{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":250681688,"defaultBranch":"master","name":"arnie","ownerLogin":"DasLab","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2020-03-28T00:37:14.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/4370142?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1714540317.0","currentOid":""},"activityList":{"items":[{"before":"9e32ade096399440952f52ff297d42f968430069","after":null,"ref":"refs/heads/feat/github-actions-packaging","pushedAt":"2024-05-01T05:11:57.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"}},{"before":"5241e302c58b8521e9b5bf9127a38ea685bf0f4f","after":"04ae74d592c240ceb8a01dfbceff55c6342f7d42","ref":"refs/heads/master","pushedAt":"2024-05-01T05:11:54.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge pull request #37 from DasLab/feat/github-actions-packaging\n\nAdd release workflow for publishing to PyPI via Github Actions","shortMessageHtmlLink":"Merge pull request #37 from DasLab/feat/github-actions-packaging"}},{"before":null,"after":"9e32ade096399440952f52ff297d42f968430069","ref":"refs/heads/feat/github-actions-packaging","pushedAt":"2024-05-01T05:04:31.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Add release workflow for publishing to PyPI via Github Actions","shortMessageHtmlLink":"Add release workflow for publishing to PyPI via Github Actions"}},{"before":"75a6f2d6f7f8e4d7d0a52556fe8cfffbcf143a1b","after":"5241e302c58b8521e9b5bf9127a38ea685bf0f4f","ref":"refs/heads/master","pushedAt":"2024-03-06T01:03:38.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Merge pull request #36 from DasLab/fix_bp_list_to_db\n\nfixed _group_into_non_conflicting_bp","shortMessageHtmlLink":"Merge pull request #36 from DasLab/fix_bp_list_to_db"}},{"before":null,"after":"e30a65ca32e3cd384af3d6a8bccb4d8615240ecd","ref":"refs/heads/fix_bp_list_to_db","pushedAt":"2024-03-05T18:43:36.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"fixed _group_into_non_conflicting_bp","shortMessageHtmlLink":"fixed _group_into_non_conflicting_bp"}},{"before":"52aa3488624f8fb7011c524905742e9804a300d3","after":"75a6f2d6f7f8e4d7d0a52556fe8cfffbcf143a1b","ref":"refs/heads/master","pushedAt":"2023-09-15T21:16:40.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Bump arnie to 0.1.5 for pip distribution","shortMessageHtmlLink":"Bump arnie to 0.1.5 for pip distribution"}},{"before":"ea22445729416bdaa28f7ecd36b55e791ce97510","after":"52aa3488624f8fb7011c524905742e9804a300d3","ref":"refs/heads/master","pushedAt":"2023-09-07T00:26:33.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Fix pfunc to appropriately source EternaFold parameter file","shortMessageHtmlLink":"Fix pfunc to appropriately source EternaFold parameter file"}},{"before":"340df219de6bce747a9b1936b1395bb7a0bad85e","after":"ea22445729416bdaa28f7ecd36b55e791ce97510","ref":"refs/heads/master","pushedAt":"2023-09-01T22:30:16.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Provide default value for TMP in load_packages_locations","shortMessageHtmlLink":"Provide default value for TMP in load_packages_locations"}},{"before":"a3e815fe624ff5ffab3a59dd3c80b34cb4185a40","after":"340df219de6bce747a9b1936b1395bb7a0bad85e","ref":"refs/heads/master","pushedAt":"2023-09-01T21:48:30.000Z","pushType":"pr_merge","commitsCount":4,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge pull request #33 from DasLab/feat/pkg_env_var\n\nSupport package definition via environment variables","shortMessageHtmlLink":"Merge pull request #33 from DasLab/feat/pkg_env_var"}},{"before":"60d16b7689f4689e4950e242108af458919870b5","after":"8c77ea8fb3899553f36adb5e14144e0e52b43a90","ref":"refs/heads/feat/pkg_env_var","pushedAt":"2023-09-01T21:16:42.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Update load_package_locations to make ARNIEFILE optional","shortMessageHtmlLink":"Update load_package_locations to make ARNIEFILE optional"}},{"before":null,"after":"60d16b7689f4689e4950e242108af458919870b5","ref":"refs/heads/feat/pkg_env_var","pushedAt":"2023-09-01T20:28:00.