{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":154495384,"defaultBranch":"master","name":"thapbi-pict","ownerLogin":"HuttonICS","currentUserCanPush":false,"isFork":true,"isEmpty":false,"createdAt":"2018-10-24T12:15:36.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/19263784?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1616583186.7966259","currentOid":""},"activityList":{"items":[{"before":"aa48043baf79c45785d3dc9df502e74e4a405662","after":"50c430910600b7251ce911202d124929ab4300e6","ref":"refs/heads/master","pushedAt":"2024-09-21T04:05:08.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Be consistent in dropping leading v from versions\n\nAlso update the examples to the latest available\non Intel macOS (leaving vsearch aside where the\ndoctest is now marked to be skipped).\n\nTested locally using:\n\n$ pytest -v --doctest-modules thapbi_pict/*.py","shortMessageHtmlLink":"Be consistent in dropping leading v from versions"}},{"before":"2ab3f7030397e3baf93f520adc2060de133bf5f9","after":"aa48043baf79c45785d3dc9df502e74e4a405662","ref":"refs/heads/master","pushedAt":"2024-09-14T04:05:00.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Return Session instance from connect_to_db\n\nThis is an API change to simplify the typical usage.\nMatches the approach used in pyani-plus.","shortMessageHtmlLink":"Return Session instance from connect_to_db"}},{"before":"a9f940e79c575b8ea479436ac4e748eb219dd13c","after":"2ab3f7030397e3baf93f520adc2060de133bf5f9","ref":"refs/heads/master","pushedAt":"2024-09-10T04:04:59.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Releasing v1.0.16 today","shortMessageHtmlLink":"Releasing v1.0.16 today"}},{"before":"bc3d57ca1a8abbd80f7b83cb873455d8702d7239","after":"a9f940e79c575b8ea479436ac4e748eb219dd13c","ref":"refs/heads/master","pushedAt":"2024-09-07T04:05:00.000Z","pushType":"push","commitsCount":9,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Dicard zero-abundance ASV via requires-metadata\n\nIf using -r to only report on samples with metadata,\nthe report still included ASVs (in the read report)\nor species columns (in the samples report) of zero\nwhich would have shown the no-metadata sample info.\n\nApplies the same logic used in scripts/sample_filter.py","shortMessageHtmlLink":"Dicard zero-abundance ASV via requires-metadata"}},{"before":"04fe7465ac19711a3ee5752ce5cf153b9b0dd90f","after":"bc3d57ca1a8abbd80f7b83cb873455d8702d7239","ref":"refs/heads/master","pushedAt":"2024-09-06T04:05:04.000Z","pushType":"push","commitsCount":14,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":" Releasing v1.0.15 today, 2024-09-05","shortMessageHtmlLink":" Releasing v1.0.15 today, 2024-09-05"}},{"before":"f9248806567ec1fdcfe192f5316100f96290ffdd","after":"04fe7465ac19711a3ee5752ce5cf153b9b0dd90f","ref":"refs/heads/master","pushedAt":"2024-09-05T04:04:58.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Revert using archive.org for FLASH win binaries\n\nIt sometimes timed out, and the original site is live again.","shortMessageHtmlLink":"Revert using archive.org for FLASH win binaries"}},{"before":"eef6b06f9b147d4aa3285fdfee257ce93da2b336","after":"f9248806567ec1fdcfe192f5316100f96290ffdd","ref":"refs/heads/master","pushedAt":"2024-09-03T04:04:56.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"[pre-commit.ci] autoupdate\n\nupdates:\n- [github.com/scop/pre-commit-shfmt: v3.8.0-1 → v3.9.0-1](https://github.com/scop/pre-commit-shfmt/compare/v3.8.0-1...v3.9.0-1)\n- [github.com/astral-sh/ruff-pre-commit: v0.5.6 → v0.6.