{ "_id": "6a27d81a24555f66ed5467ba", "Package": "restoptr", "Type": "Package", "Title": "Ecological Restoration Planning", "Version": "1.1.1", "Description": "Flexible framework for ecological restoration planning. It\naims to identify priority areas for restoration efforts using\noptimization algorithms (based on Justeau-Allaire et al. 2021\n). Priority areas can be\nidentified by maximizing landscape indices, such as the\neffective mesh size (Jaeger 2000\n), or the integral index of\nconnectivity (Pascual-Hortal & Saura 2006\n). Additionally, constraints can\nbe used to ensure that priority areas exhibit particular\ncharacteristics (e.g., ensure that particular places are not\nselected for restoration, ensure that priority areas form a\nsingle contiguous network). Furthermore, multiple near-optimal\nsolutions can be generated to explore multiple options in\nrestoration planning. The package leverages the 'Choco-solver'\nsoftware to perform optimization using constraint programming\n(CP) techniques ().", "Authors@R": "c(\nperson(\n'Dimitri', 'Justeau-Allaire',\nemail = 'dimitri.justeau@gmail.com', role = c('aut', 'cre'),\ncomment = c(ORCID = '0000-0003-4129-0764')\n),\nperson(\nc('Jeffrey', 'O'), 'Hanson',\nemail='jeffrey.hanson@uqconnect.edu.au', role = c('aut'),\ncomment = c(ORCID = '0000-0002-4716-6134')\n),\nperson(\n'Ghislain', 'Vieilledent', role = c('aut'),\ncomment = c(ORCID = '0000-0002-1685-4997')\n),\nperson(\n'Guillaume', 'Lannuzel', role = c('aut')\n),\nperson(\n'Philippe', 'Vismara', role = c('aut')\n),\nperson(\n'Xavier', 'Lorca', role = c('aut')\n),\nperson(\n'Philippe', 'Birnbaum', role = c('aut')\n)\n)", "License": "GPL (>= 3)", "Encoding": "UTF-8", "Language": "en-US", "URL": "https://dimitri-justeau.github.io/restoptr/", "BugReports": "https://github.com/dimitri-justeau/restoptr/issues", "SystemRequirements": "Java (>= 11.0.12)", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.2", "Collate": "'internal.R' 'add_available_areas_constraint.R'\n'add_compactness_constraint.R' 'add_components_constraint.R'\n'add_connected_constraint.R' 'add_locked_out_constraint.R'\n'add_min_iic_constraint.R' 'add_min_mesh_constraint.R'\n'add_nb_patches_constraint.R' 'add_no_new_patch_constraint.R'\n'add_restorable_constraint.R' 'add_settings.R'\n'is_java_available.R' 'package.R' 'preprocessing.R'\n'restopt_component.R' 'restopt_problem.R' 'restopt_solution.R'\n'set_max_iic_objective.R' 'set_max_mesh_objective.R'\n'set_max_nb_pus_objective.R' 'set_max_restore_objective.R'\n'set_min_nb_patches_objective.R' 'set_min_nb_pus_objective.R'\n'set_min_restore_objective.R' 'set_no_objective.R' 'solve.R'\n'terra_io.R' 'terra_utils.R' 'utils-pipe.R' 'zzz.R'", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-09 09:02:04 UTC", "User": "root" }, "Author": "Dimitri Justeau-Allaire [aut, cre] (ORCID:\n), Jeffrey O Hanson\n[aut] (ORCID: ),\nGhislain Vieilledent [aut] (ORCID:\n), Guillaume Lannuzel\n[aut], Philippe Vismara [aut], Xavier Lorca [aut], Philippe\nBirnbaum [aut]", "Maintainer": "Dimitri Justeau-Allaire ", "Config/pak/sysreqs": "default-jdk", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2025-07-02 10:43:36 UTC", "RemoteUrl": "https://github.com/cran/restoptr", "RemoteRef": "HEAD", "RemoteSha": "561be3c0bbf1c2ddbd1f5efee9b47fb45e76b6f7", "MD5sum": "291708afbe7992a87577604df64ca1ed", "_user": "cran", "_type": "src", "_file": "restoptr_1.1.1.tar.gz", "_fileid": "af54c2ade570578595afa05cd2a14ffa1ec851c365b1729a661467e087f743b0", "_filesize": 4705981, "_sha256": "af54c2ade570578595afa05cd2a14ffa1ec851c365b1729a661467e087f743b0", "_created": "2026-06-09T09:02:04.000Z", "_published": "2026-06-09T09:08:42.176Z", "_distro": "noble", "_jobs": [ { "job": 80286087515, "time": 349, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7503275812" }, { "job": 80286087383, "time": 340, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7503272791" }, { "job": 80285115391, "time": 324, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7503143344" }, { "job": 80286087319, "time": 141, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7503196380" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/27195091236", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/restoptr", "_commit": { "id": "561be3c0bbf1c2ddbd1f5efee9b47fb45e76b6f7", "author": "Dimitri Justeau-Allaire ", "committer": "cran-robot ", "message": "version 1.1.1\n", "time": 1751453016 }, "_maintainer": { "name": "Dimitri Justeau-Allaire", "email": "dimitri.justeau@gmail.com", "login": "dimitri-justeau", "description": "", "uuid": 2606034, "orcid": "0000-0003-4129-0764" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "terra", "version": ">= 1.6-17", "role": "Depends" }, { "package": "rJava", "version": ">= 1.0.6", "role": "Depends" }, { "package": "units", "version": ">= 0.8-0", "role": "Depends" }, { "package": "utils", "role": "Imports" }, { "package": "assertthat", "version": ">= 0.2.1", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "crayon", "version": ">= 1.4.1", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "testthat", "version": ">= 2.0.1", "role": "Suggests" }, { "package": "knitr", "version": ">= 1.2.0", "role": "Suggests" }, { "package": "roxygen2", "version": ">= 6.1.1", "role": "Suggests" }, { "package": "rmarkdown", "version": ">= 1.10", "role": "Suggests" }, { "package": "landscapemetrics", "version": ">= 1.5.4", "role": "Suggests" }, { "package": "vegan", "version": ">= 2.5.7", "role": "Suggests" }, { "package": "cluster", "version": ">= 2.1.2", "role": "Suggests" }, { "package": "ggthemes", "role": "Suggests" }, { "package": "paletteer", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2025-27", "n": 2 } ], "_tags": [ { "name": "1.1.0", "date": "2025-07-01" }, { "name": "1.1.1", "date": "2025-07-02" } ], "_stars": 0, "_contributors": [ { "user": "dimitri-justeau", "count": 9, "uuid": 2606034 } ], "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 692, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/restoptr" }, "_devurl": "https://github.com/dimitri-justeau/restoptr", "_pkgdown": "https://dimitri-justeau.github.io/restoptr/", "_searchresults": 6, "_topics": [ "openjdk" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "extra/restoptr.html", "manual.pdf" ], "_homeurl": "https://github.com/dimitri-justeau/restoptr", "_realowner": "dimitri-justeau", "_cranurl": false, "_releases": [ { "version": "1.0.0", "date": "2022-06-09" }, { "version": "1.0.1", "date": "2022-06-17" }, { "version": "1.0.2", "date": "2022-10-13" }, { "version": "1.0.3", "date": "2022-11-12" }, { "version": "1.0.4", "date": "2023-01-30" }, { "version": "1.0.5", "date": "2023-03-16" }, { "version": "1.0.6", "date": "2023-08-18" }, { "version": "1.1.0", "date": "2025-07-01" }, { "version": "1.1.1", "date": "2025-07-02" } ], "_exports": [ "%>%", "add_available_areas_constraint", "add_compactness_constraint", "add_components_constraint", "add_connected_constraint", "add_locked_out_constraint", "add_min_iic_constraint", "add_min_mesh_constraint", "add_nb_patches_constraint", "add_no_new_patch_constraint", "add_restorable_constraint", "add_settings", "area_to_nb_cells", "cell_area", "cell_width", "get_aggregation_factor", "get_aggregation_method", "get_cell_area", "get_constraints", "get_existing_habitat", "get_habitat_threshold", "get_locked_out_areas", "get_metadata", "get_objective", "get_original_habitat", "get_restorable_habitat", "get_settings", "invert_vector", "is_java_available", "nb_cell_to_area", "preprocess_input", "restopt_problem", "set_max_iic_objective", "set_max_mesh_objective", "set_max_nb_pus_objective", "set_max_restore_objective", "set_min_nb_patches_objective", "set_min_nb_pus_objective", "set_min_restore_objective", "set_no_objective" ], "_help": [ { "page": "add_available_areas_constraint", "title": "Add available areas constraint", "concept": [ "constraints" ], "topics": [ "add_available_areas_constraint" ] }, { "page": "add_compactness_constraint", "title": "Add constraint to limit compactness", "concept": [ "constraints" ], "topics": [ "add_compactness_constraint" ] }, { "page": "add_components_constraint", "title": "Add constraint to limit the number of connected components", "concept": [ "constraints" ], "topics": [ "add_components_constraint" ] }, { "page": "add_connected_constraint", "title": "Add constraint to ensure that the selected planning units for restoration are connected.", "concept": [ "constraints" ], "topics": [ "add_connected_constraint" ] }, { "page": "add_locked_out_constraint", "title": "Add locked out constraint", "concept": [ "constraints" ], "topics": [ "add_locked_out_constraint" ] }, { "page": "add_min_iic_constraint", "title": "Add constraint to enforce a minimum integral index of connectivity (IIC) value", "concept": [ "constraints" ], "topics": [ "add_min_iic_constraint" ] }, { "page": "add_min_mesh_constraint", "title": "Add constraint to enforce a minimum effective mesh size (MESH) value", "concept": [ "constraints" ], "topics": [ "add_min_mesh_constraint" ] }, { "page": "add_nb_patches_constraint", "title": "Add constraint to limit the number of patches (habitat + restoration)", "concept": [ "constraints" ], "topics": [ "add_nb_patches_constraint" ] }, { "page": "add_no_new_patch_constraint", "title": "Add constraint to forbid the creation of new patches.", "concept": [ "constraints" ], "topics": [ "add_no_new_patch_constraint" ] }, { "page": "add_restorable_constraint", "title": "Add constraint to specify the available amount of surface for restoration", "concept": [ "constraints" ], "topics": [ "add_restorable_constraint" ] }, { "page": "add_settings", "title": "Add settings", "topics": [ "add_settings" ] }, { "page": "area_to_nb_cells", "title": "Compute the number of cells corresponding to a given area.", "topics": [ "area_to_nb_cells" ] }, { "page": "cell_area", "title": "Compute the area of a cell", "topics": [ "cell_area" ] }, { "page": "cell_width", "title": "Compute the width of a cell", "topics": [ "cell_width" ] }, { "page": "get_aggregation_factor", "title": "Retrieve the aggregation factor of a restopt problem.", "topics": [ "get_aggregation_factor" ] }, { "page": "get_aggregation_method", "title": "Retrieve the aggregation method of a restopt problem.", "topics": [ "get_aggregation_method" ] }, { "page": "get_cell_area", "title": "Retrieve the aggregated cell area of a restopt problem.", "topics": [ "get_cell_area" ] }, { "page": "get_constraints", "title": "Retrieve the constraints of a restopt problem.", "topics": [ "get_constraints" ] }, { "page": "get_existing_habitat", "title": "Retrieve the existing (i.e. aggregated) habitat data.", "topics": [ "get_existing_habitat" ] }, { "page": "get_habitat_threshold", "title": "Retrieve the habitat threshold parameter of a restopt problem.", "topics": [ "get_habitat_threshold" ] }, { "page": "get_locked_out_areas", "title": "Retrieve the locked out areas of a restopt problem.", "topics": [ "get_locked_out_areas" ] }, { "page": "get_metadata", "title": "Restopt solution metadata", "topics": [ "get_metadata" ] }, { "page": "get_objective", "title": "Retrieve the optimization objective of a restopt problem.", "topics": [ "get_objective" ] }, { "page": "get_original_habitat", "title": "Retrieve the original (i.e. not aggregated) habitat data.", "topics": [ "get_original_habitat" ] }, { "page": "get_restorable_habitat", "title": "Retrieve the restorable habitat (aggregated) data.", "topics": [ "get_restorable_habitat" ] }, { "page": "get_settings", "title": "Retrieve the settings of a restopt problem.", "topics": [ "get_settings" ] }, { "page": "invert_vector", "title": "Invert a vector layer according to the extent of a restopt problem.", "topics": [ "invert_vector" ] }, { "page": "is_java_available", "title": "Is Java is available?", "topics": [ "is_java_available" ] }, { "page": "nb_cell_to_area", "title": "Compute the area corresponding to a given number of cells.", "topics": [ "nb_cell_to_area" ] }, { "page": "preprocess_input", "title": "Restopr input preprocessing function.", "topics": [ "preprocess_input" ] }, { "page": "print.RestoptProblem", "title": "Print a restoration optimization problem", "topics": [ "print.RestoptProblem" ] }, { "page": "restopt_problem", "title": "Restoration optimization problem", "topics": [ "restopt_problem" ] }, { "page": "restopt_solution", "title": "Restopt