Change package name

tesselle · Feb 9, 2021 · aff93b0 · aff93b0
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diff --git a/.github/CONTRIBUTING.md b/.github/CONTRIBUTING.md
@@ -15,14 +15,14 @@ Before you make a substantial pull request, you should always file an issue and
 
 * We recommend that you create a Git branch for each pull request (PR).  
 * Look at the Travis and AppVeyor build status before and after making changes. The `README` should contain badges for any continuous integration services used by the package.  
-* Look at the [style guide](https://github.com/tesselle/codex/blob/master/.github/CODING_STYLE.md) before making changes. Please don't restyle code that has nothing to do with your PR.
+* Look at the [style guide](https://github.com/tesselle/folio/blob/master/.github/CODING_STYLE.md) before making changes. Please don't restyle code that has nothing to do with your PR.
 * We use [roxygen2](https://cran.r-project.org/package=roxygen2).  
 * We use [testthat](https://cran.r-project.org/package=testthat). Contributions with test cases included are easier to accept.  
 * For user-facing changes, add a bullet to the top of `NEWS.Rmd` below the current development version header describing the changes made followed by your GitHub username, and links to relevant issue(s)/PR(s).
 
 ## Code of Conduct
 
-Please note that the codex project is released with a [Contributor Code of Conduct](https://github.com/nfrerebeau/codex/blob/master/.github/CODE_OF_CONDUCT.md). By contributing to this project you agree to abide by its terms.
+Please note that the folio project is released with a [Contributor Code of Conduct](https://github.com/nfrerebeau/folio/blob/master/.github/CODE_OF_CONDUCT.md). By contributing to this project you agree to abide by its terms.
 
 ## Prefer to Email? 
 

diff --git a/.zenodo.json b/.zenodo.json
@@ -1,5 +1,5 @@
 {
-  "title": "codex: Datasets for Teaching Archaeology and Paleontology",
+  "title": "folio: Datasets for Teaching Archaeology and Paleontology",
   "description": "<p>Datasets for teaching quantitative approaches and modeling in archaeology and paleontology. This package provides several types of data related to broad topics (cultural evolution, radiocarbon dating, paleoenvironments, etc.), which can be used to illustrate statistical methods in the classroom (multivariate data analysis, compositional data analysis, diversity measurement, etc.).</p>",
   "creators": [
     {

diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,4 +1,4 @@
-Package: codex
+Package: folio
 Title: Datasets for Teaching Archaeology and Paleontology
 Version: 1.0.0
 Authors@R: 
@@ -16,9 +16,9 @@ Description: Datasets for teaching quantitative approaches and
     illustrate statistical methods in the classroom (multivariate data
     analysis, compositional data analysis, diversity measurement, etc.).
 License: GPL (>= 3)
-URL: https://codex.tesselle.org,
-    https://github.com/tesselle/codex
-BugReports: https://github.com/tesselle/codex/issues
+URL: https://folio.tesselle.org,
+    https://github.com/tesselle/folio
+BugReports: https://github.com/tesselle/folio/issues
 Depends: 
     R (>= 2.10)
 Encoding: UTF-8

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,4 @@
-# codex 1.0.0
+# folio 1.0.0
 
 * Add the `kommos` dataset (chemical data).
 * Add the `chevelon` dataset (count data).
@@ -7,7 +7,7 @@
 * Add the `arnold1949` dataset (historical radiocarbon dates; "curve of knows").
 * Remove the `altamira` dataset.
 
-# codex 0.1.0
+# folio 0.1.0
 
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.4476183.svg)](https://doi.org/10.5281/zenodo.4476183)
 

diff --git a/R/carbon.R b/R/carbon.R
@@ -37,7 +37,7 @@
 #'  Reimer, P. J., Baillie, M. G. L., Bard, E., Bayliss, A., Beck, J. W.,
 #'  Blackwell, P. G., Bronk Ramsey, C. \emph{et al.} (2009). IntCal09 and Marine09
 #'  Radiocarbon age Calibration Curves, 0-50,000 Years Cal BP.
-#'  \emph{Radiocarbon}, 51(4): 1111‑50. \doi{10.1017/S0033822200034202}.
+#'  \emph{Radiocarbon}, 51(4): 1111-50. \doi{10.1017/S0033822200034202}.
 #' @family radiocarbon dating
 #' @keywords datasets
 "intcal09"
@@ -57,7 +57,7 @@
 #'  Reimer, P. J., Bard, E. Bayliss, A., Beck, J. W., Blackwell, P. G.,
 #'  Bronk Ramsey, C., Buck, C. E. \emph{et al.} (2013). IntCal13 and Marine13
 #'  Radiocarbon age Calibration Curves 0-50,000 Years cal BP.
-#'  \emph{Radiocarbon}, 55(4): 1869‑87. \doi{10.2458/azu_js_rc.55.16947}.
+#'  \emph{Radiocarbon}, 55(4): 1869-87. \doi{10.2458/azu_js_rc.55.16947}.
 #' @family radiocarbon dating
 #' @keywords datasets
 "intcal13"

