diff --git a/.Rbuildignore b/.Rbuildignore index a4d2a9f..f529ba5 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -1,19 +1,10 @@ -^.*\.Rproj$ -^LICENSE\.md$ -^README\.Rmd -^\.Rproj\.user$ -^\.github$ -^\.pre-commit-config\.yaml$ -^_pkgdown\.yml$ -^codecov\.yml$ -^data-raw$ -^docs -^docs$ -^pkgdown$ -^pkgdown\.css -^renv$ -^renv$ -^renv\.lock$ -^renv\.lock$ -^test-example.R -^test\.R$ +^.*\.Rproj$ +^\.Rproj\.user$ +^LICENSE\.md$ +^README\.Rmd +^pkgdown\.css +^docs +^_pkgdown\.yml$ +^docs$ +^pkgdown$ +^data-raw$ diff --git a/.Rprofile b/.Rprofile deleted file mode 100644 index 4be44ff..0000000 --- a/.Rprofile +++ /dev/null @@ -1,3 +0,0 @@ -# source("renv/activate.R") -options(repos = c(CRAN = "https://p3m.dev/cran/__linux__/manylinux_2_28/latest")) -options(renv.config.pak.enabled = TRUE) diff --git a/.github/.gitignore b/.github/.gitignore deleted file mode 100644 index 2d19fc7..0000000 --- a/.github/.gitignore +++ /dev/null @@ -1 +0,0 @@ -*.html diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md deleted file mode 100644 index f5ccba4..0000000 --- a/.github/pull_request_template.md +++ /dev/null @@ -1,32 +0,0 @@ -## PR Description - - -## Type of change - - -- [ ] Bug fix (non-breaking change which fixes an issue) -- [ ] New feature (non-breaking change which adds functionality) -- [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected) -- [ ] Documentation update -- [ ] Code refactoring or style updates - -## Checklist: - - -- [ ] My code follows the style guidelines of this project -- [ ] I have performed a self-review of my own code -- [ ] I have commented my code, particularly in hard-to-understand areas -- [ ] I have made corresponding changes to the documentation -- [ ] My changes generate no new warnings -- [ ] I have added tests that prove my fix is effective or that my feature works -- [ ] New and existing unit tests pass locally with my changes - -## Notes for reviewers - - -## Automated Checks -The following checks will run automatically on this PR: -- R CMD check -- Documentation updates -- Test coverage -- Linting and style checks diff --git a/.github/workflows/R-CMD-check.yml b/.github/workflows/R-CMD-check.yml deleted file mode 100644 index 3173916..0000000 --- a/.github/workflows/R-CMD-check.yml +++ /dev/null @@ -1,56 +0,0 @@ -# For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag. -# https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions -on: - push: - branches: [main, master] - pull_request: - branches: [main, master] - -name: R-CMD-check - -jobs: - R-CMD-check: - runs-on: ${{ matrix.config.os }} - - name: ${{ matrix.config.os }} (${{ matrix.config.r }}) - - strategy: - fail-fast: false - matrix: - config: - - {os: windows-latest, r: 'release'} - - {os: macOS-latest, r: 'release'} - - {os: ubuntu-latest, r: 'release'} - - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} - - env: - R_REMOTES_NO_ERRORS_FROM_WARNINGS: true - RSPM: ${{ matrix.config.rspm }} - GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} - - steps: - - uses: actions/checkout@v3 - - - uses: r-lib/actions/setup-pandoc@v2 - - - uses: r-lib/actions/setup-r@v2 - with: - r-version: ${{ matrix.config.r }} - http-user-agent: ${{ matrix.config.http-user-agent }} - use-public-rspm: true - - - uses: r-lib/actions/setup-r-dependencies@v2 - with: - extra-packages: any::rcmdcheck - needs: check - - - name: Document - run: | - install.packages("devtools") - devtools::document() - shell: Rscript {0} - if: github.event_name == 'pull_request' - - - uses: r-lib/actions/check-r-package@v2 - with: - upload-snapshots: true diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml deleted file mode 100644 index f447d64..0000000 --- a/.github/workflows/lint.yml +++ /dev/null @@ -1,40 +0,0 @@ -# Workflow for linting and style checks -on: - push: - branches: [main, master] - pull_request: - branches: [main, master] - -name: lint - -jobs: - lint: - runs-on: ubuntu-latest - env: - GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} - steps: - - uses: actions/checkout@v3 - - - uses: r-lib/actions/setup-r@v2 - with: - use-public-rspm: true - - - uses: r-lib/actions/setup-r-dependencies@v2 - with: - extra-packages: | - any::lintr - any::styler - needs: lint - - - name: Lint - run: | - lintr::lint_package() - shell: Rscript {0} - - - name: Style check - run: | - if (!styler::style_pkg(dry = TRUE)) { - message("Some files are not properly styled!") - quit(status = 1) - } - shell: Rscript {0} diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml deleted file mode 100644 index bfc9f4d..0000000 --- a/.github/workflows/pkgdown.yaml +++ /dev/null @@ -1,49 +0,0 @@ -# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples -# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help -on: - push: - branches: [main, master] - pull_request: - release: - types: [published] - workflow_dispatch: - -name: pkgdown.yaml - -permissions: read-all - -jobs: - pkgdown: - runs-on: ubuntu-latest - # Only restrict concurrency for non-PR jobs - concurrency: - group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }} - env: - GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} - permissions: - contents: write - steps: - - uses: actions/checkout@v4 - - - uses: r-lib/actions/setup-pandoc@v2 - - - uses: r-lib/actions/setup-r@v2 - with: - use-public-rspm: true - - - uses: r-lib/actions/setup-r-dependencies@v2 - with: - extra-packages: any::pkgdown, local::. - needs: website - - - name: Build site - run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) - shell: Rscript {0} - - - name: Deploy to GitHub pages 🚀 - if: github.event_name != 'pull_request' - uses: JamesIves/github-pages-deploy-action@v4.5.0 - with: - clean: false - branch: gh-pages - folder: docs diff --git a/.github/workflows/test-coverage.yml b/.github/workflows/test-coverage.yml deleted file mode 100644 index 0a1c21f..0000000 --- a/.github/workflows/test-coverage.yml +++ /dev/null @@ -1,55 +0,0 @@ -# Run test-coverage for visualizeR package -on: - push: - branches: [main, master] - pull_request: - branches: [main, master] - -name: test-coverage - -jobs: - test-coverage: - runs-on: ubuntu-latest - env: - GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} - steps: - - uses: actions/checkout@v3 - - - uses: r-lib/actions/setup-r@v2 - with: - use-public-rspm: true - - - uses: r-lib/actions/setup-r-dependencies@v2 - with: - extra-packages: | - any::covr - any::remotes - needs: coverage - - - name: Install package - run: | - R CMD build . - R CMD INSTALL *.tar.gz - - - name: Test coverage - run: | - covr::codecov( - quiet = FALSE, - clean = FALSE, - install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package") - ) - shell: Rscript {0} - - - name: Show testthat output - if: always() - run: | - ## Print out test results details - find . -name 'testthat.Rout*' -exec cat '{}' \; || true - shell: bash - - - name: Upload test results - if: failure() - uses: actions/upload-artifact@v4 - with: - name: coverage-test-failures - path: ${{ runner.temp }}/package diff --git a/.gitignore b/.gitignore index e00605f..ecb1ef1 100644 --- a/.gitignore +++ b/.gitignore @@ -1,10 +1,6 @@ -.Rproj.user -.Rhistory -.Rdata -.httr-oauth -.DS_Store +.Rproj.user +.Rhistory +.Rdata +.httr-oauth +.DS_Store R/test.R -inst/doc - -/.quarto/ -docs diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml deleted file mode 100644 index b233962..0000000 --- a/.pre-commit-config.yaml +++ /dev/null @@ -1,93 +0,0 @@ -# All available hooks: https://pre-commit.com/hooks.html -# R specific hooks: https://github.com/lorenzwalthert/precommit -repos: - - repo: https://github.com/lorenzwalthert/precommit - rev: v0.4.3.9012 - hooks: - - id: style-files - args: [--style_pkg=styler, --style_fun=tidyverse_style] - - id: roxygenize - # roxygen requires loading pkg -> add dependencies from DESCRIPTION - additional_dependencies: - - ggplot2 - - rlang - - grDevices - - glue - - scales - - ggtext - - ggrepel - - tidyr - - dplyr - - ggalluvial - - viridisLite - - waffle - - stringr - - checkmate - - forcats - - # codemeta must be above use-tidy-description when both are used - # - id: codemeta-description-updated - - id: use-tidy-description - - id: spell-check - exclude: > - (?x)^( - .*\.[rR]| - .*\.feather| - .*\.jpeg| - .*\.pdf| - .*\.png| - .*\.py| - .*\.RData| - .*\.rds| - .*\.Rds| - .*\.Rproj| - .*\.sh| - (.*/|)\.gitignore| - (.*/|)\.gitlab-ci\.yml| - (.*/|)\.lintr| - (.*/|)\.pre-commit-.*| - (.*/|)\.Rbuildignore| - (.*/|)\.Renviron| - (.*/|)\.Rprofile| - (.*/|)\.travis\.yml| - (.*/|)appveyor\.yml| - (.*/|)NAMESPACE| - (.*/|)renv/settings\.dcf| - (.*/|)renv\.lock| - (.*/|)WORDLIST| - \.github/workflows/.*| - data/.*| - )$ - - id: readme-rmd-rendered - - id: parsable-R - - id: no-browser-statement - - id: no-print-statement - - id: no-debug-statement - - id: deps-in-desc - - id: pkgdown - - repo: https://github.com/pre-commit/pre-commit-hooks - rev: v5.0.0 - hooks: - - id: check-added-large-files - args: ["--maxkb=200"] - - id: file-contents-sorter - files: '^\.Rbuildignore$' - - id: end-of-file-fixer - exclude: '\.Rd' - - repo: https://github.com/pre-commit-ci/pre-commit-ci-config - rev: v1.6.1 - hooks: - # Only required when https://pre-commit.ci is used for config validation - - id: check-pre-commit-ci-config - - repo: local - hooks: - - id: forbid-to-commit - name: Don't commit common R artifacts - entry: Cannot commit .Rhistory, .RData, .Rds or .rds. - language: fail - files: '\.(Rhistory|RData|Rds|rds)$' - # `exclude: ` to allow committing specific files - -ci: - autoupdate_schedule: monthly - skip: [pkgdown] diff --git a/DESCRIPTION b/DESCRIPTION index 0070ce0..2fed535 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,41 +1,39 @@ -Type: Package Package: visualizeR +Type: Package Title: What a color! What a viz! -Version: 1.0 -Authors@R: - person("Noblet", "Guillaume", , "gnoblet@zaclys.net", role = c("aut", "cre")) -Maintainer: Guillaume Noblet -Description: It basically provides colors as hex codes, color palettes, - and some viz functions (graphs and maps). -License: GPL (>= 3) +Version: 0.8.9000 +Authors@R: c( + person( + 'Noblet', 'Guillaume', + email = 'gnoblet@zaclys.net', + role = c('aut', 'cre') + ) + ) URL: https://github.com/gnoblet/visualizeR, - https://gnoblet.github.io/visualizeR/ -Depends: - R (>= 4.1.0) -Imports: - checkmate, - dplyr, - forcats, - ggplot2, - ggrepel, - ggtext, - glue, - grDevices, - rlang (>= 0.4.11), - scales, - tidyr -Suggests: - covr, - knitr, - rio, - rmarkdown, - roxygen2, - testthat (>= 3.0.0), - vdiffr, - withr -VignetteBuilder: - knitr -Config/testthat/edition: 3 + https://gnoblet.github.io/visualizeR/ +Maintainer: Guillaume Noblet +Description: It basically provides colors as hex codes, color palettes, and some viz functions (graphs and maps). +Depends: R (>= 4.1.0) +License: GPL (>= 3) Encoding: UTF-8 LazyData: true -RoxygenNote: 7.3.2 +RoxygenNote: 7.2.3 +Imports: + ggplot2, + rlang (>= 0.4.11), + grDevices, + glue, + scales, + ggtext, + ggrepel, + tidyr, + dplyr, + ggalluvial, + viridisLite, + waffle +Suggests: + knitr, + roxygen2, + sf, + tmap +VignetteBuilder: knitr diff --git a/R/alluvial.R b/R/alluvial.R new file mode 100644 index 0000000..5665585 --- /dev/null +++ b/R/alluvial.R @@ -0,0 +1,104 @@ +#' @title Simple alluvial chart +#' +#' @param df A data frame. +#' @param from A character column of upstream stratum. +#' @param to A character column of downstream stratum. +#' @param value A numeric column of values. +#' @param group The grouping column to fill the alluvium with. +#' @param alpha Fill transparency. Default to 0.5. +#' @param from_levels Order by given from levels? +#' @param value_title The value/y scale title. Default to NULL. +#' @param group_title The group title. Default to NULL. +#' @param title Plot title. Default to NULL. +#' @param subtitle Plot subtitle. Default to NULL. +#' @param caption Plot caption. Default to NULL. +#' @param rect_color Stratum rectangles' fill color. +#' @param rect_border_color Stratum rectangles' border color. +#' @param rect_text_color Stratum rectangles' text color. +#' @param theme Whatever theme. Default to theme_reach(). +#' +#' @return A donut chart to be used parsimoniously +#' +#' @export +alluvial <- function( + df, + from, + to, + value, + group = NULL, + alpha = 0.5, + from_levels = NULL, + value_title = NULL, + group_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + rect_color = cols_reach("white"), + rect_border_color = cols_reach("main_grey"), + rect_text_color = cols_reach("main_grey"), + theme = theme_reach(axis_y = FALSE, + legend_position = "none") +){ + + if(!is.null(from_levels)) df <- dplyr::mutate(df, "{{from}}" := factor({{ from }}, levels = from_levels)) + + # General mapping + g <- ggplot2::ggplot( + data = df, + mapping = ggplot2::aes( + y = {{ value }}, + axis1 = {{ from }}, + axis3 = {{ to }} + ) + ) + + # Add alluvium + g <- g + + ggalluvial::geom_alluvium( + ggplot2::aes( + fill = {{ group }}, + color = {{ group }} + ), + alpha = alpha) + + # Add stratum + g <- g + + ggalluvial::geom_stratum( + fill = rect_color, + color = rect_border_color + ) + + # Add stratum text + + stratum <- ggalluvial::StatStratum + + g <- g + + ggplot2::geom_text( + stat = stratum, + ggplot2::aes(label = ggplot2::after_stat(!!rlang::sym("stratum"))), + color = cols_reach("main_grey") + ) + + + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + y = value_title, + title = title, + subtitle = subtitle, + caption = caption, + fill = group_title, + color = group_title + ) + + # Remove x-axis + g <- g + ggplot2::theme( + axis.line.x = ggplot2::element_blank(), + axis.ticks.x = ggplot2::element_blank(), + axis.text.x = ggplot2::element_blank(), + axis.title.x = ggplot2::element_blank() + ) + + g <- g + theme + + return(g) +} diff --git a/R/bar.R b/R/bar.R index 50b7a01..5907ed4 100644 --- a/R/bar.R +++ b/R/bar.R @@ -1,35 +1,11 @@ -#' @rdname bar -#' -#' @inheritParams bar -#' -#' @param ... Additional arguments passed to `bar()` -#' -#' @export -hbar <- function( - ..., - flip = TRUE, - add_text = FALSE, - theme_fun = theme_bar(flip = flip, add_text = add_text)) { - bar(flip = flip, add_text = add_text, theme_fun = theme_fun, ...) -} - -#' Simple bar chart -#' -#' `bar()` is a simple bar chart with some customization allowed, in particular the `theme_fun` argument for theming. `hbar()` uses `bar()` with sane defaults for a horizontal bar chart. +#' @title Simple bar chart #' #' @param df A data frame. -#' @param x A quoted numeric column. -#' @param y A quoted character column or coercible as a character column. -#' @param group Some quoted grouping categorical column, e.g. administrative areas or population groups. -#' @param facet Some quoted grouping categorical column, e.g. administrative areas or population groups. -#' @param x_rm_na Remove NAs in x? -#' @param y_rm_na Remove NAs in y? -#' @param group_rm_na Remove NAs in group? -#' @param facet_rm_na Remove NAs in facet? -#' @param y_expand Multiplier to expand the y axis. -#' @param add_color Add a color to bars (if no grouping). -#' @param add_color_guide Should a legend be added? -#' @param flip TRUE or FALSE (default). Default to TRUE or horizontal bar plot. +#' @param x A numeric column. +#' @param y A character column or coercible as a character column. +#' @param group Some grouping categorical column, e.g. administrative areas or population groups. +#' @param flip TRUE or FALSE. Default to TRUE or horizontal bar plot. +#' @param percent TRUE or FALSE. Should the x-labels (and text labels if present) be displayed as percentages? Default to TRUE. #' @param wrap Should x-labels be wrapped? Number of characters. #' @param position Should the chart be stacked? Default to "dodge". Can take "dodge" and "stack". #' @param alpha Fill transparency. @@ -39,426 +15,134 @@ hbar <- function( #' @param title Plot title. Default to NULL. #' @param subtitle Plot subtitle. Default to NULL. #' @param caption Plot caption. Default to NULL. -#' @param width Bar width. -#' @param add_text TRUE or FALSE. Add values as text. -#' @param add_text_size Text size. -#' @param add_text_color Text color. -#' @param add_text_font_face Text font_face. +#' @param add_text TRUE or FALSE. Add the value as text. #' @param add_text_threshold_display Minimum value to add the text label. +#' @param add_text_color Text color. #' @param add_text_suffix If percent is FALSE, should we add a suffix to the text label? -#' @param add_text_expand_limit Default to adding 10\% on top of the bar. -#' @param add_text_round Round the text label. -#' @param theme_fun Whatever theme function. For no custom theme, use theme_fun = NULL. -#' @param scale_fill_fun Scale fill function. Default to scale_fill_visualizer_discrete(). -#' @param scale_color_fun Scale color function. Default to scale_color_visualizer_discrete(). +#' @param theme Whatever theme. Default to theme_reach(). #' -#' @inheritParams reorder_by -#' -#' @importFrom rlang `:=` +#' @return A bar chart #' #' @export -bar <- function( - df, - x, - y, - group = "", - facet = "", - order = "none", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - y_expand = 0.1, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, - flip = FALSE, - wrap = NULL, - position = "dodge", - alpha = 1, - x_title = NULL, - y_title = NULL, - group_title = NULL, - title = NULL, - subtitle = NULL, - caption = NULL, - width = 0.8, - add_text = FALSE, - add_text_size = 4.5, - add_text_color = color("dark_grey"), - add_text_font_face = "bold", - add_text_threshold_display = 0.05, - add_text_suffix = "%", - add_text_expand_limit = 1.2, - add_text_round = 1, - theme_fun = theme_bar( - flip = flip, - add_text = add_text, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5 - ), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete()) { - #------ Checks +bar <- function(df, x, y, group = NULL, flip = TRUE, percent = TRUE, wrap = NULL, position = "dodge", alpha = 1, x_title = NULL, y_title = NULL, group_title = NULL, title = NULL, subtitle = NULL, caption = NULL, width = 0.9, add_text = FALSE, add_text_threshold_display = 5, add_text_color = "white", add_text_suffix = "", theme = theme_reach()){ - # df is a data frame - checkmate::assert_data_frame(df) + # To do : + # - automate bar width and text size, or at least give the flexibility and still center text + # - add facet possibility - # x and y and group are character - checkmate::assert_character(x, len = 1) - checkmate::assert_character(y, len = 1) - checkmate::assert_character(group, len = 1) + # Prepare group, x and y names + # if (is.null(x_title)) x_title <- rlang::as_name(rlang::enquo(x)) + # if (is.null(y_title)) y_title <- rlang::as_name(rlang::enquo(y)) + # if (is.null(group_title)) group_title <- rlang::as_name(rlang::enquo(group)) - # x and y are columns in df - checkmate::assert_choice(x, colnames(df)) - checkmate::assert_choice(y, colnames(df)) - if (group != "") { - checkmate::assert_choice(group, colnames(df)) - } + # Mapping + g <- ggplot2::ggplot( + df, + mapping = ggplot2::aes(x = {{ x }}, y = {{ y }}, fill = {{ group }}, color = {{ group }} + ) + ) - # x_rm_na, y_rm_na and group_rm_na are logical scalar - checkmate::assert_logical(x_rm_na, len = 1) - checkmate::assert_logical(y_rm_na, len = 1) - checkmate::assert_logical(group_rm_na, len = 1) - checkmate::assert_logical(facet_rm_na, len = 1) - - # flip is a logical scalar - checkmate::assert_logical(flip, len = 1) - - # wrap is a numeric scalar or NULL - if (!is.null(wrap)) { - checkmate::assert_numeric(wrap, len = 1, null.ok = TRUE) - } - - # alpha is a numeric scalar between 0 and 1 - checkmate::assert_numeric(alpha, lower = 0, upper = 1, len = 1) - - # add_text is a logical scalar - checkmate::assert_logical(add_text, len = 1) - - # add_text_size is a numeric scalar - checkmate::assert_numeric(add_text_size, len = 1) - - # add_text_font_face is a character scalar in bold plain or italic - checkmate::assert_choice(add_text_font_face, c("bold", "plain", "italic")) - - # add_text_threshold_display is a numeric scalar - checkmate::assert_numeric(add_text_threshold_display, len = 1) - - # add_text_suffix is a character scalar - checkmate::assert_character(add_text_suffix, len = 1) - - # add_text_expand_limit is a numeric scalar - checkmate::assert_numeric(add_text_expand_limit, len = 1) - - # add_text_round is a numeric scalar - checkmate::assert_numeric(add_text_round, len = 1) - - # x and y are numeric or character - if (class(df[[y]]) %notin% c("integer", "numeric")) { - rlang::abort(paste0(y, " must be numeric.")) - } - if (!any(class(df[[x]]) %in% c("character", "factor"))) { - rlang::abort(paste0(x, " must be character or factor")) - } - - # width is a numeric scalar between 0 and 1 - checkmate::assert_numeric(width, lower = 0, upper = 1, len = 1) - - # Check if position is stack or dodge - if (position %notin% c("stack", "dodge")) { - rlang::abort("Position should be either 'stack' or 'dodge'.") - } - - #----- Data wrangling - - # facets over group - if (group != "" && facet != "" && group == facet) { - rlang::warn("'group' and 'facet' are the same identical.") - } - - # remove NAs using base R - if (x_rm_na) { - df <- df[!(is.na(df[[x]])), ] - } - if (y_rm_na) { - df <- df[!(is.na(df[[y]])), ] - } - if (group != "" && group_rm_na) { - df <- df[!(is.na(df[[group]])), ] - } - if (facet != "" && facet_rm_na) { - df <- df[!(is.na(df[[facet]])), ] - } - - # reorder - dir_order <- if (flip && order %in% c("x", "grouped_x")) { - -1 - } else if (!flip && order %in% c("x", "grouped_x")) { - 1 - } else if (flip) { - 1 - } else { - -1 - } - group_order <- if (group != "" || (group == "" && facet == "")) { - group - } else if (group == "" && facet != "") { - facet - } - df <- reorder_by( - df = df, - x = x, - y = y, - group = group_order, - order = order, - dir_order = dir_order + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + x = x_title, + y = y_title, + color = group_title, + fill = group_title ) - # prepare aes - if (group != "") { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y), - fill = !!rlang::sym(group), - color = !!rlang::sym(group) - ) - ) - } else { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y) - ) - ) - } - - # add title, subtitle, caption, x_title, y_title - g <- g + - ggplot2::labs( - title = title, - subtitle = subtitle, - caption = caption, - x = y_title, - y = x_title, - color = group_title, - fill = group_title - ) - - # width width <- width dodge_width <- width - # facets - if (facet != "") { - if (flip) { - g <- g + - ggplot2::facet_grid( - rows = ggplot2::vars(!!rlang::sym(facet)), - scales = "free", - space = "free_y" - ) - } else { - g <- g + - ggplot2::facet_grid( - cols = ggplot2::vars(!!rlang::sym(facet)), - scales = "free", - space = "free_x" - ) - } + # Should the graph use position_fill? + if (position == "stack"){ + g <- g + ggplot2::geom_col( + alpha = alpha, + width = width, + position = ggplot2::position_stack() + ) + } else if (position == "dodge"){ + g <- g + ggplot2::geom_col( + alpha = alpha, + width = width, + position = ggplot2::position_dodge2( + width = dodge_width, + preserve = "single") + ) + } else{ + g <- g + ggplot2::geom_col( + alpha = alpha, + width = width + ) } - - # should the graph use position_fill? - if (group != "") { - if (position == "stack") { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width, - position = ggplot2::position_stack() - ) - } else if (position == "dodge") { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width, - position = ggplot2::position_dodge2( - width = dodge_width, - preserve = "single" - ) - ) - } else { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width - ) - } + # + # Labels to percent and expand scale + if (percent) { + g <- g + ggplot2::scale_y_continuous( + labels = scales::label_percent( + accuracy = 1, + decimal.mark = ",", + suffix = " %"), + expand = c(0.01, 0.1) + ) } else { - if (position == "stack") { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width, - position = ggplot2::position_stack(), - fill = add_color, - color = add_color - ) - } else if (position == "dodge") { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width, - position = ggplot2::position_dodge2( - width = dodge_width, - preserve = "single" - ), - fill = add_color, - color = add_color - ) - } else { - g <- g + - ggplot2::geom_col( - alpha = alpha, - width = width, - fill = add_color, - color = add_color - ) - } + g <- g + ggplot2::scale_y_continuous(expand = c(0.01, 0.1)) } - # wrap labels on the x scale? if (!is.null(wrap)) { g <- g + ggplot2::scale_x_discrete(labels = scales::label_wrap(wrap)) } - # because a text legend should always be horizontal, especially for an horizontal bar graph - if (flip) { - g <- g + ggplot2::coord_flip() - } - # add text to bars - if (flip) { - hjust_flip <- -0.5 - } else { - hjust_flip <- 0.5 - } - if (flip) { - vjust_flip <- 0.5 - } else { - vjust_flip <- -0.5 + # Because a text legend should always be horizontal, especially for an horizontal bar graph + if (flip){ + g <- g + ggplot2::coord_flip() + } + + # Add text to bars + if (flip) hjust_flip <- 1.5 else hjust_flip <- 0.5 + if (flip) vjust_flip <- 0.5 else vjust_flip <- 1.5 + + if (add_text & position != "dodge") { + rlang::abort("Adding text labels and positions different than dodges as not been implemented yet") } - # function for interactio - interaction_f <- function(group, facet, data) { - if (group == "" && facet == "") { - return(NULL) - } else if (group != "" && facet != "") { - return(interaction(data[[group]], data[[facet]])) - } else if (group != "") { - return(data[[group]]) - } else if (facet != "") { - return(data[[facet]]) + # Add text labels + if (add_text) { + + df <- dplyr::mutate(df, "y_threshold" = ifelse({{ y }} >= add_text_threshold_display, {{ y }}, NA )) + + if (percent) { + g <- g + ggplot2::geom_text( + data = df, + ggplot2::aes( + label = scales::label_percent( + accuracy = 1, + decimal.mark = ",", + suffix = " %")(!!rlang::sym("y_threshold")), + group = {{ group }}), + hjust = hjust_flip, + vjust = vjust_flip, + color = add_text_color, + fontface = "bold", + position = ggplot2::position_dodge(width = dodge_width)) } else { - return(NULL) + g <- g + ggplot2::geom_text( + data = df, + ggplot2::aes( + label = paste0(round(!!rlang::sym("y_threshold")), add_text_suffix), + group = {{ group }}), + hjust = hjust_flip, + vjust = vjust_flip, + color = add_text_color, + fontface = "bold", + position = ggplot2::position_dodge(width = dodge_width)) } } - # add text labels - if (add_text & position == "dodge") { - df$y_threshold <- ifelse(df[[y]] >= add_text_threshold_display, df[[y]], NA) - - # expand limits - g <- g + - ggplot2::geom_blank( - data = df, - ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y) * add_text_expand_limit, - group = interaction_f(group, facet, df) - ) - ) - g <- g + - ggplot2::geom_text( - data = df, - ggplot2::aes( - label = ifelse( - is.na(!!rlang::sym("y_threshold")), - NA, - paste0( - round(!!rlang::sym("y_threshold"), add_text_round), - add_text_suffix - ) - ), - group = interaction_f(group, facet, df) - ), - hjust = hjust_flip, - vjust = vjust_flip, - color = add_text_color, - fontface = add_text_font_face, - size = add_text_size, - position = ggplot2::position_dodge2(width = dodge_width) - ) - } else if (add_text & position == "stack") { - df$y_threshold <- ifelse(df[[y]] >= add_text_threshold_display, df[[y]], NA) - - g <- g + - ggplot2::geom_text( - data = df, - ggplot2::aes( - label = ifelse( - is.na(!!rlang::sym("y_threshold")), - NA, - paste0( - round(!!rlang::sym("y_threshold"), add_text_round), - add_text_suffix - ) - ), - group = interaction_f(group, facet, df) - ), - hjust = hjust_flip, - vjust = vjust_flip, - color = add_text_color, - fontface = add_text_font_face, - size = add_text_size, - position = ggplot2::position_dodge2(width = dodge_width) - ) - } - - # y scale tweaks - g <- g + - ggplot2::scale_y_continuous( - # start at 0 - expand = ggplot2::expansion(mult = c(0, y_expand)), - # remove trailing 0 and choose accuracy of y labels - labels = scales::label_number( - accuracy = 0.1, - drop0trailing = TRUE, - big.mark = "", - decimal.mark = "." - ), - ) - - # # remove guides for legend if !add_color_guide - if (!add_color_guide) { - g <- g + ggplot2::guides(fill = "none", color = "none") - } - - # # add theme fun - if (!is.null(theme_fun)) { - g <- g + theme_fun - } - - # # # add scale fun - if (!is.null(scale_fill_fun)) { - g <- g + scale_fill_fun - } - - if (!is.null(scale_color_fun)) { - g <- g + scale_color_fun - } + # Add theme + g <- g + theme return(g) } diff --git a/R/bbox_buffer.R b/R/bbox_buffer.R new file mode 100644 index 0000000..be11e5a --- /dev/null +++ b/R/bbox_buffer.R @@ -0,0 +1,39 @@ +#' @title Bbbox buffer +#' +#' @param sf_obj A `sf` object +#' @param buffer A buffer, either one value or a vector of 4 values (left, bottom, right, top). Default to 0. +#' +#' @return A bbox with a buffer +#' +#' @export +buffer_bbox <- function(sf_obj, buffer = 0){ + + rlang::check_installed("sf", reason = "Package \"sf\" needed for `buffer_bbox()` to work. Please install it.") + + + if (!(length(buffer) %in% c(1,4)) | !is.numeric(buffer)) stop("Please provide a numeric buffer of length 1 or 4.") + + bbox <- sf::st_bbox(sf_obj) + xrange <- bbox$xmax - bbox$xmin # range of x values + yrange <- bbox$ymax - bbox$ymin # range of y values + + + bbox_with_buffer <- if (length(buffer) == 1) { + c( + bbox[1] - (buffer * xrange), # xmin - left + bbox[2] - (buffer * yrange), # ymin - bottom + bbox[3] + (buffer * xrange), # xmax - right + bbox[4] + (buffer * yrange) # ymax - top + ) + } else if (length(buffer) == 4) { + c( + bbox[1] - (buffer[1] * xrange), # xmin - left + bbox[2] - (buffer[2] * yrange), # ymin - bottom + bbox[3] + (buffer[3] * xrange), # xmax - right + bbox[4] + (buffer[4] * yrange) # ymax - top + ) + } else { + print("Missed something while writing the funtion.") + } + +} diff --git a/R/checks.R b/R/checks.R deleted file mode 100644 index e602c02..0000000 --- a/R/checks.R +++ /dev/null @@ -1,17 +0,0 @@ -#' @title Check if variables are in data frame -#' -#' @param df A data frame -#' @param vars A vector of variable names -#' -#' @return A stop statement -check_vars_in_df <- function(df, vars) { - vars_nin <- setdiff(vars, colnames(df)) - - if (length(vars_nin) > 0) { - rlang::abort(glue::glue( - "Variables ", - glue::glue_collapse(vars_nin, sep = ", ", last = ", and "), - " not found in data frame." - )) - } -} diff --git a/R/color.R b/R/color.R deleted file mode 100644 index fa3b479..0000000 --- a/R/color.R +++ /dev/null @@ -1,162 +0,0 @@ -#' Helpers to extract defined colors as hex codes -#' -#' [color()] returns the requested columns, returns NA if absent. [color_pattern()] returns all colors that start with the pattern. -#' -#' @param ... Character names of colors. If NULL returns all colors. -#' @param unname Boolean. Should the output vector be unnamed? Default to `TRUE`. -#' @section Naming of colors: -#' * All branding colors start with "branding"; -#' * All , categorical colors start with ", cat_"; -#' * All sequential colors start with "seq_"; -#' -#' Then, a number indicates the number of colors that belong to the palettes, a string the name of the palette, and, finally, a number the position of the color. E.g., "seq_5_red_4" would be the 4th color of a continuous palettes of 5 colors in the red band. Exception is made for white, light_grey, dark_grey, and black. -#' -#' -#' @return Hex codes named or unnamed. -#' -#' @export -color <- function(..., unname = TRUE) { - #------ Checks - - # unname is a logical scalar - checkmate::assert_logical(unname, len = 1) - - # all elements in ... are character strings - dots <- list(...) - if (length(dots) > 0) { - # Check each argument is a single character string - for (i in seq_along(dots)) { - checkmate::assert_string(dots[[i]], .var.name = paste0("Argument #", i)) - } - } - - #------ Prep - - # retrieve colors - cols <- c(...) - - # define color vector - colors <- c( - white = "#FFFFFF", - lighter_grey = "#F5F5F5", - light_grey = "#E3E3E3", - dark_grey = "#464647", - light_blue_grey = "#B3C6D1", - grey = "#71716F", - black = "#000000", - cat_2_yellow_1 = "#ffc20a", - cat_2_yellow_2 = "#0c7bdc", - cat_2_light_1 = "#fefe62", - cat_2_light_2 = "#d35fb7", - cat_2_green_1 = "#1aff1a", - cat_2_green_2 = "#4b0092", - cat_2_blue_1 = "#1a85ff", - cat_2_blue_2 = "#d41159", - cat_5_main_1 = "#083d77", # yale blue - cat_5_main_2 = "#4ecdc4", # robin egg blue - cat_5_main_3 = "#f4c095", # peach - cat_5_main_4 = "#b47eb3", # african violet - cat_5_main_5 = "#ffd5ff", # mimi pink - seq_5_main_1 = "#083d77", # yale blue - seq_5_main_2 = "##396492", - seq_5_main_3 = "#6b8bad", - seq_5_main_4 = "#9cb1c9", - seq_5_main_5 = "#ced8e4", - cat_5_ibm_1 = "#648fff", - cat_5_ibm_2 = "#785ef0", - cat_5_ibm_3 = "#dc267f", - cat_5_ibm_4 = "#fe6100", - cat_5_ibm_5 = "#ffb000", - cat_3_aquamarine_1 = "aquamarine2", - cat_3_aquamarine_2 = "cornflowerblue", - cat_3_aquamarine_3 = "brown1", - cat_3_tol_high_contrast_1 = "#215589", - cat_3_tol_high_contrast_2 = "#cfaa34", - cat_3_tol_high_contrast_3 = "#a35364", - cat_8_tol_adapted_1 = "#332e86", - cat_8_tol_adapted_2 = "#50504f", - cat_8_tol_adapted_3 = "#3dab9a", - cat_8_tol_adapted_4 = "#86ccee", - cat_8_tol_adapted_5 = "#ddcb77", - cat_8_tol_adapted_6 = "#ee5859", - cat_8_tol_adapted_7 = "#aa4599", - cat_8_tol_adapted_8 = "#721220", - div_5_orange_blue_1 = "#c85200", - div_5_orange_blue_2 = "#e48646", - div_5_orange_blue_3 = "#cccccc", - div_5_orange_blue_4 = "#6b8ea4", - div_5_orange_blue_5 = "#366785", - div_5_green_purple_1 = "#c85200", - div_5_green_purple_2 = "#e48646", - div_5_green_purple_3 = "#cccccc", - div_5_green_purple_4 = "#6b8ea4", - div_5_green_purple_5 = "#366785" - ) - - #------ Checks - - # Check that if ... is not null, all colors are defined - if (!is.null(cols)) { - if (cols %notallin% names(colors)) { - rlang::abort(c( - "Some colors not defined", - "*" = glue::glue_collapse( - ...