{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":522592754,"defaultBranch":"dev","name":"tostadas","ownerLogin":"CDCgov","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2022-08-08T14:55:05.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/12104975?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1726250180.0","currentOid":""},"activityList":{"items":[{"before":"f01faeecd07b0408c8ac6ae9005225bb772f66ae","after":"f79cca6f7712c0df6b127639c1b1f8743adf74b5","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-20T07:05:30.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"fix path cannot be null error","shortMessageHtmlLink":"fix path cannot be null error"}},{"before":"a6e30e46af9d33e0e0dbf7c883c16a56abc154ca","after":"f01faeecd07b0408c8ac6ae9005225bb772f66ae","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-20T06:45:21.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"debug, add submission_mode and submission_dir, add ftp clients for testing and reformat Submission class","shortMessageHtmlLink":"debug, add submission_mode and submission_dir, add ftp clients for te…"}},{"before":"353cd3a8ee62893215ecba07d78c0a10c88da6c0","after":"a6e30e46af9d33e0e0dbf7c883c16a56abc154ca","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-20T05:26:28.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"remove params.organism and use params.species instead","shortMessageHtmlLink":"remove params.organism and use params.species instead"}},{"before":"2dfa96527889b6d6ed76614ee2a644ca8b91cd44","after":"353cd3a8ee62893215ecba07d78c0a10c88da6c0","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-20T05:00:55.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"add title column and change author to authors","shortMessageHtmlLink":"add title column and change author to authors"}},{"before":"c5a46c17861adeafed5668fa6ad24ed47b72697b","after":"2dfa96527889b6d6ed76614ee2a644ca8b91cd44","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-20T03:38:34.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"bug fixes","shortMessageHtmlLink":"bug fixes"}},{"before":"103bf80ce5812aeb21b665ca5abc85641834ca67","after":"c5a46c17861adeafed5668fa6ad24ed47b72697b","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-19T22:12:24.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"incorporate changes from dev branch","shortMessageHtmlLink":"incorporate changes from dev branch"}},{"before":"ee2eb3c72c805785b31e1fbfebcb2a59b235bf57","after":"103bf80ce5812aeb21b665ca5abc85641834ca67","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-19T20:49:10.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"connect new submission py script to nf workflow","shortMessageHtmlLink":"connect new submission py script to nf workflow"}},{"before":"fed81bdaaa46271618af1f7b61a12c9f3175d5f8","after":"ee2eb3c72c805785b31e1fbfebcb2a59b235bf57","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-19T18:31:37.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"reverse changes implemented in early 2024 to accommodate seqsender","shortMessageHtmlLink":"reverse changes implemented in early 2024 to accommodate seqsender"}},{"before":"17f2c000c4d551d3cf6b43357818cd264b70017d","after":"fed81bdaaa46271618af1f7b61a12c9f3175d5f8","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-19T06:47:40.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"add initial XML for Genbank, rewrite common XML creation, add args","shortMessageHtmlLink":"add initial XML for Genbank, rewrite common XML creation, add args"}},{"before":"67992628c92b7abac22192efcaae3ec6398a24f7","after":"17f2c000c4d551d3cf6b43357818cd264b70017d","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-19T04:25:27.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"working XML files for biosample and sra","shortMessageHtmlLink":"working XML files for biosample and sra"}},{"before":"e21ce6f76bd2d0db658fd6605d55df66bfbf8841","after":"67992628c92b7abac22192efcaae3ec6398a24f7","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-18T18:06:23.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"updates to metadata and to add xmls for biosample and sra","shortMessageHtmlLink":"updates to metadata and to add xmls for biosample and sra"}},{"before":"1226eac2f0a732627dea017cbcb5dcb2cf859bb3","after":"e21ce6f76bd2d0db658fd6605d55df66bfbf8841","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-09-18T14:18:26.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"ADD NEW SUBMISSION SCRIPT","shortMessageHtmlLink":"ADD NEW SUBMISSION SCRIPT"}},{"before":"0840f9bb995b63ccd754a13817137ff33f235b2f","after":"dad7fdcfa6adb7df7e83a00e00ed9aea662f8719","ref":"refs/heads/dev","pushedAt":"2024-09-15T00:56:04.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"remove .view() cmd","shortMessageHtmlLink":"remove .view() cmd"}},{"before":"2df40bf78853edb9337d76ee1789536947490acd","after":"0840f9bb995b63ccd754a13817137ff33f235b2f","ref":"refs/heads/dev","pushedAt":"2024-09-13T22:59:22.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"remove extraneous indent","shortMessageHtmlLink":"remove extraneous indent"}},{"before":null,"after":"515eb8de53767cc370a4b21437c5d8866c7180c9","ref":"refs/heads/onehealth_ick4","pushedAt":"2024-09-13T17:56:20.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"adjust validate_metadata script to accommodate OneHealth.1.0 BS pkg","shortMessageHtmlLink":"adjust validate_metadata script to accommodate OneHealth.1.0 BS pkg"}},{"before":"4c83b2e16c198199cb864da02d7639e58501f6bc","after":"2df40bf78853edb9337d76ee1789536947490acd","ref":"refs/heads/dev","pushedAt":"2024-09-12T18:35:08.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"add gff_path to diphtheriae metadata","shortMessageHtmlLink":"add gff_path to diphtheriae metadata"}},{"before":"85f17fd52f967bc77c6db7e166f6b6cb44348cdc","after":"4c83b2e16c198199cb864da02d7639e58501f6bc","ref":"refs/heads/dev","pushedAt":"2024-09-12T16:48:50.