{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":163188061,"defaultBranch":"master","name":"timemachine","ownerLogin":"proteneer","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2018-12-26T14:25:45.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/2280724?v=4","public":true,"private":false,"isOrgOwned":false},"refInfo":{"name":"","listCacheKey":"v0:1722363254.0","currentOid":""},"activityList":{"items":[{"before":"aea0ed26ab20f7f9fdd0237e28b1a34f2d2613e1","after":"1b70e84025c8f300e67005c56838ca6e40fa228b","ref":"refs/heads/otf_chiral_assertion","pushedAt":"2024-07-31T03:40:06.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Remove ordering dependence in test","shortMessageHtmlLink":"Remove ordering dependence in test"}},{"before":"78859e653f9ade86924c03773485c4f3f87e3b27","after":"aea0ed26ab20f7f9fdd0237e28b1a34f2d2613e1","ref":"refs/heads/otf_chiral_assertion","pushedAt":"2024-07-31T03:20:49.000Z","pushType":"push","commitsCount":10,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Select dummy group assignment that avoids chiral conversion","shortMessageHtmlLink":"Select dummy group assignment that avoids chiral conversion"}},{"before":"76a6dedb9ed459c39ede0f1a5e0e6822f45a9478","after":null,"ref":"refs/heads/bugfix/bisection-benchmarks","pushedAt":"2024-07-30T18:14:14.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"}},{"before":"85bbc9022b2e0dbe551ba24dba2c8aa13d63fe59","after":"3a174e63d32f4813f2d6cf4e9de4a677e6ba7419","ref":"refs/heads/master","pushedAt":"2024-07-30T17:45:41.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Fixes Free Energy benchmarks (#1355)\n\n* Fixes Free Energy benchmarks\r\n\r\n* Using the bisection lambda schedule for all of the edges is going to\r\noverestimate the performance since the number of windows is not exact.\r\nAdded some assertions to be sure that this doesn't happen again","shortMessageHtmlLink":"Fixes Free Energy benchmarks (#1355)"}},{"before":"54f68fc6ece6532303568e123db5af102c805d79","after":"76a6dedb9ed459c39ede0f1a5e0e6822f45a9478","ref":"refs/heads/bugfix/bisection-benchmarks","pushedAt":"2024-07-30T16:20:42.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"PR Feedback: Remove stale comment","shortMessageHtmlLink":"PR Feedback: Remove stale comment"}},{"before":null,"after":"5ef939bca0303a4020536b955494432e934ef9ee","ref":"refs/heads/task/update-property-cache-of-alchemical-mols","pushedAt":"2024-07-29T16:21:35.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Updates property cache of alchemical mols\n\n* Useful if you want to generate fingerprints","shortMessageHtmlLink":"Updates property cache of alchemical mols"}},{"before":null,"after":"78859e653f9ade86924c03773485c4f3f87e3b27","ref":"refs/heads/otf_chiral_assertion","pushedAt":"2024-07-28T15:45:52.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"proteneer","name":"Yutong Zhao","path":"/proteneer","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2280724?s=80&v=4"},"commit":{"message":"WIP","shortMessageHtmlLink":"WIP"}},{"before":"5c8a33798ec73a392ec9d1770fd2981c5881d2ae","after":null,"ref":"refs/heads/task/add-minimization-failure-case","pushedAt":"2024-07-27T04:17:17.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"}},{"before":"4b4c1919d48fa7deea3c0e076ef4287e02e46935","after":"54f68fc6ece6532303568e123db5af102c805d79","ref":"refs/heads/bugfix/bisection-benchmarks","pushedAt":"2024-07-26T18:34:30.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Fixes Free Energy benchmarks\n\n* Using the bisection lambda schedule for all of the edges is going to\noverestimate the performance since the number of windows is not exact.\nAdded some assertions to be sure that this doesn't happen again","shortMessageHtmlLink":"Fixes Free Energy benchmarks"}},{"before":null,"after":"4b4c1919d48fa7deea3c0e076ef4287e02e46935","ref":"refs/heads/bugfix/bisection-benchmarks","pushedAt":"2024-07-26T18:28:48.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Fixes Free Energy benchmarks\n\n* Using the bisection lambda schedule for all of the edges is going to\noverestimate the performance since the number of windows is not exact.