{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":129436051,"defaultBranch":"develop","name":"truvari","ownerLogin":"ACEnglish","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2018-04-13T17:50:41.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/2422579?v=4","public":true,"private":false,"isOrgOwned":false},"refInfo":{"name":"","listCacheKey":"v0:1712607045.0","currentOid":""},"activityList":{"items":[{"before":"870fac314668b3ce091df039339abc243be3e013","after":"e1c3bad4458fb35a3166602779c9b95014d6422d","ref":"refs/heads/develop","pushedAt":"2024-05-19T16:49:30.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"removing gitmodules\n\nWas unused","shortMessageHtmlLink":"removing gitmodules"}},{"before":"41dfa52db9f3134853f6e0678a4ebb2c51d826aa","after":"870fac314668b3ce091df039339abc243be3e013","ref":"refs/heads/develop","pushedAt":"2024-05-19T15:31:35.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Update func_tests.yml\n\nTrying another tmpdir","shortMessageHtmlLink":"Update func_tests.yml"}},{"before":"7d8c496ebc6044efd9139a2fd5315c08e58b173e","after":"41dfa52db9f3134853f6e0678a4ebb2c51d826aa","ref":"refs/heads/develop","pushedAt":"2024-05-19T15:29:38.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Update func_tests.yml\n\nTrying to set to a writable TMPDIR","shortMessageHtmlLink":"Update func_tests.yml"}},{"before":"e10cd4d0be97bffa1a9312d12d5992e2e932cbc0","after":"7d8c496ebc6044efd9139a2fd5315c08e58b173e","ref":"refs/heads/develop","pushedAt":"2024-05-19T15:12:55.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Fix #213\n\nbcftools.sort is passed tempfile.gettempdir","shortMessageHtmlLink":"Fix #213"}},{"before":"bfcfeab4aa12284a83271ca23998c7f98d4b943f","after":"e10cd4d0be97bffa1a9312d12d5992e2e932cbc0","ref":"refs/heads/develop","pushedAt":"2024-05-10T03:09:52.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Update README.md","shortMessageHtmlLink":"Update README.md"}},{"before":"ed802d7163825c863cbe25ee5cd87d5484bfeb38","after":"bfcfeab4aa12284a83271ca23998c7f98d4b943f","ref":"refs/heads/develop","pushedAt":"2024-04-26T14:37:26.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Update README.md","shortMessageHtmlLink":"Update README.md"}},{"before":"a5e77ba4800c84f48f5ef2d2d9bdae345420c489","after":"ed802d7163825c863cbe25ee5cd87d5484bfeb38","ref":"refs/heads/develop","pushedAt":"2024-04-20T01:50:07.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Fix #211","shortMessageHtmlLink":"Fix #211"}},{"before":"96636459dbf3da52fe088e99a874d9dc3841a323","after":"a5e77ba4800c84f48f5ef2d2d9bdae345420c489","ref":"refs/heads/develop","pushedAt":"2024-04-08T20:16:12.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge branch 'csidx' into develop","shortMessageHtmlLink":"Merge branch 'csidx' into develop"}},{"before":"a8dbd3066f7572e9b7487c470485de34930eee12","after":"96636459dbf3da52fe088e99a874d9dc3841a323","ref":"refs/heads/develop","pushedAt":"2024-04-08T20:15:09.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge pull request #209 from ctsa/csi_index\n\nAllow csi-indexed vcf files\r\n\r\nAdded some changes to it in branch `csidx`. Will need to merge that next since I don't know how to commit directly to a pr.","shortMessageHtmlLink":"Merge pull request #209 from ctsa/csi_index"}},{"before":null,"after":"f9004cc1de682be66cb38d0cc17e93c650e7edfc","ref":"refs/heads/csidx","pushedAt":"2024-04-08T20:10:45.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"pr #209\n\nfunctional tests passed.