{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":550465803,"defaultBranch":"main","name":"PySAGES","ownerLogin":"yihengwuKP","currentUserCanPush":false,"isFork":true,"isEmpty":false,"createdAt":"2022-10-12T20:19:07.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/39614623?v=4","public":true,"private":false,"isOrgOwned":false},"refInfo":{"name":"","listCacheKey":"v0:1723241089.0","currentOid":""},"activityList":{"items":[{"before":"e759b74fd8d404f9845d60425a8de3b31fee776b","after":"3542073c654e84e524fb79d6c86a1f1da993a322","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-08-10T02:17:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"bug fix: index_mapping creation in remap_indices","shortMessageHtmlLink":"bug fix: index_mapping creation in remap_indices"}},{"before":"1551dda9c3c52d4f37f8ab5b9260413f5da183ac","after":"e759b74fd8d404f9845d60425a8de3b31fee776b","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-08-10T00:21:34.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"reimplement remap_indices by argsort","shortMessageHtmlLink":"reimplement remap_indices by argsort"}},{"before":"f92ccde1698ce41ff2c42b5a1281cf6b40f401d1","after":"1551dda9c3c52d4f37f8ab5b9260413f5da183ac","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-08-09T23:55:04.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"bug fix: change the name from vector_angle to angle","shortMessageHtmlLink":"bug fix: change the name from vector_angle to angle"}},{"before":"1ca2bc302b2b98a6900ce06e5df97d847fd256e8","after":"f92ccde1698ce41ff2c42b5a1281cf6b40f401d1","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-08-09T23:46:18.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"get rid of unused import multicomponent","shortMessageHtmlLink":"get rid of unused import multicomponent"}},{"before":"ca18225354c9f433bff1e3be58200f2258ee49f3","after":"4bf3ac3f41d8447a101466661c4cbdc6c942f29d","ref":"refs/heads/pseudo-inverse","pushedAt":"2024-08-09T23:36:27.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"fix Wp word issue & impl option for other methods","shortMessageHtmlLink":"fix Wp word issue & impl option for other methods"}},{"before":"42ac1aa838a4e0f2b5b9cf96c994b50db0fb8ade","after":"ca18225354c9f433bff1e3be58200f2258ee49f3","ref":"refs/heads/pseudo-inverse","pushedAt":"2024-08-09T22:28:54.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"bug fix: correct assignment of use_np_pinv","shortMessageHtmlLink":"bug fix: correct assignment of use_np_pinv"}},{"before":null,"after":"42ac1aa838a4e0f2b5b9cf96c994b50db0fb8ade","ref":"refs/heads/pseudo-inverse","pushedAt":"2024-08-09T22:04:49.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"add options for using np.linalg.pinv for Wp calc","shortMessageHtmlLink":"add options for using np.linalg.pinv for Wp calc"}},{"before":"a3b30982ba41527c3b60efb59d56e8955f13438f","after":"40e556794a786bc11d5f9d014ae98c9dfc82483f","ref":"refs/heads/main","pushedAt":"2024-08-09T21:52:00.000Z","pushType":"push","commitsCount":10,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"[pre-commit.ci] pre-commit autoupdate (#331)\n\n\nupdates:\n- [github.com/mwouts/jupytext: v1.16.4 → v1.16.4b](https://github.com/mwouts/jupytext/compare/v1.16.4...v1.16.4b)\n","shortMessageHtmlLink":"[pre-commit.ci] pre-commit autoupdate (SSAGESLabs#331)"}},{"before":"6e3457256d1578da86cb48c256bbe436f2c76a30","after":"1ca2bc302b2b98a6900ce06e5df97d847fd256e8","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-17T03:09:37.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"get rid of the dependency of networkx in the eg","shortMessageHtmlLink":"get rid of the dependency of networkx in the eg"}},{"before":"0d1d1f4d046c5d8fd4e96c6d068575e8b3304e56","after":"6e3457256d1578da86cb48c256bbe436f2c76a30","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-16T22:22:17.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"def contacts by filtering 1-4 bonding pairs\n\nupdate the examples, this is simply a better choice of\nthe contacts. Otherwise it contains bonded pairs which\nwill always be there.","shortMessageHtmlLink":"def contacts by filtering 1-4 bonding pairs"}},{"before":"58d9fcea6844a4889aec91704c4e1eabbe8997ef","after":"0d1d1f4d046c5d8fd4e96c6d068575e8b3304e56","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-10T22:01:53.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"bug fix: name issue in ci, check_q.py->check_Q.py","shortMessageHtmlLink":"bug fix: name issue in ci, check_q.py->check_Q.py"}},{"before":"6708dacbd17d3b12e062c79c6218c6eefc00cd43","after":"58d9fcea6844a4889aec91704c4e1eabbe8997ef","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-09T19:23:08.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"correct the path name cv_Q","shortMessageHtmlLink":"correct the path name cv_Q"}},{"before":"e6251f0b9d5fefd81bbea013544d202ac0f3ebc9","after":"6708dacbd17d3b12e062c79c6218c6eefc00cd43","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-09T18:45:37.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"Implement automatic testing of cv q and its deriv","shortMessageHtmlLink":"Implement automatic testing of cv q and its deriv"}},{"before":"d4ac0da9fd98efe01287795a06d327f4574a84c1","after":"e6251f0b9d5fefd81bbea013544d202ac0f3ebc9","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-09T18:43:09.