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Update load_package_locations to read environment variables\n\nLoad_package_locations is used in most arnie functions to find the installed packages.\nThis commit enables load_package_locations to also search for specific environment\nvariables that point to installed package paths. This approach operates similarly to\nthe arnie_file, but allows for automatic configuration of some packages, as well\nas environment encapsulation (e.g. different environments could have different\npackage versions installed). The arnie_file is still supported for backwards compatibility.","shortMessageHtmlLink":"Update load_package_locations to read environment variables"}},{"before":"ff19daf00cf0e857e65fc1c98bf2dfea71a126fb","after":"a3e815fe624ff5ffab3a59dd3c80b34cb4185a40","ref":"refs/heads/master","pushedAt":"2023-09-01T19:04:03.000Z","pushType":"pr_merge","commitsCount":6,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge pull request #32 from DasLab/pip_refactor\n\nSupport Pip installation","shortMessageHtmlLink":"Merge pull request #32 from DasLab/pip_refactor"}},{"before":"c5ff44c401a8a6f5b55e94708e56b1fd42d1d1e3","after":"667bc3e5c1a942856c7394fbde0c3f2c9411d78d","ref":"refs/heads/pip_refactor","pushedAt":"2023-09-01T19:03:25.000Z","pushType":"push","commitsCount":7,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge to resolve updates to mfe.py that were not captured in the pip_refactor","shortMessageHtmlLink":"Merge to resolve updates to mfe.py that were not captured in the pip_…"}},{"before":"a166cf80363e6fc0e52024dbff92de68ebf0c3b2","after":"c5ff44c401a8a6f5b55e94708e56b1fd42d1d1e3","ref":"refs/heads/pip_refactor","pushedAt":"2023-09-01T18:46:30.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Update gitignore","shortMessageHtmlLink":"Update gitignore"}},{"before":null,"after":"a166cf80363e6fc0e52024dbff92de68ebf0c3b2","ref":"refs/heads/pip_refactor","pushedAt":"2023-09-01T18:45:14.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Correct package dependencies","shortMessageHtmlLink":"Correct package dependencies"}},{"before":"7edfb559a0fe3c13a530503790df1ca5b62666e4","after":"ff19daf00cf0e857e65fc1c98bf2dfea71a126fb","ref":"refs/heads/master","pushedAt":"2023-08-23T01:21:32.000Z","pushType":"pr_merge","commitsCount":3,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge pull request #30 from mrigankpawagi/master\n\nModify documentation for adding Vienna to arnie file","shortMessageHtmlLink":"Merge pull request #30 from mrigankpawagi/master"}},{"before":"201386586413a7468745fc292cd66c1172492457","after":"7edfb559a0fe3c13a530503790df1ca5b62666e4","ref":"refs/heads/master","pushedAt":"2023-08-22T23:47:21.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"rhiju","name":"Rhiju Das","path":"/rhiju","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/1672331?s=80&v=4"},"commit":{"message":"Merge pull request #31 from mrigankpawagi/mrigank-patch-2\n\nFixed error with file deletion on first run.\r\n\r\nLooks good to me @mrigankpawagi . Thanks!","shortMessageHtmlLink":"Merge pull request #31 from mrigankpawagi/mrigank-patch-2"}},{"before":"db86957b710fc825bc4033639d981b743831fa74","after":"201386586413a7468745fc292cd66c1172492457","ref":"refs/heads/master","pushedAt":"2023-08-21T17:23:39.000Z","pushType":"pr_merge","commitsCount":9,"pusher":{"login":"tkaragianes","name":null,"path":"/tkaragianes","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5233226?s=80&v=4"},"commit":{"message":"Merge pull request #25 from DasLab/2306_bug_fixes\n\n2306 bug fixes","shortMessageHtmlLink":"Merge pull request #25 from DasLab/2306_bug_fixes"}},{"before":"26a9aaf747db0873f9bd43a0bf89df308af64467","after":"c5a4d24c2d27feb81d6b80a98ddbd14def5c41d3","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-07-05T19:15:10.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"in _hungarian, default to add_p_unpaired","shortMessageHtmlLink":"in _hungarian, default to add_p_unpaired"}},{"before":"78341f3275802ac54a62d0ded29a0083493836d4","after":"26a9aaf747db0873f9bd43a0bf89df308af64467","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-07-05T19:12:41.