{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":513225797,"defaultBranch":"main","name":"genomad","ownerLogin":"apcamargo","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2022-07-12T17:02:19.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/22940964?v=4","public":true,"private":false,"isOrgOwned":false},"refInfo":{"name":"","listCacheKey":"v0:1712804806.0","currentOid":""},"activityList":{"items":[{"before":"59b5f7abd4906971df3693688fa52cf72abc6843","after":"24e5eb5d199b39792167e620f9428f10702f3f5e","ref":"refs/heads/main","pushedAt":"2024-04-16T20:04:43.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Write `min_number_genes` value to the parameters JSON file of the `summary` module","shortMessageHtmlLink":"Write min_number_genes value to the parameters JSON file of the `su…"}},{"before":"9403d3a9eeacf9bbd02795ccbe7ebd3d4b35f8b4","after":"59b5f7abd4906971df3693688fa52cf72abc6843","ref":"refs/heads/main","pushedAt":"2024-04-11T05:28:15.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update Dockerfile to 1.8.0","shortMessageHtmlLink":"Update Dockerfile to 1.8.0"}},{"before":"397f443e170ce94f120d54c580ee85ed87326d32","after":"9403d3a9eeacf9bbd02795ccbe7ebd3d4b35f8b4","ref":"refs/heads/main","pushedAt":"2024-04-11T03:04:19.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.8.0","shortMessageHtmlLink":"Bump to v1.8.0"}},{"before":"6a3a24f66fdd95884fe7e7f3b6e62a609d972398","after":"397f443e170ce94f120d54c580ee85ed87326d32","ref":"refs/heads/main","pushedAt":"2024-04-11T01:07:16.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Set the default value of `--min-plasmid-marker-enrichment` to `0.1`","shortMessageHtmlLink":"Set the default value of --min-plasmid-marker-enrichment to 0.1"}},{"before":"0a81aaeb821a390b2191fb9ec6fd8fdec207a1d9","after":"6a3a24f66fdd95884fe7e7f3b6e62a609d972398","ref":"refs/heads/main","pushedAt":"2024-04-11T00:59:33.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Skip gene-based filters when the `annotate` module is not executed","shortMessageHtmlLink":"Skip gene-based filters when the annotate module is not executed"}},{"before":"ee4cdce2fff8926a0eba03e8ae0b55b0ee3ad7fc","after":"0a81aaeb821a390b2191fb9ec6fd8fdec207a1d9","ref":"refs/heads/main","pushedAt":"2024-04-11T00:10:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Fix typo","shortMessageHtmlLink":"Fix typo"}},{"before":"16f5a9e301bb64b5efeb8c2fc60939bf7c5bc526","after":"ee4cdce2fff8926a0eba03e8ae0b55b0ee3ad7fc","ref":"refs/heads/main","pushedAt":"2024-04-10T22:42:17.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Use a fixed number of fields in the taxonomic lineage string\n\n* add empty fields in lineage column for easier parsing\r\n\r\n* comment out obsolete code\r\n\r\n* add possibility to include \"superkingdom\" in dictionary\r\n\r\n* change ranks to fit genomad's db\r\n\r\n* Avoid creating an unnecessary dictionary and skip the genus and species ranks\r\n\r\n* Update the documentation with the new taxonomic lineage string format\r\n\r\n* Update the changelog with the changes to the way the taxonomic lineage string is presented\r\n\r\n---------\r\n\r\nCo-authored-by: Antônio Camargo ","shortMessageHtmlLink":"Use a fixed number of fields in the taxonomic lineage string"}},{"before":"af91a6a1e9defa4dd70e225c7c8efdc67a644bf0","after":"16f5a9e301bb64b5efeb8c2fc60939bf7c5bc526","ref":"refs/heads/main","pushedAt":"2024-04-06T22:38:00.