From 4a95d980ad6add212cc00fe4f85d3ab9a1c9b133 Mon Sep 17 00:00:00 2001 From: nfrerebeau Date: Tue, 28 Nov 2023 15:34:54 +0100 Subject: [PATCH] Prepare for next release --- CITATION.cff | 4 ++-- DESCRIPTION | 2 +- NEWS.md | 2 +- R/tabula-package.R | 2 +- README.Rmd | 12 ++++++------ README.md | 14 +++++++------- codemeta.json | 6 +++--- cran-comments.md | 8 ++++---- man/tabula-package.Rd | 2 +- revdep/README.md | 37 +++++++------------------------------ 10 files changed, 33 insertions(+), 56 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index bd5acfde..aaa6be87 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -8,7 +8,7 @@ message: 'To cite package "tabula" in publications use:' type: software license: GPL-3.0-or-later title: 'tabula: Analysis and Visualization of Archaeological Count Data' -version: 3.0.0 +version: 3.0.1 doi: 10.21105/joss.01821 abstract: 'An easy way to examine archaeological count data. This package provides several tests and measures of diversity: heterogeneity and evenness (Brillouin, @@ -71,7 +71,7 @@ references: year: '2023' location: name: Pessac, France - notes: R package version 3.0.0 + notes: R package version 3.0.0.9000 url: https://packages.tesselle.org/tabula/ doi: 10.5281/zenodo.1489944 institution: diff --git a/DESCRIPTION b/DESCRIPTION index 0e8ee32c..8cac6028 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: tabula Title: Analysis and Visualization of Archaeological Count Data -Version: 3.0.0.9000 +Version: 3.0.1 Authors@R: c( person("Nicolas", "Frerebeau", , "nicolas.frerebeau@u-bordeaux-montaigne.fr", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5759-4944", affiliation = "Université Bordeaux Montaigne")), diff --git a/NEWS.md b/NEWS.md index 769bc625..b9c8d086 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,4 +1,4 @@ -# tabula 3.0.0.9000 +# tabula 3.0.1 ## Enhancements * Omit axes labels where they would abut or overlap previously drawn labels. diff --git a/R/tabula-package.R b/R/tabula-package.R index 82b1e5b7..71b22144 100644 --- a/R/tabula-package.R +++ b/R/tabula-package.R @@ -2,7 +2,7 @@ #' \tabular{ll}{ #' **Package:** \tab tabula \cr #' **Type:** \tab Package \cr -#' **Version:** \tab 3.0.0 \cr +#' **Version:** \tab 3.0.1 \cr #' **License:** \tab GPL-3 \cr #' **Zenodo:** \tab \doi{10.5281/zenodo.1489944} \cr #' **JOSS:** \tab \doi{10.21105/joss.01821} \cr diff --git a/README.Rmd b/README.Rmd index d91b7f27..c1f72017 100644 --- a/README.Rmd +++ b/README.Rmd @@ -38,12 +38,12 @@ Sys.setlocale("LC_MESSAGES", 'en_GB.UTF-8') # Force locale An easy way to examine archaeological count data. This package provides several tests and measures of diversity: heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.), richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and similarity (Brainerd-Robinson, etc.). It allows to easily visualize count data and statistical thresholds: rank vs. abundance plots, heatmaps, @ford1962 and @bertin1977 diagrams, etc. **tabula** provides methods for: -* Diversity measurement: `heterogeneity()`, `evenness()`, `richness()`, `rarefaction()`, `turnover()` -* Similarity measurement and co-occurrence: `similarity()`, `occurrence()` -* Assessing sample size and significance: `bootstrap()`, `jackknife()`, `simulate()` -* @bertin1977 or @ford1962 (battleship curve) diagrams: `plot_bertin()`, `plot_ford()` -* Seriograph [@desachy2004]: `seriograph()` -* Heatmaps: `plot_heatmap()`, `plot_spot()` +* Diversity measurement: `heterogeneity()`, `evenness()`, `richness()`, `rarefaction()`, `turnover()`. +* Similarity measurement and co-occurrence: `similarity()`, `occurrence()`. +* Assessing sample size and significance: `bootstrap()`, `jackknife()`, `simulate()`. +* @bertin1977 or @ford1962 (battleship curve) diagrams: `plot_bertin()`, `plot_ford()`. +* Seriograph [@desachy2004]: `seriograph()`, `matrigraph()`. +* Heatmaps: `plot_heatmap()`, `plot_spot()`. [**kairos**](https://packages.tesselle.org/kairos/) is a companion package to **tabula** that provides functions for chronological modeling and dating of archaeological assemblages from count data. diff --git a/README.md b/README.md index c7b1ffb2..6614571e 100644 --- a/README.md +++ b/README.md @@ -48,15 +48,15 @@ thresholds: rank vs. abundance plots, heatmaps, Ford (1962) and Bertin (1977) diagrams, etc. **tabula** provides methods for: - Diversity measurement: `heterogeneity()`, `evenness()`, `richness()`, - `rarefaction()`, `turnover()` + `rarefaction()`, `turnover()`. - Similarity measurement and co-occurrence: `similarity()`, - `occurrence()` + `occurrence()`. - Assessing sample