{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":139045164,"defaultBranch":"main","name":"dna-seq-gatk-variant-calling","ownerLogin":"snakemake-workflows","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2018-06-28T16:46:40.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/28868283?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1686080309.36349","currentOid":""},"activityList":{"items":[{"before":"c9fa254480f5024ad59b7b995a1ec5302d08e0b7","after":"85a3b6404b539109974dafe7f56f4c73999078de","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-08T08:59:16.010Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"reintroduce `--ASSUME_SORT_ORDER coordinate`","shortMessageHtmlLink":"reintroduce --ASSUME_SORT_ORDER coordinate"}},{"before":"6bee97c7da0c647847b7ae842367cf6d6c20bee4","after":"c9fa254480f5024ad59b7b995a1ec5302d08e0b7","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T15:34:41.220Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"try `--VALIDATION_STRINGENCY LENIENT` for picard markduplicates","shortMessageHtmlLink":"try --VALIDATION_STRINGENCY LENIENT for picard markduplicates"}},{"before":"9002ddfb66d887c2762db6bd7d6e06632ba0d1ff","after":"6bee97c7da0c647847b7ae842367cf6d6c20bee4","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T14:58:56.345Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"explicitly specify sort order for picard markduplicates","shortMessageHtmlLink":"explicitly specify sort order for picard markduplicates"}},{"before":"69d4d82772ab528aaafd4910b50d7c4828e2c165","after":"9002ddfb66d887c2762db6bd7d6e06632ba0d1ff","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T13:35:29.866Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"further picard argument parsing syntax update","shortMessageHtmlLink":"further picard argument parsing syntax update"}},{"before":"d38c2d37768ddac4f8047929f2fc79760ff661d2","after":"69d4d82772ab528aaafd4910b50d7c4828e2c165","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T12:54:03.984Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"update picard extra argument specification syntax","shortMessageHtmlLink":"update picard extra argument specification syntax"}},{"before":"ba2c18f27e02df5f4fbf54b8f650055129b4997f","after":"d38c2d37768ddac4f8047929f2fc79760ff661d2","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T12:05:23.448Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"update syntax for newer picard markduplicates wrapper","shortMessageHtmlLink":"update syntax for newer picard markduplicates wrapper"}},{"before":"d319afc35ba61a1a3d83e02da75b0749baae7443","after":"ba2c18f27e02df5f4fbf54b8f650055129b4997f","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T09:10:49.741Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"adjust bwa index wrapper syntax to newer version","shortMessageHtmlLink":"adjust bwa index wrapper syntax to newer version"}},{"before":"7d9a97e27704055f2d2bb25ff00426e4207f9a71","after":"d319afc35ba61a1a3d83e02da75b0749baae7443","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T07:50:31.105Z","pushType":"push","commitsCount":2,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"adjust tabix index wrapper to new tabix wrapper substrucutre","shortMessageHtmlLink":"adjust tabix index wrapper to new tabix wrapper substrucutre"}},{"before":"1a0ba6630befb43262f0a503e8ac0b97de6be80c","after":"7d9a97e27704055f2d2bb25ff00426e4207f9a71","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-07T07:18:09.867Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"update all wrappers to latest version","shortMessageHtmlLink":"update all wrappers to latest version"}},{"before":"632c8479e8905420df6a9a31faee7c57ca234bd6","after":"1a0ba6630befb43262f0a503e8ac0b97de6be80c","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-06T20:34:12.972Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"update multiqc wrapper version","shortMessageHtmlLink":"update multiqc wrapper version"}},{"before":"933cdb9bcbd8f63f9e7ca36aefb0806e294c3f95","after":"632c8479e8905420df6a9a31faee7c57ca234bd6","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-06T19:41:55.140Z","pushType":"push","commitsCount":1,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"snakefmt","shortMessageHtmlLink":"snakefmt"}},{"before":"958f9ef3d672d47bf70c2edec30ebf5c865acd71","after":null,"ref":"refs/heads/update-ci","pushedAt":"2023-06-06T19:38:29.363Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"}},{"before":"10c4ba230e81b722d83d2471575d53067e59a628","after":"933cdb9bcbd8f63f9e7ca36aefb0806e294c3f95","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-06T19:35:38.920Z","pushType":"push","commitsCount":2,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"Merge branch 'update-ci' into fix-issue-39-read-table-squeeze-deprecation","shortMessageHtmlLink":"Merge branch 'update-ci' into fix-issue-39-read-table-squeeze-depreca…"}},{"before":null,"after":"958f9ef3d672d47bf70c2edec30ebf5c865acd71","ref":"refs/heads/update-ci","pushedAt":"2023-06-06T12:30:28.224Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"update GitHub Actions workflow to use newer Actions versions","shortMessageHtmlLink":"update GitHub Actions workflow to use newer Actions versions"}},{"before":null,"after":"10c4ba230e81b722d83d2471575d53067e59a628","ref":"refs/heads/fix-issue-39-read-table-squeeze-deprecation","pushedAt":"2023-06-06T11:14:05.174Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dlaehnemann","name":"David Laehnemann","path":"/dlaehnemann","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1379875?s=80&v=4"},"commit":{"message":"fix: stop using deprecated pd.read_table argument squeeze\n\nInstead, use the `.squeeze(\"columns\")` function, as for example done here:\r\nhttps://github.com/sktime/sktime/pull/2693/files","shortMessageHtmlLink":"fix: stop using deprecated pd.read_table argument squeeze"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAADPT_qrAA","startCursor":null,"endCursor":null}},"title":"Activity · snakemake-workflows/dna-seq-gatk-variant-calling"}