{ "_id": "6a47e29fe06c18f0a652313d", "Package": "plantecophys", "Type": "Package", "Title": "Modelling and Analysis of Leaf Gas Exchange Data", "Version": "1.4-6", "Authors@R": "person(\"Remko\", \"Duursma\", role = c(\"aut\", \"cre\"),email = \"remkoduursma@gmail.com\")", "Description": "Coupled leaf gas exchange model, A-Ci curve simulation and\nfitting, Ball-Berry stomatal conductance models, leaf energy\nbalance using Penman-Monteith, Cowan-Farquhar optimization,\nhumidity unit conversions. See Duursma (2015)\n.", "URL": "https://bitbucket.org/remkoduursma/plantecophys", "BugReports": "https://bitbucket.org/remkoduursma/plantecophys/issues", "License": "GPL", "LazyData": "yes", "RoxygenNote": "7.1.1", "VignetteBuilder": "knitr", "Repository": "https://remkoduursma.r-universe.dev", "Date/Publication": "2025-11-29 16:34:55 UTC", "RemoteUrl": "https://bitbucket.org/remkoduursma/plantecophys", "RemoteRef": "HEAD", "RemoteSha": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "NeedsCompilation": "no", "Packaged": { "Date": "2026-07-03 16:23:04 UTC", "User": "root" }, "Author": "Remko Duursma [aut, cre]", "Maintainer": "Remko Duursma ", "_user": "remkoduursma", "_type": "src", "_file": "plantecophys_1.4-6.tar.gz", "_fileid": "https://r2.ropensci.org/455b115e80df7b6b147977d33842c51bcf23344e468056e544977f3efeca0e7b", "_filesize": 535514, "_sha256": "455b115e80df7b6b147977d33842c51bcf23344e468056e544977f3efeca0e7b", "_expires": "2026-10-11T16:26:05.000Z", "_created": "2026-07-03T16:23:04.000Z", "_published": "2026-07-03T16:26:07.314Z", "_jobs": [ { "job": 85038496769, "time": 147, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8071159392" }, { "job": 85038496789, "time": 138, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8071156182" }, { "job": 85038496817, "time": 97, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8071145973" }, { "job": 85038496790, "time": 111, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8071149117" }, { "job": 85037945508, "time": 241, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8071119984" }, { "job": 85038496780, "time": 134, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8071155188" }, { "job": 85038496827, "time": 98, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "8071145889" }, { "job": 85038496807, "time": 85, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "8071142471" }, { "job": 85038496848, "time": 95, "config": "windows-release", "r": "4.6.1", "check": "OK", "artifact": "8071145144" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980", "_status": "success", "_upstream": "https://bitbucket.org/remkoduursma/plantecophys", "_commit": { "id": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "author": "Remko Duursma ", "committer": "Remko Duursma ", "message": "README.md edited online with Bitbucket", "time": 1764434095 }, "_maintainer": { "name": "Remko Duursma", "email": "remkoduursma@gmail.com", "login": "remkoduursma", "description": "I am a data scientist at Shinto Labs, the Netherlands. Most of the code here was developed when I was at the Hawkesbury Institute for the Environment.", "uuid": 452362 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.3.0", "role": "Depends" }, { "package": "nlstools", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "DT", "role": "Suggests" } ], "_owner": "bitbucket-remkoduursma", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-32", "n": 1 }, { "week": "2025-48", "n": 1 } ], "_tags": [], "_userbio": { "uuid": 452362, "type": "user", "name": "Remko Duursma", "followers": 58, "description": "I am a data scientist at Shinto Labs, the Netherlands. Most of the code here was developed when I was at the Hawkesbury Institute for the Environment." }, "_downloads": { "count": 493, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/plantecophys" }, "_mentions": 12, "_devurl": "https://bitbucket.org/remkoduursma/plantecophys", "_searchresults": 210, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/plantecophys.