravatar_id":"","url":"https://api.github.com/users/samanvp","html_url":"https://github.com/samanvp","followers_url":"https://api.github.com/users/samanvp/followers","following_url":"https://api.github.com/users/samanvp/following{/other_user}","gists_url":"https://api.github.com/users/samanvp/gists{/gist_id}","starred_url":"https://api.github.com/users/samanvp/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/samanvp/subscriptions","organizations_url":"https://api.github.com/users/samanvp/orgs","repos_url":"https://api.github.com/users/samanvp/repos","events_url":"https://api.github.com/users/samanvp/events{/privacy}","received_events_url":"https://api.github.com/users/samanvp/received_events","type":"User","site_admin":false},"private":false,"html_url":"https://github.com/samanvp/gcp-variant-transforms","description":"GCP Variant Transforms","fork":true,"url":"https://api.github.com/repos/samanvp/gcp-variant-transforms","forks_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/forks","keys_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/keys{/key_id}","collaborators_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/teams","hooks_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/hooks","issue_events_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/issues/events{/number}","events_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/events","assignees_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/assignees{/user}","branches_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/branches{/branch}","tags_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/tags","blobs_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/git/refs{/sha}","trees_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/git/trees{/sha}","statuses_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/statuses/{sha}","languages_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/languages","stargazers_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/stargazers","contributors_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/contributors","subscribers_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/subscribers","subscription_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/subscription","commits_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/commits{/sha}","git_commits_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/git/commits{/sha}","comments_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/comments{/number}","issue_comment_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/issues/comments{/number}","contents_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/contents/{+path}","compare_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/compare/{base}...{head}","merges_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/merges","archive_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/downloads","issues_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/issues{/number}","pulls_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/pulls{/number}","milestones_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/milestones{/number}","notifications_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/labels{/name}","releases_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/releases{/id}","deployments_url":"https://api.github.com/repos/samanvp/gcp-variant-transforms/deployments","created_at":"2018-03-27T19:06:25Z","updated_at":"2018-03-28T21:21:43Z","pushed_at":"2018-03-28T22:09:52Z","git_url":"git://github.com/samanvp/gcp-variant-transforms.git","ssh_url":"git@github.com:samanvp/gcp-variant-transforms.git","clone_url":"https://github.com/samanvp/gcp-variant-transforms.git","svn_url":"https://github.com/samanvp/gcp-variant-transforms","homepage":null,"size":621,"stargazers_count":0,"watchers_count":0,"language":"Python","has_issues":false,"has_projects":true,"has_downloads":true,"has_wiki":true,"has_pages":false,"forks_count":0,"mirror_url":null,"archived":false,"open_issues_count":0,"license":{"key":"apache-2.0","name":"Apache License 2.0","spdx_id":"Apache-2.0","url":"https://api.github.com/licenses/apache-2.0"},"forks":0,"open_issues":0,"watchers":0,"default_branch":"master"}},"base":{"label":"googlegenomics:master","ref":"master","sha":"911d9b85114f0b7312ff46d147fc583a332d0f04","user":{"login":"googlegenomics","id":7434120,"avatar_url":"https://avatars2.githubusercontent.com/u/7434120?v=4","gravatar_id":"","url":"https://api.github.com/users/googlegenomics","html_url":"https://github.com/googlegenomics","followers_url":"https://api.github.com/users/googlegenomics/followers","following_url":"https://api.github.com/users/googlegenomics/following{/other_user}","gists_url":"https://api.github.com/users/googlegenomics/gists{/gist_id}","starred_url":"https://api.github.com/users/googlegenomics/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/googlegenomics/subscriptions","organizations_url":"https://api.github.com/users/googlegenomics/orgs","repos_url":"https://api.github.com/users/googlegenomics/repos","events_url":"https://api.github.com/users/googlegenomics/events{/privacy}","received_events_url":"https://api.github.com/users/googlegenomics/received_events","type":"Organization","site_admin":false},"repo":{"id":110025283,"name":"gcp-variant-transforms","full_name":"googlegenomics/gcp-variant-transforms","owner":{"login":"googlegenomics","id":7434120,"avatar_url":"https://avatars2.githubusercontent.com/u/7434120?v=4","gravatar_id":"","url":"https://api.github.com/users/googlegenomics","html_url":"https://github.com/googlegenomics","followers_url":"https://api.github.com/users/googlegenomics/followers","following_url":"https://api.github.com/users/googlegenomics/following{/other_user}","gists_url":"https://api.github.com/users/googlegenomics/gists{/gist_id}","starred_url":"https://api.github.com/users/googlegenomics/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/googlegenomics/subscriptions","organizations_url":"https://api.github.com/users/googlegenomics/orgs","repos_url":"https://api.github.com/users/googlegenomics/repos","events_url":"https://api.github.com/users/googlegenomics/events{/privacy}","received_events_url":"https://api.github.com/users/googlegenomics/received_events","type":"Organization","site_admin":false},"private":false,"html_url":"https://github.com/googlegenomics/gcp-variant-transforms","description":"GCP Variant Transforms","fork":false,"url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms","forks_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/forks","keys_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/keys{/key_id}","collaborators_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/teams","hooks_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/hooks","issue_events_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/events{/number}","events_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/events","assignees_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/assignees{/user}","branches_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/branches{/branch}","tags_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/tags","blobs_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/git/refs{/sha}","trees_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/git/trees{/sha}","statuses_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/statuses/{sha}","languages_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/languages","stargazers_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/stargazers","contributors_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/contributors","subscribers_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/subscribers","subscription_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/subscription","commits_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/commits{/sha}","git_commits_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/git/commits{/sha}","comments_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/comments{/number}","issue_comment_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/comments{/number}","contents_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/contents/{+path}","compare_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/compare/{base}...{head}","merges_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/merges","archive_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/downloads","issues_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues{/number}","pulls_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls{/number}","milestones_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/milestones{/number}","notifications_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/labels{/name}","releases_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/releases{/id}","deployments_url":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/deployments","created_at":"2017-11-08T20:12:08Z","updated_at":"2018-03-28T19:40:26Z","pushed_at":"2018-03-28T22:13:02Z","git_url":"git://github.com/googlegenomics/gcp-variant-transforms.git","ssh_url":"git@github.com:googlegenomics/gcp-variant-transforms.git","clone_url":"https://github.com/googlegenomics/gcp-variant-transforms.git","svn_url":"https://github.com/googlegenomics/gcp-variant-transforms","homepage":null,"size":621,"stargazers_count":19,"watchers_count":19,"language":"Python","has_issues":true,"has_projects":true,"has_downloads":true,"has_wiki":true,"has_pages":false,"forks_count":9,"mirror_url":null,"archived":false,"open_issues_count":43,"license":{"key":"apache-2.0","name":"Apache License 2.0","spdx_id":"Apache-2.0","url":"https://api.github.com/licenses/apache-2.0"},"forks":9,"open_issues":43,"watchers":19,"default_branch":"master"}},"_links":{"self":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161"},"html":{"href":"https://github.com/googlegenomics/gcp-variant-transforms/pull/161"},"issue":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/161"},"comments":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/issues/161/comments"},"review_comments":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161/comments"},"review_comment":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/comments{/number}"},"commits":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/pulls/161/commits"},"statuses":{"href":"https://api.github.com/repos/googlegenomics/gcp-variant-transforms/statuses/45e955677b00d1e316c6035e71f3a165d5aff2f5"}},"author_association":"NONE"}}
{"actor":{"display_login":"samanvp"}}