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"fixed bugs in -locus-lag-prefix specification","shortMessageHtmlLink":"fixed bugs in -locus-lag-prefix specification"}},{"before":"6a514d30ec66bd7c82fe85e1c5b1aecedf8459e9","after":"1226eac2f0a732627dea017cbcb5dcb2cf859bb3","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-08-06T22:19:06.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"add new submission config file","shortMessageHtmlLink":"add new submission config file"}},{"before":null,"after":"6a514d30ec66bd7c82fe85e1c5b1aecedf8459e9","ref":"refs/heads/seqsender-rewrite-ick4","pushedAt":"2024-08-01T22:25:41.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"commit prep python and module scripts","shortMessageHtmlLink":"commit prep python and module scripts"}},{"before":"c4dada3ee0c65df08e0d6820c415e53a75f2445f","after":null,"ref":"refs/heads/rework_subworkflows","pushedAt":"2024-06-24T14:48:40.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"}},{"before":"c0877bf547254733a3594fcf6cef48658b994247","after":null,"ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-06-05T16:17:01.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"}},{"before":"419f9d9ffc77d5c3011445ca097c241ca5afbf3f","after":"85f17fd52f967bc77c6db7e166f6b6cb44348cdc","ref":"refs/heads/dev","pushedAt":"2024-06-05T16:16:30.000Z","pushType":"pr_merge","commitsCount":16,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"Merge pull request #200 from CDCgov/rsv_vadr_refactor_kao\n\nRsv vadr refactor kao","shortMessageHtmlLink":"Merge pull request #200 from CDCgov/rsv_vadr_refactor_kao"}},{"before":"7d6a71e176f005739b27987fc4ca08e680f02d20","after":"c0877bf547254733a3594fcf6cef48658b994247","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-06-05T15:33:55.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"kyleoconnell-CDC","name":"Kyle O'Connell CDC","path":"/kyleoconnell-CDC","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/129424430?s=80&v=4"},"commit":{"message":"updated gff to tbl for output param","shortMessageHtmlLink":"updated gff to tbl for output param"}},{"before":"4948290b102898d4b804a92382b1380a52bfe45b","after":"7d6a71e176f005739b27987fc4ca08e680f02d20","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-30T22:05:26.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"jessicarowell","name":"Jessica Rowell","path":"/jessicarowell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/25388866?s=80&v=4"},"commit":{"message":"Merge branch 'rsv_vadr_refactor_kao' of https://github.com/CDCgov/tostadas into rsv_vadr_refactor_kao","shortMessageHtmlLink":"Merge branch 'rsv_vadr_refactor_kao' of https://github.com/CDCgov/tos…"}},{"before":"5054f412979718b0216133cad6685380b25d3f5e","after":"4948290b102898d4b804a92382b1380a52bfe45b","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-30T18:52:51.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"fixed some update submission info","shortMessageHtmlLink":"fixed some update submission info"}},{"before":"92846568dd5773d8710f7d72a9329e14b404ee3e","after":"5054f412979718b0216133cad6685380b25d3f5e","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-23T18:27:58.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"kyleoconnell-CDC","name":"Kyle O'Connell CDC","path":"/kyleoconnell-CDC","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/129424430?s=80&v=4"},"commit":{"message":"cleaned up a few params to reduce params needed on command line","shortMessageHtmlLink":"cleaned up a few params to reduce params needed on command line"}},{"before":"1cf8e4b180a2a27ef0340363655af4970d7847a1","after":"92846568dd5773d8710f7d72a9329e14b404ee3e","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-21T21:13:32.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"fixed mismatch in vadr post cleanup where the vadr outputs werent matching the reads ch in some cases. Used a join on meta.id before running process within vadr subworkflow","shortMessageHtmlLink":"fixed mismatch in vadr post cleanup where the vadr outputs werent mat…"}},{"before":"3de88d7048cbb3ad32281d16b889b6e125a00885","after":"1cf8e4b180a2a27ef0340363655af4970d7847a1","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-21T21:00:23.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"updated vadr inputs and outputs, tested all other configs. There is a bug with vadr outputs being reformatted to gff that then isnt working with table2asn. We need to recode submission genbank to take tbl instead of gff so that we can use the tbl from vadr directly. I tested this and table2asn likes this file.","shortMessageHtmlLink":"updated vadr inputs and outputs, tested all other configs. There is a…"}},{"before":"9207fb1ca4fc1e1780fc21073844d24972ba4d7f","after":"3de88d7048cbb3ad32281d16b889b6e125a00885","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-21T20:21:45.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"updated assets","shortMessageHtmlLink":"updated assets"}},{"before":"9ef3622524eaf5888f8e0ac64fcea29e22f2439a","after":"9207fb1ca4fc1e1780fc21073844d24972ba4d7f","ref":"refs/heads/rsv_vadr_refactor_kao","pushedAt":"2024-05-21T14:02:45.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"kyleoconnell","name":"Kyle O'Connell","path":"/kyleoconnell","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/84786080?s=80&v=4"},"commit":{"message":"updated test profiles to add rsv, renamed metadata xlsx, removed an extra dir (aspen), added rsv ref data","shortMessageHtmlLink":"updated test profiles to add rsv, renamed metadata xlsx, removed an e…"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAEu6XwPgA","startCursor":null,"endCursor":null}},"title":"Activity · CDCgov/tostadas"}