\nAdded some assertions to be sure that this doesn't happen again","shortMessageHtmlLink":"Fixes Free Energy benchmarks"}},{"before":"bee0aea176de54280f632740ea54b7fe7b832224","after":"85bbc9022b2e0dbe551ba24dba2c8aa13d63fe59","ref":"refs/heads/master","pushedAt":"2024-07-26T01:22:26.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Add failing test case of minimization (#1351)\n\n* Default xfail to strict\r\n\r\n* Adds toy system demonstrating minimization failure\r\n\r\n* Make sure it only fails with a minimization error\r\n\r\n---------\r\n\r\nCo-authored-by: Josh Fass ","shortMessageHtmlLink":"Add failing test case of minimization (#1351)"}},{"before":"ba0dffb0818c0247351cadc5bd67b961a375bd08","after":"5c8a33798ec73a392ec9d1770fd2981c5881d2ae","ref":"refs/heads/task/add-minimization-failure-case","pushedAt":"2024-07-25T23:55:17.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"PR Feedback: Make test less specific to PFKFB3 case\n\n* Make sure it only fails with a minimization error","shortMessageHtmlLink":"PR Feedback: Make test less specific to PFKFB3 case"}},{"before":"0790759c28de9ede4c55f3c6e77d945f1cc22980","after":"bee0aea176de54280f632740ea54b7fe7b832224","ref":"refs/heads/master","pushedAt":"2024-07-25T23:26:14.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"tkramer-motion","name":null,"path":"/tkramer-motion","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/169847331?s=80&v=4"},"commit":{"message":"Move template instantiation to cu file instead of header (#1354)","shortMessageHtmlLink":"Move template instantiation to cu file instead of header (#1354)"}},{"before":null,"after":"9b07df39a222b2e8851a02bfb47c9621055aceb3","ref":"refs/heads/move_template","pushedAt":"2024-07-25T21:17:23.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"tkramer-motion","name":null,"path":"/tkramer-motion","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/169847331?s=80&v=4"},"commit":{"message":"Move template instantiation to cu file instead of header","shortMessageHtmlLink":"Move template instantiation to cu file instead of header"}},{"before":"84cfe2777e23bb906643a43b153e2f343fb038f1","after":null,"ref":"refs/heads/task/bisection-initial-states","pushedAt":"2024-07-25T21:01:25.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"}},{"before":"5ea753f15b97d41e704d77014a3de2dd5d185eb2","after":"0790759c28de9ede4c55f3c6e77d945f1cc22980","ref":"refs/heads/master","pushedAt":"2024-07-25T21:01:22.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Add lambda schedule tuned to Bisection (#1347)\n\n* Add lambda schedule useful for bisection\r\n\r\n* Not a big deal with vacuum, but in solvent and complex initializing intermediate windows can take 10-20s, so reducing the number of new windows needing to be generated is handy.\r\n\r\n---------\r\n\r\nCo-authored-by: Josh Fass ","shortMessageHtmlLink":"Add lambda schedule tuned to Bisection (#1347)"}},{"before":"31fc06c38d372080e9c99c6a2897a313118c9441","after":"f0909878bc145fbae3495a5622f6628c06f7579f","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T20:59:47.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add logging","shortMessageHtmlLink":"Add logging"}},{"before":"b39cb50d44d058488d699886e2e179c490d06637","after":"31fc06c38d372080e9c99c6a2897a313118c9441","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T20:42:42.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add logging","shortMessageHtmlLink":"Add logging"}},{"before":"eaf13a22787b73f5898f0768e9dea111cd730131","after":"b39cb50d44d058488d699886e2e179c490d06637","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T20:32:50.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Select best end state from all candidates\n\nProbably much too slow, likely need to truncate or filter\ncandidates (or make parameterization much more efficient)","shortMessageHtmlLink":"Select best end state from all candidates"}},{"before":"55c025acaea671ad3341dbcc2cfe06c7b05ab9b8","after":"84cfe2777e23bb906643a43b153e2f343fb038f1","ref":"refs/heads/task/bisection-initial-states","pushedAt":"2024-07-25T19:22:33.