{ "_id": "6a1699b4acfb0bcc41d7d924", "Package": "photosynthesis", "Version": "2.1.5", "Date": "2024-11-23", "Title": "Tools for Plant Ecophysiology & Modeling", "Authors@R": "c(\nperson(\"Joseph\", \"Stinziano\", email = \"josephstinziano@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-7628-4201\")),\nperson(\"Cassaundra\", \"Roback\", email = \"croback@unm.edu\", role = \"aut\"),\nperson(\"Demi\", \"Sargent\", email = \"d.sargent@westernsydney.edu.au\", role = \"aut\"),\nperson(\"Bridget\", \"Murphy\", email = \"bridget.murphy@mail.utoronto.ca\", role = \"aut\"),\nperson(\"Patrick\", \"Hudson\", email = \"hudson.patrick.j@gmail.com\", role = c(\"aut\", \"dtc\")),\nperson(\"Chris\", \"Muir\", email = \"cdmuir@wisc.edu\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-2555-3878\"))\n)", "Description": "Contains modeling and analytical tools for plant\necophysiology. MODELING: Simulate C3 photosynthesis using the\nFarquhar, von Caemmerer, Berry (1980) \nmodel as described in Buckley and Diaz-Espejo (2015)\n. It uses units to ensure that\nparameters are properly specified and transformed before\ncalculations. Temperature response functions get automatically\n\"baked\" into all parameters based on leaf temperature following\nBernacchi et al. (2002) . The package\nincludes boundary layer, cuticular, stomatal, and mesophyll\nconductances to CO2, which each can vary on the upper and lower\nportions of the leaf. Use straightforward functions to simulate\nphotosynthesis over environmental gradients such as\nPhotosynthetic Photon Flux Density (PPFD) and leaf temperature,\nor over trait gradients such as CO2 conductance or\nphotochemistry. ANALYTICAL TOOLS: Fit ACi (Farquhar et al.\n(1980) ) and AQ curves (Marshall &\nBiscoe (1980) ), temperature responses\n(Heskel et al. (2016) ; Kruse et\nal. (2008) , Medlyn et\nal. (2002) , Hobbs et al.\n(2013) ), respiration in the light (Kok\n(1956) , Walker & Ort (2015)\n, Yin et al. (2009)\n, Yin et al. (2011)\n), mesophyll conductance (Harley et al.\n(1992) ), pressure-volume curves\n(Koide et al. (2000) , Sack et\nal. (2003) , Tyree et al.\n(1972) ), hydraulic vulnerability\ncurves (Ogle et al. (2009)\n, Pammenter et al. (1998)\n), and tools for running\nsensitivity analyses particularly for variables with\nuncertainty (e.g. g_mc(), gamma_star(), R_d()).", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.2", "VignetteBuilder": "knitr", "URL": "https://github.com/cdmuir/photosynthesis", "BugReports": "https://github.com/cdmuir/photosynthesis/issues", "Roxygen": "list(markdown = TRUE)", "Config/pak/sysreqs": "libicu-dev libudunits2-dev libx11-dev", "Repository": "https://cdmuir.r-universe.dev", "Date/Publication": "2025-03-07 18:39:05 UTC", "RemoteUrl": "https://github.com/cdmuir/photosynthesis", "RemoteRef": "HEAD", "RemoteSha": "dee21b23e504f908c1acecbdf11033d8218bad67", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-27 07:08:34 UTC", "User": "root" }, "Author": "Joseph Stinziano [aut] (ORCID: ),\nCassaundra Roback [aut],\nDemi Sargent [aut],\nBridget Murphy [aut],\nPatrick Hudson [aut, dtc],\nChris Muir [aut, cre] (ORCID: )", "Maintainer": "Chris Muir ", "MD5sum": "37873396fb3ce5574e079c2087515e4f", "_user": "cdmuir", "_type": "src", "_file": "photosynthesis_2.1.5.tar.gz", "_fileid": "3cd32a9eefceb83188cf0a91d679adb4b1b70426f1faa9a86355af69a65ae510", "_filesize": 1142851, "_sha256": "3cd32a9eefceb83188cf0a91d679adb4b1b70426f1faa9a86355af69a65ae510", "_created": "2026-05-27T07:08:34.000Z", "_published": "2026-05-27T07:13:56.709Z", "_distro": "noble", "_jobs": [ { "job": 78025665915, "time": 195, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7234107738" }, { "job": 78025665884, "time": 195, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7234107702" }, { "job": 78025666015, "time": 149, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7234127975" }, { "job": 78025665901, "time": 122, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7234093261" }, { "job": 78025044733, "time": 270, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7234053261" }, { "job": 78025665833, "time": 151, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7234095447" }, { "job": 78025665854, "time": 149, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7234095075" }, { "job": 78025665857, "time": 140, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7234092499" }, { "job": 78025665946, "time": 144, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7234093541" } ], "_buildurl": "https://github.com/r-universe/cdmuir/actions/runs/26495953566", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cdmuir/photosynthesis", "_commit": { "id": "dee21b23e504f908c1acecbdf11033d8218bad67", "author": "Chris Muir ", "committer": "GitHub ", "message": "Merge pull request #19 from r-quantities/fix\n\nremove deprecated argument names", "time": 1741372745 }, "_maintainer": { "name": "Chris Muir", "email": "cdmuir@wisc.edu", "login": "cdmuir", "orcid": "0000-0003-2555-3878", "description": "Assistant Professor at the University of Wisconsin - Madison. 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