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"in threshknot and hungarian, make min_len_helix=2 default to get rid of single helices","shortMessageHtmlLink":"in threshknot and hungarian, make min_len_helix=2 default to get rid …"}},{"before":"5626e5ede2b851165485f0f1388de5e9db5a0f8c","after":"78341f3275802ac54a62d0ded29a0083493836d4","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-07-05T19:06:16.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"changed hungarian theta default","shortMessageHtmlLink":"changed hungarian theta default"}},{"before":"07f85d5126484d072007773357e96c8b299a8533","after":"5626e5ede2b851165485f0f1388de5e9db5a0f8c","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-06-16T17:20:30.674Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"remove tmp files","shortMessageHtmlLink":"remove tmp files"}},{"before":"2c705844ca4ca55538bb434f825ee024e3dd9cf9","after":"07f85d5126484d072007773357e96c8b299a8533","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-06-16T05:54:59.235Z","pushType":"push","commitsCount":7,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Merge branch 'master' of github.com:DasLab/arnie into 2306_bug_fixes","shortMessageHtmlLink":"Merge branch 'master' of github.com:DasLab/arnie into 2306_bug_fixes"}},{"before":"62d5681d63fbe85abc095bf2c0f2302c93d36569","after":"2c705844ca4ca55538bb434f825ee024e3dd9cf9","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-06-16T05:39:48.701Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"tested the getting started script utilities","shortMessageHtmlLink":"tested the getting started script utilities"}},{"before":"0d11b2c9079b90c652b6634183144cb24b1d45f2","after":"62d5681d63fbe85abc095bf2c0f2302c93d36569","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-06-16T05:21:33.035Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"added minimal pk predictions, see need to integrate whole pk branch","shortMessageHtmlLink":"added minimal pk predictions, see need to integrate whole pk branch"}},{"before":"dfed576357b01d73c366bb34319f5b68b4d09e00","after":"db86957b710fc825bc4033639d981b743831fa74","ref":"refs/heads/master","pushedAt":"2023-06-16T05:09:35.504Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Update mfe_bootstrap.py - correct import","shortMessageHtmlLink":"Update mfe_bootstrap.py - correct import"}},{"before":"b658d199d95c4e7fdde495d03d862ada67a75ee5","after":"dfed576357b01d73c366bb34319f5b68b4d09e00","ref":"refs/heads/master","pushedAt":"2023-06-16T05:08:49.149Z","pushType":"pr_merge","commitsCount":4,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Merge pull request #14 from philpham8/rnastructure-cleanup\n\nClean up temporary SHAPE/DMS files generated during bootstrap iterations","shortMessageHtmlLink":"Merge pull request #14 from philpham8/rnastructure-cleanup"}},{"before":null,"after":"0d11b2c9079b90c652b6634183144cb24b1d45f2","ref":"refs/heads/2306_bug_fixes","pushedAt":"2023-06-16T04:55:42.838Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"updated test files to work and start clean up utils","shortMessageHtmlLink":"updated test files to work and start clean up utils"}},{"before":"64b0ff33361cc18c6382db6443f8e576bf4d212c","after":"b658d199d95c4e7fdde495d03d862ada67a75ee5","ref":"refs/heads/master","pushedAt":"2023-06-16T03:12:59.969Z","pushType":"push","commitsCount":1,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Correct example code in README.md","shortMessageHtmlLink":"Correct example code in README.md"}},{"before":"49b6d9626dcae73e6ae6a396cb814b578636a2bd","after":"4934737c88c74a28fc1d807f6a9a32245032a4b3","ref":"refs/heads/PK","pushedAt":"2023-04-12T18:53:18.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"rkretsch","name":"Rachael Kretsch","path":"/rkretsch","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/16809066?s=80&v=4"},"commit":{"message":"Merge pull request #20 from tkaragianes/patch-1\n\nCorrect min_len_helix parameter","shortMessageHtmlLink":"Merge pull request #20 from tkaragianes/patch-1"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAEPqNrHAA","startCursor":null,"endCursor":null}},"title":"Activity · DasLab/arnie"}