diff --git a/R/codex-package.R → R/folio-package.R b/R/codex-package.R → R/folio-package.R
@@ -1,6 +1,6 @@
 #' @details
 #' \tabular{ll}{
-#'  \strong{Package:} \tab codex \cr
+#'  \strong{Package:} \tab folio \cr
 #'  \strong{Type:} \tab Package \cr
 #'  \strong{Version:} \tab 1.0.0 \cr
 #'  \strong{License:} \tab GPL-3 \cr
@@ -23,8 +23,8 @@
 #' Université Bordeaux Montaigne\cr
 #' F-33607 Pessac cedex\cr
 #' France
-#' @name codex-package
-#' @aliases codex
+#' @name folio-package
+#' @aliases folio
 #' @docType package
 #' @keywords internal
 "_PACKAGE"
diff --git a/README.Rmd b/README.Rmd
@@ -15,10 +15,10 @@ knitr::opts_chunk$set(
 )
 ```
 
-# codex
+# folio
 
 <!-- badges: start -->
-[![R-CMD-check](https://github.com/tesselle/codex/workflows/R-CMD-check/badge.svg)](https://github.com/tesselle/codex/actions)
+[![R-CMD-check](https://github.com/tesselle/folio/workflows/R-CMD-check/badge.svg)](https://github.com/tesselle/folio/actions)
 
 [![Project Status: Active – The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)
 [![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://www.tidyverse.org/lifecycle/#stable)
@@ -30,21 +30,21 @@ Datasets for teaching quantitative approaches and modeling in archaeology and pa
 
 This package is for teaching purposes only: some datasets may be outdated.
 
-When using **codex**, you must cite the relevant publications for each dataset (see the documentation).
+When using **folio**, you must cite the relevant publications for each dataset (see the documentation).
 
 ## Installation
 
-You can install the released version of **codex** from [CRAN](https://CRAN.R-project.org) with:
+You can install the released version of **folio** from [CRAN](https://CRAN.R-project.org) with:
 
 ```{r cran-installation, eval=FALSE}
-install.packages("codex")
+install.packages("folio")
 ```
 
 And the development version from [GitHub](https://github.com/) with:
 
 ```{r gh-installation, eval=FALSE}
 # install.packages("remotes")
-remotes::install_github("tesselle/codex")
+remotes::install_github("tesselle/folio")
 ```
 
 ## Usage
@@ -82,4 +82,4 @@ abline(fit, col = "red")
 ```
 
 ## Contributing
-Please note that the **codex** project is released with a [Contributor Code of Conduct](https://github.com/tesselle/codex/blob/master/.github/CODE_OF_CONDUCT.md). By contributing to this project, you agree to abide by its terms.
+Please note that the **folio** project is released with a [Contributor Code of Conduct](https://github.com/tesselle/folio/blob/master/.github/CODE_OF_CONDUCT.md). By contributing to this project, you agree to abide by its terms.
diff --git a/README.md b/README.md
@@ -1,11 +1,11 @@
 
 <!-- README.md is generated from README.Rmd. Please edit that file -->
 
-# codex
+# folio
 
 <!-- badges: start -->
 
-[![R-CMD-check](https://github.com/tesselle/codex/workflows/R-CMD-check/badge.svg)](https://github.com/tesselle/codex/actions)
+[![R-CMD-check](https://github.com/tesselle/folio/workflows/R-CMD-check/badge.svg)](https://github.com/tesselle/folio/actions)
 
 [![Project Status: Active – The project has reached a stable, usable
 state and is being actively
@@ -26,23 +26,23 @@ analysis, diversity measurement, etc.).
 This package is for teaching purposes only: some datasets may be
 outdated.
 