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.5.6...v0.6.3)\n- [github.com/PyCQA/doc8: v1.1.1 → v1.1.2](https://github.com/PyCQA/doc8/compare/v1.1.1...v1.1.2)\n- [github.com/pre-commit/mirrors-mypy: v1.11.1 → v1.11.2](https://github.com/pre-commit/mirrors-mypy/compare/v1.11.1...v1.11.2)","shortMessageHtmlLink":"[pre-commit.ci] autoupdate"}},{"before":"450101e5a94d9bb0be0576a884af4a3ade825fa0","after":"eef6b06f9b147d4aa3285fdfee257ce93da2b336","ref":"refs/heads/master","pushedAt":"2024-08-28T05:05:13.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Now have 3 Nothophytophthora synonyms\n\n- Nothophytophthora sp. 'irlandica'\n- Nothophytophthora lirii O'Hanlon, I. Milenkovic & T. Jung, 2021\n- Nothophytophthora sp. 'liri'","shortMessageHtmlLink":"Now have 3 Nothophytophthora synonyms"}},{"before":"321f1a7adff0861a91d46e85b895a5adbebfa3c7","after":"450101e5a94d9bb0be0576a884af4a3ade825fa0","ref":"refs/heads/master","pushedAt":"2024-08-27T05:06:11.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Releasing v1.0.14 today, 2024-08-26","shortMessageHtmlLink":"Releasing v1.0.14 today, 2024-08-26"}},{"before":"4894d5069bb2a4922b16fba6ed6d6dd1e063acdf","after":"321f1a7adff0861a91d46e85b895a5adbebfa3c7","ref":"refs/heads/master","pushedAt":"2024-08-14T04:04:59.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Avoid bad combination of NetworkX and pydot (#637)\n\nSee notes on #635 , this is a short term fix\r\n\r\nShould close #638","shortMessageHtmlLink":"Avoid bad combination of NetworkX and pydot (peterjc#637)"}},{"before":"4d3f0b5b9a16037060ea1c3f85580679dce3cfcb","after":"4894d5069bb2a4922b16fba6ed6d6dd1e063acdf","ref":"refs/heads/master","pushedAt":"2024-08-12T04:05:11.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"[pre-commit.ci] autoupdate\n\nupdates:\n- [github.com/astral-sh/ruff-pre-commit: v0.5.0 → v0.5.6](https://github.com/astral-sh/ruff-pre-commit/compare/v0.5.0...v0.5.6)\n- [github.com/PyCQA/flake8: 7.1.0 → 7.1.1](https://github.com/PyCQA/flake8/compare/7.1.0...7.1.1)\n- [github.com/rstcheck/rstcheck: v6.2.0 → v6.2.4](https://github.com/rstcheck/rstcheck/compare/v6.2.0...v6.2.4)\n- [github.com/pre-commit/mirrors-mypy: v1.10.1 → v1.11.1](https://github.com/pre-commit/mirrors-mypy/compare/v1.10.1...v1.11.1)","shortMessageHtmlLink":"[pre-commit.ci] autoupdate"}},{"before":"39e48f6b1b1ae8758001f38f79c2fbba45360d33","after":"4d3f0b5b9a16037060ea1c3f85580679dce3cfcb","ref":"refs/heads/master","pushedAt":"2024-07-10T04:05:52.000Z","pushType":"push","commitsCount":6,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Improve logging with multiple markers\n\nCurrently testing with two markers where have\nsynthetic controls for both.","shortMessageHtmlLink":"Improve logging with multiple markers"}},{"before":"9ac8b1724a66a45eca72ee0c13555bf241e3cc63","after":"39e48f6b1b1ae8758001f38f79c2fbba45360d33","ref":"refs/heads/master","pushedAt":"2024-07-03T05:07:37.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"[pre-commit.ci] autoupdate\n\nupdates:\n- [github.com/astral-sh/ruff-pre-commit: v0.4.10 → v0.5.0](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.10...v0.5.0)\n- [github.com/asottile/blacken-docs: 1.16.0 → 1.18.0](https://github.com/asottile/blacken-docs/compare/1.16.0...1.18.0)","shortMessageHtmlLink":"[pre-commit.ci] autoupdate"}},{"before":"7e07632b89471c38d147e6bbd9218c90e379ba53","after":"9ac8b1724a66a45eca72ee0c13555bf241e3cc63","ref":"refs/heads/master","pushedAt":"2024-07-02T05:06:27.