{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":9461072,"defaultBranch":"develop","name":"plant","ownerLogin":"traitecoevo","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2013-04-16T00:30:53.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/11747619?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1709078081.0","currentOid":""},"activityList":{"items":[{"before":"800f00f50296809f63882b5163660a4c1dea156b","after":"2bc510641c1aba90a29118cd3471f9d974d71ecb","ref":"refs/heads/time-varying-drivers","pushedAt":"2024-02-28T02:59:50.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Fix argument order","shortMessageHtmlLink":"Fix argument order"}},{"before":null,"after":"f138303224bb15b52c735f225b27ca6fa2e501d2","ref":"refs/heads/fix-turnover","pushedAt":"2024-02-27T23:54:41.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Fix order of inputs in net_mass_production_dt","shortMessageHtmlLink":"Fix order of inputs in net_mass_production_dt"}},{"before":"889ea7c2f2b593750e195b6f174b1e6a9cc7bb8f","after":"800f00f50296809f63882b5163660a4c1dea156b","ref":"refs/heads/time-varying-drivers","pushedAt":"2024-02-27T23:43:14.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Add grazing effect on leaf turnover","shortMessageHtmlLink":"Add grazing effect on leaf turnover"}},{"before":"b4fbf2e618125eaf7396b9ba3aead9f384b24740","after":"863917e6103e1392ceeb0c4664c1c5e2a397b5b8","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-21T01:21:48.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"itowers1","name":null,"path":"/itowers1","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39288928?s=80&v=4"},"commit":{"message":"Update time_comparison_FF16_TF24.R","shortMessageHtmlLink":"Update time_comparison_FF16_TF24.R"}},{"before":"0ed71c8bd6d4d2b6db555f3371499e9978feb7b7","after":"b4fbf2e618125eaf7396b9ba3aead9f384b24740","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-16T05:46:05.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"itowers1","name":null,"path":"/itowers1","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39288928?s=80&v=4"},"commit":{"message":"remove bartlett","shortMessageHtmlLink":"remove bartlett"}},{"before":"becb153b408dd82995ccda9ab884f13cb6557a7c","after":"0ed71c8bd6d4d2b6db555f3371499e9978feb7b7","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-15T04:56:11.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"itowers1","name":null,"path":"/itowers1","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39288928?s=80&v=4"},"commit":{"message":"drop number of depths for test to increase speed","shortMessageHtmlLink":"drop number of depths for test to increase speed"}},{"before":"7bd2df1900d70a23275d1a61ae57c6b7571a3a49","after":"becb153b408dd82995ccda9ab884f13cb6557a7c","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-15T04:42:33.000Z","pushType":"push","commitsCount":15,"pusher":{"login":"itowers1","name":null,"path":"/itowers1","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39288928?s=80&v=4"},"commit":{"message":"Merge branch 'tf24_strategy' of https://github.com/traitecoevo/plant into tf24_strategy","shortMessageHtmlLink":"Merge branch 'tf24_strategy' of https://github.com/traitecoevo/plant …"}},{"before":"47bc412a940a1831b11cb3a9e46319bd28f600ad","after":"889ea7c2f2b593750e195b6f174b1e6a9cc7bb8f","ref":"refs/heads/time-varying-drivers","pushedAt":"2024-02-14T07:26:59.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Pass threshold as param (remove cludge)","shortMessageHtmlLink":"Pass threshold as param (remove cludge)"}},{"before":"e65de5da32cac204ce7c01840ca4fd2afcf407e3","after":"47bc412a940a1831b11cb3a9e46319bd28f600ad","ref":"refs/heads/time-varying-drivers","pushedAt":"2024-02-14T01:44:27.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Add size threshold to mortality (cludge)","shortMessageHtmlLink":"Add size threshold to mortality (cludge)"}},{"before":"9e8b173f7bfd511387f8073a109bba4ba4e3664d","after":null,"ref":"refs/heads/time-varying","pushedAt":"2024-02-14T01:41:31.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"}},{"before":null,"after":"9e8b173f7bfd511387f8073a109bba4ba4e3664d","ref":"refs/heads/time-varying","pushedAt":"2024-02-14T01:32:57.