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"bug fix: fix diverging derivs by mask trick","shortMessageHtmlLink":"bug fix: fix diverging derivs by mask trick"}},{"before":"618da3ebc0a2cdb649aaed2a58ccea0f64582139","after":"d4ac0da9fd98efe01287795a06d327f4574a84c1","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-09T17:02:48.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"get rid of unused import in check_force.py","shortMessageHtmlLink":"get rid of unused import in check_force.py"}},{"before":"f255531cdcfac0d13d0f24ad938618b0315bdcb9","after":"618da3ebc0a2cdb649aaed2a58ccea0f64582139","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-09T16:46:21.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"add contacts to the documentation","shortMessageHtmlLink":"add contacts to the documentation"}},{"before":"dc1b088eb8348266b04dc6730fdd37cace56d7b0","after":"f255531cdcfac0d13d0f24ad938618b0315bdcb9","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-07T00:26:44.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"remove unused component cv and rename plot_q.py","shortMessageHtmlLink":"remove unused component cv and rename plot_q.py"}},{"before":"dc1b088eb8348266b04dc6730fdd37cace56d7b0","after":null,"ref":"refs/heads/generalized-angle","pushedAt":"2024-07-06T21:16:49.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"}},{"before":null,"after":"dc1b088eb8348266b04dc6730fdd37cace56d7b0","ref":"refs/heads/Q-vector-angle","pushedAt":"2024-07-06T21:16:49.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"implement angles between two vectors as new cv","shortMessageHtmlLink":"implement angles between two vectors as new cv"}},{"before":"ac5a9ad945f13f6e26f652a6dad7e63ab48ec6f7","after":"19e86a4e4042bb641f523bada989009d490c0c5b","ref":"refs/heads/ermsd","pushedAt":"2024-07-06T21:09:39.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"quick import fixes","shortMessageHtmlLink":"quick import fixes"}},{"before":null,"after":"dc1b088eb8348266b04dc6730fdd37cace56d7b0","ref":"refs/heads/generalized-angle","pushedAt":"2024-06-26T20:13:03.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"implement angles between two vectors as new cv","shortMessageHtmlLink":"implement angles between two vectors as new cv"}},{"before":"2da7c795cc1c4ba7b6eae0183d2aa73d57484387","after":"a3b30982ba41527c3b60efb59d56e8955f13438f","ref":"refs/heads/main","pushedAt":"2024-06-19T17:07:41.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"Implementation of eRMSD (AA), eRMSD (CG) and RMSD (Kabsch) [all unweighted] (#321)\n\n---------\r\n\r\nCo-authored-by: Yezhi Jin \r\nCo-authored-by: Pablo Zubieta <8410335+pabloferz@users.noreply.github.com>","shortMessageHtmlLink":"Implementation of eRMSD (AA), eRMSD (CG) and RMSD (Kabsch) [all unwei…"}},{"before":"c4b98b7193a5bde684ef6b906d5fd147dc22c3c7","after":"ac5a9ad945f13f6e26f652a6dad7e63ab48ec6f7","ref":"refs/heads/ermsd","pushedAt":"2024-06-10T22:00:54.000Z","pushType":"push","commitsCount":24,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"Merge branch 'ermsd' of github.com:yihengwuKP/PySAGES into ermsd","shortMessageHtmlLink":"Merge branch 'ermsd' of github.com:yihengwuKP/PySAGES into ermsd"}},{"before":"0f741dd34eff1a7418863c9e2b25bc51d985ea45","after":"c4b98b7193a5bde684ef6b906d5fd147dc22c3c7","ref":"refs/heads/ermsd","pushedAt":"2024-06-01T00:21:42.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"remove the unused import jax","shortMessageHtmlLink":"remove the unused import jax"}},{"before":"23ea580882c35e25186a82c45f7fc88b96f1d86b","after":"0f741dd34eff1a7418863c9e2b25bc51d985ea45","ref":"refs/heads/ermsd","pushedAt":"2024-05-30T19:36:02.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"change the class name to RMSD in doc","shortMessageHtmlLink":"change the class name to RMSD in doc"}},{"before":"ec7adef593b6c7aaf1149ddbf217c49645ee198e","after":"23ea580882c35e25186a82c45f7fc88b96f1d86b","ref":"refs/heads/ermsd","pushedAt":"2024-05-30T19:30:27.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"add class argument to indicate the rotation algo","shortMessageHtmlLink":"add class argument to indicate the rotation algo"}},{"before":"bc9c4c462bdb8ab980c0bf3290f2f1276ca66302","after":"ec7adef593b6c7aaf1149ddbf217c49645ee198e","ref":"refs/heads/ermsd","pushedAt":"2024-05-28T17:55:48.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"get rid of jit_compile=False for debugging","shortMessageHtmlLink":"get rid of jit_compile=False for debugging"}},{"before":"293fbb795553c7f8434995abf52c7f34a3eef295","after":"bc9c4c462bdb8ab980c0bf3290f2f1276ca66302","ref":"refs/heads/ermsd","pushedAt":"2024-05-26T20:06:49.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"add tetraloop pdb for testing","shortMessageHtmlLink":"add tetraloop pdb for testing"}},{"before":"b2db2c2ce0ec20e6307d23a9d4e1d793d607dfc4","after":"293fbb795553c7f8434995abf52c7f34a3eef295","ref":"refs/heads/ermsd","pushedAt":"2024-05-24T22:36:50.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"fixing documentation","shortMessageHtmlLink":"fixing documentation"}},{"before":"741f2e26837de3a8ca8fdc913d1ca77defab7aee","after":"b2db2c2ce0ec20e6307d23a9d4e1d793d607dfc4","ref":"refs/heads/ermsd","pushedAt":"2024-05-24T21:46:55.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"yihengwuKP","name":"Yiheng Wu","path":"/yihengwuKP","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39614623?s=80&v=4"},"commit":{"message":"Compat option for jax devices","shortMessageHtmlLink":"Compat option for jax devices"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAElsG4RQA","startCursor":null,"endCursor":null}},"title":"Activity · yihengwuKP/PySAGES"}