-When using **codex**, you must cite the relevant publications for each
+When using **folio**, you must cite the relevant publications for each
 dataset (see the documentation).
 
 ## Installation
 
-You can install the released version of **codex** from
+You can install the released version of **folio** from
 [CRAN](https://CRAN.R-project.org) with:
 
 ``` r
-install.packages("codex")
+install.packages("folio")
 ```
 
 And the development version from [GitHub](https://github.com/) with:
 
 ``` r
 # install.packages("remotes")
-remotes::install_github("tesselle/codex")
+remotes::install_github("tesselle/folio")
 ```
 
 ## Usage
@@ -101,7 +101,7 @@ abline(fit, col = "red")
 
 ## Contributing
 
-Please note that the **codex** project is released with a [Contributor
+Please note that the **folio** project is released with a [Contributor
 Code of
-Conduct](https://github.com/tesselle/codex/blob/master/.github/CODE_OF_CONDUCT.md).
+Conduct](https://github.com/tesselle/folio/blob/master/.github/CODE_OF_CONDUCT.md).
 By contributing to this project, you agree to abide by its terms.
diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -1,4 +1,4 @@
-url: https://codex.tesselle.org
+url: https://folio.tesselle.org
 development:
   mode: auto
 

diff --git a/codemeta.json b/codemeta.json
@@ -4,11 +4,11 @@
     "http://schema.org"
   ],
   "@type": "SoftwareSourceCode",
-  "identifier": "codex",
+  "identifier": "folio",
   "description": "Datasets for teaching quantitative approaches and\n    modeling in archaeology and paleontology. This package provides\n    several types of data related to broad topics (cultural evolution,\n    radiocarbon dating, paleoenvironments, etc.), which can be used to\n    illustrate statistical methods in the classroom (multivariate data\n    analysis, compositional data analysis, diversity measurement, etc.).",
-  "name": "codex: Datasets for Teaching Archaeology and Paleontology",
-  "codeRepository": "https://github.com/tesselle/codex",
-  "issueTracker": "https://github.com/tesselle/codex/issues",
+  "name": "folio: Datasets for Teaching Archaeology and Paleontology",
+  "codeRepository": "https://github.com/tesselle/folio",
+  "issueTracker": "https://github.com/tesselle/folio/issues",
   "license": "https://spdx.org/licenses/GPL-3.0",
   "version": "1.0.0",
   "programmingLanguage": {
@@ -47,8 +47,8 @@
       "version": ">= 2.10"
     }
   ],
-  "readme": "https://github.com/tesselle/codex/blob/master/README.md",
-  "fileSize": "1649.774KB",
+  "readme": "https://github.com/tesselle/folio/blob/master/README.md",
+  "fileSize": "1649.766KB",
   "developmentStatus": ["https://www.repostatus.org/#active", "https://www.tidyverse.org/lifecycle/#stable"],
   "keywords": [
     "archaeology",
@@ -57,6 +57,6 @@
     "datasets",
     "archaeological-science"
   ],
-  "relatedLink": "https://codex.tesselle.org",
-  "releaseNotes": "https://github.com/tesselle/codex/blob/master/NEWS.md"
+  "relatedLink": "https://folio.tesselle.org",
+  "releaseNotes": "https://github.com/tesselle/folio/blob/master/NEWS.md"
 }
diff --git a/cran-comments.md b/cran-comments.md
@@ -1,11 +1,12 @@
 ## Test environments
 * Local R installation: R 4.0.3
 * Ubuntu 20.04 (on GitHub Actions): R devel, release, oldrel
-* Windows (on GitHub Actions): R release
+* Windows (on GitHub Actions and win-builder): R devel, release, oldrel
 * MacOS (on GitHub Actions): R release
 
 ## R CMD check results
 
 0 errors | 0 warnings | 1 note
 
 * This is a new release.
+* Some links in the documentation point to articles behind paywalls that may return a 403 error.
diff --git a/codex.Rproj → folio.Rproj b/codex.Rproj → folio.Rproj
diff --git a/man/codex-package.Rd → man/folio-package.Rd b/man/codex-package.Rd → man/folio-package.Rd
diff --git a/man/intcal09.Rd b/man/intcal09.Rd
diff --git a/man/intcal13.Rd b/man/intcal13.Rd