[which(!... %in% names(cols))], - sep = ", ", - last = ", and " - ), - "i" = "Use `color(unname = FALSE)` to see all named available colors." - )) - } - } - - # ------ Return - - if (is.null(cols)) { - cols_to_return <- colors - } else { - cols_to_return <- colors[cols] - } - - if (unname) { - cols_to_return <- unname(cols_to_return) - } - - return(cols_to_return) -} - -#' @rdname color -#' -#' @param pattern Pattern of the start of colors' name. -#' -#' @export -color_pattern <- function(pattern, unname = TRUE) { - #------ Checks - - # Check that pattern is a character scalar - checkmate::assert_character(pattern, len = 1) - - # Check that unname is a logical scalar - checkmate::assert_logical(unname, len = 1) - - #------ Get colors - - # Get colors - col <- color(unname = FALSE) - col <- col[startsWith(names(col), pattern)] - - if (unname) { - col <- unname(col) - } - - # If col is of length 0, warn - if (length(col) == 0) { - rlang::warn(c( - "No colors match the pattern", - "*" = glue::glue("Pattern used is:'{pattern}'"), - "i" = "Use `color(unname = FALSE)` to see all named available colors." - )) - } - - return(col) -} diff --git a/R/cols_agora.R b/R/cols_agora.R new file mode 100644 index 0000000..5b2333f --- /dev/null +++ b/R/cols_agora.R @@ -0,0 +1,32 @@ +#' @title Function to extract AGORA colors as hex codes +#' +#' @param ... Character names of reach colors. If NULL returns all colors +#' @param unnamed Should the output vector be unnamed? Default to `TRUE` +#' +#' @return An hex code or hex codes named or unnamed +#' +#' @details This function needs to be modified to add colors +#' +#' @export +cols_agora <- function(..., unnamed = TRUE) { + cols <- c(...) + + colors_agora <- c(white = "#FFFFFF", + black = "#000000", + main_bordeaux = "#581522", + main_lt_beige = "#DDD8C4", + main_dk_beige = "#B7AD99", + main_lt_grey = "#BCB8B1") + + if (is.null(cols)) { + cols_to_return <- colors_agora + } else { + cols_to_return <- colors_agora[cols] + } + + if(unnamed){ + cols_to_return <- unname(cols_to_return) + } + + return(cols_to_return) +} diff --git a/R/cols_impact.R b/R/cols_impact.R new file mode 100644 index 0000000..c74bdaf --- /dev/null +++ b/R/cols_impact.R @@ -0,0 +1,30 @@ +#' @title Function to extract IMPACT colors as hex codes +#' +#' @param ... Character names of reach colors. If NULL returns all colors +#' @param unnamed Should the output vector be unnamed? Default to `TRUE` +#' +#' @return An hex code or hex codes named or unnamed +#' +#' @details This function needs to be modified to add colors +#' +#' @export +cols_impact <- function(..., unnamed = TRUE) { + cols <- c(...) + + colors_impact <- c(white = "#FFFFFF", + black = "#000000", + main_blue = "#315975", + main_gray = "#58585A") + + if (is.null(cols)) { + cols_to_return <- colors_impact + } else { + cols_to_return <- colors_impact[cols] + } + + if(unnamed){ + cols_to_return <- unname(cols_to_return) + } + + return(cols_to_return) +} diff --git a/R/cols_reach.R b/R/cols_reach.R new file mode 100644 index 0000000..efb1c54 --- /dev/null +++ b/R/cols_reach.R @@ -0,0 +1,168 @@ +#' @title Function to extract REACH colors as hex codes +#' +#' @param ... Character names of reach colors. If NULL returns all colors +#' @param unnamed Should the output vector be unnamed? Default to `TRUE` +#' +#' @return An hex code or hex codes named or unnamed +#' +#' @details This function needs to be modified to add colors +#' +#' @export +cols_reach <- function(..., unnamed = TRUE) { + cols <- c(...) + + colors_reach <- c( + white = "#FFFFFF", + black = "#000000", + main_grey = "#58585A", + main_red = "#EE5859", + main_lt_grey = "#C7C8CA", + main_beige = "#D2CBB8", + iroise_1 = "#DFECEF", + iroise_2 = "#B1D7E0", + iroise_3 = "#699DA3", + iroise_4 = "#236A7A", + iroise_5 = "#0C3842", + red_main_1 = "#AE2829", + red_main_2 = "#D05E5F", + red_main_3 = "#DB9797", + red_main_4 = "#EBC7C8", + red_main_5 = "#FAF2F2", + red_alt_1 = "#792a2e", + red_alt_2 = "#c0474a", + red_alt_3 = "#ee5859", + red_alt_4 = "#f49695", + red_alt_5 = "#f8d6d6", + red_alt_na = "#f8f4f4", + lt_grey_1 = "#C6C6C6", + lt_grey_2 = "#818183", + grey3 = "#E3E3E3", + dk_grey = "#464647", + two_dots_1 = "#706441", + two_dots_2 = "#56b4e9", + two_dots_flashy_1 = "gold1", + two_dots_flashy_2 = "blue2", + three_dots_1 = "aquamarine2", + three_dots_2 = "cornflowerblue", + three_dots_3 = "brown1", + orpink = "#f8aa9b", + pink = "#f5a6a7", + lt_pink = "#F9C6C7", + hot_pink = "#ef6d6f", + mddk_red = "#bf4749", + dk_red = "#782c2e", + orange = "#F69E61", + lt_green = "#B0CFAC", + green = "#84A181", + dk_green = "#526450", + red_less_4_1 = "#f6e3e3", + red_less_4_2 = "#f3b5b6", + red_less_4_3 = "#ee5a59", + red_less_4_4 = "#9d393c", + red_5_1 = "#f6e3e3", + red_5_2 = "#f3b5b6", + red_5_3 = "#ee5a59", + red_5_4 = "#c0474a", + red_5_5 = "#792a2e", + red_less_7_1 = "#f8f4f4", + red_less_7_2 = "#f8d6d6", + red_less_7_3 = "#f49695", + red_less_7_4 = "#ee5a59", + red_less_7_5 = "#c0474a", + red_less_7_6 = "#792a2e", + red_less_7_7 = "#471119", + green_2_1 = "#cce5c9", + green_2_2 = "#55a065", + green_3_1 = "#e6f2e0", + green_3_2 = "#7ebf85", + green_3_3 = "#2d8246", + green_4_1 = "#e6f2e1", + green_4_2 = "#b0d3ab", + green_4_3 = "#4bab5e", + green_4_4 = "#0c592e", + green_5_1 = "#e6f2e1", + green_5_2 = "#b0d3ab", + green_5_3 = "#6bb26a", + green_5_4 = "#229346", + green_5_5 = "#0c592e", + green_6_1 = "#e6f2e0", + green_6_2 = "#b0d3ab", + green_6_3 = "#75c376", + green_6_4 = "#086d38", + green_6_5 = "#0c592e", + green_6_6 = "#0d4420", + green_7_1 = "#fafafa", + green_7_2 = "#e6f2e0", + green_7_3 = "#b0d3ab", + green_7_4 = "#75c376", + green_7_5 = "#40ab5d", + green_7_6 = "#086d38", + green_7_7 = "#0d4420", + artichoke_2_1 = "#b6c8b1", + artichoke_2_2 = "#53755f", + artichoke_3_1 = "#e4f1db", + artichoke_3_2 = "#89a087", + artichoke_3_3 = "#455843", + artichoke_4_1 = "#e4f1db", + artichoke_4_2 = "#b5ceb2", + artichoke_4_3 = "#89a087", + artichoke_4_4 = "#465944", + artichoke_5_1 = "#e4f1db", + artichoke_5_2 = "#b5ceb2", + artichoke_5_3 = "#89a087", + artichoke_5_4 = "#60755f", + artichoke_5_5 = "#465944", + artichoke_6_1 = "#fafafa", + artichoke_6_2 = "#e4f1db", + artichoke_6_3 = "#b5ceb2", + artichoke_6_4 = "#89a087", + artichoke_6_5 = "#60755f", + artichoke_6_6 = "#455843", + artichoke_7_1 = "#fafafa", + artichoke_7_2 = "#e4f1db", + artichoke_7_3 = "#b5ceb2", + artichoke_7_4 = "#9fb89c", + artichoke_7_5 = "#89a087", + artichoke_7_6 = "#60755f", + artichoke_7_7 = "#455843", + blue_2_1 = "#7cb6c4", + blue_2_2 = "#286877 ", + blue_3_1 = "#b9d7de", + blue_3_2 = "#5ca4b4", + blue_3_3 = "#286877", + blue_4_1 = "#dfecef", + blue_4_2 = "#8fc1cc", + blue_4_3 = "#3f96aa", + blue_4_4 = "#286877", + blue_5_1 = "#dfecef", + blue_5_2 = "#8fc1cc", + blue_5_3 = "#3f96aa", + blue_5_4 = "#256a7a", + blue_5_5 = "#0c3842", + blue_6_1 = "#f4fbfe", + blue_6_2 = "#cfe4e9", + blue_6_3 = "#77b2bf", + blue_6_4 = "#4096aa", + blue_6_5 = "#256a7a", + blue_6_6 = "#0c3842", + blue_7_1 = "#f4fbfe", + blue_7_2 = "#b3d5de", + blue_7_3 = "#77b2bf", + blue_7_4 = "#4096aa", + blue_7_5 = "#27768a", + blue_7_6 = "#0c596b", + blue_7_7 = "#0c3842" + ) + + if (is.null(cols)) { + cols_to_return <- colors_reach + } else { + cols_to_return <- colors_reach[cols] + } + + if (unnamed) { + cols_to_return <- unname(cols_to_return) + } + + return(cols_to_return) +} diff --git a/R/data.R b/R/data.R new file mode 100644 index 0000000..8101ff4 --- /dev/null +++ b/R/data.R @@ -0,0 +1,93 @@ +#' Haïti admin 1 centroids shapefile. +#' +#' A multipoint shapefile of Haiti's admin 1. +#' +#' @format A sf multipoint object with 10 features and 9 fields: +#' \describe{ +#' \item{ADM1_PC}{Admin 1 postal code.} +#' \item{ADM1_EN}{Full name in English.} +#' \item{ADM1_FR}{Full name in French.} +#' \item{ADM1_HT}{Full name in Haitian Creole.} +#' \item{ADM0_EN}{Country name in English.} +#' \item{ADM0_FR}{Country name in French.} +#' \item{ADM0_HT}{Country name in Haitian Creole.} +#' \item{ADM0_PC}{Country postal code.} +#' \item{ADM1_FR_UPPER}{Admin 1 French name - uppercase.} +#' \item{geometry}{Multipoint geometry.} +#' } +"centroid_admin1" + + +#' Indicator admin 1 polygons shapefile. +#' +#' A multipolygon shapefile of Haiti's admin 1 with an indicator column 'opn_dfc'. +#' +#' @format A sf multipoint object with 10 features and 10 fields: +#' \describe{ +#' \item{ADM1_PC}{Admin 1 postal code.} +#' \item{admin1}{Admin 1 unique id.} +#' \item{opn_dfc}{Proportion of HHs that reported open defecation as sanitation facility.} +#' \item{ADM1_EN}{Full name in English.} +#' \item{ADM1_FR}{Full name in French.} +#' \item{ADM1_HT}{Full name in Haitian Creole.} +#' \item{ADM0_EN}{Country name in English.} +#' \item{ADM0_FR}{Country name in French.} +#' \item{ADM0_HT}{Country name in Haitian Creole.} +#' \item{ADM0_PC}{Country postal code.} +#' \item{geometry}{Multipolygon geometry.} +#' } +"indicator_admin1" + + +#' Haïti admin 1 lines shapefile. +#' +#' A multiline shapefile of Haiti's admin 1. +#' +#' @format A sf multiline object with 10 features and 8 fields: +#' \describe{ +#' \item{ADM1_EN}{Full name in English.} +#' \item{ADM1_FR}{Full name in French.} +#' \item{ADM1_HT}{Full name in Haitian Creole.} +#' \item{ADM0_EN}{Country name in English.} +#' \item{ADM0_FR}{Country name in French.} +#' \item{ADM0_HT}{Country name in Haitian Creole.} +#' \item{ADM0_PCODE}{Country postal code.} +#' \item{geometry}{Multiline geometry.} +#' } +"line_admin1" + + +#' Haïti border. +#' +#' A multiline shapefile of Haiti's border. +#' +#' @format A sf multiline objet with 1 feature and 6 fields: +#' \describe{ +#' \item{fid_1}{fid_1} +#' \item{uno}{uno} +#' \item{count}{count} +#' \item{x_coord}{x_coord} +#' \item{y_coord}{y_coord} +#' \item{area}{area} +#' \item{geometry}{Multiline geometry.} +#' } +"border_admin0" + + +#' Haïti frontier with Dominican Republic. +#' +#' A multiline shapefile of Haiti's frontier with Dominican Republic. +#' +#' @format A sf multipoint objet with 4 features and 8 fields: +#' \describe{ +#' \item{fid_1}{fid_1} +#' \item{objectid}{objectid} +#' \item{id}{id} +#' \item{fromnode}{fromnode} +#' \item{tonode}{tonode} +#' \item{leftpolygo}{leftpolygo} +#' \item{rightpolygo}{rightpolygo} +#' \item{shape_leng}{shape_leng} +#' \item{geometry}{Multiline geometry.} +#' } +"frontier_admin0" diff --git a/R/donut.R b/R/donut.R new file mode 100644 index 0000000..32237fa --- /dev/null +++ b/R/donut.R @@ -0,0 +1,110 @@ +#' @title Simple donut chart (to be used parsimoniously), can be a pie chart +#' +#' @param df A data frame. +#' @param x A character column or coercible as a character column. Will give the donut's fill color. +#' @param y A numeric column. +#' @param alpha Fill transparency. +#' @param x_title The x scale title. Default to NULL. +#' @param title Plot title. Default to NULL. +#' @param subtitle Plot subtitle. Default to NULL. +#' @param caption Plot caption. Default to NULL. +#' @param arrange TRUE or FALSE. Arrange by highest percentage first. +#' @param hole_size Hole size. Default to 3. If less than 2, back to a pie chart. +#' @param add_text TRUE or FALSE. Add the value as text. +#' @param add_text_threshold_display Minimum value to add the text label. +#' @param add_text_color Text color. +#' @param add_text_suffix If percent is FALSE, should we add a suffix to the text label? +#' @param theme Whatever theme. Default to theme_reach(). +#' +#' @return A donut chart to be used parsimoniously +#' +#' @export +donut <- function(df, + x, + y, + alpha = 1, + x_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + arrange = TRUE, + hole_size = 3, + add_text = TRUE, + add_text_threshold_display = 5, + add_text_color = "white", + add_text_suffix = "", theme = theme_reach(legend_reverse = TRUE)){ + + + # Arrange by biggest prop first ? + if (arrange) df <- dplyr::arrange( + df, + {{ y }} + ) + + # Get levels for scaling + lev <- dplyr::pull(df, {{ x }}) + df <- dplyr::mutate(df, "{{x}}" := factor({{ x }}, levels = lev)) + + # Mapping + g <- ggplot2::ggplot( + df, + mapping = ggplot2::aes( + x = hole_size, + y = {{ y }}, + fill = {{ x }}, + color = {{ x }} + ) + ) + + # Add rect + g <- g + ggplot2::geom_col(alpha = alpha) + + + # Add text labels + if (add_text) { + + df <- dplyr::mutate(df, y_treshold = ifelse({{ y }} >= add_text_threshold_display, {{ y }}, NA )) + + g <- g + + ggplot2::geom_text( + data = df, + ggplot2::aes( + x = hole_size, + y = !!rlang::sym("y_treshold"), + label = paste0({{ y }}, add_text_suffix)), + color = add_text_color, + position = ggplot2::position_stack(vjust = 0.5)) + } + + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + fill = x_title, + color = x_title + ) + + # Transform to polar coordinates and adjust hole + g <- g + + ggplot2::coord_polar( + theta = "y" + ) + + if (hole_size >= 2) g <- g + ggplot2::xlim(c(1, hole_size + 0.5)) # Try to remove that to see how to make a pie chart + + # Add theme + g <- g + theme + + # No axis + g <- g + ggplot2::theme( + axis.text = ggplot2::element_blank(), + axis.line = ggplot2::element_blank(), + axis.ticks = ggplot2::element_blank(), + axis.title = ggplot2::element_blank() + ) + + + return(g) + +} diff --git a/R/dumbbell.R b/R/dumbbell.R index e38acda..18f0e9a 100644 --- a/R/dumbbell.R +++ b/R/dumbbell.R @@ -22,134 +22,88 @@ #' @param add_text_vjust Vertical adjustment. #' @param add_text_size Text size. #' @param add_text_color Text color. -#' @param theme_fun A ggplot2 theme, default to `theme_dumbbell()` -#' @param scale_fill_fun A ggplot2 scale_fill function, default to `scale_fill_visualizer_discrete()` -#' @param scale_color_fun A ggplot2 scale_color function, default to `scale_color_visualizer_discrete()` +#' @param theme A ggplot2 theme, default to `theme_reach()` #' #' @return A dumbbell chart. #' @export #' -dumbbell <- function( - df, - col, - group_x, - group_y, - point_size = 5, - point_alpha = 1, - segment_size = 2.5, - segment_color = color("light_blue_grey"), - group_x_title = NULL, - group_y_title = NULL, - x_title = NULL, - title = NULL, - subtitle = NULL, - caption = NULL, - line_to_y_axis = FALSE, - line_to_y_axis_type = 3, - line_to_y_axis_width = 0.5, - line_to_y_axis_color = color("dark_grey"), - add_text = FALSE, - add_text_vjust = 2, - add_text_size = 3.5, - add_text_color = color("dark_grey"), - theme_fun = theme_dumbbell(), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete() -) { - #------ Checks - - # df is a data frame - checkmate::assert_data_frame(df) - - # col, group_x, group_y are character - checkmate::assert_character(col, len = 1) - checkmate::assert_character(group_x, len = 1) - checkmate::assert_character(group_y, len = 1) - - # col, group_x, group_y are columns in df - checkmate::assert_choice(col, colnames(df)) - checkmate::assert_choice(group_x, colnames(df)) - checkmate::assert_choice(group_y, colnames(df)) - - # Check numeric/logical values - checkmate::assert_numeric(point_size, len = 1) - checkmate::assert_numeric(point_alpha, lower = 0, upper = 1, len = 1) - checkmate::assert_numeric(segment_size, len = 1) - checkmate::assert_logical(line_to_y_axis, len = 1) - checkmate::assert_numeric(line_to_y_axis_type, len = 1) - checkmate::assert_numeric(line_to_y_axis_width, len = 1) - checkmate::assert_logical(add_text, len = 1) - checkmate::assert_numeric(add_text_vjust, len = 1) - checkmate::assert_numeric(add_text_size, len = 1) +dumbbell <- function(df, + col, + group_x, + group_y, + point_size = 5, + point_alpha = 1, + segment_size = 2.5, + segment_color = cols_reach("main_lt_grey"), + group_x_title = NULL, + group_y_title = NULL, + x_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + line_to_y_axis = TRUE, + line_to_y_axis_type = 3, + line_to_y_axis_width = 0.5, + line_to_y_axis_color = cols_reach("main_grey"), + add_text = TRUE, + add_text_vjust = 2, + add_text_size = 3.5, + add_text_color = cols_reach("main_grey"), + theme = theme_reach(palette = "primary")){ # Get group keys group_x_keys <- df |> - dplyr::group_by(!!rlang::sym(group_x)) |> + dplyr::group_by({{ group_x }}) |> dplyr::group_keys() |> dplyr::pull() # Check if only two groups - if (length(group_x_keys) > 2) { - rlang::abort( - "Cannot draw a dumbbell plot for `group_x` with more than 2 groups" - ) - } + if (length(group_x_keys) > 2) rlang::abort("Cannot draw a dumbbell plot for `group_x` with more than 2 groups") # Pivot long data df_pivot <- df |> tidyr::pivot_wider( - id_cols = c(!!rlang::sym(group_y)), - values_from = !!rlang::sym(col), - names_from = !!rlang::sym(group_x) + id_cols = c({{ group_y}}), + values_from = {{ col }}, + names_from = {{ group_x }} ) df_pivot <- df_pivot |> dplyr::rowwise() |> dplyr::mutate( - min = min( - !!rlang::sym(group_x_keys[[1]]), - !!rlang::sym(group_x_keys[[2]]), - na.rm = T - ), - max = max( - !!rlang::sym(group_x_keys[[1]]), - !!rlang::sym(group_x_keys[[2]]), - na.rm = T - ) - ) |> + min = min(!!rlang::sym(group_x_keys[[1]]), !!rlang::sym(group_x_keys[[2]]), na.rm = T), + max = max(!!rlang::sym(group_x_keys[[1]]), !!rlang::sym(group_x_keys[[2]]), na.rm = T)) |> dplyr::ungroup() |> dplyr::mutate(diff = max - min) g <- ggplot2::ggplot(df_pivot) # Add line - if (line_to_y_axis) { - xend <- min(dplyr::pull(df, !!rlang::sym(col))) + if(line_to_y_axis) { + + xend <- min(dplyr::pull(df, {{ col }})) g <- g + ggplot2::geom_segment( ggplot2::aes( x = min, - y = !!rlang::sym(group_y), - yend = !!rlang::sym(group_y) - ), + y = {{ group_y }}, + yend = {{ group_y }}), xend = xend, linetype = line_to_y_axis_type, - linewidth = line_to_y_axis_width, - color = line_to_y_axis_color - ) + size = line_to_y_axis_width, + color = line_to_y_axis_color) } # Add segment - g <- g + + g <- g + ggplot2::geom_segment( ggplot2::aes( x = !!rlang::sym(group_x_keys[[1]]), - y = !!rlang::sym(group_y), + y = {{ group_y }}, xend = !!rlang::sym(group_x_keys[[2]]), - yend = !!rlang::sym(group_y) - ), - linewidth = segment_size, + yend = {{ group_y }}), + size = segment_size, color = segment_color ) @@ -158,54 +112,50 @@ dumbbell <- function( ggplot2::geom_point( data = df, ggplot2::aes( - x = !!rlang::sym(col), - y = !!rlang::sym(group_y), - color = !!rlang::sym(group_x), - fill = !!rlang::sym(group_x) + x = {{ col }}, + y = {{ group_y }}, + color = {{ group_x }}, + fill = {{ group_x }} ), size = point_size, alpha = point_alpha ) # Add title, subtitle, caption, x_title, y_title - g <- g + - ggplot2::labs( - title = title, - subtitle = subtitle, - caption = caption, - x = x_title, - y = group_y_title, - color = group_x_title, - fill = group_x_title - ) + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + x = x_title, + y = group_y_title, + color = group_x_title, + fill = group_x_title + ) # Add stat labels to points - if (add_text) { - g <- g + - ggrepel::geom_text_repel( - data = df, - ggplot2::aes( - x = !!rlang::sym(col), - y = !!rlang::sym(group_y), - label = !!rlang::sym(col) - ), - vjust = add_text_vjust, - size = add_text_size, - color = add_text_color - ) - } + if(add_text) g <- g + + ggrepel::geom_text_repel( + data = df, + ggplot2::aes( + x = {{ col }}, + y = {{ group_y}}, + label = {{ col }} + ), + vjust = add_text_vjust, + size = add_text_size, + color = add_text_color + ) + + # Expan y axis + # g <- g + + # ggplot2::scale_y_discrete( + # group_y_title, + # expand = c(0, 0)) + # Add theme - g <- g + theme_fun - - # Add scale fun - if (!is.null(scale_fill_fun)) { - g <- g + scale_fill_fun - } - - if (!is.null(scale_color_fun)) { - g <- g + scale_color_fun - } + g <- g + theme return(g) + } diff --git a/R/internals.R b/R/internals.R index 83bca86..8580190 100644 --- a/R/internals.R +++ b/R/internals.R @@ -1,25 +1,477 @@ -# not in -#' Not In Operator +#' @title Abord bad argument #' -#' A negation of the `%in%` operator that tests if elements of `a` are not in `b`. +#' @param arg An argument +#' @param must What arg must be +#' @param not Optional. What arg must not be. #' -#' @param a Vector or value to test -#' @param b Vector to test against -#' -#' @return Logical vector with TRUE for elements of `a` that are not in `b` -`%notin%` <- function(a, b) { - !(a %in% b) +#' @return A stop statement +abort_bad_argument <- function(arg, must, not = NULL) { + msg <- glue::glue("`{arg}` must {must}") + if (!is.null(not)) { + not <- typeof(not) + msg <- glue::glue("{msg}; not {not}.") + } + + rlang::abort("error_bad_argument", + message = msg, + arg = arg, + must = must, + not = not + ) } -# not all in -#' Not All In Operator + + +#' @title Stop statement "If not in colnames" with colnames #' -#' Tests if not all elements of `a` are contained in `b`. +#' @param .tbl A tibble +#' @param cols A vector of column names (quoted) +#' @param df Provide the tibble name as a character string +#' @param arg Default to NULL. #' -#' @param a Vector to test -#' @param b Vector to test against -#' -#' @return TRUE if at least one element of `a` is not in `b`, otherwise FALSE -`%notallin%` <- function(a, b) { - !(all(a %in% b)) +#' @return A stop statement +if_not_in_stop <- function(.tbl, cols, df, arg = NULL) { + if (is.null(arg)) { + msg <- glue::glue("The following column/s is/are missing in `{df}`:") + } else { + msg <- glue::glue("The following column/s from `{arg}` is/are missing in `{df}`:") + } + if (!all(cols %in% colnames(.tbl))) { + rlang::abort( + c("Missing columns", + "*" = + paste( + msg, + paste( + subvec_not_in(cols, colnames(.tbl)), + collapse = ", " + ) + ) + ) + ) + } } + + + +#' @title Stop statement "If not in vector" +#' +#' @param vec A vector of character strings +#' @param cols A set of character strings +#' @param vec_name Provide the vector name as a character string +#' @param arg Default to NULL. +#' +#' @return A stop statement if some elements of vec are not in cols +if_vec_not_in_stop <- function(vec, cols, vec_name, arg = NULL) { + if (is.null(arg)) { + msg <- glue::glue("The following element/s is/are missing in `{vec_name}`:") + } else { + msg <- glue::glue("The following element/s from `{arg}` is/are missing in `{vec_name}`:") + } + if (!all(cols %in% vec)) { + rlang::abort( + c("Missing elements", + "*" = + paste( + msg, + paste( + subvec_not_in(cols, vec), + collapse = ", " + ) + ) + ) + ) + } +} + +#' @title Subvec not in +#' +#' @param vector A vector to subset +#' @param set A set-vector +#' +#' @return A subset of vector not in set +subvec_not_in <- function(vector, set) { + vector[!(vector %in% set)] +} + + + + +# Map helpers ------------------------------------------------------------- + + +# Thanks to https://github.com/r-tmap/tmap/blob/master/R/map_num2pal.R +pretty_count <- function(x, n, ...) { + x <- na.omit(x) + if (!length(x)) { + return(x) + } + + if (!is.integer(x)) x <- as.integer(x) + + + mn <- min(x) + mx <- max(x) + + any0 <- any(x == 0) + + if (mn < 0) { + n <- floor(n / 2) + pneg <- -rev(pretty_count(-x[x < 0], n = n, ...)) + 1L + pneg <- pneg[pneg != 0L] + x <- x[x > 0] + any0 <- TRUE + } else { + pneg <- integer() + } + + if (any0) x <- x[x != 0L] + + p <- pretty(x - 1L, n = n, ...) + 1L + + p <- p[(p %% 1) == 0] + p <- p[p != 0L] + + if (length(x) < 2) { + if (any0) { + return(c(0L, p)) + } else { + return(p) + } + } + + + step <- p[2] - p[1] + if (p[length(p)] == mx) p <- c(p, mx + step) + + if (any0) { + c(pneg, 0L, p) + } else { + c(pneg, p) + } +} + + +breaks <- pretty_count(indicator_admin1$opn_dfc, n = 5) +style <- "fixed" +# +q <- num2breaks(indicator_admin1$opn_dfc, n = 5, style = style, breaks = breaks, interval.closure = "left", var = var, as.count = T, args = style.args) + + + +breaks_n <- function(breaks, as_count = TRUE) + + +fancy_breaks(breaks, intervals = TRUE, as.count = TRUE) + + +fancy_breaks <- function(vec, as.count = FALSE, intervals=FALSE, interval.closure="left", fun=NULL, scientific=FALSE, big.num.abbr = c("mln" = 6, "bln" = 9), prefix = "", suffix = "", text.separator="to", text.less.than=c("less", "than"), text.or.more=c("or", "more"), text.align="left", text.to.columns=FALSE, digits=NA, html.escape = TRUE, ...) { + args <- list(...) + n <- length(vec) + + if (!is.null(fun)) { + x <- do.call(fun, list(vec)) + } else if (all(is.infinite(vec))) { + x <- as.character(vec) + } else { + # calculate magnitude, needed to determine digits and big number abbreviations + vec_fin <- unique(vec[!is.infinite(vec)]) + frm <- gsub(" ", "", sprintf("%20.10f", abs(vec_fin))) + mag <- max(nchar(frm)-11) + + if (as.count) { + steps <- (vec[-1] - vec[-n]) + vec <- c(vec, vec - 1L, vec + 1L) # needed for: {1, 2, ... 9} + digits <- 0 + } else { + # get number of decimals (which is number of decimals in vec, which is reduced when mag is large) + ndec <- max(10 - nchar(frm) + nchar(sub("0+$","",frm))) + if (is.na(digits)) { + digits <- max(min(ndec, 4-mag), 0) + + # add sign to frm + frm_sign <- unique(paste0(ifelse(vec_fin<0, "-", "+"), frm)) + + # test if number of digits is sufficient for unique labels + if (!scientific) { + while (anyDuplicated(substr(frm_sign, 1, nchar(frm_sign)-10 + digits)) && (digits < 10)) { + digits <- digits + 1 + } + } + + } + } + + if (!scientific || as.count) { + + # check whether big number abbrevations should be used + ext <- "" + if (!is.na(big.num.abbr[1])) { + big.num.abbr <- sort(big.num.abbr, decreasing = TRUE) + for (i in 1:length(big.num.abbr)) { + o <- unname(big.num.abbr[i]) + if (mag>(o+2) || (mag > o && all(vec - floor(vec/(10^o))*(10^o) < 1))) { + vec <- vec / (10^o) + ext <- paste0(" ", names(big.num.abbr)[i]) + break + } + } + } + + # set default values + if (!("big.mark" %in% names(args))) args$big.mark <- "," + if (!("format" %in% names(args))) args$format <- "f" + if (!("preserve.width" %in% names(args))) args$preserve.width <- "none" + x <- paste(do.call("formatC", c(list(x=vec, digits=digits), args)), ext, sep="") + x <- paste0(prefix, x, suffix) + + + } else { + if (!("format" %in% names(args))) args$format <- "g" + x <- do.call("formatC", c(list(x=vec, digits=digits), args)) + } + + if (as.count) { + x1 <- x[1:(n-1)] + x2 <- x[(n+2):(2*n)] + x1p1 <- x[(2*n+1):(3*n-1)] + } + # x <- formatC(vec, format = "f", digits = 0) + # x1 <- x[-n] + # x2 <- formatC(vec[-1] - 1L, format = "f", digits = 0) + # xs <- (vec[-1] - vec[-n]) + # x1p1 <- formatC(vec[-n] + 1L, format = "f", digits = 0) + } + + if (intervals) { + if (scientific) { + if (as.count) { + # discrete + lbls <- paste("{", x1, "}", sep = "") + lbls[steps == 2] <- paste("{", x1[steps == 2], ", ", x2[steps == 2], "}", sep="") + lbls[steps > 2] <- paste("{", x1[steps > 2], ", ", x1p1[steps > 2], ", ..., ", x2[steps > 2], "}", sep="") + } else { + # continuous + if (interval.closure=="left") { + lbls <- paste("[", x[-n], ", ", x[-1], ")", sep="") + lbls[n-1] <- paste(substr(lbls[n-1], 1, nchar(lbls[n-1])-1), "]", sep="") + } else { + lbls <- paste("(", x[-n], ", ", x[-1], "]", sep="") + lbls[1] <- paste("[", substr(lbls[1], 2, nchar(lbls[1])), sep="") + } + } + + + } else { + if (as.count) { + lbls <- x1 + lbls[steps>1] <- paste(x1[steps>1], x2[steps>1], sep = paste0(" ", text.separator, " ")) + if (vec[n]==Inf) lbls[n-1] <- paste(x1[n-1], paste(text.or.more, collapse = " "), sep = " ") + } else { + x[vec==-Inf] <- "" + + lbls <- paste(x[-n], x[-1], sep = paste0(" ", text.separator, " ")) + if (vec[1]==-Inf) lbls[1] <- paste(paste(text.less.than, collapse = " "), x[2], sep = " ") + if (vec[n]==Inf) lbls[n-1] <- paste(x[n-1], paste(text.or.more, collapse = " "), sep = " ") + } + + if (text.to.columns) { + #xtra <- as.numeric(!is.na(text.align) && text.align=="right") + + + nc1 <- nchar(paste(x[-n], " ", sep = "")) + 1 + nc2 <- rep(nchar(paste(text.separator, " ", sep = "")), n-1) + + lbls_breaks <- matrix(c(nc1, nc1+nc2), ncol=2) + + if (vec[1]==-Inf) { + if (length(text.less.than)==1) { + lbls_breaks[1,] <- rep(nchar(paste(text.less.than[1], " ", sep = "")) + 1, 2) + } else { + lbls_breaks[1,] <- cumsum(c(nchar(paste(text.less.than[1], " ", sep = "")) + 1, nchar(text.less.than[2])+1)) + } + } + if (vec[n]==Inf) { + if (length(text.or.more)==1) { + lbls_breaks[n-1,] <- rep(nchar(paste(x[n-1], " ", sep = "")) + 1, 2) + } else { + lbls_breaks[n-1,] <- cumsum(c(nchar(paste(x[n-1], " ", sep = "")) + 1, nchar(text.or.more[1])+1)) + } + + } + attr(lbls, "brks") <- lbls_breaks + } + + + + + } + } + + y <- if (intervals) lbls else x + attr(y, "align") <- text.align + y +} + + +num2breaks <- function(x, n, style, breaks, approx=FALSE, interval.closure="left", var = NULL, as.count = FALSE, args = list()) { + + tmapOptions = get("tmapOptions", envir = .TMAP_CACHE) + show.warnings <- tmapOptions$show.warnings + + nobs <- sum(!is.na(x)) + # create intervals and assign colors + if (style=="fixed") { + q <- list(var=x, + brks=breaks) + if (any(na.omit(x) < min(breaks)) && show.warnings) warning("Values have found that are less than the lowest break", call. = FALSE) + if (any(na.omit(x) > max(breaks)) && show.warnings) warning("Values have found that are higher than the highest break", call. = FALSE) + attr(q, "style") <- "fixed" + attr(q, "nobs") <- nobs + attr(q, "intervalClosure") <- interval.closure + class(q) <- "classIntervals" + } else { + if (nobs==0) { + if (!is.null(var)) { + stop("Numerical variable \"", var, "\" only contains missing values.", call.=FALSE) + } else { + stop("Numerical variable only contains missing values.", call.=FALSE) + } + } + + nunique <- length(na.omit(unique(x))) + + + if (nunique == 1 && style!