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"aornugent","name":"Andrew O'Reilly-Nugent","path":"/aornugent","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/20387761?s=80&v=4"},"commit":{"message":"Add size threshold to mortality (cludge)","shortMessageHtmlLink":"Add size threshold to mortality (cludge)"}},{"before":"2adb90f41fd77b278d18b12b93a3e0416f17e3a7","after":"7bd2df1900d70a23275d1a61ae57c6b7571a3a49","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-13T06:34:18.000Z","pushType":"push","commitsCount":9,"pusher":{"login":"itowers1","name":null,"path":"/itowers1","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39288928?s=80&v=4"},"commit":{"message":"update control.cpp and tests","shortMessageHtmlLink":"update control.cpp and tests"}},{"before":"2f54741b9f3dcf472f3b7719aac6219aa08490f9","after":"2adb90f41fd77b278d18b12b93a3e0416f17e3a7","ref":"refs/heads/develop","pushedAt":"2024-02-11T23:36:13.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Create new strategy using scaffolder","shortMessageHtmlLink":"Create new strategy using scaffolder"}},{"before":null,"after":"2adb90f41fd77b278d18b12b93a3e0416f17e3a7","ref":"refs/heads/tf24_strategy","pushedAt":"2024-02-11T23:00:11.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Create new strategy using scaffolder","shortMessageHtmlLink":"Create new strategy using scaffolder"}},{"before":"dbe2c29583f1339df847b7d8279f028dfad8b5a5","after":null,"ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-07T07:22:05.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"}},{"before":"5f4d84909316b41823cdf7210597f1e123e8e409","after":"2f54741b9f3dcf472f3b7719aac6219aa08490f9","ref":"refs/heads/develop","pushedAt":"2024-02-07T07:22:01.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Remove fitness functions, consolidate vignettes (#388)\n\nAll fitness related functions are moving to package {plant.assembly}.\r\nThis will simplify what is presented in this package.\r\n\r\nThis PR\r\n\r\n- removes functions: `fitness_landscape`, `solve_max_fitness`,\r\n`viable_fitness`, `fundamental_fitness`, `assembly_parameters`,\r\n`equilibrium_birth_rate`\r\n- removes all parameters/controls related to the above, i.e.\r\n`equilibrium_*`\r\n- removes the slow vignettes, that takes ages to build (these mostly\r\nrelated to fitness functions)\r\n\r\nAdditionally\r\n\r\n- remove dockerfile and scripts (not being used and way out of date)\r\n- remove folder `inst/slow_vignettes` (no longer needed)\r\n- reinstate vignettes in the build (so we can regularly check they run)\r\n- fix errors in vignettes that arose from run not running them as part\r\nof build","shortMessageHtmlLink":"Remove fitness functions, consolidate vignettes (#388)"}},{"before":"736fa2f681273ca98311ceaec9b5d4a7913feae3","after":"dbe2c29583f1339df847b7d8279f028dfad8b5a5","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-05T02:50:04.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Revert change\n\n[skip ci]","shortMessageHtmlLink":"Revert change"}},{"before":"f7c112e2c0f48e1e0887fe4d04d28a7d7f9dd282","after":"736fa2f681273ca98311ceaec9b5d4a7913feae3","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-05T01:54:09.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"More bugs","shortMessageHtmlLink":"More bugs"}},{"before":"e2ae99bbcf507c7b12885ea2f3964ca9f27a2a31","after":"f7c112e2c0f48e1e0887fe4d04d28a7d7f9dd282","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-05T00:57:41.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Bugfix: eval =FALSE","shortMessageHtmlLink":"Bugfix: eval =FALSE"}},{"before":"3c7e5de5bd1bb110a6bc810789222e0b8194ea87","after":"e2ae99bbcf507c7b12885ea2f3964ca9f27a2a31","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-05T00:41:07.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"dplyr::as_tibble","shortMessageHtmlLink":"dplyr::as_tibble"}},{"before":"c9cc6b5a444c67dd5e841b55e8c2cdd5ca062bf8","after":"3c7e5de5bd1bb110a6bc810789222e0b8194ea87","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-05T00:30:55.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Remove dependancy on readr","shortMessageHtmlLink":"Remove dependancy on readr"}},{"before":"6307202e3f5aa73fa14b010c7bc962db754ed07f","after":"c9cc6b5a444c67dd5e841b55e8c2cdd5ca062bf8","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-04T23:55:25.