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://bitbucket.org/remkoduursma/plantecophys", "_realowner": "remkoduursma", "_cranurl": true, "_releases": [ { "version": "0.6", "date": "2015-05-11" }, { "version": "0.6-3", "date": "2015-07-10" }, { "version": "1.0", "date": "2015-11-19" }, { "version": "1.0-2", "date": "2016-03-18" }, { "version": "1.0-3", "date": "2016-03-31" }, { "version": "1.1-3", "date": "2016-07-05" }, { "version": "1.1-8", "date": "2016-08-23" }, { "version": "1.2-9", "date": "2017-08-08" }, { "version": "1.3", "date": "2017-09-14" }, { "version": "1.3-2", "date": "2017-11-28" }, { "version": "1.4-4", "date": "2019-03-13" }, { "version": "1.4-6", "date": "2021-03-31" } ], "_exports": [ "Aci", "AciC4", "DewtoVPD", "esat", "FARAO", "FARAO2", "findCiTransition", "FindTleaf", "fitaci", "fitacis", "fitBB", "fitBBs", "Photosyn", "PhotosynEB", "PhotosynTuzet", "RHairToLeaf", "RHleafToAir", "RHtoVPD", "VPDairToLeaf", "VPDleafToAir", "VPDtoDew", "VPDtoRH" ], "_datasets": [ { "name": "acidata1", "title": "An example A-Ci curve", "object": "acidata1", "class": [ "data.frame" ], "fields": [ "CO2S", "Ci", "Tleaf", "Photo", "PARi" ], "rows": 10, "table": true, "tojson": true }, { "name": "manyacidat", "title": "An example dataset with multiple A-Ci curves", "object": "manyacidat", "class": [ "data.frame" ], "fields": [ "Curve", "Ci", "Photo", "Tleaf", "PARi", "treatment" ], "rows": 390, "table": true, "tojson": true } ], "_help": [ { "page": "plantecophys-package", "title": "Modelling and Analysis of Leaf Gas Exchange Data", "topics": [ "plantecophys-package", "plantecophys" ] }, { "page": "AciC4", "title": "C4 Photosynthesis", "topics": [ "AciC4" ] }, { "page": "acidata1", "title": "An example A-Ci curve", "topics": [ "acidata1" ] }, { "page": "FARAO", "title": "FARquhar And Opti", "topics": [ "FARAO", "FARAO2" ] }, { "page": "findCiTransition", "title": "Calculate transition points for fitted A-Ci curves", "topics": [ "findCiTransition" ] }, { "page": "fitaci", "title": "Fit the Farquhar-Berry-von Caemmerer model of leaf photosynthesis", "topics": [ "fitaci", "plot.acifit" ] }, { "page": "fitacis", "title": "Fit multiple A-Ci curves at once", "topics": [ "fitacis", "plot.acifits" ] }, { "page": "fitBB", "title": "Fit Ball-Berry type models of stomatal conductance", "topics": [ "fitBB" ] }, { "page": "fitBBs", "title": "Fit Ball-Berry type models of stomatal conductance to many groups at once", "topics": [ "fitBBs" ] }, { "page": "manyacidat", "title": "An example dataset with multiple A-Ci curves", "topics": [ "manyacidat" ] }, { "page": "Photosyn", "title": "Coupled leaf gas exchange model", "topics": [ "Aci", "Photosyn" ] }, { "page": "PhotosynEB", "title": "Coupled leaf gas exchange model with energy balance", "topics": [ "FindTleaf", "PhotosynEB" ] }, { "page": "PhotosynTuzet", "title": "Coupled leaf gas exchange model with Tuzet stomatal conductance", "topics": [ "PhotosynTuzet" ] }, { "page": "Conversions", "title": "Conversions between relative humidity, vapour pressure deficit and dewpoint", "topics": [ "DewtoVPD", "esat", "RHairToLeaf", "RHleafToAir", "RHtoVPD", "VPDairToLeaf", "VPDleafToAir", "VPDtoDew", "VPDtoRH" ] } ], "_readme": "https://bitbucket.org/remkoduursma/plantecophys/raw/HEAD/README.md", "_rundeps": [], "_vignettes": [ { "source": "Introduction_to_fitaci.Rmd", "filename": "Introduction_to_fitaci.html", "title": "Introduction to fitaci", "author": "Remko Duursma", "engine": "knitr::rmarkdown", "headings": [ "Preparing the data", "Fitting A-Ci curves", "Temperature corrections", "Using measured dark respiration", "Using different columns", "Missing leaf temperature and/or PAR", "Using mesophyll conductance", "Fitting TPU limitation" ], "created": "2017-08-02 13:02:12", "modified": "2017-12-06 23:49:06", "commits": 5 }, { "source": "fitaci-FAQ.Rmd", "filename": "fitaci-FAQ.html", "title": "Fitting A-Ci curves - FAQ", "author": "Remko Duursma", "engine": "knitr::rmarkdown", "headings": [ "1. Some of my curves don't fit, what should I do?", "2. The fitaci function gives different results from other implementations, which one should I use?", "3. How do I report when using the fitaci function?", "4. Which fitting method should I use?", "5. How do I account for the mesophyll conductance?" ], "created": "2016-10-20 04:02:02", "modified": "2021-03-31 17:27:05", "commits": 5 }, { "source": "new_T_responses.Rmd", "filename": "new_T_responses.html", "title": "New temperature responses of Vcmax and Jmax", "author": "Dushan Kumarathunge, Belinda Medlyn, Remko Duursma", "engine": "knitr::rmarkdown", "headings": [ "Source of data", "Data analysis", "Results" ], "created": "2018-02-01 02:42:37", "modified": "2019-03-12 20:43:01", "commits": 2 } ], "_score": 6.799340549453582, "_indexed": true, "_nocasepkg": "plantecophys", "_universes": [ "remkoduursma", "bitbucket-remkoduursma" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.4-6", "date": "2026-07-03T16:25:10.000Z", "distro": "resolute", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/abbe3c371f435b99995562ac9e539f023a1fdd0eca7c69dc40d2cc0d7c8364a2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.6.1", "os": "linux", "version": "1.4-6", "date": "2026-07-03T16:25:01.000Z", "distro": "resolute", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/41ae6a12ac76a7a542e29310f54f1746b15a5996719dbc75e0034bb8b394d6c4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.5.3", "os": "mac", "version": "1.4-6", "date": "2026-07-03T16:24:34.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/0de15b170eac2b5cf998c95200d2837df0be5423743be0bae1834b2d962c8794", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.6.1", "os": "mac", "version": "1.4-6", "date": "2026-07-03T16:24:44.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/84b8191e508ef5a200ca05ee6093153d21e840909edb25e26099377a2da39d61", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.6.0", "os": "wasm", "version": "1.4-6", "date": "2026-07-03T16:25:30.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/c214d6e9c07334ef6e6fd997814722572f3b1fc06d089408a5bf886c70a9b3b2", "status": "success", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.7.0", "os": "win", "version": "1.4-6", "date": "2026-07-03T16:24:11.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/49d407d0e083c3a52d330859862a367544627b5487ff4ebe062725cd486d6c32", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.5.3", "os": "win", "version": "1.4-6", "date": "2026-07-03T16:24:04.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/f53d84cc46e8378e5500f7095c6ff92635b66c2cf3c82ada6bbe46eee0c259e2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" }, { "r": "4.6.1", "os": "win", "version": "1.4-6", "date": "2026-07-03T16:24:11.000Z", "commit": "6c063da43011bfe6833c80571a45b9d1b9ea4b8e", "fileid": "https://r2.ropensci.org/8cf6c0b4dea998c623bab12cfe943ef7428e413d3a888b07938671e019b303c3", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/remkoduursma/actions/runs/28672236980" } ] }