="pretty" && show.warnings) { + if (!is.null(var)) { + warning("Single unique value found for the variable \"", var, "\", so style set to \"pretty\"", call. = FALSE) + } else { + warning("Single unique value found, so style set to \"pretty\"", call. = FALSE) + } + } + + tempx <- nunique <= n + + if (tempx) { + x_orig <- x + if (length(na.omit(unique(x))) == 1) x <- pretty(x) + x <- seq(min(x, na.rm = TRUE), max(x, na.rm = TRUE), length.out = n + 1) + } + + q <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n, style= style, intervalClosure=interval.closure), args))) + + if (tempx) q$var <- x_orig + + } + + if (approx && style != "fixed") { + if (n >= length(unique(x)) && style=="equal") { + # to prevent classIntervals to set style to "unique" + q <- list(var=x, brks=seq(min(x, na.rm=TRUE), max(x, na.rm=TRUE), length.out=n)) + attr(q, "intervalClosure") <- interval.closure + class(q) <- "classIntervals" + } else { + brks <- q$brks + + # to prevent ugly rounded breaks such as -.5, .5, ..., 100.5 for n=101 + qm1 <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n-1, style= style, intervalClosure=interval.closure), args))) + brksm1 <- qm1$brks + qp1 <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n+1, style= style, intervalClosure=interval.closure), args))) + brksp1 <- qp1$brks + if (min(brksm1) > min(brks) && max(brksm1) < max(brks)) { + q <- qm1 + } else if (min(brksp1) > min(brks) && max(brksp1) < max(brks)) { + q <- qp1 + } + } + } + q +} + + +cont_breaks <- function(breaks, n=101) { + x <- round(seq(1, 101, length.out=length(breaks))) + + + unlist(lapply(1L:(length(breaks)-1L), function(i) { + y <- seq(breaks[i], breaks[i+1], length.out=x[i+1]-x[i]+1) + if (i!=1) y[-1] else y + }), use.names = FALSE) +} + + +num2breaks <- function(x, n, style = "fixed", breaks, approx = FALSE, interval.closure = "left", var = NULL, as.count = FALSE, args = list()) { + + show.warnings <- TRUE + + nobs <- sum(!is.na(x)) + # create intervals and assign colors + if (style == "fixed") { + q <- list( + var = x, + brks = breaks + ) + if (any(na.omit(x) < min(breaks)) && show.warnings) warning("Values have found that are less than the lowest break", call. = FALSE) + if (any(na.omit(x) > max(breaks)) && show.warnings) warning("Values have found that are higher than the highest break", call. = FALSE) + attr(q, "style") <- "fixed" + attr(q, "nobs") <- nobs + attr(q, "intervalClosure") <- interval.closure + class(q) <- "classIntervals" + } else { + if (nobs == 0) { + if (!is.null(var)) { + stop("Numerical variable \"", var, "\" only contains missing values.", call. = FALSE) + } else { + stop("Numerical variable only contains missing values.", call. = FALSE) + } + } + + nunique <- length(na.omit(unique(x))) + + + if (nunique == 1 && style != "pretty" && show.warnings) { + if (!is.null(var)) { + warning("Single unique value found for the variable \"", var, "\", so style set to \"pretty\"", call. = FALSE) + } else { + warning("Single unique value found, so style set to \"pretty\"", call. = FALSE) + } + } + + tempx <- nunique <= n + + if (tempx) { + x_orig <- x + if (length(na.omit(unique(x))) == 1) x <- pretty(x) + x <- seq(min(x, na.rm = TRUE), max(x, na.rm = TRUE), length.out = n + 1) + } + + q <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n, style = style, intervalClosure = interval.closure), args))) + + if (tempx) q$var <- x_orig + } + + if (approx && style != "fixed") { + if (n >= length(unique(x)) && style == "equal") { + # to prevent classIntervals to set style to "unique" + q <- list(var = x, brks = seq(min(x, na.rm = TRUE), max(x, na.rm = TRUE), length.out = n)) + attr(q, "intervalClosure") <- interval.closure + class(q) <- "classIntervals" + } else { + brks <- q$brks + + # to prevent ugly rounded breaks such as -.5, .5, ..., 100.5 for n=101 + qm1 <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n - 1, style = style, intervalClosure = interval.closure), args))) + brksm1 <- qm1$brks + qp1 <- suppressWarnings(do.call(classInt::classIntervals, c(list(x, n + 1, style = style, intervalClosure = interval.closure), args))) + brksp1 <- qp1$brks + if (min(brksm1) > min(brks) && max(brksm1) < max(brks)) { + q <- qm1 + } else if (min(brksp1) > min(brks) && max(brksp1) < max(brks)) { + q <- qp1 + } + } + } + q +} + +breaks[length(breaks)] <- breaks[length(breaks)] + 1L diff --git a/R/lollipop.R b/R/lollipop.R index 6d7f292..60de655 100644 --- a/R/lollipop.R +++ b/R/lollipop.R @@ -1,338 +1,121 @@ -#' @rdname lollipop -#' -#' @inheritParams lollipop -#' @param ... Additional arguments passed to `lollipop()` -#' -#' @export -hlollipop <- function( - ..., - flip = TRUE, - theme_fun = theme_lollipop(flip = flip)) { - lollipop(flip = flip, theme_fun = theme_fun, ...) -} - -#' Simple lollipop chart -#' -#' @description -#' `lollipop()` is a simple lollipop chart (dots connected to the baseline by a segment) with some customization allowed. -#' `hlollipop()` uses `lollipop()` with sane defaults for a horizontal lollipop chart. +#' @title Simple bar chart #' #' @param df A data frame. -#' @param x A quoted character column or coercible as a character column. -#' @param y A quoted numeric column. -#' @param group Some quoted grouping categorical column, e.g. administrative areas or population groups. -#' @param facet Some quoted grouping categorical column, e.g. administrative areas or population groups. -#' @param x_rm_na Remove NAs in x? -#' @param y_rm_na Remove NAs in y? -#' @param group_rm_na Remove NAs in group? -#' @param facet_rm_na Remove NAs in facet? -#' @param y_expand Multiplier to expand the y axis. -#' @param add_color Add a color to dots (if no grouping). -#' @param add_color_guide Should a legend be added? -#' @param flip TRUE or FALSE (default). Default to TRUE or horizontal lollipop plot. +#' @param x A numeric column. +#' @param y A character column or coercible as a character column. +#' @param flip TRUE or FALSE. Default to TRUE or horizontal lollipop plot. #' @param wrap Should x-labels be wrapped? Number of characters. -#' @param alpha Fill transparency for dots. +#' @param arrange TRUE or FALSE. Arrange by highest percentage first. +#' @param point_size Point size. +#' @param point_color Point color. +#' @param point_alpha Point alpha. +#' @param segment_size Segment size. +#' @param segment_color Segment color. +#' @param segment_alpha Segment alpha. +#' @param alpha Fill transparency. #' @param x_title The x scale title. Default to NULL. #' @param y_title The y scale title. Default to NULL. -#' @param group_title The group legend title. Default to NULL. #' @param title Plot title. Default to NULL. #' @param subtitle Plot subtitle. Default to NULL. #' @param caption Plot caption. Default to NULL. -#' @param dot_size The size of the dots. -#' @param line_size The size/width of the line connecting dots to the baseline. -#' @param line_color The color of the line connecting dots to the baseline. -#' @param dodge_width Width for position dodge when using groups (controls space between grouped lollipops). -#' @param theme_fun Whatever theme function. For no custom theme, use theme_fun = NULL. -#' @param scale_fill_fun Scale fill function. Default to scale_fill_visualizer_discrete(). -#' @param scale_color_fun Scale color function. Default to scale_color_visualizer_discrete(). +#' @param add_text TRUE or FALSE. Add the y value as text within the bubble. +#' @param add_text_size Text size. +#' @param add_text_suffix If percent is FALSE, should we add a suffix to the text label? +#' @param add_text_color Added text color. Default to white. +#' @param add_text_fontface Added text font face. Default to "bold". +#' @param theme Whatever theme. Default to theme_reach(). #' +#' @return A bar chart #' -#' @inheritParams reorder_by -#' -#' @importFrom rlang `:=` -#' -#' @return A ggplot object #' @export -#' @examples -#' \dontrun{ -#' df <- data.frame(x = letters[1:5], y = c(10, 5, 7, 12, 8)) -#' # Vertical lollipop -#' lollipop(df, "x", "y") -#' # Horizontal lollipop -#' hlollipop(df, "x", "y") -#' } -lollipop <- function( +lollipop <- function(df, + x, + y, + flip = TRUE, + wrap = NULL, + arrange = TRUE, + point_size = 3, + point_color = cols_reach("main_red"), + point_alpha = 1, + segment_size = 1, + segment_color = cols_reach("main_grey"), + segment_alpha = 1, + alpha = 1, + x_title = NULL, + y_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + add_text = FALSE, + add_text_size = 3, + add_text_suffix = "", + add_text_color = "white", + add_text_fontface = "bold", + theme = theme_reach()){ + + + # Arrange by biggest prop first ? + if (arrange) df <- dplyr::arrange( df, - x, - y, - group = "", - facet = "", - order = "y", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - y_expand = 0.1, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, - flip = FALSE, - wrap = NULL, - alpha = 1, - x_title = NULL, - y_title = NULL, - group_title = NULL, - title = NULL, - subtitle = NULL, - caption = NULL, - dot_size = 4, - line_size = 0.8, - line_color = color("dark_grey"), - dodge_width = 0.9, - theme_fun = theme_lollipop( - flip = flip, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5 - ), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete()) { - #------ Checks - - # df is a data frame - checkmate::assert_data_frame(df) - - # x and y and group are character - checkmate::assert_character(x, len = 1) - checkmate::assert_character(y, len = 1) - checkmate::assert_character(group, len = 1) - checkmate::assert_character(facet, len = 1) - - # x and y are columns in df - checkmate::assert_choice(x, colnames(df)) - checkmate::assert_choice(y, colnames(df)) - if (group != "") { - checkmate::assert_choice(group, colnames(df)) - } - if (facet != "") { - checkmate::assert_choice(facet, colnames(df)) - } - - # x_rm_na, y_rm_na and group_rm_na are logical scalar - checkmate::assert_logical(x_rm_na, len = 1) - checkmate::assert_logical(y_rm_na, len = 1) - checkmate::assert_logical(group_rm_na, len = 1) - checkmate::assert_logical(facet_rm_na, len = 1) - - # flip is a logical scalar - checkmate::assert_logical(flip, len = 1) - - # dodge_width is a numeric scalar - checkmate::assert_numeric(dodge_width, len = 1, lower = 0) - - # wrap is a numeric scalar or NULL - if (!is.null(wrap)) { - checkmate::assert_numeric(wrap, len = 1, null.ok = TRUE) - } - - # alpha is a numeric scalar between 0 and 1 - checkmate::assert_numeric(alpha, lower = 0, upper = 1, len = 1) - - # dot_size is a numeric scalar - checkmate::assert_numeric(dot_size, len = 1) - - # line_size is a numeric scalar - checkmate::assert_numeric(line_size, len = 1) - - # order is a character scalar in valid choices - checkmate::assert_choice(order, c("none", "y", "grouped_y", "x", "grouped_x")) - - # x and y are numeric or character - if (class(df[[y]]) %notin% c("integer", "numeric")) { - rlang::abort(paste0(y, " must be numeric.")) - } - if (!any(class(df[[x]]) %in% c("character", "factor"))) { - rlang::abort(paste0(x, " must be character or factor")) - } - - #----- Data wrangling - - # facets over group - if (group != "" && facet != "" && group == facet) { - rlang::warn("'group' and 'facet' are the same identical.") - } - - # remove NAs using base R - if (x_rm_na) { - df <- df[!(is.na(df[[x]])), ] - } - if (y_rm_na) { - df <- df[!(is.na(df[[y]])), ] - } - if (group != "" && group_rm_na) { - df <- df[!(is.na(df[[group]])), ] - } - if (facet != "" && facet_rm_na) { - df <- df[!(is.na(df[[facet]])), ] - } - - # reorder - dir_order <- if (flip && order %in% c("x", "grouped_x")) { - -1 - } else if (!flip && order %in% c("x", "grouped_x")) { - 1 - } else if (flip) { - 1 - } else { - -1 - } - group_order <- if (group != "" || (group == "" && facet == "")) { - group - } else if (group == "" && facet != "") { - facet - } - df <- reorder_by( - df = df, - x = x, - y = y, - group = group_order, - order = order, - dir_order = dir_order + {{ y }} ) - # prepare aes - if (group != "") { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y), - fill = !!rlang::sym(group), - color = !!rlang::sym(group) - ) - ) - } else { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y) - ) - ) - } + # Get levels for scaling + lev <- dplyr::pull(df, {{ x }}) + df <- dplyr::mutate(df, "{{x}}" := factor({{ x }}, levels = lev)) - # add title, subtitle, caption, x_title, y_title - g <- g + - ggplot2::labs( - title = title, - subtitle = subtitle, - caption = caption, - x = y_title, - y = x_title, - color = group_title, - fill = group_title - ) + # Mapping + g <- ggplot2::ggplot( + df, + mapping = ggplot2::aes(x = {{ x }}, y = {{ y }}, xend = {{ x }}, yend = 0) + ) - # facets - if (facet != "") { - if (flip) { - g <- g + - ggplot2::facet_grid( - rows = ggplot2::vars(!!rlang::sym(facet)), - scales = "free", - space = "free_y" - ) - } else { - g <- g + - ggplot2::facet_grid( - cols = ggplot2::vars(!!rlang::sym(facet)), - scales = "free", - space = "free_x" - ) - } - } + # Add segment + g <- g + ggplot2::geom_segment( + linewidth = segment_size, + alpha = segment_alpha, + color = segment_color + ) - # Add segments and points - if (group != "") { - # With grouping - use position_dodge for side-by-side display - position_dodge_obj <- ggplot2::position_dodge(width = dodge_width) + g <- g + ggplot2::geom_point( + size = point_size, + alpha = point_alpha, + color = point_color + ) - g <- g + - ggplot2::geom_linerange( - mapping = ggplot2::aes( - ymin = 0, - ymax = !!rlang::sym(y), - group = !!rlang::sym(group) - ), - position = position_dodge_obj, - color = line_color, - linewidth = line_size - ) + - ggplot2::geom_point( - position = position_dodge_obj, - size = dot_size, - alpha = alpha - ) - } else { - # Without grouping - g <- g + - ggplot2::geom_linerange( - mapping = ggplot2::aes( - ymin = 0, - ymax = !!rlang::sym(y) - ), - color = line_color, - linewidth = line_size - ) + - ggplot2::geom_point( - size = dot_size, - alpha = alpha, - color = add_color, - fill = add_color - ) - } - - # wrap labels on the x scale? if (!is.null(wrap)) { g <- g + ggplot2::scale_x_discrete(labels = scales::label_wrap(wrap)) } - # flip coordinates if needed - if (flip) { + # Because a text legend should always be horizontal, especially for an horizontal bar graph + if (flip){ g <- g + ggplot2::coord_flip() } - # y scale tweaks - g <- g + - ggplot2::scale_y_continuous( - # start at 0 - expand = ggplot2::expansion(mult = c(0, y_expand)), - # remove trailing 0 and choose accuracy of y labels - labels = scales::label_number( - accuracy = 0.1, - drop0trailing = TRUE, - big.mark = "", - decimal.mark = "." - ), - ) + # Add text labels + if (add_text) { + g <- g + ggplot2::geom_text( + ggplot2::aes( + label = paste0({{ y }}, add_text_suffix)), + size = add_text_size, + color = add_text_color, + fontface = add_text_fontface) + } - # remove guides for legend if !add_color_guide - if (!add_color_guide) { - g <- g + ggplot2::guides(fill = "none", color = "none") - } + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + x = x_title, + y = y_title, + ) - # add theme fun - if (!is.null(theme_fun)) { - g <- g + theme_fun - } - # add scale fun - if (!is.null(scale_fill_fun)) { - g <- g + scale_fill_fun - } - - if (!is.null(scale_color_fun)) { - g <- g + scale_color_fun - } + # Add theme + g <- g + theme return(g) + } + diff --git a/R/map.R b/R/map.R new file mode 100644 index 0000000..52c7363 --- /dev/null +++ b/R/map.R @@ -0,0 +1,355 @@ +#' Wrapper around `ggplot2::geom_sf()` with sane defaults for plotting choropleth +#' +#' @param poly Multipolygon shape defined by sf package. +#' @param col Numeric attribute to map. +#' @param n The desire number of classes. +#' @param initiative One of "reach", "agora", or "default" +#' @param palette Vector of fill colors as hexadecimal values. For REACH color palettes, it is possible to use `pal_reach()`. For now,'palette' must be changed manually, accordingly to the number of drawn classes. +#' @param style Method to process the color scale for continuous numerical variables. See `classInt::classIntervals()` for details. +#' @param intervals Boolean. TRUE, let's make classes. FALSE, let's use a gradient. +#' @param font_family Font family. +#' @param legend_title Legend title. +#' @param legend_positin Legend position. +#' @param drop Boolean. Drop missing data? +#' @param text_na Legend text for missing data. +#' @param color_na Fill color for missing data. +#' +#' @return A ggplot base choropleth. +#' +#' @export +add_indicator_layer <- function(poly, + col, + n = 5, + initiative = "reach", + palette = "red_5", + style = "pretty", + intervals = TRUE, + font_family = "segoeui", + legend_title = "Proportion (%)", + legend_position = c(0, 0.95), + drop = FALSE, + text_na = "Missing data", + color_na = cols_reach("white")){ + + #------ Checks and make valid + + poly <- sf::st_make_valid(poly) + + #------ Other checks + + col_name <- rlang::as_name(rlang::enquo(col)) + if_not_in_stop(poly, col_name, "poly", "col") + + if (!is.numeric(poly[[col_name]])) rlang::abort(glue::glue("{col_name} is not numeric.")) + + + #------ Prepare data + + if (intervals) { + + classes <- classInt::classIntervals(poly[[col_name]], n = n, style = style) + col_class_name <- paste0(col_name, "_class") + + poly <- poly |> + dplyr::mutate("{col_class_name}" := cut({{ col }}, classes$brks, include.lowest = TRUE)) + + legend_labels <- c(levels(poly[[col_class_name]]), text_na) + + discrete <- TRUE + + layer <- ggplot2::ggplot() + + ggplot2::geom_sf(data = poly, ggplot2::aes(fill = !!rlang::sym(col_class_name)), color = "transparent") + + scale_fill(initiative = initiative, palette = palette, discrete = discrete, reverse_guide = FALSE, name = legend_title, labels = legend_labels, drop = drop, na.value = color_na) + + } else { + + discrete <- FALSE + + layer <- ggplot2::ggplot() + + ggplot2::geom_sf(data = poly, ggplot2::aes(fill = !!rlang::sym(col_name)), color = "transparent") + + scale_fill(initiative = initiative, palette = palette, discrete = discrete, reverse_guide = FALSE, name = legend_title, na.value = color_na) + + } + + #------ Make map layer + + layer <- layer + + ggplot2::theme_void() + + ggplot2::theme( + # legend.justification defines the edge of the legend that the legend.position coordinates refer to + legend.justification = c(0, 1), + # Set the legend flush with the left side of the plot, and just slightly below the top of the plot + legend.position = legend_position, + # Set fontfamily + text = ggplot2::element_text(family = font_family) + ) + + return(layer) + +} + + + + +#' Add admin boundaries (lines) and the legend +#' +#' @param map Is there a previous map layer? Default to NULL. +#' @param lines List of multiline shape defined by sf package. +#' @param colors Vector of hexadecimal codes. Same order as lines. +#' @param labels Vector of labels in the legend. Same order as lines. +#' @param lwds Vector of line widths. Same order as lines. +#' @param title Legend title. +#' @param buffer A buffer, either one value or a vector of 4 values (left, bottom, right, top). +#' @param ... Other arguments to pass to each shape in `tmap::tm_lines()`. +#' +#' @return A tmap layer. +#' @export +#' +add_admin_boundaries <- function(map = NULL, lines, colors, labels, lwds, legend_title = ""){ + + + if(is.null(map)) map <- ggplot2::ggplot() + + #------ Check that the length of vectors is identical between arguments + + if(!inherits(lines, "list")) rlang::abort("Please provide a list for lines.") + + ll <- list(lines, colors, labels, lwds) + if (!all(sapply(ll,length) == length(ll[[1]]))) rlang::abort("lines, colors, labels, lwds do not all have the same length.") + + + #------ Make valid + + lines <- lapply(lines, \(x) sf::st_make_valid(x)) + + + #------ Let's go with all line shapes + + for (i in 1:length(lines)) { + lines[[i]] <- lines[[i]] |> + dplyr::mutate(color = colors[[i]], + label = labels[[i]], + lwd = lwds[[i]]) + } + + + layers <- map + ggplot2::geom_sf(data = lines[[1]], ggplot2::aes(color = .data[["label"]], linewidth = .data[["label"]])) + + if (length(lines) > 1){ + + for(i in 2:length(lines)){ + + data <- lines[[i]] + color <- labels[[i]] + size <- labels[[i]] + + layers <- layers + ggplot2::geom_sf(data = data, ggplot2::aes(color = .data[["label"]], linewidth = .data[["label"]])) + + } + } + # + layers <- layers + + ggplot2::scale_color_manual(name = legend_title, values = setNames(colors, labels), breaks = labels) + + ggplot2::scale_discrete_manual("linewidth", name = legend_title, values = setNames(lwds, labels), breaks = labels) + + + return(layers) + +} + + + + +#' Basic defaults based on `tmap::tm_layout()` +#' +#' @param title Map title. +#' @param legend_position Legend position. Not above the map is a good start. +#' @param frame Boolean. Legend frame? +#' @param legend_frame Legend frame color. +#' @param legend_text_size Legend text size in 'pt'. +#' @param legend_title_size Legend title size in 'pt'. +#' @param title_size Title text size in 'pt'. +#' @param title_fontface Title fontface. Bold if you wanna exemplify a lot what it is about. +#' @param title_color Title font color. +#' @param fontfamily Overall fontfamily. Leelawadee is your precious. +#' @param ... Other arguments to pass to `tmap::tm_layout()`. +#' +#' @return A tmap layer. +#' @export +#' +add_layout <- function( + title = NULL, + legend_position = c(0.02, 0.5), + frame = FALSE, + legend_frame = cols_reach("main_grey"), + legend_text_size = 0.6, + legend_title_size = 0.8, + title_size = 0.9, + title_fontface = "bold", + title_color = cols_reach("main_grey"), + # check.and.fix = TRUE, + fontfamily = "Leelawadee", + ...){ + + layout <- tmap::tm_layout( + title = title, + legend.position = legend_position, + legend.frame = legend_frame, + frame = FALSE, + legend.text.size = legend_text_size, + legend.title.size = legend_title_size, + title.size = title_size, + title.fontface = title_fontface, + title.color = title_color, + fontfamily = fontfamily, + ...) + + return(layout) + + } + + + + +#' Wrapper around `tmap::tm_text()` with sane defaults for plotting admin labels. +#' +#' @param point Multipoint shape defined by sf package. +#' @param text Text labels column. +#' @param size Relative size of the text labels. +#' @param fontface Fontface. +#' @param fontfamily Fontfamily. Leelawadee is your precious. +#' @param shadow Boolean. Add a shadow around text labels. Issue opened on Github to request. +#' @param auto_placement Logical that determines whether the labels are placed automatically. +#' @param remove_overlap Logical that determines whether the overlapping labels are removed. +#' @param ... Other arguments to pass to `tmap::tm_text()`. +#' +#' @return A tmap layer. +#' @export +#' +add_text_labels <- function(map = NULL, + point, + text, + size = 0.5, + fontface = "bold", + fontfamily = "Leelawadee", + halo_radius = 0.15, + halo_color = "white", + angle = 0, + force = 0, + force_pull = 0){ + + if(is.null(map)) map <- ggplot() + + col_name <- rlang::as_name(rlang::enquo(text)) + + layer <- map + + ggspatial::geom_spatial_text_repel( + data = point, + ggplot2::aes( + x = X, + y = Y, + label = !!rlang::sym(col_name)), + crs = sf::st_crs(point)$input, + force = force, + force_pull = force_pull, + size = 3, + angle = angle, + fontface = fontface, + family = fontfamily, + bg.r = halo_radius, + bg.color = halo_color) + + + return(layer) + +} + + + + +#' Add a compass +#' +#' @param text_size Relative font size. +#' @param position Position of the compass. Vector of two values, specifying the x and y coordinates. +#' @param color_dark Color of the dark parts of the compass. +#' @param text_color color of the text. +#' @param type Compass type, one of: "arrow", "4star", "8star", "radar", "rose". +#' @param ... Other arguments to pass to `tmap::tm_compass()`. +#' +#' @return A tmap layer. +#' @export +#' +add_compass <- function(text_size = 0.6, + position = c("right", 0.8), + color_dark = cols_reach("black"), + text_color = cols_reach("black"), + type = "4star", + ...){ + + compass <- tmap::tm_compass( + text.size = text_size, + position = position, + color.dark = color_dark, + type = type, + text.color = text_color + ) + + return(compass) + +} + + + + +#' Add a scale bar +#' +#' @param text_size Relative font size. +#' @param position Position of the compass. Vector of two values, specifying the x and y coordinates. +#' @param color_dark Color of the dark parts of the compass. +#' @param breaks Breaks of the scale bar. If not specified, breaks will be automatically be chosen given the prefered width of the scale bar. Example: c(0, 50, 100). +#' @param ... Other arguments to pass to `tmap::tm_compass()`. +#' +#' @return A tmap layer. +#' @export +#' +add_scale_bar <- function(text_size = 0.6, + position = c("left", 0.01), + color_dark = cols_reach("black"), + breaks = c(0, 50, 100), + ...){ + + scale_bar <- tmap::tm_scale_bar( + text.size = text_size, + position = position, + color.dark = color_dark, + breaks = breaks, + ... + ) + + return(scale_bar) + +} + + + + +#' Do you want to credit someone or some institution? +#' +#' @param text Text. +#' @param size Relative text size. +#' @param bg_color Background color. +#' @param position Position. Vector of two coordinates. Usually somewhere down. +#' @param ... Other arguments to pass to `tmap::tm_credits()`. +#' +#' @return A tmap layer. +#' @export +#' +add_credits <- function(text, size = 0.4, bg_color = NA, position = c(0.75, 0.02), ...){ + + tmap::tm_credits(text, + size = size, + bg.color = bg_color, + position = position, + ...) +} + diff --git a/R/pal_agora.R b/R/pal_agora.R new file mode 100644 index 0000000..756e9d8 --- /dev/null +++ b/R/pal_agora.R @@ -0,0 +1,34 @@ +#' @title Return function to interpolate an AGORA color palette +#' +#' @param palette Character name of a palette in AGORA palettes +#' @param reverse Boolean indicating whether the palette should be reversed +#' @param color_ramp_palette Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE` +#' @param show_palettes Should the ouput be the set of palettes names to pick from? Default to `FALSE` +#' @param ... Additional arguments to pass to colorRampPalette() +#' +#' @return A color palette +#' +#' @export +pal_agora <- function(palette = "main", reverse = FALSE, color_ramp_palette = FALSE, show_palettes = FALSE, ...) { + + + palettes_agora <- list( + `main` = cols_agora("main_bordeaux", "main_dk_beige", "main_lt_grey", "main_lt_beige"), + `primary` = cols_agora("main_bordeaux", "main_dk_beige"), + `secondary` = cols_agora( "main_lt_grey", "main_lt_beige") + ) + + if (show_palettes) return(names(palettes_agora)) + + pal <- palettes_agora[[palette]] + + if (reverse) pal <- rev(pal) + + if (color_ramp_palette) { + rlang::check_installed("grDevices", reason = "Package \"grDevices\" needed for `pal_agora()` woth 'color_ramp_palette' set to `TRUE` to work. Please install it.") + + pal <- grDevices::colorRampPalette(pal, ...) + } + + return(pal) +} diff --git a/R/pal_fallback.R b/R/pal_fallback.R new file mode 100644 index 0000000..0fb7b23 --- /dev/null +++ b/R/pal_fallback.R @@ -0,0 +1,30 @@ +#' @title Return function to interpolate a fallback palette base on viridis::magma() +#' +#' @param reverse Boolean indicating whether the palette should be reversed +#' @param color_ramp_palette Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the latter with `FALSE` +#' @param discrete Boolean. Discrete or not? Default to FALSE. +#' @param n Number of colors in the palette. Default to 5. Passe to `viridis::magma()` +#' @param ... Other parameters to pass to `grDevices::colorRampPalette()` +#' +#' @return A color palette +#' +#' @export +pal_fallback <- function(reverse = FALSE, + color_ramp_palette = FALSE, + discrete = FALSE, + n = 5, + ...){ + + pal <- if(discrete) { viridisLite::viridis(n) } else {viridisLite::magma(n)} + + if (reverse) pal <- rev(pal) + + if (color_ramp_palette) { + rlang::check_installed("grDevices", reason = "Package \"grDevices\" needed for `pal_fallback()` with 'color_ramp_palette' set to `TRUE` to work. Please install it.") + + pal <- grDevices::colorRampPalette(pal, ...) + } + + return(pal) + +} diff --git a/R/pal_impact.R b/R/pal_impact.R new file mode 100644 index 0000000..ff9b561 --- /dev/null +++ b/R/pal_impact.R @@ -0,0 +1,34 @@ +#' @title Return function to interpolate an IMPACT color palette +#' +#' @param palette Character name of a palette in IMPACT palettes +#' @param reverse Boolean indicating whether the palette should be reversed +#' @param color_ramp_palette Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE` +#' @param show_palettes Should the ouput be the set of palettes names to pick from? Default to `FALSE` +#' @param ... Additional arguments to pass to colorRampPalette() +#' +#' @return A color palette +#' +#' @export +pal_impact <- function(palette = "main", reverse = FALSE, color_ramp_palette = FALSE, show_palettes = FALSE, ...) { + + + palettes_impact <- list( + `main` = cols_impact("black", "white", "main_blue", "main_grey"), + `primary` = cols_impact("black", "white"), + `secondary` = cols_impact("main_blue", "main_grey") + ) + + if (show_palettes) return(names(palettes_impact)) + + pal <- palettes_impact[[palette]] + + if (reverse) pal <- rev(pal) + + if (color_ramp_palette) { + rlang::check_installed("grDevices", reason = "Package \"grDevices\" needed for `pal_impact()` woth 'color_ramp_palette' set to `TRUE` to work. Please install it.") + + pal <- grDevices::colorRampPalette(pal, ...) + } + + return(pal) +} diff --git a/R/pal_reach.R b/R/pal_reach.R new file mode 100644 index 0000000..7472c08 --- /dev/null +++ b/R/pal_reach.R @@ -0,0 +1,66 @@ +#' @title Return function to interpolate a REACH color palette +#' +#' @param palette Character name of a palette in REACH palettes +#' @param reverse Boolean indicating whether the palette should be reversed +#' @param color_ramp_palette Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE` +#' @param show_palettes Should the ouput be the set of palettes names to pick from? Default to `FALSE` +#' @param ... Additional arguments to pass to colorRampPalette() +#' +#' @return A color palette +#' +#' @export +pal_reach <- function(palette = "main", reverse = FALSE, color_ramp_palette = FALSE, show_palettes = FALSE, ...) { + + palettes_reach <- list( + `main` = cols_reach("main_grey", "main_red", "main_lt_grey", "main_beige"), + `primary` = cols_reach("main_grey", "main_red"), + `secondary` = cols_reach("main_lt_grey", "main_beige"), + `two_dots` = cols_reach("two_dots_1", "two_dots_2"), + `two_dots_flashy` = cols_reach("two_dots_flashy_1", "two_dots_flashy_2"), + `red_main` = cols_reach("red_main_1", "red_main_2", "red_main_3", "red_main_4", "red_main_5"), + `red_main_5` = cols_reach("red_main_1", "red_main_2", "red_main_3", "red_main_4", "red_main_5"), + `red_alt` = cols_reach("red_alt_1", "red_alt_2", "red_alt_3", "red_alt_4", "red_alt_5"), + `red_alt_5` = cols_reach("red_alt_1", "red_alt_2", "red_alt_3", "red_alt_4", "red_alt_5"), + `iroise` = cols_reach("iroise_1", "iroise_2", "iroise_3", "iroise_4", "iroise_5"), + `iroise_5` = cols_reach("iroise_1", "iroise_2", "iroise_3", "iroise_4", "iroise_5"), + `discrete_6` = cols_reach("dk_grey", "red_main_1", "main_beige", "red_main_2", "lt_grey_2", "red_4"), + `red_2` = cols_reach("red_less_4_1", "red_less_4_3"), + `red_3` = cols_reach("red_less_4_1", "red_less_4_2", "red_less_4_3"), + `red_4` = cols_reach("red_less_4_1", "red_less_4_2", "red_less_4_3", "red_less_4_4"), + `red_5` = cols_reach("red_5_1", "red_5_2", "red_5_3", "red_5_4", "red_5_5"), + `red_6` = cols_reach("red_less_7_1", "red_less_2", "red_less_7_3", "red_less_7_4", "red_less_7_5", "red_less_7_6"), + `red_7` = cols_reach("red_less_7_1", "red_less_7_2", "red_less_7_3", "red_less_7_4", "red_less_7_5", "red_less_7_6", "red_less_7_7"), + `green_2` = cols_reach("green_2_1", "green_2_2"), + `green_3` = cols_reach("green_3_1", "green_3_2", "green_3_3"), + `green_4` = cols_reach("green_4_1", "green_4_2", "green_4_3", "green_4_4"), + `green_5` = cols_reach("green_5_1", "green_5_2", "green_5_3", "green_5_4", "green_5_5"), + `green_6` = cols_reach("green_6_1", "green_6_2", "green_6_3", "green_6_4", "green_6_5", "green_6_6"), + `green_7` = cols_reach("green_7_1", "green_7_2", "green_7_3", "green_7_4", "green_7_5", "green_7_6", "green_7_7"), + `artichoke_2` = cols_reach("artichoke_2_1", "artichoke_2_2"), + `artichoke_3` = cols_reach("artichoke_3_1", "artichoke_3_2", "artichoke_3_3"), + `artichoke_4` = cols_reach("artichoke_4_1", "artichoke_4_2", "artichoke_4_3", "artichoke_4_4"), + `artichoke_5` = cols_reach("artichoke_5_1", "artichoke_5_2", "artichoke_5_3", "artichoke_5_4", "artichoke_5_5"), + `artichoke_6` = cols_reach("artichoke_6_1", "artichoke_6_2", "artichoke_6_3", "artichoke_6_4", "artichoke_6_5", "artichoke_6_6"), + `artichoke_7` = cols_reach("artichoke_7_1", "artichoke_7_2", "artichoke_7_3", "artichoke_7_4", "artichoke_7_5", "artichoke_7_6", "artichoke_7_7"), + `blue_2` = cols_reach("blue_2_1", "blue_2_2"), + `blue_3` = cols_reach("blue_3_1", "blue_3_2", "blue_3_3"), + `blue_4` = cols_reach("blue_4_1", "blue_4_2", "blue_4_3", "blue_4_4"), + `blue_5` = cols_reach("blue_5_1", "blue_5_2", "blue_5_3", "blue_5_4", "blue_5_5"), + `blue_6` = cols_reach("blue_6_1", "blue_6_2", "blue_6_3", "blue_6_4", "blue_6_5", "blue_6_6"), + `blue_7` = cols_reach("blue_7_1", "blue_7_2", "blue_7_3", "blue_7_4", "blue_7_5", "blue_7_6", "blue_7_7") + ) + + if (show_palettes) return(names(palettes_reach)) + + pal <- palettes_reach[[palette]] + + if (reverse) pal <- rev(pal) + + if (color_ramp_palette) { + rlang::check_installed("grDevices", reason = "Package \"grDevices\" needed for `pal_reach()` with 'color_ramp_palette' set to `TRUE` to work. Please install it.") + + pal <- grDevices::colorRampPalette(pal, ...) + } + + return(pal) +} diff --git a/R/palette.R b/R/palette.R deleted file mode 100644 index 9ff3184..0000000 --- a/R/palette.R +++ /dev/null @@ -1,81 +0,0 @@ -#' @title Interpolate a color palette -#' -#' @param palette Character name of a palette in palettes -#' @param reverse Boolean indicating whether the palette should be reversed -#' @param show_palettes Should the ouput be the set of palettes names to pick from? Default to `FALSE` -#' @param ... Additional arguments to pass to colorRampPalette() -#' -#' @return A color palette -#' -#' @export -palette <- function( - palette = "cat_5_main", - reverse = FALSE, - show_palettes = FALSE, - ... -) { - #------ Checks - - # palette is a character scalar - checkmate::assert_character(palette, len = 1) - - # reverse is a logical scalar - checkmate::assert_logical(reverse, len = 1) - - # show_palettes is a logical scalar - checkmate::assert_logical(show_palettes, len = 1) - - #------ Get colors - - # Define palettes - pals <- list( - cat_2_yellow = color_pattern("cat_2_yellow"), - cat_2_light = color_pattern("cat_2_light"), - cat_2_green = color_pattern("cat_2_green"), - cat_2_blue = color_pattern("cat_2_blue"), - cat_5_main = color_pattern("cat_5_main"), - cat_5_ibm = color_pattern("cat_5_ibm"), - cat_3_aquamarine = color_pattern("cat_3_aquamarine"), - cat_3_tol_high_contrast = color_pattern("cat_3_tol_high_contrast"), - cat_8_tol_adapted = color_pattern("cat_8_tol_adapted"), - cat_3_custom_1 = c("#003F5C", "#58508D", "#FFA600"), - cat_4_custom_1 = c("#003F5C", "#7a5195", "#ef5675", "#ffa600"), - cat_5_custom_1 = c("#003F5C", "#58508d", "#bc5090", "#ff6361", "#ffa600"), - cat_6_custom_1 = c( - "#003F5C", - "#444e86", - "#955196", - "#dd5182", - "#ff6e54", - "#ffa600" - ), - div_5_orange_blue = color_pattern("div_5_orange_blue"), - div_5_green_purple = color_pattern("div_5_green_purple") - ) - - # Return if show palettes - if (show_palettes) { - return(names(pals)) - } - - # palette is in pals - if (palette %notin% names(pals)) { - rlang::abort(c( - "Palette not defined", - "*" = glue::glue( - "Palette `{palette}` is not defined in the `palettes` list." - ), - "i" = "Use `palette(show_palettes = TRUE)` to see all available palettes." - )) - } - - #------ Get palette - - pal <- pals[[palette]] - - if (reverse) { - pal <- rev(pal) - } - - return(pal) -} diff --git a/R/palette_gen.R b/R/palette_gen.R deleted file mode 100644 index dcbffe9..0000000 --- a/R/palette_gen.R +++ /dev/null @@ -1,79 +0,0 @@ -#' Generate color palettes -#' -#' [palette_gen()] generates a color palette and let you choose whether continuous or discrete. [palette_gen_categorical()] and [palette_gen_sequential()] generates respectively discrete and continuous palettes. -#' -#' @param palette Palette name from [palette()]. -#' @param type "categorical" or "sequential" or "divergent". -#' @param direction 1 or -1; should the order of colors be reversed? -#' @param ... Additional arguments to pass to [colorRampPalette()] when type is "continuous". -#' -#' @export -palette_gen <- function(palette, type, direction = 1, ...) { - #------ Checks - - checkmate::assert_string(palette) - checkmate::assert_choice(type, c("categorical", "sequential", "divergent")) - checkmate::assert_number(direction, lower = -1, upper = 1) - checkmate::assert_true(abs(direction) == 1) - - if (type == "categorical") { - return(palette_gen_categorical(palette = palette, direction = direction)) - } - - if (type %in% c("sequential", "divergent")) { - return(palette_gen_sequential( - palette = palette, - direction = direction, - ... - )) - } -} - - -#' @rdname palette_gen -#' -#' @export -palette_gen_categorical <- function(palette = "cat_5_main", direction = 1) { - #------ Checks - - checkmate::assert_string(palette) - checkmate::assert_number(direction, lower = -1, upper = 1) - checkmate::assert_true(abs(direction) == 1) - - pal <- palette(palette) - - f <- function(n) { - if (is.null(n)) { - n <- length(pal) - } - - if (n > length(pal)) { - rlang::warn("Not enough colors in this palette!") - } - - pal <- if (direction == 1) pal else rev(pal) - - pal <- pal[1:n] - - return(pal) - } - - return(f) -} - -#' @rdname palette_gen -#' -#' @export -palette_gen_sequential <- function(palette = "cat_5_main", direction = 1, ...) { - #------ Checks - - checkmate::assert_string(palette) - checkmate::assert_number(direction, lower = -1, upper = 1) - checkmate::assert_true(abs(direction) == 1) - - pal <- palette(palette) - - pal <- if (direction == 1) pal else rev(pal) - - grDevices::colorRampPalette(pal, ...) -} diff --git a/R/point.R b/R/point.R index 6092f94..9dae4bf 100644 --- a/R/point.R +++ b/R/point.R @@ -1,18 +1,10 @@ -#' @title Simple scatterplot +#' @title Simple point chart #' #' @param df A data frame. -#' @param x A quoted numeric column. -#' @param y A quoted numeric column. -#' @param group Some quoted grouping categorical column, e.g. administrative areas or population groups. -#' @param facet Some quoted grouping categorical column. -#' @param facet_scales Character. Either "free" (default) or "fixed" for facet scales. -#' @param x_rm_na Remove NAs in x? -#' @param y_rm_na Remove NAs in y? -#' @param group_rm_na Remove NAs in group? -#' @param facet_rm_na Remove NAs in facet? -#' @param add_color Add a color to points (if no grouping). -#' @param add_color_guide Should a legend be added? -#' @param flip TRUE or FALSE. +#' @param x A numeric column. +#' @param y A character column or coercible as a character column. +#' @param group Some grouping categorical column, e.g. administrative areas or population groups. +#' @param flip TRUE or FALSE. Default to TRUE or horizontal bar plot. #' @param alpha Fill transparency. #' @param size Point size. #' @param x_title The x scale title. Default to NULL. @@ -21,191 +13,69 @@ #' @param title Plot title. Default to NULL. #' @param subtitle Plot subtitle. Default to NULL. #' @param caption Plot caption. Default to NULL. -#' @param theme_fun Whatever theme. Default to theme_point(). NULL if no theming needed. -#' @param scale_fill_fun Scale fill function. Default to scale_fill_visualizer_discrete(). -#' @param scale_color_fun Scale color function. Default to scale_color_visualizer_discrete(). +#' @param theme Whatever theme. Default to theme_reach(). +#' +#' @return A bar chart #' #' @export -point <- function( +point <- function(df, x, y, group = NULL, flip = TRUE, alpha = 1, size = 1, x_title = NULL, y_title = NULL, group_title = NULL, title = NULL, subtitle = NULL, caption = NULL, theme = theme_reach()){ + + # To do : + # - automate bar width and text size, or at least give the flexibility and still center text + # - add facet possibility + + # Prepare group, x and y names + # if (is.null(x_title)) x_title <- rlang::as_name(rlang::enquo(x)) + # if (is.null(y_title)) y_title <- rlang::as_name(rlang::enquo(y)) + # if (is.null(group_title)) group_title <- rlang::as_name(rlang::enquo(group)) + + # Mapping + g <- ggplot2::ggplot( df, - x, - y, - group = "", - facet = "", - facet_scales = "free", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, - flip = TRUE, - alpha = 1, - size = 2, - x_title = NULL, - y_title = NULL, - group_title = NULL, - title = NULL, - subtitle = NULL, - caption = NULL, - theme_fun = theme_point(), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete()) { - #------ Checks - - # df is a data frame - checkmate::assert_data_frame(df) - - # x and y and group are character - checkmate::assert_character(x, len = 1) - checkmate::assert_character(y, len = 1) - checkmate::assert_character(group, len = 1) - - # x and y are columns in df - checkmate::assert_choice(x, colnames(df)) - checkmate::assert_choice(y, colnames(df)) - if (group != "") { - checkmate::assert_choice(group, colnames(df)) - } - - # x_rm_na, y_rm_na and group_rm_na are logical scalar - checkmate::assert_logical(x_rm_na, len = 1) - checkmate::assert_logical(y_rm_na, len = 1) - checkmate::assert_logical(group_rm_na, len = 1) - checkmate::assert_logical(facet_rm_na, len = 1) - - # facet_scales is a character scalar in c("free", "fixed") - checkmate::assert_choice(facet_scales, c("free", "fixed")) - - # flip is a logical scalar - checkmate::assert_logical(flip, len = 1) - - # alpha is a numeric scalar between 0 and 1 - checkmate::assert_numeric(alpha, lower = 0, upper = 1, len = 1) - - # size is a numeric scalar - checkmate::assert_numeric(size, len = 1) - - # x and y are numeric - if (!any(c("numeric", "integer") %in% class(df[[x]]))) { - rlang::abort(paste0(x, " must be numeric.")) - } - if (!any(c("numeric", "integer") %in% class(df[[y]]))) { - rlang::abort(paste0(y, " must be numeric.")) - } - - #----- Data wrangling - - # facets over group - if (group != "" && facet != "" && group == facet) { - rlang::warn("'group' and 'facet' are the same identical.") - } - - # remove NAs using base R - if (x_rm_na) { - df <- df[!(is.na(df[[x]])), ] - } - if (y_rm_na) { - df <- df[!(is.na(df[[y]])), ] - } - if (group != "" && group_rm_na) { - df <- df[!(is.na(df[[group]])), ] - } - if (facet != "" && facet_rm_na) { - df <- df[!(is.na(df[[facet]])), ] - } - - # prepare aes - if (group != "") { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y), - fill = !!rlang::sym(group), - color = !!rlang::sym(group) - ) + mapping = ggplot2::aes(x = {{ x }}, y = {{ y }}, fill = {{ group }}, color = {{ group }} ) - } else { - g <- ggplot2::ggplot( - df, - mapping = ggplot2::aes( - x = !!rlang::sym(x), - y = !!rlang::sym(y) - ) - ) - } + ) - # add title, subtitle, caption, x_title, y_title - g <- g + - ggplot2::labs( - title = title, - subtitle = subtitle, - caption = caption, - x = x_title, - y = y_title, - color = group_title, - fill = group_title - ) + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + x = x_title, + y = y_title, + color = group_title, + fill = group_title + ) - # facets - # facets - if (facet != "") { - if (flip) { - g <- g + - ggplot2::facet_grid( - rows = ggplot2::vars(!!rlang::sym(facet)), - scales = facet_scales, - space = if (facet_scales == "free") "free_y" else "fixed" - ) - } else { - g <- g + - ggplot2::facet_grid( - cols = ggplot2::vars(!!rlang::sym(facet)), - scales = facet_scales, - space = if (facet_scales == "free") "free_x" else "fixed" - ) - } - } + width <- 0.5 + dodge_width <- 0.5 # Should the graph use position_fill? - if (group != "") { - g <- g + - ggplot2::geom_point( - alpha = alpha, - size = size - ) - } else { - g <- g + - ggplot2::geom_point( - alpha = alpha, - size = size, - color = add_color - ) - } + g <- g + ggplot2::geom_point( + alpha = alpha, + size = size + ) - if (flip) { + # Labels to percent and expand scale + # if (percent) { + # g <- g + ggplot2::scale_y_continuous( + # labels = scales::label_percent( + # accuracy = 1, + # decimal.mark = ",", + # suffix = " %"), + # expand = c(0.01, 0.1) + # ) + # } else { + # g <- g + ggplot2::scale_y_continuous(expand = c(0.01, 0.1)) + # } + + # # Because a text legend should always be horizontal, especially for an horizontal bar graph + if (flip){ g <- g + ggplot2::coord_flip() } - # Remove guides for legend if !add_color_guide - if (!add_color_guide) { - g <- g + ggplot2::guides(fill = "none", color = "none") - } - # Add theme - if (!is.null(theme_fun)) { - g <- g + theme_fun - } - - # Add scale fun - if (!is.null(scale_fill_fun)) { - g <- g + scale_fill_fun - } - - if (!is.null(scale_color_fun)) { - g <- g + scale_color_fun - } + g <- g + theme return(g) } diff --git a/R/reorder_by.R b/R/reorder_by.R deleted file mode 100644 index f918cc7..0000000 --- a/R/reorder_by.R +++ /dev/null @@ -1,108 +0,0 @@ -#' Reorder a Data Frame -#' -#' @param df A data frame to be reordered. -#' @param x A character scalar specifying the column to be reordered. -#' @param y A character scalar specifying the column to order by if ordering by values. -#' @param group A character scalar specifying the grouping column (optional). -#' @param order A character scalar specifying the order type (one of "none", "y", "grouped"). See details. -#' @param dir_order A logical scalar specifying whether to flip the order. -#' -#' @details Ordering takes the following possible values: -#' -#' * "none": No reordering. -#' * "y": Order by values of y. -#' * "grouped_y": Order by values of y and group. -#' * "x": Order alphabetically by x. -#' * "grouped_x": Order alphabetically by x and group. -#' -#' -#' @return The reordered data frame. -#' -#' @examples -#' # Example usage -#' df <- data.frame(col1 = c("b", "a", "c"), col2 = c(10, 25, 3)) -#' reorder_by(df, "col1", "col2") -#' -#' @export -reorder_by <- function(df, x, y, group = "", order = "y", dir_order = 1) { - #------ Checks - - # df is a data frame - checkmate::assert_data_frame(df) - - # x and y are character scalar and in df - checkmate::assert_character(x, len = 1) - checkmate::assert_character(y, len = 1) - checkmate::assert_subset(x, colnames(df)) - checkmate::assert_subset(y, colnames(df)) - - # group is character scalar and in df if not empty - checkmate::assert_character(group, len = 1) - if (group != "") { - checkmate::assert_subset(group, colnames(df)) - } - - # order is a character scalar in c("none", "y", "grouped") - checkmate::assert_choice(order, c("none", "y", "grouped_y", "x", "grouped_x")) - - # dir_order is 1 or -1 (numeric scalar) - checkmate::assert_subset(dir_order, c(1, -1)) - - # Convert dir_order to decreasing logical flag - dir_order_lgl <- (dir_order == -1) - - #------ Reorder - - # droplevels first - if (is.factor(df[[x]])) { - df[[x]] <- droplevels(df[[x]]) - } - - # reording options - if (order == "y") { - # Order by values of y - df <- df[order(df[[y]], decreasing = dir_order_lgl), ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } else if (order == "grouped_y" && group != "") { - # Order by group first, then by values of y - df <- df[ - order( - df[[group]], - df[[y]], - decreasing = c(FALSE, dir_order_lgl), - method = "radix" - ), - ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } else if (order == "grouped_y" && group == "") { - # Fallback to ordering by y if group is empty - rlang::warn("Group is empty. Ordering by y only.") - df <- df[order(df[[y]], decreasing = dir_order_lgl), ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } else if (order == "x") { - # Order alphabetically by x - df <- df[order(df[[x]], decreasing = dir_order_lgl), ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } else if (order == "grouped_x" && group != "") { - # Order by group first, then alphabetically by x - df <- df[ - order( - df[[group]], - df[[x]], - decreasing = c(FALSE, dir_order_lgl), - method = "radix" - ), - ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } else if (order == "grouped_x" && group == "") { - # Fallback to ordering by x if group is empty - rlang::warn("Group is empty. Ordering by x only.") - df <- df[order(df[[x]], decreasing = dir_order_lgl), ] - df[[x]] <- forcats::fct_inorder(df[[x]]) - } - - # Reset row names - rownames(df) <- NULL - - return(df) -} diff --git a/R/scale.R b/R/scale.R index a76d98d..b1a8ccd 100644 --- a/R/scale.R +++ b/R/scale.R @@ -1,41 +1,119 @@ -#' Scale constructors for fill and colors -#' -#' This function is based on [palette()]. If palette is NULL, the used palette will be magma from gpplot2's viridis scale constructors. -#' -#' @inheritParams palette_gen +#' Color scale constructor for REACH or AGORA colors #' +#' @param initiative Either "reach" or "agora" or "default". +#' @param palette Palette name from `pal_reach()` or `pal_agora()`. +#' @param discrete Boolean indicating whether color aesthetic is discrete or not. +#' @param reverse Boolean indicating whether the palette should be reversed. #' @param reverse_guide Boolean indicating whether the guide should be reversed. -#' @param title_position Position of the title. See [ggplot2::guide_legend()]'s title.position argument. -#' @param ... Additional arguments passed to [ggplot2::discrete_scale()] if discrete or [ggplot2::scale_fill_gradient()] if continuous. +#' @param ... Additional arguments passed to discrete_scale() or +#' scale_fill_gradient(), used respectively when discrete is TRUE or FALSE. +#' +#' @return A color scale for ggplot #' #' @export -scale_color_visualizer_discrete <- function( - palette = "cat_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ...) { - if (!(is.null(palette))) { +scale_color <- function(initiative = "reach", palette = "main", discrete = TRUE, reverse = FALSE, reverse_guide = TRUE, ...) { + + if (initiative == "reach") { + + pal <- pal_reach(palette) + + if (is.null(pal)) { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + rlang::warn( + c( + paste0("There is no palette '", palette, "' for the selected initiative. Fallback to pal_fallback()."), + "i" = paste0("Use `pal_reach(show_palettes = TRUE)` to see the list of available palettes.") + ) + ) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + + pal <- pal_reach( + palette = palette, + reverse = reverse, + color_ramp_palette = TRUE, + show_palettes = FALSE + ) + + } + + } else if (initiative == "agora") { + + pal <- pal_agora(palette) + + if (is.null(pal)) { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + rlang::warn( + c( + paste0("There is no palette '", palette, "' for the selected initiative. Fallback to pal_fallback()."), + "i" = paste0("Use `pal_reach(show_palettes = TRUE)` to see the list of available palettes.") + ) + ) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + + pal <- pal_agora( + palette = palette, + reverse = reverse, + color_ramp_palette = TRUE, + show_palettes = FALSE + ) + } + + } else if (initiative == "default") { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + rlang::abort( + c( + paste0("There is no initiative '", initiative, "."), + "i" = paste0("initiative should be either 'reach', 'agora' or 'default'") + ) + ) + } + + if (discrete) { ggplot2::discrete_scale( - "color", - palette = palette_gen(palette, "categorical", direction), + "colour", + paste0(initiative, "_", palette), + palette = pal, guide = ggplot2::guide_legend( - title.position = title_position, + title.position = "top", draw.ulim = TRUE, draw.llim = TRUE, - # ticks.colour = "#F1F3F5", + ticks.colour = "#F1F3F5", reverse = reverse_guide ), ... ) } else { - ggplot2::scale_colour_viridis_d( - direction = direction, - guide = ggplot2::guide_legend( - title.position = title_position, + ggplot2::scale_color_gradientn( + colours = pal(256), + guide = ggplot2::guide_colorbar( + title.position = "top", draw.ulim = TRUE, draw.llim = TRUE, - # ticks.colour = "#F1F3F5", + ticks.colour = "#F1F3F5", reverse = reverse_guide ), ... @@ -43,112 +121,125 @@ scale_color_visualizer_discrete <- function( } } -#' @rdname scale_color_visualizer_discrete + + +#' Fill scale constructor for REACH or AGORA colors +#' +#' @param initiative Either "reach" or "agora" or "default". +#' @param palette Palette name from `pal_reach()` or `pal_agora()`. +#' @param discrete Boolean indicating whether color aesthetic is discrete or not. +#' @param reverse Boolean indicating whether the palette should be reversed. +#' @param reverse_guide Boolean indicating whether the guide should be reversed. +#' @param ... Additional arguments passed to discrete_scale() or +#' scale_fill_gradient(), used respectively when discrete is TRUE or FALSE. +#' +#' @return A fill scale for ggplot. #' #' @export -scale_fill_visualizer_discrete <- function( - palette = "cat_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ...) { - if (!(is.null(palette))) { +scale_fill <- function(initiative = "reach", palette = "main", discrete = TRUE, reverse = FALSE, reverse_guide = TRUE, ...) { + + + if (initiative == "reach") { + + pal <- pal_reach(palette) + + if (is.null(pal)) { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + rlang::warn( + c( + paste0("There is no palette '", palette, "' for the selected initiative. Fallback to pal_fallback()."), + "i" = paste0("Use `pal_reach(show_palettes = TRUE)` to see the list of available palettes.") + ) + ) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + + pal <- pal_reach( + palette = palette, + reverse = reverse, + color_ramp_palette = TRUE, + show_palettes = FALSE + ) + + } + + } else if (initiative == "agora") { + + pal <- pal_agora(palette) + + if (is.null(pal)) { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + rlang::warn( + c( + paste0("There is no palette '", palette, "' for the selected initiative. Fallback to pal_fallback()."), + "i" = paste0("Use `pal_reach(show_palettes = TRUE)` to see the list of available palettes.") + ) + ) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + + pal <- pal_agora( + palette = palette, + reverse = reverse, + color_ramp_palette = TRUE, + show_palettes = FALSE + ) + } + + } else if (initiative == "default") { + + pal <- pal_fallback( + reverse = reverse, + discrete = discrete, + color_ramp_palette = TRUE) + + if (discrete) palette <- "viridis" else palette <- "magma" + + } else { + rlang::abort( + c( + paste0("There is no initiative '", initiative, "."), + "i" = paste0("initiative should be either 'reach', 'agora' or 'default'") + ) + ) + } + + if (discrete) { ggplot2::discrete_scale( "fill", - palette = palette_gen(palette, "categorical", direction), + paste0(initiative, "_", palette), + palette = pal, guide = ggplot2::guide_legend( - title.position = title_position, + title.position = "top", draw.ulim = TRUE, draw.llim = TRUE, - # ticks.colour = "#F1F3F5", + ticks.colour = "#F1F3F5", reverse = reverse_guide ), ... ) } else { - ggplot2::scale_fill_viridis_d( - direction = direction, - guide = ggplot2::guide_legend( - title.position = title_position, + ggplot2::scale_color_gradientn( + colours = pal(256), + guide = ggplot2::guide_colorbar( + title.position = "top", draw.ulim = TRUE, draw.llim = TRUE, - # ticks.colour = "#F1F3F5", - reverse = reverse_guide - ), - ... - ) - } -} - -#' @rdname scale_color_visualizer_discrete -#' -#' @export -scale_fill_visualizer_continuous <- function( - palette = "seq_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ...) { - if (!(is.null(palette))) { - pal <- palette_gen(palette, "continuous", direction) - - ggplot2::scale_fill_gradientn( - colors = pal(256), - guide = ggplot2::guide_colorbar( - title.position = title_position, - draw.ulim = TRUE, - draw.llim = TRUE, - # ticks.colour = "#F1F3F5", - reverse = reverse_guide - ), - ... - ) - } else { - ggplot2::scale_fill_viridis_c( - option = "magma", - guide = ggplot2::guide_colorbar( - title.position = title_position, - draw.ulim = TRUE, - draw.llim = TRUE, - # ticks.colour = "#F1F3F5", - reverse = reverse_guide - ), - ... - ) - } -} - -#' @rdname scale_color_visualizer_discrete -#' -#' @export -scale_color_visualizer_continuous <- function( - palette = "seq_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ...) { - if (!(is.null(palette))) { - pal <- palette_gen(palette, "continuous", direction) - - ggplot2::scale_fill_gradientn( - colors = pal(256), - guide = ggplot2::guide_colorbar( - title.position = title_position, - draw.ulim = TRUE, - draw.llim = TRUE, - # ticks.colour = "#F1F3F5", - reverse = reverse_guide - ), - ... - ) - } else { - ggplot2::scale_colour_viridis_c( - option = "magma", - guide = ggplot2::guide_colorbar( - title.position = title_position, - draw.ulim = TRUE, - draw.llim = TRUE, - # ticks.colour = "#F1F3F5", + ticks.colour = "#F1F3F5", reverse = reverse_guide ), ... diff --git a/R/theme_bar.R b/R/theme_bar.R deleted file mode 100644 index eb16730..0000000 --- a/R/theme_bar.R +++ /dev/null @@ -1,97 +0,0 @@ -#' Custom Theme for Bar Charts -#' -#' @return A custom theme object. -#' -#' -#' @rdname theme_default -#' -#' @inheritParams bar -#' -#' @export -theme_bar <- function( - flip = TRUE, - add_text = FALSE, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5) { - # If add_text is TRUE, flip is FALSE - if (!flip && !add_text) { - par_axis_text_font_face <- "plain" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- FALSE - par_axis_ticks_y <- TRUE - par_axis_text_y <- TRUE - par_axis_line_x <- TRUE - par_axis_ticks_x <- TRUE - par_axis_text_x <- TRUE - par_grid_major_y <- TRUE - par_grid_major_x <- FALSE - par_grid_minor_y <- TRUE - par_grid_minor_x <- FALSE - } else if (flip && !add_text) { - par_axis_text_font_face <- "plain" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- TRUE - par_axis_ticks_y <- TRUE - par_axis_text_y <- TRUE - par_axis_line_x <- FALSE - par_axis_ticks_x <- TRUE - par_axis_text_x <- TRUE - par_grid_major_y <- FALSE - par_grid_major_x <- TRUE - par_grid_minor_y <- FALSE - par_grid_minor_x <- TRUE - } else if (!flip && add_text) { - par_axis_text_font_face <- "bold" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- FALSE - par_axis_ticks_y <- FALSE - par_axis_text_y <- FALSE - par_axis_line_x <- FALSE - par_axis_ticks_x <- TRUE - par_axis_text_x <- TRUE - par_grid_major_y <- FALSE - par_grid_major_x <- FALSE - par_grid_minor_y <- FALSE - par_grid_minor_x <- FALSE - } else if (flip && add_text) { - par_axis_text_font_face <- "bold" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- FALSE - par_axis_ticks_y <- TRUE - par_axis_text_y <- TRUE - par_axis_line_x <- FALSE - par_axis_ticks_x <- FALSE - par_axis_text_x <- FALSE - par_grid_major_y <- FALSE - par_grid_major_x <- FALSE - par_grid_minor_y <- FALSE - par_grid_minor_x <- FALSE - } - - # Theme - t <- theme_default( - axis_text_font_face = par_axis_text_font_face, - axis_x = par_axis_x, - axis_y = par_axis_y, - grid_major_y = par_grid_major_y, - grid_major_x = par_grid_major_x, - grid_minor_y = par_grid_minor_y, - grid_minor_x = par_grid_minor_x, - axis_text_y = par_axis_text_y, - axis_line_y = par_axis_line_y, - axis_ticks_y = par_axis_ticks_y, - axis_text_x = par_axis_text_x, - axis_line_x = par_axis_line_x, - axis_ticks_x = par_axis_ticks_x, - axis_text_x_angle = axis_text_x_angle, - axis_text_x_vjust = axis_text_x_vjust, - axis_text_x_hjust = axis_text_x_hjust - ) - - return(t) -} diff --git a/R/theme_default.R b/R/theme_default.R deleted file mode 100644 index 5c740a2..0000000 --- a/R/theme_default.R +++ /dev/null @@ -1,399 +0,0 @@ -#' ggplot2 theme wrapper with fonts and colors -#' -#' @param title_size The size of the title. Defaults to 12. -#' @param title_color Title color. -#' @param title_font_face Title font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param title_hjust Title horizontal justification. Default to NULL. Use 0.5 to center the title. -#' @param title_font_family Title font family. Default to "Carlito". -#' @param title_position_to_plot TRUE or FALSE. Positioning to plot or to panel? -#' @param subtitle_font_family Subtitle font family. Default to "Carlito". -#' @param subtitle_size The size of the subtitle. Defaults to 10. -#' @param subtitle_color Subtitle color. -#' @param subtitle_font_face Subtitle font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param subtitle_hjust Subtitle horizontal justification. Default to NULL. Use 0.5 to center the subtitle. -#' @param text_font_family Text font family. Default to "Carlito". -#' @param text_size The size of all text other than the title, subtitle and caption. Defaults to 10. -#' @param text_color Text color. -#' @param text_font_face Text font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param panel_background_color The color for the panel background color. Default to white. -#' @param panel_border Boolean. Plot a panel border? Default to FALSE. -#' @param panel_border_color A color. Default to REACH main grey. -#' @param legend_position Position of the legend; Default to "right". Can take "right", "left", "top", "bottom" or "none". -#' @param legend_direction Direction of the legend. Default to "vertical". Can take "vertical" or "horizontal". -#' @param legend_justification In addition to legend_direction, place the legend. Can take "left", "bottom", "center", "right", "top". -#' @param legend_title_size Legend title size. -#' @param legend_title_color Legend title color. -#' @param legend_title_font_face Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param legend_title_font_family Legend title font family. Default to "Carlito". -#' @param legend_text_size Legend text size. -#' @param legend_text_color Legend text color. -#' @param legend_text_font_face Legend text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param legend_text_font_family Legend text font family. Default to "Carlito". -#' -#' @param legend_reverse Reverse the color in the guide? Default to TRUE. -#' @param facet_size Facet font size. -#' @param facet_color Facet font color. -#' @param facet_font_face Facet font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param facet_font_family Facet font family. Default to "Carlito". -#' @param facet_bg_color Facet background color. -#' @param axis_x Boolean. Do you need x-axis? -#' @param axis_y Boolean. Do you need y-axis? -#' @param axis_text_font_family Axis text font family. Default to "Carlito". -#' @param axis_text_size Axis text size. -#' @param axis_text_color Axis text color. -#' @param axis_text_font_face Axis text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param axis_text_x Boolean. Do you need the text for the x-axis? -#' @param axis_line_x Boolean. Do you need the line for the x-axis? -#' @param axis_ticks_x Boolean. Do you need the line for the x-axis? -#' @param axis_text_x_angle Angle for the x-axis text. -#' @param axis_text_x_vjust Vertical adjustment for the x-axis text. -#' @param axis_text_x_hjust Vertical adjustment for the x-axis text. -#' @param axis_text_y Boolean. Do you need the text for the y-axis? -#' @param axis_line_y Boolean. Do you need the line for the y-axis? -#' @param axis_ticks_y Boolean. Do you need the line for the y-axis? -#' @param axis_title_size Axis title size. -#' @param axis_title_color Axis title color. -#' @param axis_title_font_face Axis title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param grid_major_x Boolean. Do you need major grid lines for x-axis? -#' @param grid_major_y Boolean. Do you need major grid lines for y-axis? -#' @param grid_major_x_size Major X line size. -#' @param grid_major_y_size Major