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Add a hyperlink to the official documentation in the help dialogue","shortMessageHtmlLink":"Add a hyperlink to the official documentation in the help dialogue"}},{"before":"aa3df64bf1c95ab508f63db537b6b2af2355ba45","after":"af91a6a1e9defa4dd70e225c7c8efdc67a644bf0","ref":"refs/heads/main","pushedAt":"2024-03-19T23:21:20.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.6","shortMessageHtmlLink":"Bump to v1.7.6"}},{"before":"8463c914e43af689930dd5aaf34e4f345c0c1990","after":"aa3df64bf1c95ab508f63db537b6b2af2355ba45","ref":"refs/heads/main","pushedAt":"2024-03-03T21:07:38.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.5","shortMessageHtmlLink":"Bump to v1.7.5"}},{"before":"2bdbdd53d7171145338e7e3b53eefca0204f7120","after":"8463c914e43af689930dd5aaf34e4f345c0c1990","ref":"refs/heads/main","pushedAt":"2024-02-25T00:14:05.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Merge branch 'main' of github.com:apcamargo/genomad","shortMessageHtmlLink":"Merge branch 'main' of github.com:apcamargo/genomad"}},{"before":"ab5bbeec1092202530dad6f85230044277ddc18a","after":"2bdbdd53d7171145338e7e3b53eefca0204f7120","ref":"refs/heads/main","pushedAt":"2023-12-26T21:34:35.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update Dockerfile to 1.7.4","shortMessageHtmlLink":"Update Dockerfile to 1.7.4"}},{"before":"21daf9cb0e12790c4a2d6fcef65b0043f86e1457","after":"ab5bbeec1092202530dad6f85230044277ddc18a","ref":"refs/heads/main","pushedAt":"2023-12-26T21:30:38.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update Dockerfile to 1.7.4","shortMessageHtmlLink":"Update Dockerfile to 1.7.4"}},{"before":"b9b856e8e623e8d482684fd9c3b81eb66e34dcdc","after":"21daf9cb0e12790c4a2d6fcef65b0043f86e1457","ref":"refs/heads/main","pushedAt":"2023-12-08T11:56:27.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.4","shortMessageHtmlLink":"Bump to v1.7.4"}},{"before":"96048dda639034badbc9aa039208e08e546cfa76","after":"b9b856e8e623e8d482684fd9c3b81eb66e34dcdc","ref":"refs/heads/main","pushedAt":"2023-11-30T11:54:36.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Define name `current_contig` at the beggiging of `_append_aragorn_tsv`","shortMessageHtmlLink":"Define name current_contig at the beggiging of _append_aragorn_tsv"}},{"before":"3af10a6cb0cd588834c2617a622bf09e51563979","after":"96048dda639034badbc9aa039208e08e546cfa76","ref":"refs/heads/main","pushedAt":"2023-11-30T11:23:36.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.3","shortMessageHtmlLink":"Bump to v1.7.3"}},{"before":"b90fb3b24f176f0fdf1719cc848b57cede7fc95f","after":"3af10a6cb0cd588834c2617a622bf09e51563979","ref":"refs/heads/main","pushedAt":"2023-11-28T19:57:14.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.2","shortMessageHtmlLink":"Bump to v1.7.2"}},{"before":"7be55f28bed7d5b70156e4c3cd9af7b88db82e92","after":"b90fb3b24f176f0fdf1719cc848b57cede7fc95f","ref":"refs/heads/main","pushedAt":"2023-11-04T16:38:13.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Set minimum `pyrodigal-gv` version to `0.2.0`","shortMessageHtmlLink":"Set minimum pyrodigal-gv version to 0.2.0"}},{"before":"64714fa7ee4fa2c446b5696a10d69133ff0db322","after":"7be55f28bed7d5b70156e4c3cd9af7b88db82e92","ref":"refs/heads/main","pushedAt":"2023-10-28T22:48:50.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Do not include stop codon at the protein end of sequences","shortMessageHtmlLink":"Do not include stop codon at the protein end of sequences"}},{"before":"63cfc4bf327d6c9646586d1329d0f2212612f410","after":"64714fa7ee4fa2c446b5696a10d69133ff0db322","ref":"refs/heads/main","pushedAt":"2023-10-27T16:02:32.