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Correct 'fix' for SC2086","shortMessageHtmlLink":"Correct 'fix' for SC2086"}},{"before":"e0acc3ac800f56840fd41f723937ef54b7bb12a4","after":"7e07632b89471c38d147e6bbd9218c90e379ba53","ref":"refs/heads/master","pushedAt":"2024-07-01T05:06:33.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Update tests","shortMessageHtmlLink":"Update tests"}},{"before":"4b830f5cc9500854a15280877d5ae1be18abd78b","after":"e0acc3ac800f56840fd41f723937ef54b7bb12a4","ref":"refs/heads/master","pushedAt":"2024-06-21T05:07:14.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Avoiding piping with cutadapt\n\nThis should sidestep the currently unexplained regression with\ncutadapt on Windows not handling stdin any more (isse #627).","shortMessageHtmlLink":"Avoiding piping with cutadapt"}},{"before":"926cc5008da35c00846b86b8d311d01cf6226e48","after":"4b830f5cc9500854a15280877d5ae1be18abd78b","ref":"refs/heads/master","pushedAt":"2024-06-18T05:08:06.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"More explicit git diff command on CircleCI\n\nThis might help if CircleCI did something different\nin how they checkout the latest version.","shortMessageHtmlLink":"More explicit git diff command on CircleCI"}},{"before":"31ed2af408213b2d0dd8280bc6beed0b9d5c36c0","after":"926cc5008da35c00846b86b8d311d01cf6226e48","ref":"refs/heads/master","pushedAt":"2024-06-07T05:07:59.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Just check database/ITS1_DB.fasta unchanged on CircleCI\n\nShould help with an apparent timeout","shortMessageHtmlLink":"Just check database/ITS1_DB.fasta unchanged on CircleCI"}},{"before":"fc9dd758beaf9db7a48b727ce7fe91952c4d3821","after":"31ed2af408213b2d0dd8280bc6beed0b9d5c36c0","ref":"refs/heads/master","pushedAt":"2024-05-23T05:06:15.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Release 1.0.13 today","shortMessageHtmlLink":"Release 1.0.13 today"}},{"before":"2037524fe39d83a3b900316e8f42c12564a11996","after":"fc9dd758beaf9db7a48b727ce7fe91952c4d3821","ref":"refs/heads/master","pushedAt":"2024-05-07T04:05:48.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"[pre-commit.ci] autoupdate\n\nupdates:\n- [github.com/pre-commit/pre-commit-hooks: v4.5.0 → v4.6.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.5.0...v4.6.0)\n- [github.com/astral-sh/ruff-pre-commit: v0.3.4 → v0.4.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.3.4...v0.4.3)\n- [github.com/pre-commit/mirrors-mypy: v1.9.0 → v1.10.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.9.0...v1.10.0)","shortMessageHtmlLink":"[pre-commit.ci] autoupdate"}},{"before":"d3e312cebc56381905b31bd4139fa5d6a4f47d4c","after":"2037524fe39d83a3b900316e8f42c12564a11996","ref":"refs/heads/master","pushedAt":"2024-04-15T13:57:56.000Z","pushType":"push","commitsCount":22,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Rebuild DB with updated Oomycota_ITS1_obs.fasta","shortMessageHtmlLink":"Rebuild DB with updated Oomycota_ITS1_obs.fasta"}},{"before":"b916078b58463dece9609d2a59931e3391c6a122","after":"d3e312cebc56381905b31bd4139fa5d6a4f47d4c","ref":"refs/heads/master","pushedAt":"2024-03-25T16:07:08.000Z","pushType":"push","commitsCount":16,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"drop flake8-sfs as now more or less redundant\n\nWe were using this to enforce SFS201, SFS202 only.\ni.e. To block the use of the format method.\n\nThis is effectively handled via ruff UP032 instead.