Y line size. -#' @param grid_major_color Major grid lines color. -#' @param grid_minor_x Boolean. Do you need minor grid lines for x-axis? -#' @param grid_minor_y Boolean. Do you need minor grid lines for y-axis? -#' @param grid_minor_x_size Minor X line size. -#' @param grid_minor_y_size Minor Y line size. -#' @param grid_minor_color Minor grid lines color. -#' @param caption_font_family Caption font family. Default to "Carlito". -#' @param caption_font_face Caption font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). -#' @param caption_position_to_plot TRUE or FALSE. Positioning to plot or to panel? -#' @param caption_size The size of the caption. Defaults to 10. -#' @param caption_color Caption color. -#' @param ... Additional arguments passed to [ggplot2::theme()]. -#' -#' -#' @description Give some reach colors and fonts to a ggplot. -#' -#' @export -theme_default <- function( - title_font_family = "Carlito", - title_size = 20, - title_color = color("dark_grey"), - title_font_face = "bold", - title_hjust = NULL, - title_position_to_plot = TRUE, - subtitle_font_family = "Carlito", - subtitle_size = 16, - subtitle_color = color("dark_grey"), - subtitle_font_face = "plain", - subtitle_hjust = NULL, - text_font_family = "Carlito", - text_size = 14, - text_color = color("dark_grey"), - text_font_face = "plain", - panel_background_color = "#FFFFFF", - panel_border = FALSE, - panel_border_color = color("dark_grey"), - legend_position = "top", - legend_direction = "horizontal", - legend_justification = "center", - legend_reverse = TRUE, - legend_title_size = 14, - legend_title_color = color("dark_grey"), - legend_title_font_face = "plain", - legend_title_font_family = "Carlito", - legend_text_size = 14, - legend_text_color = color("dark_grey"), - legend_text_font_face = "plain", - legend_text_font_family = "Carlito", - facet_size = 15, - facet_color = color("dark_grey"), - facet_font_face = "bold", - facet_font_family = "Carlito", - facet_bg_color = color("lighter_grey"), - axis_x = TRUE, - axis_y = TRUE, - axis_text_x = TRUE, - axis_line_x = FALSE, - axis_ticks_x = FALSE, - axis_text_y = TRUE, - axis_line_y = TRUE, - axis_ticks_y = TRUE, - axis_text_font_family = "Carlito", - axis_text_size = 14, - axis_text_color = color("dark_grey"), - axis_text_font_face = "plain", - axis_title_size = 15, - axis_title_color = color("dark_grey"), - axis_title_font_face = "plain", - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5, - grid_major_x = TRUE, - grid_major_y = FALSE, - grid_major_color = color("dark_grey"), - grid_major_x_size = 0.1, - grid_major_y_size = 0.1, - grid_minor_x = TRUE, - grid_minor_y = FALSE, - grid_minor_color = color("dark_grey"), - grid_minor_x_size = 0.05, - grid_minor_y_size = 0.05, - caption_font_family = "Carlito", - caption_font_face = "plain", - caption_position_to_plot = TRUE, - caption_size = 12, - caption_color = color("dark_grey"), - ...) { - # Basic simple theme - theme <- ggplot2::theme_minimal() - - theme <- theme + - ggplot2::theme( - # # Text - design - text = ggplot2::element_text( - family = text_font_family, - color = text_color, - size = text_size, - face = text_font_face - ), - # Default legend to right position - legend.position = legend_position, - # Defaut legend to vertical direction - legend.direction = legend_direction, - # Text sizes - axis.text = ggplot2::element_text( - size = axis_text_size, - family = axis_text_font_family, - face = axis_text_font_face, - color = axis_text_color - ), - axis.title = ggplot2::element_text( - size = axis_title_size, - family = axis_text_font_family, - face = axis_title_font_face, - color = axis_title_color - ), - # # Wrap title - plot.title = ggtext::element_textbox_simple( - hjust = title_hjust, - family = title_font_family, - color = title_color, - size = title_size, - face = title_font_face, - width = grid::unit(0.9, "npc"), - margin = ggplot2::margin(b = 10) - ), - plot.subtitle = ggtext::element_textbox_simple( - hjust = title_hjust, - family = subtitle_font_family, - color = subtitle_color, - size = subtitle_size, - face = subtitle_font_face, - margin = ggplot2::margin(t = 5, b = 10) - ), - plot.caption = ggtext::element_textbox_simple( - size = caption_size, - face = caption_font_face, - family = caption_font_family, - color = caption_color, - margin = ggplot2::margin(t = 10) - ), - legend.title = ggplot2::element_text( - size = legend_title_size, - face = legend_title_font_face, - family = legend_title_font_family, - color = legend_title_color - ), - legend.text = ggplot2::element_text( - size = legend_text_size, - face = legend_text_font_face, - family = legend_text_font_family, - color = legend_text_color - ), - axis.text.x = ggplot2::element_text( - angle = axis_text_x_angle, - vjust = axis_text_x_vjust, - hjust = axis_text_x_hjust - ) - ) - - # Position of title - if (title_position_to_plot) { - theme <- theme + - ggplot2::theme( - plot.title.position = "plot" - ) - } - - if (caption_position_to_plot) { - theme <- theme + - ggplot2::theme( - plot.caption.position = "plot" - ) - } - # Position of caption - - # Axis lines ? - if (axis_x & axis_y) { - theme <- theme + - ggplot2::theme( - axis.line = ggplot2::element_line(color = text_color) - ) - } - - if (!axis_x) { - theme <- theme + - ggplot2::theme( - axis.line.x = ggplot2::element_blank(), - axis.ticks.x = ggplot2::element_blank(), - axis.text.x = ggplot2::element_blank() - ) - } - - if (!axis_y) { - theme <- theme + - ggplot2::theme( - axis.line.y = ggplot2::element_blank(), - axis.ticks.y = ggplot2::element_blank(), - axis.text.y = ggplot2::element_blank() - ) - } - - if (!axis_line_x) { - theme <- theme + - ggplot2::theme( - axis.line.x = ggplot2::element_blank() - ) - } - - if (!axis_ticks_x) { - theme <- theme + - ggplot2::theme( - axis.ticks.x = ggplot2::element_blank() - ) - } - - if (!axis_text_x) { - theme <- theme + - ggplot2::theme( - axis.text.x = ggplot2::element_blank() - ) - } - - if (!axis_line_y) { - theme <- theme + - ggplot2::theme( - axis.line.y = ggplot2::element_blank() - ) - } - - if (!axis_ticks_y) { - theme <- theme + - ggplot2::theme( - axis.ticks.y = ggplot2::element_blank() - ) - } - - if (!axis_text_y) { - theme <- theme + - ggplot2::theme( - axis.text.y = ggplot2::element_blank() - ) - } - - # X - major grid lines - if (!grid_major_x) { - theme <- theme + - ggplot2::theme( - panel.grid.major.x = ggplot2::element_blank() - ) - } else { - theme <- theme + - ggplot2::theme( - panel.grid.major.x = ggplot2::element_line( - color = grid_major_color, - linewidth = grid_major_x_size - ) - ) - } - - # Y - major grid lines - if (!grid_major_y) { - theme <- theme + - ggplot2::theme( - panel.grid.major.y = ggplot2::element_blank() - ) - } else { - theme <- theme + - ggplot2::theme( - panel.grid.major.y = ggplot2::element_line( - color = grid_major_color, - linewidth = grid_major_y_size - ) - ) - } - - # X - minor grid lines - if (!grid_minor_x) { - theme <- theme + - ggplot2::theme( - panel.grid.minor.x = ggplot2::element_blank() - ) - } else { - theme <- theme + - ggplot2::theme( - panel.grid.minor.x = ggplot2::element_line( - color = grid_minor_color, - linewidth = grid_minor_x_size - ) - ) - } - - # Y - minor grid lines - if (!grid_minor_y) { - theme <- theme + - ggplot2::theme( - panel.grid.minor.y = ggplot2::element_blank() - ) - } else { - theme <- theme + - ggplot2::theme( - panel.grid.minor.y = ggplot2::element_line( - color = grid_minor_color, - linewidth = grid_minor_y_size - ) - ) - } - if (!panel_border) { - theme <- theme + - ggplot2::theme( - panel.border = ggplot2::element_blank() - ) - } else { - theme <- theme + - ggplot2::theme( - panel.border = ggplot2::element_rect(color = panel_background_color) - ) - } - - # Add facet title text size - theme <- theme + - ggplot2::theme( - strip.text = ggplot2::element_text( - size = facet_size, - family = facet_font_family, - face = facet_font_face, - color = facet_color - ), - strip.background = ggplot2::element_rect( - fill = facet_bg_color, - linewidth = 0 - ) - ) - - # Other parameters - theme <- theme + ggplot2::theme(...) - - return(theme) -} diff --git a/R/theme_dumbbell.R b/R/theme_dumbbell.R deleted file mode 100644 index 76f89a4..0000000 --- a/R/theme_dumbbell.R +++ /dev/null @@ -1,10 +0,0 @@ -#' @title Dumbbell Theme - -#' @description Theme for dumbbell charts based on theme_default. -#' -#' @rdname theme_default -#' -#' @export -theme_dumbbell <- function() { - theme_default() -} diff --git a/R/theme_lollipop.R b/R/theme_lollipop.R deleted file mode 100644 index ceea089..0000000 --- a/R/theme_lollipop.R +++ /dev/null @@ -1,82 +0,0 @@ -#' Custom Theme for Lollipop Charts -#' -#' @description -#' A custom theme specifically designed for lollipop charts with appropriate grid lines and axis styling -#' based on whether the chart is flipped (horizontal) or not. -#' -#' @param flip Logical indicating whether the lollipop chart is flipped (horizontal). Default is TRUE. -#' @param axis_text_x_angle Angle for x-axis text labels. Default is 0. -#' @param axis_text_x_vjust Vertical justification for x-axis text labels. Default is 0.5. -#' @param axis_text_x_hjust Horizontal justification for x-axis text labels. Default is 0.5. -#' -#' @return A ggplot2 theme object -#' -#' @rdname theme_default -#' @export -#' -#' @examples -#' \dontrun{ -#' library(ggplot2) -#' df <- data.frame(x = letters[1:5], y = c(10, 5, 7, 12, 8)) -#' ggplot(df, aes(x, y)) + -#' geom_point() + -#' theme_lollipop() -#' } -theme_lollipop <- function( - flip = TRUE, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5) { - # Set parameters based on flip - if (!flip) { - par_axis_text_font_face <- "plain" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- FALSE - par_axis_ticks_y <- TRUE - par_axis_text_y <- TRUE - par_axis_line_x <- TRUE - par_axis_ticks_x <- TRUE - par_axis_text_x <- TRUE - par_grid_major_y <- TRUE - par_grid_major_x <- FALSE - par_grid_minor_y <- TRUE - par_grid_minor_x <- FALSE - } else if (flip) { - par_axis_text_font_face <- "plain" - par_axis_x <- TRUE - par_axis_y <- TRUE - par_axis_line_y <- TRUE - par_axis_ticks_y <- TRUE - par_axis_text_y <- TRUE - par_axis_line_x <- FALSE - par_axis_ticks_x <- TRUE - par_axis_text_x <- TRUE - par_grid_major_y <- FALSE - par_grid_major_x <- TRUE - par_grid_minor_y <- FALSE - par_grid_minor_x <- TRUE - } - - # Theme - t <- theme_default( - axis_text_font_face = par_axis_text_font_face, - axis_x = par_axis_x, - axis_y = par_axis_y, - grid_major_y = par_grid_major_y, - grid_major_x = par_grid_major_x, - grid_minor_y = par_grid_minor_y, - grid_minor_x = par_grid_minor_x, - axis_text_y = par_axis_text_y, - axis_line_y = par_axis_line_y, - axis_ticks_y = par_axis_ticks_y, - axis_text_x = par_axis_text_x, - axis_line_x = par_axis_line_x, - axis_ticks_x = par_axis_ticks_x, - axis_text_x_angle = axis_text_x_angle, - axis_text_x_vjust = axis_text_x_vjust, - axis_text_x_hjust = axis_text_x_hjust - ) - - return(t) -} diff --git a/R/theme_point.R b/R/theme_point.R deleted file mode 100644 index 59c0840..0000000 --- a/R/theme_point.R +++ /dev/null @@ -1,31 +0,0 @@ -#' Custom Theme for Point Charts -#' -#' @param flip Logical. Whether the plot is flipped (horizontal). -#' @param axis_text_x_angle Angle for x-axis text. -#' @param axis_text_x_vjust Vertical justification for x-axis text. -#' @param axis_text_x_hjust Horizontal justification for x-axis text. -#' -#' @rdname theme_default -#' -#' @return A custom theme object. -#' -#' @export -theme_point <- function() { - t <- theme_default( - axis_text_font_face = "plain", - axis_x = TRUE, - axis_y = TRUE, - grid_major_y = TRUE, - grid_major_x = TRUE, - grid_minor_y = FALSE, - grid_minor_x = FALSE, - axis_text_x = TRUE, - axis_line_x = TRUE, - axis_ticks_x = TRUE, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0 - ) - - return(t) -} diff --git a/R/theme_reach.R b/R/theme_reach.R new file mode 100644 index 0000000..ac4a3be --- /dev/null +++ b/R/theme_reach.R @@ -0,0 +1,290 @@ +#' @title ggplot2 theme with REACH color palettes +#' +#' @param initiative Either "reach" or "default". +#' @param palette Palette name from 'pal_reach()'. +#' @param discrete Boolean indicating whether color aesthetic is discrete or not. +#' @param reverse Boolean indicating whether the palette should be reversed. +#' @param font_family The font family for all plot's texts. Default to "Segoe UI". +#' @param title_size The size of the title. Defaults to 12. +#' @param title_color Title color. +#' @param title_font_face Title font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param title_hjust Title horizontal justification. Default to NULL. Use 0.5 to center the title. +#' @param text_size The size of all text other than the title, subtitle and caption. Defaults to 10. +#' @param text_color Text color. +#' @param text_font_face Text font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param panel_background_color The color for the panel background color. Default to white. +#' @param panel_border Boolean. Plot a panel border? Default to FALSE. +#' @param panel_border_color A color. Default to REACH main grey. +#' @param legend_position Position of the legend; Default to "right". Can take "right", "left", "top", "bottom" or "none". +#' @param legend_direction Direction of the legend. Default to "vertical". Can take "vertical" or "horizontal". +#' @param legend_title_size Legend title size. +#' @param legend_title_color Legend title color. +#' @param legend_title_font_face Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param legend_text_size Legend text size. +#' @param legend_text_color Legend text color. +#' @param legend_text_font_face Legend text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param legend_reverse Reverse the color in the guide? Default to TRUE. +#' @param title_size The size of the legend title. Defaults to 11. +#' @param title_color Legend title color. +#' @param title_font_face Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param title_position_to_plot TRUE or FALSE. Positioning to plot or to panel? +#' @param axis_x Boolean. Do you need x-axis? +#' @param axis_y Boolean. Do you need y-axis? +#' @param axis_text_size Axis text size. +#' @param axis_text_color Axis text color. +#' @param axis_text_font_face Axis text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param axis_text_x_angle Angle for the x-axis text. +#' @param axis_text_x_vjust Vertical adjustment for the x-axis text. +#' @param axis_text_x_hjust Vertical adjustment for the x-axis text. +#' @param axis_title_size Axis title size. +#' @param axis_title_color Axis title color. +#' @param axis_title_font_face Axis title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic"). +#' @param grid_major_x Boolean. Do you need major grid lines for x-axis? +#' @param grid_major_y Boolean. Do you need major grid lines for y-axis? +#' @param grid_major_x_size Major X line size. +#' @param grid_major_y_size Major Y line size. +#' @param grid_major_color Major grid lines color. +#' @param grid_minor_x Boolean. Do you need minor grid lines for x-axis? +#' @param grid_minor_y Boolean. Do you need minor grid lines for y-axis? +#' @param grid_minor_x_size Minor X line size. +#' @param grid_minor_y_size Minor Y line size. +#' @param grid_minor_color Minor grid lines color. +#' @param caption_position_to_plot TRUE or FALSE. Positioning to plot or to panel? +#' @param ... Additional arguments passed to `ggplot2::gg_theme()`. +#' +#' +#' @description Give some reach colors and fonts to a ggplot. +#' +#' @return The base REACH theme +#' +#' @export +theme_reach <- function( + initiative = "reach", + palette = "main", + discrete = TRUE, + reverse = FALSE, + font_family = "Segoe UI", + title_size = 12, + title_color = cols_reach("main_grey"), + title_font_face = "bold", + title_hjust = NULL, + title_position_to_plot = TRUE, + text_size = 10, + text_color = cols_reach("main_grey"), + text_font_face = "plain", + panel_background_color = "#FFFFFF", + panel_border = FALSE, + panel_border_color = cols_reach("main_grey"), + legend_position = "right", + legend_direction = "vertical", + legend_reverse = TRUE, + legend_title_size = 11, + legend_title_color = cols_reach("main_grey"), + legend_title_font_face = "plain", + legend_text_size = 10, + legend_text_color = cols_reach("main_grey"), + legend_text_font_face = "plain", + axis_x = TRUE, + axis_y = TRUE, + axis_text_size = 10, + axis_text_color = cols_reach("main_grey"), + axis_text_font_face = "plain", + axis_title_size = 11, + axis_title_color = cols_reach("main_grey"), + axis_title_font_face = "bold", + axis_text_x_angle = 0, + axis_text_x_vjust = 0.5, + axis_text_x_hjust = 0.5, + grid_major_x = FALSE, + grid_major_y = FALSE, + grid_major_color = cols_reach("main_lt_grey"), + grid_major_x_size = 0.1, + grid_major_y_size = 0.1, + grid_minor_x = FALSE, + grid_minor_y = FALSE, + grid_minor_color = cols_reach("main_lt_grey"), + grid_minor_x_size = 0.05, + grid_minor_y_size = 0.05, + caption_position_to_plot = TRUE, + ... + ) { + + # To do : + # - add facet theming + + if (!initiative %in% c("reach", "default")) + rlang::abort( + c( + paste0("There is no initiative '", initiative, " to be used with theme_reach()."), + "i" = paste0("initiative should be either 'reach' or 'default'") + ) + ) + + # Basic simple theme + # theme_reach <- ggplot2::theme_bw() + + theme_reach <- ggplot2::theme( + # Title - design + title = ggplot2::element_text( + family = font_family, + color = title_color, + size = title_size, + face = title_font_face + ), + # Text - design + text = ggplot2::element_text( + family = font_family, + color = text_color, + size = text_size, + face = text_font_face + ), + # Default legend to right position + legend.position = legend_position, + # Defaut legend to vertical direction + legend.direction = legend_direction, + # set panel background color + panel.background = ggplot2::element_rect( + fill = panel_background_color + ), + # Remove background for legend key + legend.key = ggplot2::element_blank(), + # Text sizes + axis.text = ggplot2::element_text( + size = axis_text_size, + family = font_family, + face = axis_text_font_face, + color = axis_text_color + ), + axis.title = ggplot2::element_text( + size = axis_title_size, + family = font_family, + face = axis_title_font_face, + color = axis_title_color), + # Wrap title + plot.title = ggtext::element_textbox( + hjust = title_hjust + ), + plot.subtitle = ggtext::element_textbox( + hjust = title_hjust + ), + plot.caption = ggtext::element_textbox(), + legend.title = ggplot2::element_text( + size = legend_title_size, + face = legend_title_font_face, + family = font_family, + color = legend_title_color), + legend.text = ggplot2::element_text( + size = legend_text_size, + face = legend_text_font_face, + family = font_family, + color = legend_text_color + ), + axis.text.x = ggplot2::element_text( + angle = axis_text_x_angle, + vjust = axis_text_x_vjust, + hjust = axis_text_x_hjust + ) + ) + + # Position of title + if (title_position_to_plot) theme_reach <- theme_reach + + ggplot2::theme( + plot.title.position = "plot" + ) + + if (caption_position_to_plot) theme_reach <- theme_reach + + ggplot2::theme( + plot.caption.position = "plot" + ) + # Position of caption + + # Axis lines ? + if (axis_x & axis_y) { + theme_reach <- theme_reach + + ggplot2::theme( + axis.line = ggplot2::element_line(color = text_color)) + } + + if (!axis_x) { + theme_reach <- theme_reach + + ggplot2::theme( + axis.line.x = ggplot2::element_blank(), + axis.ticks.x = ggplot2::element_blank(), + axis.text.x = ggplot2::element_blank()) + } + + if (!axis_y) { + theme_reach <- theme_reach + + ggplot2::theme( + axis.line.y = ggplot2::element_blank(), + axis.ticks.y = ggplot2::element_blank(), + axis.text.y = ggplot2::element_blank()) + } + + # X - major grid lines + if (!grid_major_x) theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.major.x = ggplot2::element_blank() + ) else theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.major.x = ggplot2::element_line( + color = grid_major_color, + linewidth = grid_major_x_size) + ) + + # Y - major grid lines + if (!grid_major_y) theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.major.y = ggplot2::element_blank() + ) else theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.major.y = ggplot2::element_line( + color = grid_major_color, + linewidth = grid_major_y_size) + ) + + # X - minor grid lines + if (!grid_minor_x) theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.minor.x = ggplot2::element_blank() + ) else theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.minor.x = ggplot2::element_line( + color = grid_minor_color, + linewidth = grid_minor_x_size) + ) + + # Y - minor grid lines + if (!grid_minor_y) theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.minor.y = ggplot2::element_blank() + ) else theme_reach <- theme_reach + + ggplot2::theme( + panel.grid.minor.y = ggplot2::element_line( + color = grid_minor_color, + linewidth = grid_minor_y_size) + ) + if (!panel_border) theme_reach <- theme_reach + + ggplot2::theme( + panel.border = ggplot2::element_blank() + ) else theme_reach <- theme_reach + + ggplot2::theme( + panel.border = ggplot2::element_rect(color = panel_background_color) + ) + + + # Other parameters + theme_reach <- theme_reach + ggplot2::theme(...) + + # Add reach color palettes by default + # (reversed guide is defaulted to TRUE for natural reading) + theme_reach <- list( + theme_reach, + scale_color(initiative = initiative, palette = palette, discrete = discrete, reverse = reverse, reverse_guide = legend_reverse), + scale_fill(initiative = initiative, palette = palette, discrete = discrete, reverse = reverse, reverse_guide = legend_reverse) + ) + + + return(theme_reach) + +} diff --git a/R/treemap.R b/R/treemap.R new file mode 100644 index 0000000..bfc8822 --- /dev/null +++ b/R/treemap.R @@ -0,0 +1,79 @@ +#' @title Simple treemap chart +#' +#' @param df A data frame. +#' @param x A character column or coercible as a character column. Will give the treemap's fill color and text. +#' @param y A numeric column of proportions (0 to 100 or 0 to 1). +#' @param tile_border_size Size of the inter-tile space (default to 2). +#' @param tile_start The corner in which to start placing the tiles. One of 'bottomleft' (the default), 'topleft', 'topright' or 'bottomright'. See `treemapify::geom_treemap()`. +#' @param tile_corner_radius The corner radius (defaults to `grid::unit(0, "pt")`). See `treemapify::geom_treemap()`. +#' @param tile_text Boolean. If true, add a text label to each tile (the default). If false, use a side legend only. +#' @param tile_text_size A size (defaults to 20). +#' @param tile_text_color A color (defaults to "white"). +#' @param tile_text_threshold_display Minimum value to add the text label to the tile (defaults to 4). +#' @param tile_text_place Where inside the box to place the text. Default is 'bottom'; other options are 'topleft', 'top', 'topright', etc. See `treemapify::geom_treemap()`. +#' @param x_title The x scale title. Default to NULL. +#' @param title Plot title. Default to NULL. +#' @param subtitle Plot subtitle. Default to NULL. +#' @param caption Plot caption. Default to NULL. +#' @param theme Whatever theme. Default to theme_reach(). +#' +#' @return A waffle chart +#' +#' @export +treemap <- function(df, + x, + y, + tile_border_size = 2, + tile_start = "topleft", + tile_corner_radius = grid::unit(0, "pt"), + tile_text = TRUE, + tile_text_size = 20, + tile_text_color = "white", + tile_text_threshold_display = 4, + tile_text_place = "middle", + x_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + theme = theme_reach(reverse = TRUE, panel_border = FALSE, axis_x = FALSE, axis_y = FALSE) + ){ + + # Make plot + g <- ggplot2::ggplot( + data = df, + ggplot2::aes(area = {{ y }}, fill = {{ x }}, label = {{ x }})) + + # Add tile + g <- g + treemapify::geom_treemap( + size = tile_border_size, + radius = tile_corner_radius, + color = "white", + start = tile_start + ) + + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + fill = x_title, + ) + + # Theme + g <- g + theme + + # If tile_text, show text on tiles and remove legend + if (tile_text) { + g <- g + treemapify::geom_treemap_text( + place = tile_text_place, + start = tile_start, + min.size = tile_text_threshold_display, + color = tile_text_color, + size = tile_text_size + ) + + ggplot2::theme(legend.position = "none") + } + + return(g) + +} diff --git a/R/visualizeR-package.R b/R/visualizeR-package.R index a65cf64..62800aa 100644 --- a/R/visualizeR-package.R +++ b/R/visualizeR-package.R @@ -2,5 +2,6 @@ "_PACKAGE" ## usethis namespace: start +#' @importFrom rlang := ## usethis namespace: end NULL diff --git a/R/waffle.R b/R/waffle.R new file mode 100644 index 0000000..7df06d9 --- /dev/null +++ b/R/waffle.R @@ -0,0 +1,74 @@ +#' @title Simple waffle chart +#' +#' @param df A data frame. +#' @param x A character column or coercible as a character column. Will give the waffle's fill color. +#' @param y A numeric column (if plotting proportion, make sure to have percentages between 0 and 100 and not 0 and 1). +#' @param n_rows Number of rows. Default to 10. +#' @param size Width of the separator between blocks (defaults to 2). +#' @param x_title The x scale title. Default to NULL. +#' @param x_lab The x scale caption. Default to NULL. +#' @param title Plot title. Default to NULL. +#' @param subtitle Plot subtitle. Default to NULL. +#' @param caption Plot caption. Default to NULL. +#' @param arrange TRUE or FALSE. Arrange by highest percentage first. +#' @param theme Whatever theme. Default to theme_reach(). +#' +#' @return A waffle chart +#' +#' @export +waffle <- function(df, + x, + y, + n_rows = 10, + size = 2, + x_title = NULL, + x_lab = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + arrange = TRUE, + theme = theme_reach( + axis_x = FALSE, + axis_y = FALSE, + legend_position = "bottom", + legend_direction = "horizontal", + title_hjust = 0.5)){ + + # A basic and not robust check + # - add check between 0 and 1 + + # Arrange by biggest prop first ? + if (arrange) df <- dplyr::arrange( + df, + dplyr::desc({{ y }}) + ) + + # Mutate to 100 + # df <- dplyr::mutate(df, "{{y}}" := {{ y }} * 100) + + # Prepare named vector + values <- stats::setNames(dplyr::pull(df, {{ y }}), dplyr::pull(df, {{ x }})) + + # Make plot + g <- waffle::waffle(values, xlab = x_lab, rows = n_rows, size = size) + + # Add title, subtitle, caption, x_title, y_title + g <- g + ggplot2::labs( + title = title, + subtitle = subtitle, + caption = caption, + fill = x_title, + color = x_title + ) + + # Basic theme + # g <- g + + # hrbrthemes::theme_ipsum() #+ + # waffle::theme_enhance_waffle() + + # Add theme + g <- g + theme + + return(g) + +} diff --git a/README.Rmd b/README.Rmd index 0fcb29a..110e5d8 100644 --- a/README.Rmd +++ b/README.Rmd @@ -12,28 +12,24 @@ knitr::opts_chunk$set( out.width = "100%", warning = FALSE, message = FALSE, - dpi = 300, + dpi = 300, dev.args = list(type = "cairo") ) -desc <- read.dcf("DESCRIPTION") -desc <- setNames(as.list(desc), colnames(desc)) +desc = read.dcf('DESCRIPTION') +desc = setNames(as.list(desc), colnames(desc)) ``` -# `r desc$Package` - - -[![R-CMD-check](https://github.com/gnoblet/visualizeR/actions/workflows/R-CMD-check.yml/badge.svg)](https://github.com/gnoblet/visualizeR/actions/workflows/R-CMD-check.yml) -[![Codecov test coverage](https://codecov.io/gh/gnoblet/visualizeR/branch/main/graph/badge.svg)](https://app.codecov.io/gh/gnoblet/visualizeR?branch=main) - +# `r desc$Package` > `r desc$Title` -`visualizeR` proposes some utils to sane colors, ready-to-go color palettes, and a few visualization functions. The package is thoroughly tested with comprehensive code coverage. +`visualizeR` proposes some utils to get REACH and AGORA colors, ready-to-go color palettes, and a few visualization functions (horizontal hist graph for instance). ## Installation -You can install the last version of visualizeR from [GitHub](https://github.com/) with: +You can install the last version of visualizeR from +[GitHub](https://github.com/) with: ```{r, eval = FALSE} # install.packages("devtools") @@ -44,96 +40,85 @@ devtools::install_github("gnoblet/visualizeR", build_vignettes = TRUE) Roadmap is as follows: -- [ ] Full revamp of core functions (colors, pattern, incl. adding test and pre-commit structures) -- [x] Add test coverage reporting via codecov -- [ ] Maintain >80% test coverage across all functions -- [ ] Add other types of plots: - - [ ] Dumbell - - [ ] Waffle - - [ ] Donut - - [ ] Alluvial -- [ ] Option for tag with css code + for titles/subtitles/captions +- [X] Add IMPACT's colors +- [X] Add all color palettes from the internal documentation +- [ ] There remains to be added more-than-7-color palettes and black color palettes +- [X] Add new types of visualization (e.g. dumbbell plot, lollipop plot, etc.) +- [X] Use examples +- [ ] Add some ease-map functions +- [ ] Add some interactive functions (maps and graphs) +- [ ] Consolidate and make errors transparent ## Request -Please, do not hesitate to pull request any new viz or colors or color palettes, or to email request any change ([gnoblet\@zaclys.net](mailto:gnoblet@zaclys.net){.email}). +Please, do not hesitate to pull request any new viz or colors or color palettes, or to email request any change (guillaume.noblet@reach-initiative.org or gnoblet@zaclys.net). -## Code Coverage +## Colors -`visualizeR` uses [codecov](https://codecov.io/) for test coverage reporting. You can see the current coverage status by clicking on the codecov badge at the top of this README. We aim to maintain high test coverage to ensure code reliability and stability. - -## Colors - -Functions to access colors and palettes are `color()` or `palette()`. Feel free to pull request new colors. +Color palettes for REACH, AGORA and IMPACT are available. Functions to access colors and palettes are `cols_initiative()` or `pal_initiative()`. For now, the initiative with the most colors and color palettes is REACH. Feel free to pull requests new AGORA and IMPACT colors. ```{r example-colors, eval = TRUE} library(visualizeR) -# Get all saved colors, named -color(unname = F)[1:10] +# Get all saved REACH colors, named +cols_reach(unnamed = F)[1:10] # Extract a color palette as hexadecimal codes and reversed -palette(palette = "cat_5_main", reversed = TRUE, color_ramp_palette = FALSE) +pal_reach(palette = "main", reversed = TRUE, color_ramp_palette = FALSE) # Get all color palettes names -palette(show_palettes = TRUE) +pal_reach(show_palettes = T) ``` ## Charts -### Example 1: Bar chart +### Example 1: Bar chart, already REACH themed -```{r example-bar-chart, out.width = '65%', eval = TRUE} +```{r example-bar-chart, out.width = "65%", eval = TRUE} +library(visualizeR) library(palmerpenguins) library(dplyr) -df <- penguins |> - group_by(island, species) |> +df <- penguins |> + group_by(island, species) |> summarize( mean_bl = mean(bill_length_mm, na.rm = T), - mean_fl = mean(flipper_length_mm, na.rm = T) - ) |> - ungroup() - -df_island <- penguins |> - group_by(island) |> - summarize( - mean_bl = mean(bill_length_mm, na.rm = T), - mean_fl = mean(flipper_length_mm, na.rm = T) - ) |> + mean_fl = mean(flipper_length_mm, na.rm = T)) |> ungroup() # Simple bar chart by group with some alpha transparency -bar(df, "island", "mean_bl", "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species") +bar(df, island, mean_bl, species, percent = FALSE, alpha = 0.6, x_title = "Mean of bill length") -# Flipped / Horizontal -hbar(df, "island", "mean_bl", "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species") +# Using another color palette through `theme_reach()` and changing scale to percent +bar(df, island,mean_bl, species, percent = TRUE, theme = theme_reach(palette = "artichoke_3")) -# Facetted -bar(df, "island", "mean_bl", facet = "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species", add_color_guide = FALSE) +# Not flipped, with text added, group_title, no y-axis and no bold for legend +bar(df, island, mean_bl, species, group_title = "Species", flip = FALSE, add_text = TRUE, add_text_suffix = "%", percent = FALSE, theme = theme_reach(text_font_face = "plain", axis_y = FALSE)) -# Flipped, with text, smaller width, and caption -hbar(df = df_island, x = "island", y = "mean_bl", title = "Mean of bill length by island", add_text = T, width = 0.6, add_text_suffix = "mm", add_text_expand_limit = 1.3, add_color_guide = FALSE, caption = "Data: palmerpenguins package.") ``` -### Example 2: Scatterplot +### Example 2: Point chart, already REACH themed -```{r example-point-chart, out.width = '65%', eval = TRUE} -# Simple scatterplot -point(penguins, "bill_length_mm", "flipper_length_mm") +At this stage, `point_reach()` only supports categorical grouping colors with the `group` arg. -# Scatterplot with grouping colors, greater dot size, some transparency -point(penguins, "bill_length_mm", "flipper_length_mm", "island", group_title = "Island", alpha = 0.6, size = 3, title = "Bill vs. flipper length", , add_color_guide = FALSE) +```{r example-point-chart, out.width = "65%", eval = TRUE} -# Facetted scatterplot by island -point(penguins, "bill_length_mm", "flipper_length_mm", "species", "island", "fixed", group_title = "Species", title = "Bill vs. flipper length by species and island", add_color_guide = FALSE) +# Simple point chart +point(penguins, bill_length_mm, flipper_length_mm) + +# Point chart with grouping colors, greater dot size, some transparency, reversed color palette +point(penguins, bill_length_mm, flipper_length_mm, island, alpha = 0.6, size = 3, theme = theme_reach(reverse = TRUE)) + +# Using another color palettes +point(penguins, bill_length_mm, flipper_length_mm, island, size = 1.5, x_title = "Bill", y_title = "Flipper", title = "Length (mm)", theme = theme_reach(palette = "artichoke_3", text_font_face = , grid_major_x = TRUE, title_position_to_plot = FALSE)) ``` -### Example 3: Dumbbell plot + +### Example 3: Dumbbell plot, REACH themed Remember to ensure that your data are in the long format and you only have two groups on the x-axis; for instance, IDP and returnee and no NA values. -```{r example-dumbbell-plot, out.width = '65%', eval = TRUE} +```{r example-dumbbell-plot, out.width = "65%", eval = TRUE} # Prepare long data df <- tibble::tibble( admin1 = rep(letters[1:8], 2), @@ -142,23 +127,31 @@ df <- tibble::tibble( ) |> dplyr::mutate(stat = round(stat, 0)) +# Example, adding a parameter to `theme_reach()` passed on `ggplot2::theme()` to align legend title - - -# dumbbell( -# df, -# 'stat', -# 'setting', -# 'admin1', -# title = '% of HHs that reported open defecation as sanitation facility', -# group_y_title = 'Admin 1', -# group_x_title = 'Setting' -# ) +dumbbell(df, + stat, + setting, + admin1, + title = "% of HHs that reported open defecation as sanitation facility", + group_y_title = "Admin 1", + group_x_title = "Setting", + theme = theme_reach(legend_position = "bottom", + legend_direction = "horizontal", + legend_title_font_face = "bold", + palette = "primary", + title_position_to_plot = FALSE, + legend.title.align = 0.5)) + + # Change legend title position (could be included as part of the function) + ggplot2::guides( + color = ggplot2::guide_legend(title.position = "left"), + fill = ggplot2::guide_legend(title.position = "left") + ) ``` -### Example 4: donut chart +### Example 4: donut chart, REACH themed (to used once, not twice) +```{r example-donut-plot, out.width = "65%", warning = FALSE} -```{r example-donut-plot, out.width = '65%', warning = FALSE} # Some summarized data: % of HHs by displacement status df <- tibble::tibble( status = c("Displaced", "Non displaced", "Returnee", "Don't know/Prefer not to say"), @@ -166,124 +159,137 @@ df <- tibble::tibble( ) # Donut -# donut(df, -# status, -# percentage, -# hole_size = 3, -# add_text_suffix = '%', -# add_text_color = color('dark_grey'), -# add_text_treshold_display = 5, -# x_title = 'Displacement status', -# title = '% of HHs by displacement status' -# ) +donut(df, + status, + percentage, + hole_size = 3, + add_text_suffix = "%", + add_text_color = cols_reach("dk_grey"), + add_text_treshold_display = 5, + x_title = "Displacement status", + title = "% of HHs by displacement status", + theme = theme_reach(legend_reverse = TRUE, + axis_x = FALSE)) ``` -### Example 5: Waffle chart -```{r example-waffle-plot, out.width = '65%', warning = FALSE} +### Example 5: waffle chart +```{r example-waffle-plot, out.width = "65%", warning = FALSE} # -# waffle(df, status, percentage, x_title = 'A caption', title = 'A title', subtitle = 'A subtitle') +waffle(df, status, percentage, x_title = "A caption", title = "A title", subtitle = "A subtitle") ``` -### Example 6: Alluvial chart -```{r example-alluvial-plot, out.width = '65%', warning = FALSE} +### Example 6: alluvial chart, REACH themed +```{r example-alluvial-plot, out.width = "65%", warning = FALSE} + # Some summarized data: % of HHs by self-reported status of displacement in 2021 and in 2022 df <- tibble::tibble( - status_from = c( - rep("Displaced", 4), - rep("Non displaced", 4), - rep("Returnee", 4), - rep("Dnk/Pnts", 4) - ), + status_from = c(rep("Displaced", 4), + rep("Non displaced", 4), + rep("Returnee", 4), + rep("Dnk/Pnts", 4)), status_to = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), percentage = c(20, 8, 18, 1, 12, 21, 0, 2, 0, 3, 12, 1, 0, 0, 1, 1) ) # Alluvial, here the group is the status for 2021 -# alluvial(df, -# status_from, -# status_to, -# percentage, -# status_from, -# from_levels = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), -# alpha = 0.8, -# group_title = "Status for 2021", -# title = "% of HHs by self-reported status from 2021 to 2022" -# ) +alluvial(df, + status_from, + status_to, + percentage, + status_from, + from_levels = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), + alpha = 0.8, + group_title = "Status for 2021", + title = "% of HHs by self-reported status from 2021 to 2022", + theme = theme_reach( + axis_y = FALSE, + legend_position = "none")) + ``` -### Example 7: Lollipop chart - -```{r example-lollipop-chart, out.width = "65%", warning = FALSE, eval = TRUE} +### Example 7: lollipop chart +```{r example-lollipop-chart, out.width = "65%", warning = FALSE} library(tidyr) # Prepare long data df <- tibble::tibble( - admin1 = replicate(15, sample(letters, 8)) |> t() |> as.data.frame() |> unite("admin1", sep = "") |> dplyr::pull(admin1), - stat = rnorm(15, mean = 50, sd = 15) -) |> + admin1 = replicate(15, sample(letters, 8)) |> t() |> as.data.frame() |> unite("admin1", sep = "") |> dplyr::pull(admin1), + stat = rnorm(15, mean = 50, sd = 15)) |> dplyr::mutate(stat = round(stat, 0)) -# Simple vertical lollipop chart -lollipop( - df = df, - x = "admin1", - y = "stat", - flip = FALSE, - dot_size = 3, - y_title = "% of HHs", - x_title = "Admin 1", - title = "% of HHs that received humanitarian assistance" -) +# Make lollipop plot, REACH themed, vertical with 45 degrees angle X-labels +lollipop(df, + admin1, + stat, + arrange = FALSE, + add_text = FALSE, + flip = FALSE, + y_title = "% of HHs", + x_title = "Admin 1", + title = "% of HHs that reported having received a humanitarian assistance", + theme = theme_reach(axis_text_x_angle = 45, + grid_major_y = TRUE, + grid_major_y_size = 0.2, + grid_major_x = TRUE, + grid_minor_y = TRUE)) -# Horizontal lollipop chart with custom colors -hlollipop( - df = df, - x = "admin1", - y = "stat", - dot_size = 4, - line_size = 1, - add_color = color("cat_5_main_2"), - line_color = color("cat_5_main_4"), - y_title = "% of HHs", - x_title = "Admin 1", - title = "% of HHs that received humanitarian assistance" -) +# Horizontal, greater point size, arranged by value, no grid, and text labels added +lollipop(df, + admin1, + stat, + arrange = TRUE, + point_size = 10, + point_color = cols_reach("main_beige"), + segment_size = 2, + add_text = TRUE, + add_text_suffix = "%", + y_title = "% of HHs", + x_title = "Admin 1", + title = "% of HHs that reported having received a humanitarian assistance in the 12 months prior to the assessment", + theme = theme_reach(title_position_to_plot = FALSE)) -# Create data for grouped lollipop - using set.seed for reproducibility -set.seed(123) -df_grouped <- tibble::tibble( - admin1 = rep(c("A", "B", "C", "D", "E", "F"), 2), - group = rep(c("Group A", "Group B"), each = 6), - stat = c(rnorm(6, mean = 40, sd = 10), rnorm(6, mean = 60, sd = 10)) -) |> - dplyr::mutate(stat = round(stat, 0)) -# Grouped lollipop chart with proper side-by-side positioning -lollipop( - df = df_grouped, - x = "admin1", - y = "stat", - group = "group", - order = "grouped_y", - dot_size = 3.5, - line_size = 0.8, - y_title = "Value", - x_title = "Category", - title = "True side-by-side grouped lollipop chart" -) - -# Horizontal grouped lollipop chart -hlollipop( - df = df_grouped, - x = "admin1", - y = "stat", - group = "group", - dot_size = 3.5, - line_size = 0.8, - y_title = "Category", - x_title = "Value", - title = "Horizontal side-by-side grouped lollipop chart" -) ``` + + +## Maps + +```{r example-map, out.width = "50%"} + +# Add indicator layer +# - based on "pretty" classes and title "Proportion (%)" +# - buffer to add a 10% around the bounding box +map <- add_indicator_layer( + indicator_admin1, + opn_dfc, + buffer = 0.1) + + # Layout - some defaults - add the map title + add_layout("% of HH that reported open defecation as sanitation facility") + + # Admin boundaries as list of shape files (lines) and colors, line widths and labels as vectors + add_admin_boundaries( + lines = list(line_admin1, border_admin0, frontier_admin0), + colors = cols_reach("main_lt_grey", "dk_grey", "black"), + lwds = c(0.5, 2, 3), + labels = c("Department", "Country", "Dominican Rep. frontier"), + title = "Administrative boundaries") + + # Add text labels - centered on admin 1 centroids + add_admin_labels(centroid_admin1, ADM1_FR_UPPER) + + # Add a compass + add_compass() + + # Add a scale bar + add_scale_bar() + + # Add credits + add_credits("Admin. boundaries. : CNIGS \nCoord. system: GCS WGS 1984") +``` + +```{r map-save, eval = TRUE, include = FALSE, echo = TRUE} +tmap::tmap_save(map, + "man/figures/README-example-map.png", + height = 4.5, + width = 6 + ) +``` + +![Once exported with `tmap::tmap_save()`.](man/figures/README-example-map.png) diff --git a/README.md b/README.md index 7a73c18..0e24eb5 100644 --- a/README.md +++ b/README.md @@ -1,20 +1,13 @@ -# visualizeR +# visualizeR - +> What a color\! What a viz\! -[![R-CMD-check](https://github.com/gnoblet/visualizeR/actions/workflows/R-CMD-check.yml/badge.svg)](https://github.com/gnoblet/visualizeR/actions/workflows/R-CMD-check.yml) -[![Codecov test -coverage](https://codecov.io/gh/gnoblet/visualizeR/branch/main/graph/badge.svg)](https://app.codecov.io/gh/gnoblet/visualizeR?branch=main) - - -> What a color! What a viz! - -`visualizeR` proposes some utils to sane colors, ready-to-go color -palettes, and a few visualization functions. The package is thoroughly -tested with comprehensive code coverage. +`visualizeR` proposes some utils to get REACH and AGORA colors, +ready-to-go color palettes, and a few visualization functions +(horizontal hist graph for instance). ## Installation @@ -30,140 +23,126 @@ devtools::install_github("gnoblet/visualizeR", build_vignettes = TRUE) Roadmap is as follows: -- [ ] Full revamp of core functions (colors, pattern, incl. adding test - and pre-commit structures) -- [x] Add test coverage reporting via codecov -- [ ] Maintain \>80% test coverage across all functions -- [ ] Add other types of plots: - - [ ] Dumbell - - [ ] Waffle - - [ ] Donut - - [ ] Alluvial -- [ ] Option for tag with css code + for titles/subtitles/captions + - \[X\] Add IMPACT’s colors + - \[X\] Add all color palettes from the internal documentation + - \[ \] There remains to be added more-than-7-color palettes and black + color palettes + - \[X\] Add new types of visualization (e.g. dumbbell plot, lollipop + plot, etc.) + - \[X\] Use examples + - \[ \] Add some ease-map functions + - \[ \] Add some interactive functions (maps and graphs) + - \[ \] Consolidate and make errors transparent ## Request Please, do not hesitate to pull request any new viz or colors or color -palettes, or to email request any change (). - -## Code Coverage - -`visualizeR` uses [codecov](https://codecov.io/) for test coverage -reporting. You can see the current coverage status by clicking on the -codecov badge at the top of this README. We aim to maintain high test -coverage to ensure code reliability and stability. +palettes, or to email request any change +( or ). ## Colors -Functions to access colors and palettes are `color()` or `palette()`. -Feel free to pull request new colors. +Color palettes for REACH, AGORA and IMPACT are available. Functions to +access colors and palettes are `cols_initiative()` or +`pal_initiative()`. For now, the initiative with the most colors and +color palettes is REACH. Feel free to pull requests new AGORA and IMPACT +colors. ``` r library(visualizeR) -# Get all saved colors, named -color(unname = F)[1:10] -#> white lighter_grey light_grey dark_grey light_blue_grey -#> "#FFFFFF" "#F5F5F5" "#E3E3E3" "#464647" "#B3C6D1" -#> grey black cat_2_yellow_1 cat_2_yellow_2 cat_2_light_1 -#> "#71716F" "#000000" "#ffc20a" "#0c7bdc" "#fefe62" +# Get all saved REACH colors, named +cols_reach(unnamed = F)[1:10] +#> white black main_grey main_red main_lt_grey main_beige +#> "#FFFFFF" "#000000" "#58585A" "#EE5859" "#C7C8CA" "#D2CBB8" +#> iroise_1 iroise_2 iroise_3 iroise_4 +#> "#DFECEF" "#B1D7E0" "#699DA3" "#236A7A" # Extract a color palette as hexadecimal codes and reversed -palette(palette = "cat_5_main", reversed = TRUE, color_ramp_palette = FALSE) -#> [1] "#083d77" "#4ecdc4" "#f4c095" "#b47eb3" "#ffd5ff" +pal_reach(palette = "main", reversed = TRUE, color_ramp_palette = FALSE) +#> [1] "#58585A" "#EE5859" "#C7C8CA" "#D2CBB8" # Get all color palettes names -palette(show_palettes = TRUE) -#> [1] "cat_2_yellow" "cat_2_light" -#> [3] "cat_2_green" "cat_2_blue" -#> [5] "cat_5_main" "cat_5_ibm" -#> [7] "cat_3_aquamarine" "cat_3_tol_high_contrast" -#> [9] "cat_8_tol_adapted" "cat_3_custom_1" -#> [11] "cat_4_custom_1" "cat_5_custom_1" -#> [13] "cat_6_custom_1" "div_5_orange_blue" -#> [15] "div_5_green_purple" +pal_reach(show_palettes = T) +#> [1] "main" "primary" "secondary" "two_dots" +#> [5] "two_dots_flashy" "red_main" "red_main_5" "red_alt" +#> [9] "red_alt_5" "iroise" "iroise_5" "discrete_6" +#> [13] "red_2" "red_3" "red_4" "red_5" +#> [17] "red_6" "red_7" "green_2" "green_3" +#> [21] "green_4" "green_5" "green_6" "green_7" +#> [25] "artichoke_2" "artichoke_3" "artichoke_4" "artichoke_5" +#> [29] "artichoke_6" "artichoke_7" "blue_2" "blue_3" +#> [33] "blue_4" "blue_5" "blue_6" "blue_7" ``` ## Charts -### Example 1: Bar chart +### Example 1: Bar chart, already REACH themed ``` r +library(visualizeR) library(palmerpenguins) library(dplyr) -df <- penguins |> - group_by(island, species) |> +df <- penguins |> + group_by(island, species) |> summarize( mean_bl = mean(bill_length_mm, na.rm = T), - mean_fl = mean(flipper_length_mm, na.rm = T) - ) |> - ungroup() - -df_island <- penguins |> - group_by(island) |> - summarize( - mean_bl = mean(bill_length_mm, na.rm = T), - mean_fl = mean(flipper_length_mm, na.rm = T) - ) |> + mean_fl = mean(flipper_length_mm, na.rm = T)) |> ungroup() # Simple bar chart by group with some alpha transparency -bar(df, "island", "mean_bl", "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species") +bar(df, island, mean_bl, species, percent = FALSE, alpha = 0.6, x_title = "Mean of bill length") ``` ``` r -# Flipped / Horizontal -hbar(df, "island", "mean_bl", "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species") +# Using another color palette through `theme_reach()` and changing scale to percent +bar(df, island,mean_bl, species, percent = TRUE, theme = theme_reach(palette = "artichoke_3")) ``` ``` r -# Facetted -bar(df, "island", "mean_bl", facet = "species", x_title = "Mean of bill length", title = "Mean of bill length by island and species", add_color_guide = FALSE) +# Not flipped, with text added, group_title, no y-axis and no bold for legend +bar(df, island, mean_bl, species, group_title = "Species", flip = FALSE, add_text = TRUE, add_text_suffix = "%", percent = FALSE, theme = theme_reach(text_font_face = "plain", axis_y = FALSE)) ``` -``` r +### Example 2: Point chart, already REACH themed -# Flipped, with text, smaller width, and caption -hbar(df = df_island, x = "island", y = "mean_bl", title = "Mean of bill length by island", add_text = T, width = 0.6, add_text_suffix = "mm", add_text_expand_limit = 1.3, add_color_guide = FALSE, caption = "Data: palmerpenguins package.") -``` - - - -### Example 2: Scatterplot +At this stage, `point_reach()` only supports categorical grouping colors +with the `group` arg. ``` r -# Simple scatterplot -point(penguins, "bill_length_mm", "flipper_length_mm") + +# Simple point chart +point(penguins, bill_length_mm, flipper_length_mm) ``` ``` r -# Scatterplot with grouping colors, greater dot size, some transparency -point(penguins, "bill_length_mm", "flipper_length_mm", "island", group_title = "Island", alpha = 0.6, size = 3, title = "Bill vs. flipper length", , add_color_guide = FALSE) +# Point chart with grouping colors, greater dot size, some transparency, reversed color palette +point(penguins, bill_length_mm, flipper_length_mm, island, alpha = 0.6, size = 3, theme = theme_reach(reverse = TRUE)) ``` ``` r -# Facetted scatterplot by island -point(penguins, "bill_length_mm", "flipper_length_mm", "species", "island", "fixed", group_title = "Species", title = "Bill vs. flipper length by species and island", add_color_guide = FALSE) +# Using another color palettes +point(penguins, bill_length_mm, flipper_length_mm, island, size = 1.5, x_title = "Bill", y_title = "Flipper", title = "Length (mm)", theme = theme_reach(palette = "artichoke_3", text_font_face = , grid_major_x = TRUE, title_position_to_plot = FALSE)) ``` -### Example 3: Dumbbell plot +### Example 3: Dumbbell plot, REACH themed Remember to ensure that your data are in the long format and you only have two groups on the x-axis; for instance, IDP and returnee and no NA @@ -178,23 +157,34 @@ df <- tibble::tibble( ) |> dplyr::mutate(stat = round(stat, 0)) +# Example, adding a parameter to `theme_reach()` passed on `ggplot2::theme()` to align legend title - - -# dumbbell( -# df, -# 'stat', -# 'setting', -# 'admin1', -# title = '% of HHs that reported open defecation as sanitation facility', -# group_y_title = 'Admin 1', -# group_x_title = 'Setting' -# ) +dumbbell(df, + stat, + setting, + admin1, + title = "% of HHs that reported open defecation as sanitation facility", + group_y_title = "Admin 1", + group_x_title = "Setting", + theme = theme_reach(legend_position = "bottom", + legend_direction = "horizontal", + legend_title_font_face = "bold", + palette = "primary", + title_position_to_plot = FALSE, + legend.title.align = 0.5)) + + # Change legend title position (could be included as part of the function) + ggplot2::guides( + color = ggplot2::guide_legend(title.position = "left"), + fill = ggplot2::guide_legend(title.position = "left") + ) ``` -### Example 4: donut chart + + +### Example 4: donut chart, REACH themed (to used once, not twice) ``` r + # Some summarized data: % of HHs by displacement status df <- tibble::tibble( status = c("Displaced", "Non displaced", "Returnee", "Don't know/Prefer not to say"), @@ -202,141 +192,139 @@ df <- tibble::tibble( ) # Donut -# donut(df, -# status, -# percentage, -# hole_size = 3, -# add_text_suffix = '%', -# add_text_color = color('dark_grey'), -# add_text_treshold_display = 5, -# x_title = 'Displacement status', -# title = '% of HHs by displacement status' -# ) +donut(df, + status, + percentage, + hole_size = 3, + add_text_suffix = "%", + add_text_color = cols_reach("dk_grey"), + add_text_treshold_display = 5, + x_title = "Displacement status", + title = "% of HHs by displacement status", + theme = theme_reach(legend_reverse = TRUE)) ``` -### Example 5: Waffle chart + + +### Example 5: waffle chart ``` r # -# waffle(df, status, percentage, x_title = 'A caption', title = 'A title', subtitle = 'A subtitle') +waffle(df, status, percentage, x_title = "A caption", title = "A title", subtitle = "A subtitle") ``` -### Example 6: Alluvial chart + + +### Example 6: alluvial chart, REACH themed ``` r + # Some summarized data: % of HHs by self-reported status of displacement in 2021 and in 2022 df <- tibble::tibble( - status_from = c( - rep("Displaced", 4), - rep("Non displaced", 4), - rep("Returnee", 4), - rep("Dnk/Pnts", 4) - ), + status_from = c(rep("Displaced", 4), + rep("Non displaced", 4), + rep("Returnee", 4), + rep("Dnk/Pnts", 4)), status_to = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts", "Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), percentage = c(20, 8, 18, 1, 12, 21, 0, 2, 0, 3, 12, 1, 0, 0, 1, 1) ) # Alluvial, here the group is the status for 2021 -# alluvial(df, -# status_from, -# status_to, -# percentage, -# status_from, -# from_levels = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), -# alpha = 0.8, -# group_title = "Status for 2021", -# title = "% of HHs by self-reported status from 2021 to 2022" -# ) +alluvial(df, + status_from, + status_to, + percentage, + status_from, + from_levels = c("Displaced", "Non displaced", "Returnee", "Dnk/Pnts"), + alpha = 0.8, + group_title = "Status for 2021", + title = "% of HHs by self-reported status from 2021 to 2022", + theme = theme_reach( + axis_y = FALSE, + legend_position = "none")) ``` -### Example 7: Lollipop chart + + +### Example 7: lollipop chart ``` r library(tidyr) # Prepare long data df <- tibble::tibble( - admin1 = replicate(15, sample(letters, 8)) |> t() |> as.data.frame() |> unite("admin1", sep = "") |> dplyr::pull(admin1), - stat = rnorm(15, mean = 50, sd = 15) -) |> + admin1 = replicate(15, sample(letters, 8)) |> t() |> as.data.frame() |> unite("admin1", sep = "") |> dplyr::pull(admin1), + stat = rnorm(15, mean = 50, sd = 15)) |> dplyr::mutate(stat = round(stat, 0)) -# Simple vertical lollipop chart -lollipop( - df = df, - x = "admin1", - y = "stat", - flip = FALSE, - dot_size = 3, - y_title = "% of HHs", - x_title = "Admin 1", - title = "% of HHs that received humanitarian assistance" -) +# Make lollipop plot, REACH themed, vertical with 45 degrees angle X-labels +lollipop(df, + admin1, + stat, + arrange = FALSE, + add_text = FALSE, + flip = FALSE, + y_title = "% of HHs", + x_title = "Admin 1", + title = "% of HHs that reported having received a humanitarian assistance", + theme = theme_reach(axis_text_x_angle = 45, + grid_major_y = TRUE, + grid_major_y_size = 0.2, + grid_major_x = TRUE, + grid_minor_y = TRUE)) ``` ``` r -# Horizontal lollipop chart with custom colors -hlollipop( - df = df, - x = "admin1", - y = "stat", - dot_size = 4, - line_size = 1, - add_color = color("cat_5_main_2"), - line_color = color("cat_5_main_4"), - y_title = "% of HHs", - x_title = "Admin 1", - title = "% of HHs that received humanitarian assistance" -) +# Horizontal, greater point size, arranged by value, no grid, and text labels added +lollipop(df, + admin1, + stat, + arrange = TRUE, + point_size = 10, + point_color = cols_reach("main_beige"), + segment_size = 2, + add_text = TRUE, + add_text_suffix = "%", + y_title = "% of HHs", + x_title = "Admin 1", + title = "% of HHs that reported having received a humanitarian assistance in the 12 months prior to the assessment", + theme = theme_reach(title_position_to_plot = FALSE)) ``` -``` r - -# Create data for grouped lollipop - using set.seed for reproducibility -set.seed(123) -df_grouped <- tibble::tibble( - admin1 = rep(c("A", "B", "C", "D", "E", "F"), 2), - group = rep(c("Group A", "Group B"), each = 6), - stat = c(rnorm(6, mean = 40, sd = 10), rnorm(6, mean = 60, sd = 10)) -) |> - dplyr::mutate(stat = round(stat, 0)) - -# Grouped lollipop chart with proper side-by-side positioning -lollipop( - df = df_grouped, - x = "admin1", - y = "stat", - group = "group", - order = "grouped_y", - dot_size = 3.5, - line_size = 0.8, - y_title = "Value", - x_title = "Category", - title = "True side-by-side grouped lollipop chart" -) -``` - - +## Maps ``` r -# Horizontal grouped lollipop chart -hlollipop( - df = df_grouped, - x = "admin1", - y = "stat", - group = "group", - dot_size = 3.5, - line_size = 0.8, - y_title = "Category", - x_title = "Value", - title = "Horizontal side-by-side grouped lollipop chart" -) +# Add indicator layer +# - based on "pretty" classes and title "Proportion (%)" +# - buffer to add a 10% around the bounding box +map <- add_indicator_layer( + indicator_admin1, + opn_dfc, + buffer = 0.1) + + # Layout - some defaults - add the map title + add_layout("% of HH that reported open defecation as sanitation facility") + + # Admin boundaries as list of shape files (lines) and colors, line widths and labels as vectors + add_admin_boundaries( + lines = list(line_admin1, border_admin0, frontier_admin0), + colors = cols_reach("main_lt_grey", "dk_grey", "black"), + lwds = c(0.5, 2, 3), + labels = c("Department", "Country", "Dominican Rep. frontier"), + title = "Administrative boundaries") + + # Add text labels - centered on admin 1 centroids + add_admin_labels(centroid_admin1, ADM1_FR_UPPER) + + # Add a compass + add_compass() + + # Add a scale bar + add_scale_bar() + + # Add credits + add_credits("Admin. boundaries. : CNIGS \nCoord. system: GCS WGS 1984") ``` - +![Once exported with +`tmap::tmap_save()`.](man/figures/README-example-map.png) diff --git a/codecov.yml b/codecov.yml deleted file mode 100644 index 04c5585..0000000 --- a/codecov.yml +++ /dev/null @@ -1,14 +0,0 @@ -comment: false - -coverage: - status: - project: - default: - target: auto - threshold: 1% - informational: true - patch: - default: - target: auto - threshold: 1% - informational: true diff --git a/data-raw/border_admin0.dbf b/data-raw/border_admin0.dbf new file mode 100644 index 0000000..2cdd77c Binary files /dev/null and b/data-raw/border_admin0.dbf differ diff --git a/data-raw/border_admin0.prj b/data-raw/border_admin0.prj new file mode 100644 index 0000000..f8e4548 --- /dev/null +++ b/data-raw/border_admin0.prj @@ -0,0 +1 @@ +PROJCS["WGS_1984_UTM_Zone_18N",GEOGCS["GCS_WGS_1984",DATUM["D_WGS_1984",SPHEROID["WGS_1984",6378137.0,298.257223563]],PRIMEM["Greenwich",0.0],UNIT["Degree",0.0174532925199433]],PROJECTION["Transverse_Mercator"],PARAMETER["False_Easting",500000.0],PARAMETER["False_Northing",0.0],PARAMETER["Central_Meridian",-75.0],PARAMETER["Scale_Factor",0.9996],PARAMETER["Latitude_Of_Origin",0.0],UNIT["m",1.0]] \ No newline at end of file diff --git a/data-raw/border_admin0.shp b/data-raw/border_admin0.shp new file mode 100644 index 0000000..559c58d Binary files /dev/null and b/data-raw/border_admin0.shp differ diff --git a/data-raw/border_admin0.shx b/data-raw/border_admin0.shx new file mode 100644 index 0000000..f4d8240 Binary files /dev/null and b/data-raw/border_admin0.shx differ diff --git a/data-raw/centroid_admin1.dbf b/data-raw/centroid_admin1.dbf new file mode 100644 index 0000000..f17bfb9 Binary files /dev/null and b/data-raw/centroid_admin1.dbf differ diff --git a/data-raw/centroid_admin1.prj b/data-raw/centroid_admin1.prj new file mode 100644 index 0000000..79392c5 --- /dev/null +++ b/data-raw/centroid_admin1.prj @@ -0,0 +1 @@ +GEOGCS["GCS_unknown",DATUM["D_WGS_1984",SPHEROID["WGS_1984",6378137.0,298.257223563]],PRIMEM["Greenwich",0.0],UNIT["Degree",0.0174532925199433]] \ No newline at end of file diff --git a/data-raw/centroid_admin1.shp b/data-raw/centroid_admin1.shp new file mode 100644 index 0000000..67811d2 Binary files /dev/null and b/data-raw/centroid_admin1.shp differ diff --git a/data-raw/centroid_admin1.shx b/data-raw/centroid_admin1.shx new file mode 100644 index 0000000..f6ca9fc Binary files /dev/null and b/data-raw/centroid_admin1.shx differ diff --git a/data-raw/frontier_admin0.dbf b/data-raw/frontier_admin0.dbf new file mode 100644 index 0000000..20c39d2 Binary files /dev/null and b/data-raw/frontier_admin0.dbf differ diff --git a/data-raw/frontier_admin0.prj b/data-raw/frontier_admin0.prj new file mode 100644 index 0000000..f45cbad --- /dev/null +++ b/data-raw/frontier_admin0.prj @@ -0,0 +1 @@ +GEOGCS["GCS_WGS_1984",DATUM["D_WGS_1984",SPHEROID["WGS_1984",6378137.0,298.257223563]],PRIMEM["Greenwich",0.0],UNIT["Degree",0.0174532925199433]] \ No newline at end of file diff --git a/data-raw/frontier_admin0.shp b/data-raw/frontier_admin0.shp new file mode 100644 index 0000000..6a7c832 Binary files /dev/null and b/data-raw/frontier_admin0.shp differ diff --git a/data-raw/frontier_admin0.shx b/data-raw/frontier_admin0.shx new file mode 100644 index 0000000..aeb62b0 Binary files /dev/null and b/data-raw/frontier_admin0.shx differ diff --git a/data-raw/indicator_admin1.dbf b/data-raw/indicator_admin1.dbf new file mode 100644 index 0000000..9dd16e2 Binary files /dev/null and b/data-raw/indicator_admin1.dbf differ diff --git a/data-raw/indicator_admin1.prj b/data-raw/indicator_admin1.prj new file mode 100644 index 0000000..f45cbad --- /dev/null +++ b/data-raw/indicator_admin1.prj @@ -0,0 +1 @@ +GEOGCS["GCS_WGS_1984",DATUM["D_WGS_1984",SPHEROID["WGS_1984",6378137.0,298.257223563]],PRIMEM["Greenwich",0.0],UNIT["Degree",0.0174532925199433]] \ No newline at end of file diff --git a/data-raw/indicator_admin1.shp b/data-raw/indicator_admin1.shp new file mode 100644 index 0000000..cd956a4 Binary files /dev/null and b/data-raw/indicator_admin1.shp differ diff --git a/data-raw/indicator_admin1.shx b/data-raw/indicator_admin1.shx new file mode 100644 index 0000000..114b1d3 Binary files /dev/null and b/data-raw/indicator_admin1.shx differ diff --git a/data-raw/line_admin1.dbf b/data-raw/line_admin1.dbf new file mode 100644 index 0000000..27046d0 Binary files /dev/null and b/data-raw/line_admin1.dbf differ diff --git a/data-raw/line_admin1.prj b/data-raw/line_admin1.prj new file mode 100644 index 0000000..f45cbad --- /dev/null +++ b/data-raw/line_admin1.prj @@ -0,0 +1 @@ +GEOGCS["GCS_WGS_1984",DATUM["D_WGS_1984",SPHEROID["WGS_1984",6378137.0,298.257223563]],PRIMEM["Greenwich",0.0],UNIT["Degree",0.0174532925199433]] \ No newline at end of file diff --git a/data-raw/line_admin1.shp b/data-raw/line_admin1.shp new file mode 100644 index 0000000..5a39a4b Binary files /dev/null and b/data-raw/line_admin1.shp differ diff --git a/data-raw/line_admin1.shx b/data-raw/line_admin1.shx new file mode 100644 index 0000000..e078d09 Binary files /dev/null and b/data-raw/line_admin1.shx differ diff --git a/data-raw/shapefiles.R b/data-raw/shapefiles.R new file mode 100644 index 0000000..13db57a --- /dev/null +++ b/data-raw/shapefiles.R @@ -0,0 +1,21 @@ + +#------ Border - admin 0 +border_admin0 <- sf::st_read("data-raw/border_admin0.shp") +usethis::use_data(border_admin0, overwrite = TRUE) + +#------ Frontier - admin 0 +frontier_admin0 <- sf::st_read("data-raw/frontier_admin0.shp") +usethis::use_data(frontier_admin0, overwrite = TRUE) + +#------ Line - admin 1 +line_admin1 <- sf::st_read("data-raw/line_admin1.shp") +usethis::use_data(line_admin1, overwrite = TRUE) + +#------ Centroid - admin 1 +centroid_admin1 <- sf::st_read("data-raw/centroid_admin1.shp") |> + dplyr::rename(ADM1_FR_UPPER = ADM1_FR_) +usethis::use_data(centroid_admin1, overwrite = TRUE) + +#------ Indicator polygon - admin 1 +indicator_admin1 <- sf::st_read("data-raw/indicator_admin1.shp") +usethis::use_data(indicator_admin1, overwrite = TRUE) diff --git a/data/border_admin0.rda b/data/border_admin0.rda new file mode 100644 index 0000000..a6400e1 Binary files /dev/null and b/data/border_admin0.rda differ diff --git a/data/centroid_admin1.rda b/data/centroid_admin1.rda new file mode 100644 index 0000000..f144be5 Binary files /dev/null and b/data/centroid_admin1.rda differ diff --git a/data/frontier_admin0.rda b/data/frontier_admin0.rda new file mode 100644 index 0000000..b57263a Binary files /dev/null and b/data/frontier_admin0.rda differ diff --git a/data/indicator_admin1.rda b/data/indicator_admin1.rda new file mode 100644 index 0000000..f1a1a63 Binary files /dev/null and b/data/indicator_admin1.rda differ diff --git a/data/line_admin1.rda b/data/line_admin1.rda new file mode 100644 index 0000000..9393fdd Binary files /dev/null and b/data/line_admin1.rda differ diff --git a/inst/WORDLIST b/inst/WORDLIST deleted file mode 100644 index 92f2c71..0000000 --- a/inst/WORDLIST +++ /dev/null @@ -1,57 +0,0 @@ -aut -Carlito -CMD -codecov -Codecov -coercible -Config -covr -cre -css -Customizable -donut -Donut -dplyr -Dumbell -forcats -ggalluvial -ggplot -ggrepel -ggtext -github -gnoblet -gpplot -grDevices -grey -Guillaume -hbar -hlollipop -horizonal -https -IDP -io -knitr -LazyData -Noblet -pre -README -rio -rlang -rmarkdown -Roadmap -Roboto -roxygen -RoxygenNote -Segoe -stringr -testthat -theming -tidyr -UI -vdiffr -VignetteBuilder -viridis -viridisLite -visualizeR -withr -zaclys diff --git a/man/abort_bad_argument.Rd b/man/abort_bad_argument.Rd new file mode 100644 index 0000000..02ec558 --- /dev/null +++ b/man/abort_bad_argument.Rd @@ -0,0 +1,21 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/internals.R +\name{abort_bad_argument} +\alias{abort_bad_argument} +\title{Abord bad argument} +\usage{ +abort_bad_argument(arg, must, not = NULL) +} +\arguments{ +\item{arg}{An argument} + +\item{must}{What arg must be} + +\item{not}{Optional. What arg must not be.