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Do not assign a `lambda` expression to a variable in the `natsort` function","shortMessageHtmlLink":"Do not assign a lambda expression to a variable in the natsort fu…"}},{"before":"46e8029d1b31dd3b53b58952bdb8352598ab37ad","after":"63cfc4bf327d6c9646586d1329d0f2212612f410","ref":"refs/heads/main","pushedAt":"2023-10-26T18:18:16.000Z","pushType":"push","commitsCount":7,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.1","shortMessageHtmlLink":"Bump to v1.7.1"}},{"before":"c6de0fa6d3c2c9d58bfe2461a6f4f3643f472045","after":"46e8029d1b31dd3b53b58952bdb8352598ab37ad","ref":"refs/heads/main","pushedAt":"2023-09-21T21:52:34.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update the installation instructions with mamba","shortMessageHtmlLink":"Update the installation instructions with mamba"}},{"before":"d6bd15edf7d5c836fe0685afabd53b185f2d50f9","after":"c6de0fa6d3c2c9d58bfe2461a6f4f3643f472045","ref":"refs/heads/main","pushedAt":"2023-09-18T19:06:44.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update citation","shortMessageHtmlLink":"Update citation"}},{"before":"4f18ff8bc58e0e43d09a1f99a3831d2788373168","after":"d6bd15edf7d5c836fe0685afabd53b185f2d50f9","ref":"refs/heads/main","pushedAt":"2023-09-14T04:55:51.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update Dockerfile to 1.7.0","shortMessageHtmlLink":"Update Dockerfile to 1.7.0"}},{"before":"268d6a2fd756cbed241415a3a98ceba49961c6e7","after":"4f18ff8bc58e0e43d09a1f99a3831d2788373168","ref":"refs/heads/main","pushedAt":"2023-09-13T20:09:36.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Bump to v1.7.0","shortMessageHtmlLink":"Bump to v1.7.0"}},{"before":"912eba9a385f87aa7dc2da4bd77bcc117c469753","after":"268d6a2fd756cbed241415a3a98ceba49961c6e7","ref":"refs/heads/main","pushedAt":"2023-09-13T20:08:10.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Remove the `noexec` example from the FAQ","shortMessageHtmlLink":"Remove the noexec example from the FAQ"}},{"before":"236421c9c3ee9124c1442a7a7edd52cc3af1a8b2","after":"912eba9a385f87aa7dc2da4bd77bcc117c469753","ref":"refs/heads/main","pushedAt":"2023-09-12T22:09:28.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update the database Zenodo link to version 1.5","shortMessageHtmlLink":"Update the database Zenodo link to version 1.5"}},{"before":"aaa15e2f5c864409396e6dbd53d2f61f9a687454","after":"236421c9c3ee9124c1442a7a7edd52cc3af1a8b2","ref":"refs/heads/main","pushedAt":"2023-09-12T20:04:17.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update `CHANGELOG.md` with the changes to the MMseqs2 search","shortMessageHtmlLink":"Update CHANGELOG.md with the changes to the MMseqs2 search"}},{"before":"bb629303246e98f1d31b6dcf836d0e8b2a0f1a6b","after":"aaa15e2f5c864409396e6dbd53d2f61f9a687454","ref":"refs/heads/main","pushedAt":"2023-09-12T19:21:52.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Use two alignment steps in the MMseqs2 search","shortMessageHtmlLink":"Use two alignment steps in the MMseqs2 search"}},{"before":"49c2f7a47d38f70651c18a4bc9edf51de2a1f7d8","after":"bb629303246e98f1d31b6dcf836d0e8b2a0f1a6b","ref":"refs/heads/main","pushedAt":"2023-08-31T23:48:18.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"apcamargo","name":"Antônio Camargo","path":"/apcamargo","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/22940964?s=80&v=4"},"commit":{"message":"Update the database Zenodo link to version 1.4","shortMessageHtmlLink":"Update the database Zenodo link to version 1.4"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAEMmZGCAA","startCursor":null,"endCursor":null}},"title":"Activity · apcamargo/genomad"}