{ "_id": "6aeadf8d9ceaa78f2009e5a7", "Package": "plant", "Title": "A Package for Modelling Forest Trait Ecology and Evolution", "Version": "2.0.0.9002", "Authors@R": "c(\nperson(\"Daniel\", \"Falster\", , \"daniel.falster@unsw.edu.au\", c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-9814-092X\")),\nperson(\"Richard\", \"FitzJohn\", , \"\", \"aut\"),\nperson(\"Andrew\", \"O'Reilly-Nugent\", , \"\", \"aut\"),\nperson(\"Isaac\", \"Towers\", , \"\", \"aut\"),\nperson(\"Mitchell\", \"Henry\", , \"\", \"ctb\"),\nperson(\"Rafael\", \"Schouten\", , \"\", \"ctb\"),\nperson(\"John\", \"Wilshire\", , \"\", \"ctb\")\n)", "Maintainer": "Daniel Falster ", "Description": "Solves trait, size and patch structured model from\n(Falster et al. 2016) using either method of characteristics or\nas stochastic, finite-sized population.", "Encoding": "UTF-8", "License": "AGPL (>= 3)", "Remotes": [ "richfitz/RcppR6", "traitecoevo/odelia@v0.10.5", "traitecoevo/phylloptim@v0.26.2" ], "URL": "https://github.com/traitecoevo/plant", "BugReports": "https://github.com/traitecoevo/plant/issues", "Config/roxygen2/version": "8.0.0", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "RoxygenNote": "7.3.3", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://traitecoevo.r-universe.dev", "Date/Publication": "2026-11-04 03:46:31 UTC", "RemoteUrl": "https://github.com/traitecoevo/plant", "RemoteRef": "HEAD", "RemoteSha": "6bf8a4e2f06028a4143086399d4b3de545a887e0", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-11-04 06:58:34 UTC", "User": "root" }, "Author": "Daniel Falster [aut, cre] (ORCID:\n),\nRichard FitzJohn [aut],\nAndrew O'Reilly-Nugent [aut],\nIsaac Towers [aut],\nMitchell Henry [ctb],\nRafael Schouten [ctb],\nJohn Wilshire [ctb]", "_user": "traitecoevo", "_type": "src", "_file": "plant_2.0.0.9002.tar.gz", "_fileid": "https://r2.ropensci.org/92a5abababfe76d276ced2901a06422f46c55e39ffa719da85937a3f20bb57a2", "_filesize": 1340747, "_sha256": "92a5abababfe76d276ced2901a06422f46c55e39ffa719da85937a3f20bb57a2", "_expires": "2027-02-12T07:32:27.000Z", "_created": "2026-11-04T06:58:34.000Z", "_published": "2026-11-04T07:32:29.021Z", "_upstream": "https://github.com/traitecoevo/plant", "_status": "success", "_maintainer": { "name": "Daniel Falster", "email": "daniel.falster@unsw.edu.au", "login": "dfalster", "orcid": "0000-0002-9814-092X", "twitter": "@adaptive_plant", "description": "Associate Professor | @traitecoevo | @nicercode \n| orcid.org/0000-0002-9814-092X | twitter.com/adaptive_plant", "uuid": 3589590 }, "_jobs": [ { "job": 126440672508, "time": 984, "config": "linux-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "13303064852" }, { "job": 126440672513, "time": 809, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "13303138820" }, { "job": 126440672466, "time": 1014, "config": "linux-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13303742461" }, { "job": 126440672539, "time": 977, "config": "linux-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13303188011" }, { "job": 126440672548, "time": 744, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "13303677460" }, { "job": 126440672475, "time": 1553, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "13304281783" }, { "job": 126440672482, "time": 591, "config": "macos-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13303501898" }, { "job": 126440672600, "time": 1362, "config": "macos-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13303199147" }, { "job": 126436147140, "time": 761, "config": "source", "r": "4.6.2", "check": "OK", "artifact": "13302064923" }, { "job": 126440672585, "time": 352, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "13303047579" }, { "job": 126440672630, "time": 1019, "config": "windows-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "13303657456" }, { "job": 126440672499, "time": 864, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "13303377794" }, { "job": 126440672506, "time": 1149, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "13303921058" }, { "job": 126440672586, "time": 989, "config": "windows-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13303880991" }, { "job": 126440672544, "time": 1370, "config": "windows-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13304450798" } ], "_buildurl": "https://github.com/r-universe/traitecoevo/actions/runs/41788481860", "_commit": { "id": "6bf8a4e2f06028a4143086399d4b3de545a887e0", "author": "Daniel Falster ", "committer": "GitHub ", "message": "Sample individuals; integrate birth-date runs over birth date (#722)\n\nThe SCM carries a density per unit ground area, not individual plants.\nSo a sample of plants in a given area (for 3D views of a stand, or for\ncomparing with plot data) had to be drawn outside plant. Totals over the\nsize distribution were a trapezium in height, which overcounts where\ndensity falls steeply, as it does across newly formed cohorts.