\npylint wanted changes\n```\n% python repo_utils/pylint_maker.py\n************* Module truvari.utils\ntruvari/utils.py:448:0: C0305: Trailing newlines (trailing-newlines)\ntruvari/utils.py:447:11: R1729: Use a generator instead 'any(os.path.exists(vcf_path + '.' + x) for x in vcf_index_ext)' (use-a-generator)\n```\n\nUpdated `truvari/annotations/trf.py` to use the new method.\n\nAdded the new method to api docs in `docs/api/truvari.rst`","shortMessageHtmlLink":"pr #209"}},{"before":"d862e76d85855306a6b3798b7ead91a5f65e4e0a","after":"a8dbd3066f7572e9b7487c470485de34930eee12","ref":"refs/heads/develop","pushedAt":"2024-04-03T14:43:24.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"fips #205","shortMessageHtmlLink":"fips #205"}},{"before":"7b1663e41873adb86bc68ee393c387b7346c13b5","after":"d862e76d85855306a6b3798b7ead91a5f65e4e0a","ref":"refs/heads/develop","pushedAt":"2024-04-03T14:28:09.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"pylint fix","shortMessageHtmlLink":"pylint fix"}},{"before":"e0c8a34ec076b4c01774d88baeb444b774df7f88","after":"7b1663e41873adb86bc68ee393c387b7346c13b5","ref":"refs/heads/develop","pushedAt":"2024-04-03T14:25:03.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"not quiet mafft\n\nshould throw more informative errors. Allows debugging for #204","shortMessageHtmlLink":"not quiet mafft"}},{"before":"eb47585f6780c8a789b2cee804feedd6215ba56f","after":"e0c8a34ec076b4c01774d88baeb444b774df7f88","ref":"refs/heads/develop","pushedAt":"2024-03-28T14:55:25.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"version bump","shortMessageHtmlLink":"version bump"}},{"before":"cf69e9a999bf75b8b94f5b6a08e80e5d248c9301","after":"4fabd6626e83c4fa545717b87e09d3196047db11","ref":"refs/heads/master","pushedAt":"2024-03-28T14:55:08.000Z","pushType":"push","commitsCount":20,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge branch 'release/v4.2.2'","shortMessageHtmlLink":"Merge branch 'release/v4.2.2'"}},{"before":"57d4a78d57b447e267988d77198fbc52362a8012","after":"eb47585f6780c8a789b2cee804feedd6215ba56f","ref":"refs/heads/develop","pushedAt":"2024-03-28T14:32:11.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"freee wiki v4.2.2","shortMessageHtmlLink":"freee wiki v4.2.2"}},{"before":"31fdbde3067689af09ac75ee51f018197fc4c5ad","after":"57d4a78d57b447e267988d77198fbc52362a8012","ref":"refs/heads/develop","pushedAt":"2024-03-28T14:18:46.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"version bump","shortMessageHtmlLink":"version bump"}},{"before":"b52ef81c896e934b7c9c65fec79e23136c9d78a8","after":"31fdbde3067689af09ac75ee51f018197fc4c5ad","ref":"refs/heads/develop","pushedAt":"2024-03-27T15:34:03.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"fix collapse gt format\n\nwasn't preserving the kept entry's format information","shortMessageHtmlLink":"fix collapse gt format"}},{"before":null,"after":"ec2caabc6557f92e56ef0814598bd03446fc44eb","ref":"refs/heads/feature/noself","pushedAt":"2024-03-25T22:10:10.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"experiment","shortMessageHtmlLink":"experiment"}},{"before":"2359fd0762e81c1220971baba0484adaebc51fff","after":"3379d03222e23e4fd1bf672ef75bc0b8d5842ce4","ref":"refs/heads/feature/rust","pushedAt":"2024-02-22T02:20:44.000Z","pushType":"push","commitsCount":11,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge branch 'develop' into feature/rust","shortMessageHtmlLink":"Merge branch 'develop' into feature/rust"}},{"before":"ca5acf9005b32711912b4f4387208f87d8c3a527","after":"b52ef81c896e934b7c9c65fec79e23136c9d78a8","ref":"refs/heads/develop","pushedAt":"2024-02-21T20:21:59.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"fixing doctest","shortMessageHtmlLink":"fixing doctest"}},{"before":"891e613487b2a816c6f40f4464a4c96d426fe7b7","after":"ca5acf9005b32711912b4f4387208f87d8c3a527","ref":"refs/heads/develop","pushedAt":"2024-02-21T19:54:09.