} +} +\value{ +A stop statement +} +\description{ +Abord bad argument +} diff --git a/man/add_admin_boundaries.Rd b/man/add_admin_boundaries.Rd new file mode 100644 index 0000000..7d6e3b4 --- /dev/null +++ b/man/add_admin_boundaries.Rd @@ -0,0 +1,37 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_admin_boundaries} +\alias{add_admin_boundaries} +\title{Add admin boundaries (lines) and the legend} +\usage{ +add_admin_boundaries( + lines, + colors, + labels, + lwds, + title = "", + buffer = NULL, + ... +) +} +\arguments{ +\item{lines}{List of multiline shape defined by sf package.} + +\item{colors}{Vector of hexadecimal codes. Same order as lines.} + +\item{labels}{Vector of labels in the legend. Same order as lines.} + +\item{lwds}{Vector of line widths. Same order as lines.} + +\item{title}{Legend title.} + +\item{buffer}{A buffer, either one value or a vector of 4 values (left, bottom, right, top).} + +\item{...}{Other arguments to pass to each shape in `tmap::tm_lines()`.} +} +\value{ +A tmap layer. +} +\description{ +Add admin boundaries (lines) and the legend +} diff --git a/man/add_admin_labels.Rd b/man/add_admin_labels.Rd new file mode 100644 index 0000000..d9691b6 --- /dev/null +++ b/man/add_admin_labels.Rd @@ -0,0 +1,43 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_admin_labels} +\alias{add_admin_labels} +\title{Wrapper around `tmap::tm_text()` with sane defaults for plotting admin labels.} +\usage{ +add_admin_labels( + point, + text, + size = 0.5, + fontface = "bold", + fontfamily = "Leelawadee", + shadow = TRUE, + auto_placement = FALSE, + remove_overlap = FALSE, + ... +) +} +\arguments{ +\item{point}{Multipoint shape defined by sf package.} + +\item{text}{Text labels column.} + +\item{size}{Relative size of the text labels.} + +\item{fontface}{Fontface.} + +\item{fontfamily}{Fontfamily. Leelawadee is your precious.} + +\item{shadow}{Boolean. Add a shadow around text labels. Issue opened on Github to request.} + +\item{auto_placement}{Logical that determines whether the labels are placed automatically.} + +\item{remove_overlap}{Logical that determines whether the overlapping labels are removed.} + +\item{...}{Other arguments to pass to `tmap::tm_text()`.} +} +\value{ +A tmap layer. +} +\description{ +Wrapper around `tmap::tm_text()` with sane defaults for plotting admin labels. +} diff --git a/man/add_compass.Rd b/man/add_compass.Rd new file mode 100644 index 0000000..a22f932 --- /dev/null +++ b/man/add_compass.Rd @@ -0,0 +1,34 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_compass} +\alias{add_compass} +\title{Add a compass} +\usage{ +add_compass( + text_size = 0.6, + position = c("right", 0.8), + color_dark = cols_reach("black"), + text_color = cols_reach("black"), + type = "4star", + ... +) +} +\arguments{ +\item{text_size}{Relative font size.} + +\item{position}{Position of the compass. Vector of two values, specifying the x and y coordinates.} + +\item{color_dark}{Color of the dark parts of the compass.} + +\item{text_color}{color of the text.} + +\item{type}{Compass type, one of: "arrow", "4star", "8star", "radar", "rose".} + +\item{...}{Other arguments to pass to `tmap::tm_compass()`.} +} +\value{ +A tmap layer. +} +\description{ +Add a compass +} diff --git a/man/add_credits.Rd b/man/add_credits.Rd new file mode 100644 index 0000000..9410747 --- /dev/null +++ b/man/add_credits.Rd @@ -0,0 +1,25 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_credits} +\alias{add_credits} +\title{Do you want to credit someone or some institution?} +\usage{ +add_credits(text, size = 0.4, bg_color = NA, position = c(0.75, 0.02), ...) +} +\arguments{ +\item{text}{Text.} + +\item{size}{Relative text size.} + +\item{bg_color}{Background color.} + +\item{position}{Position. Vector of two coordinates. Usually somewhere down.} + +\item{...}{Other arguments to pass to `tmap::tm_credits()`.} +} +\value{ +A tmap layer. +} +\description{ +Do you want to credit someone or some institution? +} diff --git a/man/add_indicator_layer.Rd b/man/add_indicator_layer.Rd new file mode 100644 index 0000000..cf54ac2 --- /dev/null +++ b/man/add_indicator_layer.Rd @@ -0,0 +1,61 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_indicator_layer} +\alias{add_indicator_layer} +\title{Wrapper around `tmap::tm_polygons()` with sane defaults for plotting indicator values} +\usage{ +add_indicator_layer( + poly, + col, + buffer = NULL, + n = 5, + style = "pretty", + palette = pal_reach("red_5"), + as_count = TRUE, + color_na = cols_reach("white"), + text_na = "Missing data", + legend_title = "Proportion (\%)", + legend_text_separator = " - ", + border_alpha = 1, + border_col = cols_reach("lt_grey_1"), + lwd = 1, + ... +) +} +\arguments{ +\item{poly}{Multipolygon shape defined by sf package.} + +\item{col}{Numeric attribute to map.} + +\item{buffer}{A buffer, either one value or a vector of 4 values (left, bottom, right, top).} + +\item{n}{The desire number of classes.} + +\item{style}{Method to process the color scale for continuous numerical variables. See `classInt::classIntervals()` for details.} + +\item{palette}{Vector of fill colors as hexadecimal values. For REACH color palettes, it is possible to use `pal_reach()`. For now,'palette' must be changed manually, accordingly to the number of drawn classes.} + +\item{as_count}{Boolean. When col is a numeric variable, should it be processed as a count variable? For instance, 0, 1-10, 11-20.} + +\item{color_na}{Fill color for missing data.} + +\item{text_na}{Legend text for missing data.} + +\item{legend_title}{Legend title.} + +\item{legend_text_separator}{Text separator for classes. E.g. " to " will give 0, 1 to 10, 11 to 20.} + +\item{border_alpha}{Transparency of the border.} + +\item{border_col}{Color of the border.} + +\item{lwd}{Linewidth of the border.} + +\item{...}{Other arguments to pass to `tmap::tm_polygons()`.} +} +\value{ +A tmap layer. +} +\description{ +Wrapper around `tmap::tm_polygons()` with sane defaults for plotting indicator values +} diff --git a/man/add_layout.Rd b/man/add_layout.Rd new file mode 100644 index 0000000..f5c4b53 --- /dev/null +++ b/man/add_layout.Rd @@ -0,0 +1,49 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_layout} +\alias{add_layout} +\title{Basic defaults based on `tmap::tm_layout()`} +\usage{ +add_layout( + title = NULL, + legend_position = c(0.02, 0.5), + frame = FALSE, + legend_frame = cols_reach("main_grey"), + legend_text_size = 0.6, + legend_title_size = 0.8, + title_size = 0.9, + title_fontface = "bold", + title_color = cols_reach("main_grey"), + fontfamily = "Leelawadee", + ... +) +} +\arguments{ +\item{title}{Map title.} + +\item{legend_position}{Legend position. Not above the map is a good start.} + +\item{frame}{Boolean. Legend frame?} + +\item{legend_frame}{Legend frame color.} + +\item{legend_text_size}{Legend text size in 'pt'.} + +\item{legend_title_size}{Legend title size in 'pt'.} + +\item{title_size}{Title text size in 'pt'.} + +\item{title_fontface}{Title fontface. Bold if you wanna exemplify a lot what it is about.} + +\item{title_color}{Title font color.} + +\item{fontfamily}{Overall fontfamily. Leelawadee is your precious.} + +\item{...}{Other arguments to pass to `tmap::tm_layout()`.} +} +\value{ +A tmap layer. +} +\description{ +Basic defaults based on `tmap::tm_layout()` +} diff --git a/man/add_scale_bar.Rd b/man/add_scale_bar.Rd new file mode 100644 index 0000000..b204c3c --- /dev/null +++ b/man/add_scale_bar.Rd @@ -0,0 +1,31 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/map.R +\name{add_scale_bar} +\alias{add_scale_bar} +\title{Add a scale bar} +\usage{ +add_scale_bar( + text_size = 0.6, + position = c("left", 0.01), + color_dark = cols_reach("black"), + breaks = c(0, 50, 100), + ... +) +} +\arguments{ +\item{text_size}{Relative font size.} + +\item{position}{Position of the compass. Vector of two values, specifying the x and y coordinates.} + +\item{color_dark}{Color of the dark parts of the compass.} + +\item{breaks}{Breaks of the scale bar. If not specified, breaks will be automatically be chosen given the prefered width of the scale bar. Example: c(0, 50, 100).} + +\item{...}{Other arguments to pass to `tmap::tm_compass()`.} +} +\value{ +A tmap layer. +} +\description{ +Add a scale bar +} diff --git a/man/alluvial.Rd b/man/alluvial.Rd new file mode 100644 index 0000000..8750fe9 --- /dev/null +++ b/man/alluvial.Rd @@ -0,0 +1,64 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/alluvial.R +\name{alluvial} +\alias{alluvial} +\title{Simple alluvial chart} +\usage{ +alluvial( + df, + from, + to, + value, + group = NULL, + alpha = 0.5, + from_levels = NULL, + value_title = NULL, + group_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + rect_color = cols_reach("white"), + rect_border_color = cols_reach("main_grey"), + rect_text_color = cols_reach("main_grey"), + theme = theme_reach(axis_y = FALSE, legend_position = "none") +) +} +\arguments{ +\item{df}{A data frame.} + +\item{from}{A character column of upstream stratum.} + +\item{to}{A character column of downstream stratum.} + +\item{value}{A numeric column of values.} + +\item{group}{The grouping column to fill the alluvium with.} + +\item{alpha}{Fill transparency. Default to 0.5.} + +\item{from_levels}{Order by given from levels?} + +\item{value_title}{The value/y scale title. Default to NULL.} + +\item{group_title}{The group title. Default to NULL.} + +\item{title}{Plot title. Default to NULL.} + +\item{subtitle}{Plot subtitle. Default to NULL.} + +\item{caption}{Plot caption. Default to NULL.} + +\item{rect_color}{Stratum rectangles' fill color.} + +\item{rect_border_color}{Stratum rectangles' border color.} + +\item{rect_text_color}{Stratum rectangles' text color.} + +\item{theme}{Whatever theme. Default to theme_reach().} +} +\value{ +A donut chart to be used parsimoniously +} +\description{ +Simple alluvial chart +} diff --git a/man/bar.Rd b/man/bar.Rd index 148a326..7dc2f19 100644 --- a/man/bar.Rd +++ b/man/bar.Rd @@ -1,32 +1,16 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/bar.R -\name{hbar} -\alias{hbar} +\name{bar} \alias{bar} \title{Simple bar chart} \usage{ -hbar( - ..., - flip = TRUE, - add_text = FALSE, - theme_fun = theme_bar(flip = flip, add_text = add_text) -) - bar( df, x, y, - group = "", - facet = "", - order = "none", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - y_expand = 0.1, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, - flip = FALSE, + group = NULL, + flip = TRUE, + percent = TRUE, wrap = NULL, position = "dodge", alpha = 1, @@ -36,55 +20,23 @@ bar( title = NULL, subtitle = NULL, caption = NULL, - width = 0.8, add_text = FALSE, - add_text_size = 4.5, - add_text_color = color("dark_grey"), - add_text_font_face = "bold", - add_text_threshold_display = 0.05, - add_text_suffix = "\%", - add_text_expand_limit = 1.2, - add_text_round = 1, - theme_fun = theme_bar(flip = flip, add_text = add_text, axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, axis_text_x_hjust = 0.5), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete() + add_text_suffix = "", + theme = theme_reach() ) } \arguments{ -\item{...}{Additional arguments passed to `bar()`} - -\item{flip}{TRUE or FALSE (default). Default to TRUE or horizontal bar plot.} - -\item{add_text}{TRUE or FALSE. Add values as text.} - -\item{theme_fun}{Whatever theme function. For no custom theme, use theme_fun = NULL.} - \item{df}{A data frame.} -\item{x}{A quoted numeric column.} +\item{x}{A numeric column.} -\item{y}{A quoted character column or coercible as a character column.} +\item{y}{A character column or coercible as a character column.} -\item{group}{Some quoted grouping categorical column, e.g. administrative areas or population groups.} +\item{group}{Some grouping categorical column, e.g. administrative areas or population groups.} -\item{facet}{Some quoted grouping categorical column, e.g. administrative areas or population groups.} +\item{flip}{TRUE or FALSE. Default to TRUE or horizontal bar plot.} -\item{order}{A character scalar specifying the order type (one of "none", "y", "grouped"). See details.} - -\item{x_rm_na}{Remove NAs in x?} - -\item{y_rm_na}{Remove NAs in y?} - -\item{group_rm_na}{Remove NAs in group?} - -\item{facet_rm_na}{Remove NAs in facet?} - -\item{y_expand}{Multiplier to expand the y axis.} - -\item{add_color}{Add a color to bars (if no grouping).} - -\item{add_color_guide}{Should a legend be added?} +\item{percent}{TRUE or FALSE. Should the x-labels (and text labels if present) be displayed as percentages? Default to TRUE.} \item{wrap}{Should x-labels be wrapped? Number of characters.} @@ -104,26 +56,15 @@ bar( \item{caption}{Plot caption. Default to NULL.} -\item{width}{Bar width.} - -\item{add_text_size}{Text size.} - -\item{add_text_color}{Text color.} - -\item{add_text_font_face}{Text font_face.} - -\item{add_text_threshold_display}{Minimum value to add the text label.} +\item{add_text}{TRUE or FALSE. Add the value as text.} \item{add_text_suffix}{If percent is FALSE, should we add a suffix to the text label?} -\item{add_text_expand_limit}{Default to adding 10\% on top of the bar.} - -\item{add_text_round}{Round the text label.} - -\item{scale_fill_fun}{Scale fill function. Default to scale_fill_visualizer_discrete().} - -\item{scale_color_fun}{Scale color function. Default to scale_color_visualizer_discrete().} +\item{theme}{Whatever theme. Default to theme_reach().} +} +\value{ +A bar chart } \description{ -`bar()` is a simple bar chart with some customization allowed, in particular the `theme_fun` argument for theming. `hbar()` uses `bar()` with sane defaults for a horizontal bar chart. +Simple bar chart } diff --git a/man/border_admin0.Rd b/man/border_admin0.Rd new file mode 100644 index 0000000..cd495f3 --- /dev/null +++ b/man/border_admin0.Rd @@ -0,0 +1,25 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data.R +\docType{data} +\name{border_admin0} +\alias{border_admin0} +\title{Haïti border.} +\format{ +A sf multiline objet with 1 feature and 6 fields: +\describe{ + \item{fid_1}{fid_1} + \item{uno}{uno} + \item{count}{count} + \item{x_coord}{x_coord} + \item{y_coord}{y_coord} + \item{area}{area} + \item{geometry}{Multiline geometry.} +} +} +\usage{ +border_admin0 +} +\description{ +A multiline shapefile of Haiti's border. +} +\keyword{datasets} diff --git a/man/buffer_bbox.Rd b/man/buffer_bbox.Rd new file mode 100644 index 0000000..066562f --- /dev/null +++ b/man/buffer_bbox.Rd @@ -0,0 +1,19 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/bbox_buffer.R +\name{buffer_bbox} +\alias{buffer_bbox} +\title{Bbbox buffer} +\usage{ +buffer_bbox(sf_obj, buffer = 0) +} +\arguments{ +\item{sf_obj}{A `sf` object} + +\item{buffer}{A buffer, either one value or a vector of 4 values (left, bottom, right, top). Default to 0.} +} +\value{ +A bbox with a buffer +} +\description{ +Bbbox buffer +} diff --git a/man/centroid_admin1.Rd b/man/centroid_admin1.Rd new file mode 100644 index 0000000..c221ac9 --- /dev/null +++ b/man/centroid_admin1.Rd @@ -0,0 +1,28 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data.R +\docType{data} +\name{centroid_admin1} +\alias{centroid_admin1} +\title{Haïti admin 1 centroids shapefile.} +\format{ +A sf multipoint object with 10 features and 9 fields: +\describe{ + \item{ADM1_PC}{Admin 1 postal code.} + \item{ADM1_EN}{Full name in English.} + \item{ADM1_FR}{Full name in French.} + \item{ADM1_HT}{Full name in Haitian Creole.} + \item{ADM0_EN}{Country name in English.} + \item{ADM0_FR}{Country name in French.} + \item{ADM0_HT}{Country name in Haitian Creole.} + \item{ADM0_PC}{Country postal code.} + \item{ADM1_FR_UPPER}{Admin 1 French name - uppercase.} + \item{geometry}{Multipoint geometry.} +} +} +\usage{ +centroid_admin1 +} +\description{ +A multipoint shapefile of Haiti's admin 1. +} +\keyword{datasets} diff --git a/man/check_vars_in_df.Rd b/man/check_vars_in_df.Rd deleted file mode 100644 index b973b00..0000000 --- a/man/check_vars_in_df.Rd +++ /dev/null @@ -1,19 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/checks.R -\name{check_vars_in_df} -\alias{check_vars_in_df} -\title{Check if variables are in data frame} -\usage{ -check_vars_in_df(df, vars) -} -\arguments{ -\item{df}{A data frame} - -\item{vars}{A vector of variable names} -} -\value{ -A stop statement -} -\description{ -Check if variables are in data frame -} diff --git a/man/color.Rd b/man/color.Rd deleted file mode 100644 index 982fe5e..0000000 --- a/man/color.Rd +++ /dev/null @@ -1,33 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/color.R -\name{color} -\alias{color} -\alias{color_pattern} -\title{Helpers to extract defined colors as hex codes} -\usage{ -color(..., unname = TRUE) - -color_pattern(pattern, unname = TRUE) -} -\arguments{ -\item{...}{Character names of colors. If NULL returns all colors.} - -\item{unname}{Boolean. Should the output vector be unnamed? Default to `TRUE`.} - -\item{pattern}{Pattern of the start of colors' name.} -} -\value{ -Hex codes named or unnamed. -} -\description{ -[color()] returns the requested columns, returns NA if absent. [color_pattern()] returns all colors that start with the pattern. -} -\section{Naming of colors}{ - -* All branding colors start with "branding"; -* All , categorical colors start with ", cat_"; -* All sequential colors start with "seq_"; - -Then, a number indicates the number of colors that belong to the palettes, a string the name of the palette, and, finally, a number the position of the color. E.g., "seq_5_red_4" would be the 4th color of a continuous palettes of 5 colors in the red band. Exception is made for white, light_grey, dark_grey, and black. -} - diff --git a/man/cols_agora.Rd b/man/cols_agora.Rd new file mode 100644 index 0000000..29f603a --- /dev/null +++ b/man/cols_agora.Rd @@ -0,0 +1,22 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/cols_agora.R +\name{cols_agora} +\alias{cols_agora} +\title{Function to extract AGORA colors as hex codes} +\usage{ +cols_agora(..., unnamed = TRUE) +} +\arguments{ +\item{...}{Character names of reach colors. If NULL returns all colors} + +\item{unnamed}{Should the output vector be unnamed? Default to `TRUE`} +} +\value{ +An hex code or hex codes named or unnamed +} +\description{ +Function to extract AGORA colors as hex codes +} +\details{ +This function needs to be modified to add colors +} diff --git a/man/cols_impact.Rd b/man/cols_impact.Rd new file mode 100644 index 0000000..9833a64 --- /dev/null +++ b/man/cols_impact.Rd @@ -0,0 +1,22 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/cols_impact.R +\name{cols_impact} +\alias{cols_impact} +\title{Function to extract IMPACT colors as hex codes} +\usage{ +cols_impact(..., unnamed = TRUE) +} +\arguments{ +\item{...}{Character names of reach colors. If NULL returns all colors} + +\item{unnamed}{Should the output vector be unnamed? Default to `TRUE`} +} +\value{ +An hex code or hex codes named or unnamed +} +\description{ +Function to extract IMPACT colors as hex codes +} +\details{ +This function needs to be modified to add colors +} diff --git a/man/cols_reach.Rd b/man/cols_reach.Rd new file mode 100644 index 0000000..7c0ed87 --- /dev/null +++ b/man/cols_reach.Rd @@ -0,0 +1,22 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/cols_reach.R +\name{cols_reach} +\alias{cols_reach} +\title{Function to extract REACH colors as hex codes} +\usage{ +cols_reach(..., unnamed = TRUE) +} +\arguments{ +\item{...}{Character names of reach colors. If NULL returns all colors} + +\item{unnamed}{Should the output vector be unnamed? Default to `TRUE`} +} +\value{ +An hex code or hex codes named or unnamed +} +\description{ +Function to extract REACH colors as hex codes +} +\details{ +This function needs to be modified to add colors +} diff --git a/man/donut.Rd b/man/donut.Rd new file mode 100644 index 0000000..b461123 --- /dev/null +++ b/man/donut.Rd @@ -0,0 +1,61 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/donut.R +\name{donut} +\alias{donut} +\title{Simple donut chart (to be used parsimoniously), can be a pie chart} +\usage{ +donut( + df, + x, + y, + alpha = 1, + x_title = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + arrange = TRUE, + hole_size = 3, + add_text = TRUE, + add_text_treshold_display = 5, + add_text_color = "white", + add_text_suffix = "", + theme = theme_reach(legend_reverse = TRUE) +) +} +\arguments{ +\item{df}{A data frame.} + +\item{x}{A character column or coercible as a character column. Will give the donut's fill color.} + +\item{y}{A numeric column.} + +\item{alpha}{Fill transparency.} + +\item{x_title}{The x scale title. Default to NULL.} + +\item{title}{Plot title. Default to NULL.} + +\item{subtitle}{Plot subtitle. Default to NULL.} + +\item{caption}{Plot caption. Default to NULL.} + +\item{arrange}{TRUE or FALSE. Arrange by highest percentage first.} + +\item{hole_size}{Hole size. Default to 3. If less than 2, back to a pie chart.} + +\item{add_text}{TRUE or FALSE. Add the value as text.} + +\item{add_text_treshold_display}{Minimum value to add the text label.} + +\item{add_text_color}{Text color.} + +\item{add_text_suffix}{If percent is FALSE, should we add a suffix to the text label?} + +\item{theme}{Whatever theme. Default to theme_reach().} +} +\value{ +A donut chart to be used parsimoniously +} +\description{ +Simple donut chart (to be used parsimoniously), can be a pie chart +} diff --git a/man/dumbbell.Rd b/man/dumbbell.Rd index 83a307f..2bd7437 100644 --- a/man/dumbbell.Rd +++ b/man/dumbbell.Rd @@ -12,24 +12,22 @@ dumbbell( point_size = 5, point_alpha = 1, segment_size = 2.5, - segment_color = color("light_blue_grey"), + segment_color = cols_reach("main_lt_grey"), group_x_title = NULL, group_y_title = NULL, x_title = NULL, title = NULL, subtitle = NULL, caption = NULL, - line_to_y_axis = FALSE, + line_to_y_axis = TRUE, line_to_y_axis_type = 3, line_to_y_axis_width = 0.5, - line_to_y_axis_color = color("dark_grey"), - add_text = FALSE, + line_to_y_axis_color = cols_reach("main_grey"), + add_text = TRUE, add_text_vjust = 2, add_text_size = 3.5, - add_text_color = color("dark_grey"), - theme_fun = theme_dumbbell(), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete() + add_text_color = cols_reach("main_grey"), + theme = theme_reach(palette = "primary") ) } \arguments{ @@ -77,11 +75,7 @@ dumbbell( \item{add_text_color}{Text color.} -\item{theme_fun}{A ggplot2 theme, default to `theme_dumbbell()`} - -\item{scale_fill_fun}{A ggplot2 scale_fill function, default to `scale_fill_visualizer_discrete()`} - -\item{scale_color_fun}{A ggplot2 scale_color function, default to `scale_color_visualizer_discrete()`} +\item{theme}{A ggplot2 theme, default to `theme_reach()`} } \value{ A dumbbell chart. diff --git a/man/figures/README-example-bar-chart-1.png b/man/figures/README-example-bar-chart-1.png index 8b5ff08..cc3c997 100644 Binary files a/man/figures/README-example-bar-chart-1.png and b/man/figures/README-example-bar-chart-1.png differ diff --git a/man/figures/README-example-bar-chart-2.png b/man/figures/README-example-bar-chart-2.png index 42e1489..e5cbaad 100644 Binary files a/man/figures/README-example-bar-chart-2.png and b/man/figures/README-example-bar-chart-2.png differ diff --git a/man/figures/README-example-bar-chart-3.png b/man/figures/README-example-bar-chart-3.png index 1120288..f4b8b7e 100644 Binary files a/man/figures/README-example-bar-chart-3.png and b/man/figures/README-example-bar-chart-3.png differ diff --git a/man/figures/README-example-bar-chart-4.png b/man/figures/README-example-bar-chart-4.png deleted file mode 100644 index 7e13c9e..0000000 Binary files a/man/figures/README-example-bar-chart-4.png and /dev/null differ diff --git a/man/figures/README-example-lollipop-chart-1.png b/man/figures/README-example-lollipop-chart-1.png index 9925ccb..0decaf1 100644 Binary files a/man/figures/README-example-lollipop-chart-1.png and b/man/figures/README-example-lollipop-chart-1.png differ diff --git a/man/figures/README-example-lollipop-chart-2.png b/man/figures/README-example-lollipop-chart-2.png index 2b7c42b..0897e8e 100644 Binary files a/man/figures/README-example-lollipop-chart-2.png and b/man/figures/README-example-lollipop-chart-2.png differ diff --git a/man/figures/README-example-lollipop-chart-3.png b/man/figures/README-example-lollipop-chart-3.png deleted file mode 100644 index d7fd0d7..0000000 Binary files a/man/figures/README-example-lollipop-chart-3.png and /dev/null differ diff --git a/man/figures/README-example-lollipop-chart-4.png b/man/figures/README-example-lollipop-chart-4.png deleted file mode 100644 index 7817e6f..0000000 Binary files a/man/figures/README-example-lollipop-chart-4.png and /dev/null differ diff --git a/man/figures/README-example-point-chart-1.png b/man/figures/README-example-point-chart-1.png index 17c65b0..f705a3d 100644 Binary files a/man/figures/README-example-point-chart-1.png and b/man/figures/README-example-point-chart-1.png differ diff --git a/man/figures/README-example-point-chart-2.png b/man/figures/README-example-point-chart-2.png index e874258..76ef877 100644 Binary files a/man/figures/README-example-point-chart-2.png and b/man/figures/README-example-point-chart-2.png differ diff --git a/man/figures/README-example-point-chart-3.png b/man/figures/README-example-point-chart-3.png index 27cc036..b32aa89 100644 Binary files a/man/figures/README-example-point-chart-3.png and b/man/figures/README-example-point-chart-3.png differ diff --git a/man/frontier_admin0.Rd b/man/frontier_admin0.Rd new file mode 100644 index 0000000..91501c1 --- /dev/null +++ b/man/frontier_admin0.Rd @@ -0,0 +1,27 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data.R +\docType{data} +\name{frontier_admin0} +\alias{frontier_admin0} +\title{Haïti frontier with Dominican Republic.} +\format{ +A sf multipoint objet with 4 features and 8 fields: +\describe{ + \item{fid_1}{fid_1} + \item{objectid}{objectid} + \item{id}{id} + \item{fromnode}{fromnode} + \item{tonode}{tonode} + \item{leftpolygo}{leftpolygo} + \item{rightpolygo}{rightpolygo} + \item{shape_leng}{shape_leng} + \item{geometry}{Multiline geometry.} +} +} +\usage{ +frontier_admin0 +} +\description{ +A multiline shapefile of Haiti's frontier with Dominican Republic. +} +\keyword{datasets} diff --git a/man/grapes-notallin-grapes.Rd b/man/grapes-notallin-grapes.Rd deleted file mode 100644 index 35fc728..0000000 --- a/man/grapes-notallin-grapes.Rd +++ /dev/null @@ -1,19 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/internals.R -\name{\%notallin\%} -\alias{\%notallin\%} -\title{Not All In Operator} -\usage{ -a \%notallin\% b -} -\arguments{ -\item{a}{Vector to test} - -\item{b}{Vector to test against} -} -\value{ -TRUE if at least one element of `a` is not in `b`, otherwise FALSE -} -\description{ -Tests if not all elements of `a` are contained in `b`. -} diff --git a/man/grapes-notin-grapes.Rd b/man/grapes-notin-grapes.Rd deleted file mode 100644 index 22ff48c..0000000 --- a/man/grapes-notin-grapes.Rd +++ /dev/null @@ -1,19 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/internals.R -\name{\%notin\%} -\alias{\%notin\%} -\title{Not In Operator} -\usage{ -a \%notin\% b -} -\arguments{ -\item{a}{Vector or value to test} - -\item{b}{Vector to test against} -} -\value{ -Logical vector with TRUE for elements of `a` that are not in `b` -} -\description{ -A negation of the `%in%` operator that tests if elements of `a` are not in `b`. -} diff --git a/man/if_not_in_stop.Rd b/man/if_not_in_stop.Rd new file mode 100644 index 0000000..bb29dea --- /dev/null +++ b/man/if_not_in_stop.Rd @@ -0,0 +1,23 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/internals.R +\name{if_not_in_stop} +\alias{if_not_in_stop} +\title{Stop statement "If not in colnames" with colnames} +\usage{ +if_not_in_stop(.tbl, cols, df, arg = NULL) +} +\arguments{ +\item{.tbl}{A tibble} + +\item{cols}{A vector of column names (quoted)} + +\item{df}{Provide the tibble name as a character string} + +\item{arg}{Default to NULL.} +} +\value{ +A stop statement +} +\description{ +Stop statement "If not in colnames" with colnames +} diff --git a/man/if_vec_not_in_stop.Rd b/man/if_vec_not_in_stop.Rd new file mode 100644 index 0000000..56d228f --- /dev/null +++ b/man/if_vec_not_in_stop.Rd @@ -0,0 +1,23 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/internals.R +\name{if_vec_not_in_stop} +\alias{if_vec_not_in_stop} +\title{Stop statement "If not in vector"} +\usage{ +if_vec_not_in_stop(vec, cols, vec_name, arg = NULL) +} +\arguments{ +\item{vec}{A vector of character strings} + +\item{cols}{A set of character strings} + +\item{vec_name}{Provide the vector name as a character string} + +\item{arg}{Default to NULL.} +} +\value{ +A stop statement if some elements of vec are not in cols +} +\description{ +Stop statement "If not in vector" +} diff --git a/man/indicator_admin1.Rd b/man/indicator_admin1.Rd new file mode 100644 index 0000000..673ee1b --- /dev/null +++ b/man/indicator_admin1.Rd @@ -0,0 +1,29 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data.R +\docType{data} +\name{indicator_admin1} +\alias{indicator_admin1} +\title{Indicator admin 1 polygons shapefile.} +\format{ +A sf multipoint object with 10 features and 10 fields: +\describe{ + \item{ADM1_PC}{Admin 1 postal code.} + \item{admin1}{Admin 1 unique id.} + \item{opn_dfc}{Proportion of HHs that reported open defecation as sanitation facility.} + \item{ADM1_EN}{Full name in English.} + \item{ADM1_FR}{Full name in French.} + \item{ADM1_HT}{Full name in Haitian Creole.} + \item{ADM0_EN}{Country name in English.} + \item{ADM0_FR}{Country name in French.} + \item{ADM0_HT}{Country name in Haitian Creole.} + \item{ADM0_PC}{Country postal code.} + \item{geometry}{Multipolygon geometry.