\n\n`sample_size_distribution(results, area, times)` draws individuals from\na run carried in birth date. They are a Poisson process over birth date\nat the density first seen; each then carries a fixed hazard budget that\ncumulative mortality uses up. At every requested time the number is\nPoisson about the integrated density, and the same individuals persist\nacross times. State is interpolated to each individual's birth date with\na shape-preserving cubic, `pchip()`. With no `times` it returns a\nsnapshot at the end of the run.\n\n`integrate_over_size_distribution()` gains `coordinate`. A run carried\nin birth date (TF24 by default) is now integrated over birth date with\n`pchip()`, which changes its totals; runs carried in height are\nunchanged, and `coordinate = \"height\"` restores the trapezium (see\nNEWS).\n\nCloses #320\n\n🤖 Generated with [Claude Code](https://claude.com/claude-code)\n\n---------\n\nCo-authored-by: Claude Opus 5.5 ", "time": 1793763991 }, "_distro": "resolute", "_host": "GitHub-Actions", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.5.0", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "BH", "role": "LinkingTo" }, { "package": "odelia", "version": "== 0.10.5", "role": "LinkingTo" }, { "package": "phylloptim", "version": "== 0.26.2", "role": "LinkingTo" }, { "package": "Rcpp", "role": "Imports" }, { "package": "R6", "role": "Imports" }, { "package": "logger", "role": "Imports" }, { "package": "crayon", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": 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Internals from plant object", "topics": [ "Internals" ] }, { "page": "interpolate_to_heights", "title": "Interpolate data on size distributions for each species to specific heights at every time point", "topics": [ "interpolate_to_heights" ] }, { "page": "interpolate_to_times", "title": "Interpolate data on size distributions for each species to specific time points", "topics": [ "interpolate_to_times" ] }, { "page": "K93_hyperpar", "title": "Hyperparameter function for K93 physiological model", "topics": [ "K93_hyperpar" ] }, { "page": "K93_Individual", "title": "Create a K93 Individual or Node", "topics": [ "K93_Individual" ] }, { "page": "K93_Pars", "title": "K93 strategy parameters", "topics": [ "K93_Pars" ] }, { "page": "K93_Strategy", "title": "Strategy parameters", "topics": [ "K93_Strategy" ] }, { "page": "Leaf", "title": "Leaf model", "topics": [ "Leaf" ] }, { "page": "make_FF16_hyperpar", "title": "Hyperparameters for FF16 physiological model", "topics": [ "make_FF16_hyperpar" ] }, { "page": "Hyperparameter_functions", "title": "Hyperparameters for physiological model", "topics": [ "hyperpar", "make_hyperpar", "param_hyperpar" ] }, { "page": "make_initial_state", "title": "Build an initial size distribution", "topics": [ "make_initial_state" ] }, { "page": "make_K93_hyperpar", "title": "Hyperparameters for K93 physiological model", "topics": [ "make_K93_hyperpar" ] }, { "page": "make_TF24_hyperpar", "title": "Hyperparameters for TF24 physiological model", "topics": [ "make_TF24f_hyperpar", "make_TF24t_hyperpar", "make_TF24w_hyperpar", "make_TF24_hyperpar" ] }, { "page": "model_version", "title": "Scientific version of a physiological model", "topics": [ "model_id", "model_version" ] }, { "page": "No_Disturbance", "title": "No disturbance regime No_Disturbance_Regime control object", "topics": [ "No_Disturbance" ] }, { "page": "node_schedule_times_default", "title": "Generate Default Node Introduction Times", "topics": [ 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"title": "Series of resource pulses fitted to a daily record", "topics": [ "pulse_series_fit", "pulse_series_markov" ] }, { "page": "pulse_series_poisson", "title": "Series of resource pulses", "topics": [ "pulse_series_poisson", "pulse_series_record", "pulse_series_regular" ] }, { "page": "QK", "title": "Gauss-Kronrod Quadrature", "topics": [ "QK" ] }, { "page": "rainfall_pulse", "title": "A rainfall pulse for TF24.", "topics": [ "rainfall_pulse" ] }, { "page": "resource_compensation_point", "title": "Whole plant light compensation point", "topics": [ "resource_compensation_point" ] }, { "page": "run_plant_benchmarks", "title": "Check performance on current system using package bench", "topics": [ "run_plant_benchmarks" ] }, { "page": "run_scm", "title": "Run SCM", "topics": [ "run_scm" ] }, { "page": "run_stochastic_collect", "title": "Run a stochastic patch, Collecting Output", "topics": [ "run_stochastic_collect" ] }, { "page": "run_until_converged", "title": "Run until the stand's 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