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"cleaning unused msa","shortMessageHtmlLink":"cleaning unused msa"}},{"before":"1cd03b2f4e8afdb3431595fa351501b36db3cfd8","after":"891e613487b2a816c6f40f4464a4c96d426fe7b7","ref":"refs/heads/develop","pushedAt":"2024-02-21T15:53:49.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Updated candidate regions\n\nThey now buffer by 10bp in order to ensure variants in question are\ncovered.","shortMessageHtmlLink":"Updated candidate regions"}},{"before":"1429779693a4d66a5f8f0d89ad4a38fcbe293505","after":"1cd03b2f4e8afdb3431595fa351501b36db3cfd8","ref":"refs/heads/develop","pushedAt":"2024-02-11T15:38:09.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"test coverage of `collapse --chain` for #196\n\nA single site, but it covers the logic","shortMessageHtmlLink":"test coverage of collapse --chain for #196"}},{"before":"d4241409432bce5ed99d649b28999d1029dde5d0","after":"1429779693a4d66a5f8f0d89ad4a38fcbe293505","ref":"refs/heads/develop","pushedAt":"2024-02-11T14:04:12.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"potential fix for #196\n\nfunctional tests failed to hit chain collapse","shortMessageHtmlLink":"potential fix for #196"}},{"before":"2b5e9210154b9b97a11dbe5adafd2c21798dc8e9","after":"d4241409432bce5ed99d649b28999d1029dde5d0","ref":"refs/heads/develop","pushedAt":"2024-02-10T20:09:51.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"speed shortcuts\n\ncollapse - use available information to find out if a call can stop\nbeing compared to its chunk early\nbench - calculating all comparisons for every pair is useful for\nensuring full annotations are available on every compared call and\ndebugging and developers. But its slow. The `--short` option will\nnow stop comparing early and saves ~50% of bench runtime. This might\nbecome the `--fullanno` option later.\nmatching - Don't pull alt '*' alleles.","shortMessageHtmlLink":"speed shortcuts"}},{"before":"dde620737c12322f59dfb22b4492ebf96502999d","after":"2b5e9210154b9b97a11dbe5adafd2c21798dc8e9","ref":"refs/heads/develop","pushedAt":"2024-02-10T00:36:01.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"pylint fix","shortMessageHtmlLink":"pylint fix"}},{"before":"f0507939ab32b9f4a9a642255e237a957ab32dfb","after":"dde620737c12322f59dfb22b4492ebf96502999d","ref":"refs/heads/develop","pushedAt":"2024-02-10T00:02:43.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"make_haplotypes filter fix\n\nwhen filtering variants for make_haplotypes, need to still make all-ref\nhaplotypes","shortMessageHtmlLink":"make_haplotypes filter fix"}},{"before":"d37be878840e260a71b982755cd733cd78e2590e","after":"2359fd0762e81c1220971baba0484adaebc51fff","ref":"refs/heads/feature/rust","pushedAt":"2024-02-08T17:21:36.000Z","pushType":"push","commitsCount":32,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge branch 'develop' into feature/rust","shortMessageHtmlLink":"Merge branch 'develop' into feature/rust"}},{"before":"4f6530799f4f7eb275c5fb6ac4c199ee157f9bab","after":"be791b17e4b173ef469ad745df4968d002dfd4a7","ref":"refs/heads/feature/cs_poa","pushedAt":"2024-02-08T02:55:49.000Z","pushType":"push","commitsCount":22,"pusher":{"login":"ACEnglish","name":"Adam English","path":"/ACEnglish","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2422579?s=80&v=4"},"commit":{"message":"Merge branch 'develop' into feature/cs_poa","shortMessageHtmlLink":"Merge branch 'develop' into feature/cs_poa"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAETijhVgA","startCursor":null,"endCursor":null}},"title":"Activity ยท ACEnglish/truvari"}