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Remove lingering bits","shortMessageHtmlLink":"Remove lingering bits"}},{"before":"1794eb718ca5a7350ade7faa4ca886f2e400fbe5","after":"6307202e3f5aa73fa14b010c7bc962db754ed07f","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-02T06:32:47.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Remove equilibirum and fitness R methods","shortMessageHtmlLink":"Remove equilibirum and fitness R methods"}},{"before":"e7706e2414846b176f4f69da5591379808f91e9a","after":"1794eb718ca5a7350ade7faa4ca886f2e400fbe5","ref":"refs/heads/update-fitness-assembly","pushedAt":"2024-02-02T06:09:53.000Z","pushType":"push","commitsCount":10,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Ensure figures have names","shortMessageHtmlLink":"Ensure figures have names"}},{"before":"e2ba836a90c37d601c59f9b2984874b7117e98e6","after":"5f4d84909316b41823cdf7210597f1e123e8e409","ref":"refs/heads/develop","pushedAt":"2024-02-01T21:32:36.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Remove extra redundant CI\n\nThis workflow isn't needed, as we're already runnign tests as part of RCMD check\n\n[ci skip]","shortMessageHtmlLink":"Remove extra redundant CI"}},{"before":"f47ae9063fe0a010131625cbece7752665a8b823","after":null,"ref":"refs/heads/clarify_canopy_methods","pushedAt":"2024-02-01T21:29:14.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"}},{"before":"dffb3de75a191717f8c32f6a209c82d054f3451d","after":"e2ba836a90c37d601c59f9b2984874b7117e98e6","ref":"refs/heads/develop","pushedAt":"2024-02-01T21:29:10.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Clarify methods used to create spline of light environment and calculate assimilation (#384)\n\nThis PR attempts to simplify the language and methods used to both\r\n\r\n- calculate the splines of light availability within the canopy\r\n- calculate a plants assimilation, integrating over these splines.\r\n\r\nEach of the above uses some numerical methods, and the language used for\r\nthese was not very clear. There were also some options that were not\r\nreally needed.\r\n\r\nChanges include\r\n\r\n- renamed things to do with `canopy` -> `light_availability` (canopy was\r\ntoo vague)\r\n - [x] `canopy.h` -> `resource_spline.h` (generalised)\r\n-[x] also pass in full function to integrator, so can simplify and\r\ngeneralise `Resource_spline` (though currently limited on scale 0-1, see\r\n#385 )\r\n- [x] `canopy.compute_canopy` ->\r\n`light_availability.compute_environment` (consistent with names\r\nelsewhere)\r\n- [x] control variables `canopy_light_*` ->\r\n`light_availability_spline_*`\r\n- [x] `canopy::set_fixed_canopy` ->\r\n`light_availability::set_fixed_value`\r\n- [x] `get_canopy_at_height` & `canopy_openness` ->\r\n`get_value_at_height`\r\n- removed\r\n- [x] options for adaptive integration of assimilation, reusing\r\nintervals\r\n- [x] assimiolation class, preferable to call integrator straight from\r\nwithin strategy","shortMessageHtmlLink":"Clarify methods used to create spline of light environment and calcul…"}},{"before":"faa61517f7eb1b39b21b48446922f18bccb48ff7","after":"f47ae9063fe0a010131625cbece7752665a8b823","ref":"refs/heads/clarify_canopy_methods","pushedAt":"2024-02-01T01:21:54.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Address PR reviews: spelling mistakes; Resource_spline -> ResourceSpline","shortMessageHtmlLink":"Address PR reviews: spelling mistakes; Resource_spline -> ResourceSpline"}},{"before":"479741e19df4cc1fc028b6f1b973ea4bfe292a85","after":"faa61517f7eb1b39b21b48446922f18bccb48ff7","ref":"refs/heads/clarify_canopy_methods","pushedAt":"2024-01-30T03:15:59.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Bugfix in vignette","shortMessageHtmlLink":"Bugfix in vignette"}},{"before":"ab96603fc2f6e61541b1e53812f2c0d7376e8a3c","after":"479741e19df4cc1fc028b6f1b973ea4bfe292a85","ref":"refs/heads/clarify_canopy_methods","pushedAt":"2024-01-30T01:06:35.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"dfalster","name":"Daniel Falster","path":"/dfalster","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3589590?s=80&v=4"},"commit":{"message":"Revert \"Disable slow tests\"\n\nThis reverts commit 77c236dba66674a4eedba41148d99243639a2517.","shortMessageHtmlLink":"Revert \"Disable slow tests\""}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAEByxRKQA","startCursor":null,"endCursor":null}},"title":"Activity · traitecoevo/plant"}