\n\nIndeed, if we enabled UP031 we could use that to\navoid (most) old-style percent formatting SFS101.","shortMessageHtmlLink":"drop flake8-sfs as now more or less redundant"}},{"before":"7369a7d66213175888550d0d3f9b3118db80ad5a","after":"b916078b58463dece9609d2a59931e3391c6a122","ref":"refs/heads/master","pushedAt":"2024-03-19T15:04:37.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Clarify v1.0.8 changes and link to release notes","shortMessageHtmlLink":"Clarify v1.0.8 changes and link to release notes"}},{"before":"74398f1e4f5fc0aab1d549566eef80678e87cc35","after":"7369a7d66213175888550d0d3f9b3118db80ad5a","ref":"refs/heads/master","pushedAt":"2024-03-14T11:27:41.000Z","pushType":"push","commitsCount":21,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"ftp.ncbi.nih.gov --> ftp.ncbi.nlm.nih.gov\n\nThe old domain isn't currently resolving","shortMessageHtmlLink":"ftp.ncbi.nih.gov --> ftp.ncbi.nlm.nih.gov"}},{"before":"0bba305ace521b7004bc530d57b55140b1948e11","after":"74398f1e4f5fc0aab1d549566eef80678e87cc35","ref":"refs/heads/master","pushedAt":"2024-03-06T13:14:08.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Change the metavar to match","shortMessageHtmlLink":"Change the metavar to match"}},{"before":"c894295965c59030e4060a252d66d01044d3c09c","after":"0bba305ace521b7004bc530d57b55140b1948e11","ref":"refs/heads/master","pushedAt":"2024-03-05T17:01:08.000Z","pushType":"push","commitsCount":20,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Will try to release v1.0.11 today with BIOM work","shortMessageHtmlLink":"Will try to release v1.0.11 today with BIOM work"}},{"before":"8d6dcc5c2521a49d5e104943e3cdf85fb2e83454","after":"c894295965c59030e4060a252d66d01044d3c09c","ref":"refs/heads/master","pushedAt":"2024-02-29T11:08:50.000Z","pushType":"push","commitsCount":11,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Move utils.color_bands to summary.color_bands\n\nHaving this under utils made sense when the read\nand sample report files were generated from two\ndifferent Python files. Now only used in one.","shortMessageHtmlLink":"Move utils.color_bands to summary.color_bands"}},{"before":"db69085c1774992c3e30c5e4febc89ddae25a531","after":"8d6dcc5c2521a49d5e104943e3cdf85fb2e83454","ref":"refs/heads/master","pushedAt":"2024-02-22T14:31:42.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Version bump for v1.0.10 (minor tweaks so far)","shortMessageHtmlLink":"Version bump for v1.0.10 (minor tweaks so far)"}},{"before":"a14001ae24f4b8465536722bfd458129355deef8","after":"db69085c1774992c3e30c5e4febc89ddae25a531","ref":"refs/heads/master","pushedAt":"2024-02-13T18:17:23.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Remove duplicate spaces in sintax parser","shortMessageHtmlLink":"Remove duplicate spaces in sintax parser"}},{"before":"7284b596a54ca4e526dd4ec9733ec4d3a119068c","after":"a14001ae24f4b8465536722bfd458129355deef8","ref":"refs/heads/master","pushedAt":"2024-02-12T20:55:25.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"peterjc","name":"Peter Cock","path":"/peterjc","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/63959?s=80&v=4"},"commit":{"message":"Fix botched merge in gg_to_sintax.py","shortMessageHtmlLink":"Fix botched merge in gg_to_sintax.py"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"Y3Vyc29yOnYyOpK7MjAyNC0wOS0yMVQwNDowNTowOC4wMDAwMDBazwAAAAS8hsO2","startCursor":"Y3Vyc29yOnYyOpK7MjAyNC0wOS0yMVQwNDowNTowOC4wMDAwMDBazwAAAAS8hsO2","endCursor":"Y3Vyc29yOnYyOpK7MjAyNC0wMi0xMlQyMDo1NToyNS4wMDAwMDBazwAAAAP41ySK"}},"title":"Activity · HuttonICS/thapbi-pict"}