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Merge branch 'master' into task/bisection-initial-states","shortMessageHtmlLink":"Merge branch 'master' into task/bisection-initial-states"}},{"before":"d12721cda6a35fbb043424882fb8b752112ec631","after":"eaf13a22787b73f5898f0768e9dea111cd730131","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T19:11:58.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add logging","shortMessageHtmlLink":"Add logging"}},{"before":"adad78d6c6339002a03c50382d4a4b28938052ad","after":"d12721cda6a35fbb043424882fb8b752112ec631","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T19:10:13.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add logging","shortMessageHtmlLink":"Add logging"}},{"before":null,"after":"adad78d6c6339002a03c50382d4a4b28938052ad","ref":"refs/heads/dummy-anchor-selection","pushedAt":"2024-07-25T19:07:34.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add logging","shortMessageHtmlLink":"Add logging"}},{"before":"20054245ecd512317bace7c2f7e7bcc4ecafdae9","after":null,"ref":"refs/heads/task/add-util-to-get-ligand-traj-by-state","pushedAt":"2024-07-25T13:42:01.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"}},{"before":"b127e5758cc1767fa6e4b264063339b273757367","after":"ba0dffb0818c0247351cadc5bd67b961a375bd08","ref":"refs/heads/task/add-minimization-failure-case","pushedAt":"2024-07-25T13:41:53.000Z","pushType":"push","commitsCount":3,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Merge branch 'master' into task/add-minimization-failure-case","shortMessageHtmlLink":"Merge branch 'master' into task/add-minimization-failure-case"}},{"before":"1e5b5799ea4496b65ac9645752dafa6591efa09f","after":"5ea753f15b97d41e704d77014a3de2dd5d185eb2","ref":"refs/heads/master","pushedAt":"2024-07-24T23:19:32.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Add utility to get trajectories by state (#1350)\n\n* Useful for getting the by state trajectories given the extracted\r\nligand trajectories by replica.","shortMessageHtmlLink":"Add utility to get trajectories by state (#1350)"}},{"before":"139d898892e3721b159690c60d30451640afeb57","after":"20054245ecd512317bace7c2f7e7bcc4ecafdae9","ref":"refs/heads/task/add-util-to-get-ligand-traj-by-state","pushedAt":"2024-07-24T21:47:36.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"Merge branch 'master' into task/add-util-to-get-ligand-traj-by-state","shortMessageHtmlLink":"Merge branch 'master' into task/add-util-to-get-ligand-traj-by-state"}},{"before":"edad086932703b212e121b19f60b63f5ae723391","after":null,"ref":"refs/heads/max-connected-components","pushedAt":"2024-07-24T21:47:24.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"}},{"before":"3d18a73ae5bd809a1e1cc3e915d92d6f6edd554e","after":"1e5b5799ea4496b65ac9645752dafa6591efa09f","ref":"refs/heads/master","pushedAt":"2024-07-24T21:46:56.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mcwitt","name":"Matt Wittmann","path":"/mcwitt","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/319411?s=80&v=4"},"commit":{"message":"Add atom mapping arguments to restrict the number of connected components in the core (#1349)","shortMessageHtmlLink":"Add atom mapping arguments to restrict the number of connected compon…"}},{"before":"9aa9739e74459e15b2e27704e391563a088bfd94","after":"139d898892e3721b159690c60d30451640afeb57","ref":"refs/heads/task/add-util-to-get-ligand-traj-by-state","pushedAt":"2024-07-24T20:52:34.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"badisa","name":"Forrest York","path":"/badisa","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/5840832?s=80&v=4"},"commit":{"message":"PR Feedback: Naming consistency","shortMessageHtmlLink":"PR Feedback: Naming consistency"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAEjZ3UUAA","startCursor":null,"endCursor":null}},"title":"Activity · proteneer/timemachine"}