size and significance: `bootstrap()`, `jackknife()`, - `simulate()` + `simulate()`. - Bertin (1977) or Ford (1962) (battleship curve) diagrams: - `plot_bertin()`, `plot_ford()` -- Seriograph (Desachy 2004): `seriograph()` -- Heatmaps: `plot_heatmap()`, `plot_spot()` + `plot_bertin()`, `plot_ford()`. +- Seriograph (Desachy 2004): `seriograph()`, `matrigraph()`. +- Heatmaps: `plot_heatmap()`, `plot_spot()`. [**kairos**](https://packages.tesselle.org/kairos/) is a companion package to **tabula** that provides functions for chronological modeling @@ -72,7 +72,7 @@ and dating of archaeological assemblages from count data. Frerebeau N (2023). _tabula: Analysis and Visualization of Archaeological Count Data_. Université Bordeaux Montaigne, Pessac, France. doi:10.5281/zenodo.1489944 - , R package version 3.0.0, + , R package version 3.0.1, . This package is a part of the tesselle project diff --git a/codemeta.json b/codemeta.json index 8b73853c..d3616b10 100644 --- a/codemeta.json +++ b/codemeta.json @@ -8,7 +8,7 @@ "codeRepository": "https://github.com/tesselle/tabula", "issueTracker": "https://github.com/tesselle/tabula/issues", "license": "https://spdx.org/licenses/GPL-3.0", - "version": "3.0.0.9000", + "version": "3.0.1", "programmingLanguage": { "@type": "ComputerLanguage", "name": "R", @@ -231,7 +231,7 @@ }, "SystemRequirements": null }, - "fileSize": "1420.662KB", + "fileSize": "1420.85KB", "citation": [ { "@type": "ScholarlyArticle", @@ -271,7 +271,7 @@ "name": "{tabula: Analysis and Visualization of Archaeological Count Data}", "identifier": "10.5281/zenodo.1489944", "url": "https://packages.tesselle.org/tabula/", - "description": "R package version 3.0.0.9000", + "description": "R package version 3.0.1", "@id": "https://doi.org/10.5281/zenodo.1489944", "sameAs": "https://doi.org/10.5281/zenodo.1489944" } diff --git a/cran-comments.md b/cran-comments.md index 693b8325..83a2f214 100644 --- a/cran-comments.md +++ b/cran-comments.md @@ -1,6 +1,6 @@ ## Test environments -* Local R installation: R 4.3.1 -* Ubuntu 20.04 (on GitHub Actions): R devel, release, oldrel +* Local R installation: R 4.3.2 +* Ubuntu (on GitHub Actions): R devel, release, oldrel * Windows (on GitHub Actions and win-builder): R devel, release, oldrel * MacOS (on GitHub Actions): R release @@ -14,5 +14,5 @@ We checked 2 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package. -* We saw 0 new problems -* We failed to check 0 packages + * We saw 0 new problems + * We failed to check 0 packages diff --git a/man/tabula-package.Rd b/man/tabula-package.Rd index c6386f6e..05c41a58 100644 --- a/man/tabula-package.Rd +++ b/man/tabula-package.Rd @@ -15,7 +15,7 @@ An easy way to examine archaeological count data. This package provides several \tabular{ll}{ \strong{Package:} \tab tabula \cr \strong{Type:} \tab Package \cr -\strong{Version:} \tab 3.0.0 \cr +\strong{Version:} \tab 3.0.1 \cr \strong{License:} \tab GPL-3 \cr \strong{Zenodo:} \tab \doi{10.5281/zenodo.1489944} \cr \strong{JOSS:} \tab \doi{10.21105/joss.01821} \cr diff --git a/revdep/README.md b/revdep/README.md index e54bd04f..121e58c9 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -2,7 +2,7 @@ |field |value | |:--------|:----------------------------------------------------------------------------| -|version |R version 4.3.1 (2023-06-16) | +|version |R version 4.3.2 (2023-10-31) | |os |Ubuntu 22.04.3 LTS | |system |x86_64, linux-gnu | |ui |RStudio | @@ -10,39 +10,16 @@ |collate |fr_FR.UTF-8 | |ctype |fr_FR.UTF-8 | |tz |Europe/Paris | -|date |2023-08-22 | -|rstudio |2023.06.1+524 Mountain Hydrangea (desktop) | +|date |2023-11-28 | +|rstudio |2023.09.0+463 Desert Sunflower (desktop) | |pandoc |3.1.1 @ /usr/lib/rstudio/resources/app/bin/quarto/bin/tools/ (via rmarkdown) | # Dependencies -|package |old |new |Δ | -|:------------|:-----|:-----|:--| -|tabula |2.0.0 |3.0.0 |* | -|arkhe |1.2.0 |1.2.0 | | -|cli |3.6.1 |NA |* | -|colorspace |2.1-0 |NA |* | -|fansi |1.0.4 |NA |* | -|farver |2.1.1 |NA |* | -|ggplot2 |3.4.3 |NA |* | -|glue |1.6.2 |NA |* | -|gtable |0.3.4 |NA |* | -|isoband |0.2.7 |NA |* | -|labeling |0.4.2 |NA |* | -|lifecycle |1.0.3 |NA |* | -|magrittr |2.0.3 |NA |* | -|munsell |0.5.0 |NA |* | -|pillar |1.9.0 |NA |* | -|pkgconfig |2.0.3 |NA |* | -|R6 |2.5.1 |NA |* | -|RColorBrewer |1.1-3 |NA |* | -|rlang |1.1.1 |NA |* | -|scales |1.2.1 |NA |* | -|tibble |3.2.1 |NA |* | -|utf8 |1.2.3 |NA |* | -|vctrs |0.6.3 |NA |* | -|viridisLite |0.4.2 |NA |* | -|withr |2.5.0 |NA |* | +|package |old |new |Δ | +|:-------|:-----|:-----|:--| +|tabula |3.0.0 |3.0.1 |* | +|arkhe |1.4.0 |1.4.0 | | # Revdeps