solution", "topics": [ "restopt_solution" ] }, { "page": "restoptr", "title": "'restoptr': Ecological Restoration Planning", "topics": [ "restoptr-package", "restoptr" ] }, { "page": "set_max_iic_objective", "title": "Set an objective to maximize the integral index of connectivity", "concept": [ "objectives" ], "topics": [ "set_max_iic_objective" ] }, { "page": "set_max_mesh_objective", "title": "Set an objective to maximize effective mesh size", "concept": [ "objectives" ], "topics": [ "set_max_mesh_objective" ] }, { "page": "set_max_nb_pus_objective", "title": "Set an objective to maximize the number of planning units", "concept": [ "objectives" ], "topics": [ "set_max_nb_pus_objective" ] }, { "page": "set_max_restore_objective", "title": "Set an objective to maximize the amount restoration area.", "concept": [ "objectives" ], "topics": [ "set_max_restore_objective" ] }, { "page": "set_min_nb_patches_objective", "title": "Set an objective to minimize the number of patches (habitat + restored areas)", "concept": [ "objectives" ], "topics": [ "set_min_nb_patches_objective" ] }, { "page": "set_min_nb_pus_objective", "title": "Set an objective to minimize the number of planning units", "concept": [ "objectives" ], "topics": [ "set_min_nb_pus_objective" ] }, { "page": "set_min_restore_objective", "title": "Set an objective to minimize the amount restoration area.", "concept": [ "objectives" ], "topics": [ "set_min_restore_objective" ] }, { "page": "set_no_objective", "title": "Configure the solver to only satisfy the constraints, without optimization objective", "concept": [ "objectives" ], "topics": [ "set_no_objective" ] }, { "page": "solve.RestoptProblem", "title": "Solve a restoration optimization problem", "topics": [ "solve.RestoptProblem" ] } ], "_pkglogo": "https://github.com/cran/restoptr/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/cran/restoptr/raw/HEAD/README.md", "_rundeps": [ "assertthat", "crayon", "magrittr", "Rcpp", "rJava", "terra", "units" ], "_sysdeps": [ { "shlib": "libjvm", "package": "openjdk-21-jre-headless", "headers": "openjdk-21-jre-headless", "source": "openjdk", "version": "21.0.11+10-1~24.04.2", "name": "openjdk", "homepage": "https://openjdk.java.net/", "description": "OpenJDK Java runtime, using Hotspot JIT (headless)" } ], "_vignettes": [ { "source": "case_study.Rmd", "filename": "case_study.html", "title": "Case study: using historical data to set ecological restoration targets", "engine": "knitr::rmarkdown_notangle", "headings": [ "References" ], "created": "2022-10-13 15:31:05", "modified": "2022-11-12 13:00:02", "commits": 2 }, { "source": "restoptr.Rmd", "filename": "restoptr.html", "title": "Getting started", "engine": "knitr::rmarkdown_notangle", "headings": [ "Introduction", "Setup", "Data", "Problem formulation", "Generating a prioritization", "Relative importance", "Exploring alternatives", "Evaluating trade-offs", "Conclusion", "References" ], "created": "2022-06-09 06:40:06", "modified": "2023-01-30 09:50:02", "commits": 3 } ], "_score": 3, "_indexed": false, "_nocasepkg": "restoptr", "_universes": [ "cran" ], "_indexurl": "https://dimitri-justeau.r-universe.dev/restoptr", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.1.1", "date": "2026-06-09T09:04:39.000Z", "distro": "noble", "commit": "561be3c0bbf1c2ddbd1f5efee9b47fb45e76b6f7", "fileid": "196deac5aba82588a0462314d050cacce2dc033f17e852c2e43d049be99e33ea", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/27195091236" }, { "r": "4.6.0", "os": "linux", "version": "1.1.1", "date": "2026-06-09T09:04:44.000Z", "distro": "noble", "commit": "561be3c0bbf1c2ddbd1f5efee9b47fb45e76b6f7", "fileid": "e0795122dbe1b465491494c7afdfba66defaa4eb35ed4f75dffbb3fddda0b2f0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/27195091236" }, { "r": "4.6.0", "os": "wasm", "version": "1.1.1", "date": "2026-06-09T09:04:51.000Z", "commit": "561be3c0bbf1c2ddbd1f5efee9b47fb45e76b6f7", "fileid": "4c3c2bf891a850a6e617c5b53edf7cebc3b78b760dce5ef02975a593b76c75b9", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/27195091236" } ] }