} +} +} +\usage{ +indicator_admin1 +} +\description{ +A multipolygon shapefile of Haiti's admin 1 with an indicator column 'opn_dfc'. +} +\keyword{datasets} diff --git a/man/line_admin1.Rd b/man/line_admin1.Rd new file mode 100644 index 0000000..49f72e4 --- /dev/null +++ b/man/line_admin1.Rd @@ -0,0 +1,26 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data.R +\docType{data} +\name{line_admin1} +\alias{line_admin1} +\title{Haïti admin 1 lines shapefile.} +\format{ +A sf multiline object with 10 features and 8 fields: +\describe{ + \item{ADM1_EN}{Full name in English.} + \item{ADM1_FR}{Full name in French.} + \item{ADM1_HT}{Full name in Haitian Creole.} + \item{ADM0_EN}{Country name in English.} + \item{ADM0_FR}{Country name in French.} + \item{ADM0_HT}{Country name in Haitian Creole.} + \item{ADM0_PCODE}{Country postal code.} + \item{geometry}{Multiline geometry.} +} +} +\usage{ +line_admin1 +} +\description{ +A multiline shapefile of Haiti's admin 1. +} +\keyword{datasets} diff --git a/man/lollipop.Rd b/man/lollipop.Rd index 4604349..6bc23ef 100644 --- a/man/lollipop.Rd +++ b/man/lollipop.Rd @@ -1,119 +1,88 @@ % Generated by roxygen2: do not edit by hand % Please edit documentation in R/lollipop.R -\name{hlollipop} -\alias{hlollipop} +\name{lollipop} \alias{lollipop} -\title{Simple lollipop chart} +\title{Simple bar chart} \usage{ -hlollipop(..., flip = TRUE, theme_fun = theme_lollipop(flip = flip)) - lollipop( df, x, y, - group = "", - facet = "", - order = "y", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - y_expand = 0.1, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, - flip = FALSE, + flip = TRUE, wrap = NULL, + arrange = TRUE, + point_size = 3, + point_color = cols_reach("main_red"), + point_alpha = 1, + segment_size = 1, + segment_color = cols_reach("main_grey"), + segment_alpha = 1, alpha = 1, x_title = NULL, y_title = NULL, - group_title = NULL, title = NULL, subtitle = NULL, caption = NULL, - dot_size = 4, - line_size = 0.8, - line_color = color("dark_grey"), - dodge_width = 0.9, - theme_fun = theme_lollipop(flip = flip, axis_text_x_angle = 0, axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete() + add_text = FALSE, + add_text_size = 3, + add_text_suffix = "", + add_text_color = "white", + add_text_fontface = "bold", + theme = theme_reach() ) } \arguments{ -\item{...}{Additional arguments passed to `lollipop()`} - -\item{flip}{TRUE or FALSE (default). Default to TRUE or horizontal lollipop plot.} - -\item{theme_fun}{Whatever theme function. For no custom theme, use theme_fun = NULL.} - \item{df}{A data frame.} -\item{x}{A quoted character column or coercible as a character column.} +\item{x}{A numeric column.} -\item{y}{A quoted numeric column.} +\item{y}{A character column or coercible as a character column.} -\item{group}{Some quoted grouping categorical column, e.g. administrative areas or population groups.} - -\item{facet}{Some quoted grouping categorical column, e.g. administrative areas or population groups.} - -\item{order}{A character scalar specifying the order type (one of "none", "y", "grouped"). See details.} - -\item{x_rm_na}{Remove NAs in x?} - -\item{y_rm_na}{Remove NAs in y?} - -\item{group_rm_na}{Remove NAs in group?} - -\item{facet_rm_na}{Remove NAs in facet?} - -\item{y_expand}{Multiplier to expand the y axis.} - -\item{add_color}{Add a color to dots (if no grouping).} - -\item{add_color_guide}{Should a legend be added?} +\item{flip}{TRUE or FALSE. Default to TRUE or horizontal lollipop plot.} \item{wrap}{Should x-labels be wrapped? Number of characters.} -\item{alpha}{Fill transparency for dots.} +\item{arrange}{TRUE or FALSE. Arrange by highest percentage first.} + +\item{point_size}{Point size.} + +\item{point_color}{Point color.} + +\item{point_alpha}{Point alpha.} + +\item{segment_size}{Segment size.} + +\item{segment_color}{Segment color.} + +\item{segment_alpha}{Segment alpha.} + +\item{alpha}{Fill transparency.} \item{x_title}{The x scale title. Default to NULL.} \item{y_title}{The y scale title. Default to NULL.} -\item{group_title}{The group legend title. Default to NULL.} - \item{title}{Plot title. Default to NULL.} \item{subtitle}{Plot subtitle. Default to NULL.} \item{caption}{Plot caption. Default to NULL.} -\item{dot_size}{The size of the dots.} +\item{add_text}{TRUE or FALSE. Add the y value as text within the bubble.} -\item{line_size}{The size/width of the line connecting dots to the baseline.} +\item{add_text_size}{Text size.} -\item{line_color}{The color of the line connecting dots to the baseline.} +\item{add_text_suffix}{If percent is FALSE, should we add a suffix to the text label?} -\item{dodge_width}{Width for position dodge when using groups (controls space between grouped lollipops).} +\item{add_text_color}{Added text color. Default to white.} -\item{scale_fill_fun}{Scale fill function. Default to scale_fill_visualizer_discrete().} +\item{add_text_fontface}{Added text font face. Default to "bold".} -\item{scale_color_fun}{Scale color function. Default to scale_color_visualizer_discrete().} +\item{theme}{Whatever theme. Default to theme_reach().} } \value{ -A ggplot object +A bar chart } \description{ -`lollipop()` is a simple lollipop chart (dots connected to the baseline by a segment) with some customization allowed. -`hlollipop()` uses `lollipop()` with sane defaults for a horizontal lollipop chart. -} -\examples{ -\dontrun{ -df <- data.frame(x = letters[1:5], y = c(10, 5, 7, 12, 8)) -# Vertical lollipop -lollipop(df, "x", "y") -# Horizontal lollipop -hlollipop(df, "x", "y") -} +Simple bar chart } diff --git a/man/pal_agora.Rd b/man/pal_agora.Rd new file mode 100644 index 0000000..71b9921 --- /dev/null +++ b/man/pal_agora.Rd @@ -0,0 +1,31 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/pal_agora.R +\name{pal_agora} +\alias{pal_agora} +\title{Return function to interpolate an AGORA color palette} +\usage{ +pal_agora( + palette = "main", + reverse = FALSE, + color_ramp_palette = FALSE, + show_palettes = FALSE, + ... +) +} +\arguments{ +\item{palette}{Character name of a palette in AGORA palettes} + +\item{reverse}{Boolean indicating whether the palette should be reversed} + +\item{color_ramp_palette}{Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE`} + +\item{show_palettes}{Should the ouput be the set of palettes names to pick from? Default to `FALSE`} + +\item{...}{Additional arguments to pass to colorRampPalette()} +} +\value{ +A color palette +} +\description{ +Return function to interpolate an AGORA color palette +} diff --git a/man/pal_fallback.Rd b/man/pal_fallback.Rd new file mode 100644 index 0000000..6716ae5 --- /dev/null +++ b/man/pal_fallback.Rd @@ -0,0 +1,31 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/pal_fallback.R +\name{pal_fallback} +\alias{pal_fallback} +\title{Return function to interpolate a fallback palette base on viridis::magma()} +\usage{ +pal_fallback( + reverse = FALSE, + color_ramp_palette = FALSE, + discrete = FALSE, + n = 5, + ... +) +} +\arguments{ +\item{reverse}{Boolean indicating whether the palette should be reversed} + +\item{color_ramp_palette}{Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the latter with `FALSE`} + +\item{discrete}{Boolean. Discrete or not? Default to FALSE.} + +\item{n}{Number of colors in the palette. Default to 5. Passe to `viridis::magma()`} + +\item{...}{Other parameters to pass to `grDevices::colorRampPalette()`} +} +\value{ +A color palette +} +\description{ +Return function to interpolate a fallback palette base on viridis::magma() +} diff --git a/man/pal_impact.Rd b/man/pal_impact.Rd new file mode 100644 index 0000000..a3a16a2 --- /dev/null +++ b/man/pal_impact.Rd @@ -0,0 +1,31 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/pal_impact.R +\name{pal_impact} +\alias{pal_impact} +\title{Return function to interpolate an IMPACT color palette} +\usage{ +pal_impact( + palette = "main", + reverse = FALSE, + color_ramp_palette = FALSE, + show_palettes = FALSE, + ... +) +} +\arguments{ +\item{palette}{Character name of a palette in IMPACT palettes} + +\item{reverse}{Boolean indicating whether the palette should be reversed} + +\item{color_ramp_palette}{Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE`} + +\item{show_palettes}{Should the ouput be the set of palettes names to pick from? Default to `FALSE`} + +\item{...}{Additional arguments to pass to colorRampPalette()} +} +\value{ +A color palette +} +\description{ +Return function to interpolate an IMPACT color palette +} diff --git a/man/pal_reach.Rd b/man/pal_reach.Rd new file mode 100644 index 0000000..4d32f98 --- /dev/null +++ b/man/pal_reach.Rd @@ -0,0 +1,31 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/pal_reach.R +\name{pal_reach} +\alias{pal_reach} +\title{Return function to interpolate a REACH color palette} +\usage{ +pal_reach( + palette = "main", + reverse = FALSE, + color_ramp_palette = FALSE, + show_palettes = FALSE, + ... +) +} +\arguments{ +\item{palette}{Character name of a palette in REACH palettes} + +\item{reverse}{Boolean indicating whether the palette should be reversed} + +\item{color_ramp_palette}{Should the output be a `grDevices::colorRampPalette` function or a vector of hex codes? Default to the former with `TRUE`} + +\item{show_palettes}{Should the ouput be the set of palettes names to pick from? Default to `FALSE`} + +\item{...}{Additional arguments to pass to colorRampPalette()} +} +\value{ +A color palette +} +\description{ +Return function to interpolate a REACH color palette +} diff --git a/man/palette.Rd b/man/palette.Rd deleted file mode 100644 index c17f4b5..0000000 --- a/man/palette.Rd +++ /dev/null @@ -1,23 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/palette.R -\name{palette} -\alias{palette} -\title{Interpolate a color palette} -\usage{ -palette(palette = "cat_5_main", reverse = FALSE, show_palettes = FALSE, ...) -} -\arguments{ -\item{palette}{Character name of a palette in palettes} - -\item{reverse}{Boolean indicating whether the palette should be reversed} - -\item{show_palettes}{Should the ouput be the set of palettes names to pick from? Default to `FALSE`} - -\item{...}{Additional arguments to pass to colorRampPalette()} -} -\value{ -A color palette -} -\description{ -Interpolate a color palette -} diff --git a/man/palette_gen.Rd b/man/palette_gen.Rd deleted file mode 100644 index 1fe26c3..0000000 --- a/man/palette_gen.Rd +++ /dev/null @@ -1,26 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/palette_gen.R -\name{palette_gen} -\alias{palette_gen} -\alias{palette_gen_categorical} -\alias{palette_gen_sequential} -\title{Generate color palettes} -\usage{ -palette_gen(palette, type, direction = 1, ...) - -palette_gen_categorical(palette = "cat_5_main", direction = 1) - -palette_gen_sequential(palette = "cat_5_main", direction = 1, ...) -} -\arguments{ -\item{palette}{Palette name from [palette()].} - -\item{type}{"categorical" or "sequential" or "divergent".} - -\item{direction}{1 or -1; should the order of colors be reversed?} - -\item{...}{Additional arguments to pass to [colorRampPalette()] when type is "continuous".} -} -\description{ -[palette_gen()] generates a color palette and let you choose whether continuous or discrete. [palette_gen_categorical()] and [palette_gen_sequential()] generates respectively discrete and continuous palettes. -} diff --git a/man/point.Rd b/man/point.Rd index 843f93f..fd2d5d0 100644 --- a/man/point.Rd +++ b/man/point.Rd @@ -2,61 +2,35 @@ % Please edit documentation in R/point.R \name{point} \alias{point} -\title{Simple scatterplot} +\title{Simple point chart} \usage{ point( df, x, y, - group = "", - facet = "", - facet_scales = "free", - x_rm_na = TRUE, - y_rm_na = TRUE, - group_rm_na = TRUE, - facet_rm_na = TRUE, - add_color = color("cat_5_main_1"), - add_color_guide = TRUE, + group = NULL, flip = TRUE, alpha = 1, - size = 2, + size = 1, x_title = NULL, y_title = NULL, group_title = NULL, title = NULL, subtitle = NULL, caption = NULL, - theme_fun = theme_point(), - scale_fill_fun = scale_fill_visualizer_discrete(), - scale_color_fun = scale_color_visualizer_discrete() + theme = theme_reach() ) } \arguments{ \item{df}{A data frame.} -\item{x}{A quoted numeric column.} +\item{x}{A numeric column.} -\item{y}{A quoted numeric column.} +\item{y}{A character column or coercible as a character column.} -\item{group}{Some quoted grouping categorical column, e.g. administrative areas or population groups.} +\item{group}{Some grouping categorical column, e.g. administrative areas or population groups.} -\item{facet}{Some quoted grouping categorical column.} - -\item{facet_scales}{Character. Either "free" (default) or "fixed" for facet scales.} - -\item{x_rm_na}{Remove NAs in x?} - -\item{y_rm_na}{Remove NAs in y?} - -\item{group_rm_na}{Remove NAs in group?} - -\item{facet_rm_na}{Remove NAs in facet?} - -\item{add_color}{Add a color to points (if no grouping).} - -\item{add_color_guide}{Should a legend be added?} - -\item{flip}{TRUE or FALSE.} +\item{flip}{TRUE or FALSE. Default to TRUE or horizontal bar plot.} \item{alpha}{Fill transparency.} @@ -74,12 +48,11 @@ point( \item{caption}{Plot caption. Default to NULL.} -\item{theme_fun}{Whatever theme. Default to theme_point(). NULL if no theming needed.} - -\item{scale_fill_fun}{Scale fill function. Default to scale_fill_visualizer_discrete().} - -\item{scale_color_fun}{Scale color function. Default to scale_color_visualizer_discrete().} +\item{theme}{Whatever theme. Default to theme_reach().} +} +\value{ +A bar chart } \description{ -Simple scatterplot +Simple point chart } diff --git a/man/reorder_by.Rd b/man/reorder_by.Rd deleted file mode 100644 index aed3c01..0000000 --- a/man/reorder_by.Rd +++ /dev/null @@ -1,42 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/reorder_by.R -\name{reorder_by} -\alias{reorder_by} -\title{Reorder a Data Frame} -\usage{ -reorder_by(df, x, y, group = "", order = "y", dir_order = 1) -} -\arguments{ -\item{df}{A data frame to be reordered.} - -\item{x}{A character scalar specifying the column to be reordered.} - -\item{y}{A character scalar specifying the column to order by if ordering by values.} - -\item{group}{A character scalar specifying the grouping column (optional).} - -\item{order}{A character scalar specifying the order type (one of "none", "y", "grouped"). See details.} - -\item{dir_order}{A logical scalar specifying whether to flip the order.} -} -\value{ -The reordered data frame. -} -\description{ -Reorder a Data Frame -} -\details{ -Ordering takes the following possible values: - -* "none": No reordering. -* "y": Order by values of y. -* "grouped_y": Order by values of y and group. -* "x": Order alphabetically by x. -* "grouped_x": Order alphabetically by x and group. -} -\examples{ -# Example usage -df <- data.frame(col1 = c("b", "a", "c"), col2 = c(10, 25, 3)) -reorder_by(df, "col1", "col2") - -} diff --git a/man/scale_color.Rd b/man/scale_color.Rd new file mode 100644 index 0000000..ab17204 --- /dev/null +++ b/man/scale_color.Rd @@ -0,0 +1,35 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/scale.R +\name{scale_color} +\alias{scale_color} +\title{Color scale constructor for REACH or AGORA colors} +\usage{ +scale_color( + initiative = "reach", + palette = "main", + discrete = TRUE, + reverse = FALSE, + reverse_guide = TRUE, + ... +) +} +\arguments{ +\item{initiative}{Either "reach" or "agora" or "default".} + +\item{palette}{Palette name from `pal_reach()` or `pal_agora()`.} + +\item{discrete}{Boolean indicating whether color aesthetic is discrete or not.} + +\item{reverse}{Boolean indicating whether the palette should be reversed.} + +\item{reverse_guide}{Boolean indicating whether the guide should be reversed.} + +\item{...}{Additional arguments passed to discrete_scale() or +scale_fill_gradient(), used respectively when discrete is TRUE or FALSE.} +} +\value{ +A color scale for ggplot +} +\description{ +Color scale constructor for REACH or AGORA colors +} diff --git a/man/scale_color_visualizer_discrete.Rd b/man/scale_color_visualizer_discrete.Rd deleted file mode 100644 index 1e1be58..0000000 --- a/man/scale_color_visualizer_discrete.Rd +++ /dev/null @@ -1,55 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/scale.R -\name{scale_color_visualizer_discrete} -\alias{scale_color_visualizer_discrete} -\alias{scale_fill_visualizer_discrete} -\alias{scale_fill_visualizer_continuous} -\alias{scale_color_visualizer_continuous} -\title{Scale constructors for fill and colors} -\usage{ -scale_color_visualizer_discrete( - palette = "cat_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ... -) - -scale_fill_visualizer_discrete( - palette = "cat_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ... -) - -scale_fill_visualizer_continuous( - palette = "seq_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ... -) - -scale_color_visualizer_continuous( - palette = "seq_5_main", - direction = 1, - reverse_guide = TRUE, - title_position = NULL, - ... -) -} -\arguments{ -\item{palette}{Palette name from [palette()].} - -\item{direction}{1 or -1; should the order of colors be reversed?} - -\item{reverse_guide}{Boolean indicating whether the guide should be reversed.} - -\item{title_position}{Position of the title. See [ggplot2::guide_legend()]'s title.position argument.} - -\item{...}{Additional arguments passed to [ggplot2::discrete_scale()] if discrete or [ggplot2::scale_fill_gradient()] if continuous.} -} -\description{ -This function is based on [palette()]. If palette is NULL, the used palette will be magma from gpplot2's viridis scale constructors. -} diff --git a/man/scale_fill.Rd b/man/scale_fill.Rd new file mode 100644 index 0000000..95d3dc3 --- /dev/null +++ b/man/scale_fill.Rd @@ -0,0 +1,35 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/scale.R +\name{scale_fill} +\alias{scale_fill} +\title{Fill scale constructor for REACH or AGORA colors} +\usage{ +scale_fill( + initiative = "reach", + palette = "main", + discrete = TRUE, + reverse = FALSE, + reverse_guide = TRUE, + ... +) +} +\arguments{ +\item{initiative}{Either "reach" or "agora" or "default".} + +\item{palette}{Palette name from `pal_reach()` or `pal_agora()`.} + +\item{discrete}{Boolean indicating whether color aesthetic is discrete or not.} + +\item{reverse}{Boolean indicating whether the palette should be reversed.} + +\item{reverse_guide}{Boolean indicating whether the guide should be reversed.} + +\item{...}{Additional arguments passed to discrete_scale() or +scale_fill_gradient(), used respectively when discrete is TRUE or FALSE.} +} +\value{ +A fill scale for ggplot. +} +\description{ +Fill scale constructor for REACH or AGORA colors +} diff --git a/man/subvec_not_in.Rd b/man/subvec_not_in.Rd new file mode 100644 index 0000000..90d4d58 --- /dev/null +++ b/man/subvec_not_in.Rd @@ -0,0 +1,19 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/internals.R +\name{subvec_not_in} +\alias{subvec_not_in} +\title{Subvec not in} +\usage{ +subvec_not_in(vector, set) +} +\arguments{ +\item{vector}{A vector to subset} + +\item{set}{A set-vector} +} +\value{ +A subset of vector not in set +} +\description{ +Subvec not in +} diff --git a/man/theme_default.Rd b/man/theme_default.Rd deleted file mode 100644 index 7726fcc..0000000 --- a/man/theme_default.Rd +++ /dev/null @@ -1,269 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/theme_bar.R, R/theme_default.R, -% R/theme_dumbbell.R, R/theme_lollipop.R, R/theme_point.R -\name{theme_bar} -\alias{theme_bar} -\alias{theme_default} -\alias{theme_dumbbell} -\alias{theme_lollipop} -\alias{theme_point} -\title{Custom Theme for Bar Charts} -\usage{ -theme_bar( - flip = TRUE, - add_text = FALSE, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5 -) - -theme_default( - title_font_family = "Carlito", - title_size = 20, - title_color = color("dark_grey"), - title_font_face = "bold", - title_hjust = NULL, - title_position_to_plot = TRUE, - subtitle_font_family = "Carlito", - subtitle_size = 16, - subtitle_color = color("dark_grey"), - subtitle_font_face = "plain", - subtitle_hjust = NULL, - text_font_family = "Carlito", - text_size = 14, - text_color = color("dark_grey"), - text_font_face = "plain", - panel_background_color = "#FFFFFF", - panel_border = FALSE, - panel_border_color = color("dark_grey"), - legend_position = "top", - legend_direction = "horizontal", - legend_justification = "center", - legend_reverse = TRUE, - legend_title_size = 14, - legend_title_color = color("dark_grey"), - legend_title_font_face = "plain", - legend_title_font_family = "Carlito", - legend_text_size = 14, - legend_text_color = color("dark_grey"), - legend_text_font_face = "plain", - legend_text_font_family = "Carlito", - facet_size = 15, - facet_color = color("dark_grey"), - facet_font_face = "bold", - facet_font_family = "Carlito", - facet_bg_color = color("lighter_grey"), - axis_x = TRUE, - axis_y = TRUE, - axis_text_x = TRUE, - axis_line_x = FALSE, - axis_ticks_x = FALSE, - axis_text_y = TRUE, - axis_line_y = TRUE, - axis_ticks_y = TRUE, - axis_text_font_family = "Carlito", - axis_text_size = 14, - axis_text_color = color("dark_grey"), - axis_text_font_face = "plain", - axis_title_size = 15, - axis_title_color = color("dark_grey"), - axis_title_font_face = "plain", - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5, - grid_major_x = TRUE, - grid_major_y = FALSE, - grid_major_color = color("dark_grey"), - grid_major_x_size = 0.1, - grid_major_y_size = 0.1, - grid_minor_x = TRUE, - grid_minor_y = FALSE, - grid_minor_color = color("dark_grey"), - grid_minor_x_size = 0.05, - grid_minor_y_size = 0.05, - caption_font_family = "Carlito", - caption_font_face = "plain", - caption_position_to_plot = TRUE, - caption_size = 12, - caption_color = color("dark_grey"), - ... -) - -theme_dumbbell() - -theme_lollipop( - flip = TRUE, - axis_text_x_angle = 0, - axis_text_x_vjust = 0.5, - axis_text_x_hjust = 0.5 -) - -theme_point() -} -\arguments{ -\item{flip}{Logical. Whether the plot is flipped (horizontal).} - -\item{add_text}{TRUE or FALSE. Add values as text.} - -\item{axis_text_x_angle}{Angle for x-axis text.} - -\item{axis_text_x_vjust}{Vertical justification for x-axis text.} - -\item{axis_text_x_hjust}{Horizontal justification for x-axis text.} - -\item{title_font_family}{Title font family. Default to "Carlito".} - -\item{title_size}{The size of the title. Defaults to 12.} - -\item{title_color}{Title color.} - -\item{title_font_face}{Title font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{title_hjust}{Title horizontal justification. Default to NULL. Use 0.5 to center the title.} - -\item{title_position_to_plot}{TRUE or FALSE. Positioning to plot or to panel?} - -\item{subtitle_font_family}{Subtitle font family. Default to "Carlito".} - -\item{subtitle_size}{The size of the subtitle. Defaults to 10.} - -\item{subtitle_color}{Subtitle color.} - -\item{subtitle_font_face}{Subtitle font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{subtitle_hjust}{Subtitle horizontal justification. Default to NULL. Use 0.5 to center the subtitle.} - -\item{text_font_family}{Text font family. Default to "Carlito".} - -\item{text_size}{The size of all text other than the title, subtitle and caption. Defaults to 10.} - -\item{text_color}{Text color.} - -\item{text_font_face}{Text font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{panel_background_color}{The color for the panel background color. Default to white.} - -\item{panel_border}{Boolean. Plot a panel border? Default to FALSE.} - -\item{panel_border_color}{A color. Default to REACH main grey.} - -\item{legend_position}{Position of the legend; Default to "right". Can take "right", "left", "top", "bottom" or "none".} - -\item{legend_direction}{Direction of the legend. Default to "vertical". Can take "vertical" or "horizontal".} - -\item{legend_justification}{In addition to legend_direction, place the legend. Can take "left", "bottom", "center", "right", "top".} - -\item{legend_reverse}{Reverse the color in the guide? Default to TRUE.} - -\item{legend_title_size}{Legend title size.} - -\item{legend_title_color}{Legend title color.} - -\item{legend_title_font_face}{Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{legend_title_font_family}{Legend title font family. Default to "Carlito".} - -\item{legend_text_size}{Legend text size.} - -\item{legend_text_color}{Legend text color.} - -\item{legend_text_font_face}{Legend text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{legend_text_font_family}{Legend text font family. Default to "Carlito".} - -\item{facet_size}{Facet font size.} - -\item{facet_color}{Facet font color.} - -\item{facet_font_face}{Facet font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{facet_font_family}{Facet font family. Default to "Carlito".} - -\item{facet_bg_color}{Facet background color.} - -\item{axis_x}{Boolean. Do you need x-axis?} - -\item{axis_y}{Boolean. Do you need y-axis?} - -\item{axis_text_x}{Boolean. Do you need the text for the x-axis?} - -\item{axis_line_x}{Boolean. Do you need the line for the x-axis?} - -\item{axis_ticks_x}{Boolean. Do you need the line for the x-axis?} - -\item{axis_text_y}{Boolean. Do you need the text for the y-axis?} - -\item{axis_line_y}{Boolean. Do you need the line for the y-axis?} - -\item{axis_ticks_y}{Boolean. Do you need the line for the y-axis?} - -\item{axis_text_font_family}{Axis text font family. Default to "Carlito".} - -\item{axis_text_size}{Axis text size.} - -\item{axis_text_color}{Axis text color.} - -\item{axis_text_font_face}{Axis text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{axis_title_size}{Axis title size.} - -\item{axis_title_color}{Axis title color.} - -\item{axis_title_font_face}{Axis title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{grid_major_x}{Boolean. Do you need major grid lines for x-axis?} - -\item{grid_major_y}{Boolean. Do you need major grid lines for y-axis?} - -\item{grid_major_color}{Major grid lines color.} - -\item{grid_major_x_size}{Major X line size.} - -\item{grid_major_y_size}{Major Y line size.} - -\item{grid_minor_x}{Boolean. Do you need minor grid lines for x-axis?} - -\item{grid_minor_y}{Boolean. Do you need minor grid lines for y-axis?} - -\item{grid_minor_color}{Minor grid lines color.} - -\item{grid_minor_x_size}{Minor X line size.} - -\item{grid_minor_y_size}{Minor Y line size.} - -\item{caption_font_family}{Caption font family. Default to "Carlito".} - -\item{caption_font_face}{Caption font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} - -\item{caption_position_to_plot}{TRUE or FALSE. Positioning to plot or to panel?} - -\item{caption_size}{The size of the caption. Defaults to 10.} - -\item{caption_color}{Caption color.} - -\item{...}{Additional arguments passed to [ggplot2::theme()].} -} -\value{ -A custom theme object. - -A ggplot2 theme object - -A custom theme object. -} -\description{ -Give some reach colors and fonts to a ggplot. - -Theme for dumbbell charts based on theme_default. - -A custom theme specifically designed for lollipop charts with appropriate grid lines and axis styling -based on whether the chart is flipped (horizontal) or not. -} -\examples{ -\dontrun{ -library(ggplot2) -df <- data.frame(x = letters[1:5], y = c(10, 5, 7, 12, 8)) -ggplot(df, aes(x, y)) + - geom_point() + - theme_lollipop() -} -} diff --git a/man/theme_reach.Rd b/man/theme_reach.Rd new file mode 100644 index 0000000..8718dc6 --- /dev/null +++ b/man/theme_reach.Rd @@ -0,0 +1,160 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/theme_reach.R +\name{theme_reach} +\alias{theme_reach} +\title{ggplot2 theme with REACH color palettes} +\usage{ +theme_reach( + initiative = "reach", + palette = "main", + discrete = TRUE, + reverse = FALSE, + font_family = "Segoe UI", + title_size = 12, + title_color = cols_reach("main_grey"), + title_font_face = "bold", + title_hjust = NULL, + title_position_to_plot = TRUE, + text_size = 10, + text_color = cols_reach("main_grey"), + text_font_face = "plain", + panel_background_color = "#FFFFFF", + panel_border = FALSE, + panel_border_color = cols_reach("main_grey"), + legend_position = "right", + legend_direction = "vertical", + legend_reverse = TRUE, + legend_title_size = 11, + legend_title_color = cols_reach("main_grey"), + legend_title_font_face = "plain", + legend_text_size = 10, + legend_text_color = cols_reach("main_grey"), + legend_text_font_face = "plain", + axis_x = TRUE, + axis_y = TRUE, + axis_text_size = 10, + axis_text_color = cols_reach("main_grey"), + axis_text_font_face = "plain", + axis_title_size = 11, + axis_title_color = cols_reach("main_grey"), + axis_title_font_face = "bold", + axis_text_x_angle = 0, + axis_text_x_vjust = 0.5, + axis_text_x_hjust = 0.5, + grid_major_x = FALSE, + grid_major_y = FALSE, + grid_major_color = cols_reach("main_lt_grey"), + grid_major_x_size = 0.1, + grid_major_y_size = 0.1, + grid_minor_x = FALSE, + grid_minor_y = FALSE, + grid_minor_color = cols_reach("main_lt_grey"), + grid_minor_x_size = 0.05, + grid_minor_y_size = 0.05, + caption_position_to_plot = TRUE, + ... +) +} +\arguments{ +\item{initiative}{Either "reach" or "default".} + +\item{palette}{Palette name from 'pal_reach()'.} + +\item{discrete}{Boolean indicating whether color aesthetic is discrete or not.} + +\item{reverse}{Boolean indicating whether the palette should be reversed.} + +\item{font_family}{The font family for all plot's texts. Default to "Segoe UI".} + +\item{title_size}{The size of the legend title. Defaults to 11.} + +\item{title_color}{Legend title color.} + +\item{title_font_face}{Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{title_hjust}{Title horizontal justification. Default to NULL. Use 0.5 to center the title.} + +\item{title_position_to_plot}{TRUE or FALSE. Positioning to plot or to panel?} + +\item{text_size}{The size of all text other than the title, subtitle and caption. Defaults to 10.} + +\item{text_color}{Text color.} + +\item{text_font_face}{Text font face. Default to "bold". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{panel_background_color}{The color for the panel background color. Default to white.} + +\item{panel_border}{Boolean. Plot a panel border? Default to FALSE.} + +\item{panel_border_color}{A color. Default to REACH main grey.} + +\item{legend_position}{Position of the legend; Default to "right". Can take "right", "left", "top", "bottom" or "none".} + +\item{legend_direction}{Direction of the legend. Default to "vertical". Can take "vertical" or "horizontal".} + +\item{legend_reverse}{Reverse the color in the guide? Default to TRUE.} + +\item{legend_title_size}{Legend title size.} + +\item{legend_title_color}{Legend title color.} + +\item{legend_title_font_face}{Legend title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{legend_text_size}{Legend text size.} + +\item{legend_text_color}{Legend text color.} + +\item{legend_text_font_face}{Legend text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{axis_x}{Boolean. Do you need x-axis?} + +\item{axis_y}{Boolean. Do you need y-axis?} + +\item{axis_text_size}{Axis text size.} + +\item{axis_text_color}{Axis text color.} + +\item{axis_text_font_face}{Axis text font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{axis_title_size}{Axis title size.} + +\item{axis_title_color}{Axis title color.} + +\item{axis_title_font_face}{Axis title font face. Default to "plain". Font face ("plain", "italic", "bold", "bold.italic").} + +\item{axis_text_x_angle}{Angle for the x-axis text.} + +\item{axis_text_x_vjust}{Vertical adjustment for the x-axis text.} + +\item{axis_text_x_hjust}{Vertical adjustment for the x-axis text.} + +\item{grid_major_x}{Boolean. Do you need major grid lines for x-axis?} + +\item{grid_major_y}{Boolean. Do you need major grid lines for y-axis?} + +\item{grid_major_color}{Major grid lines color.} + +\item{grid_major_x_size}{Major X line size.} + +\item{grid_major_y_size}{Major Y line size.} + +\item{grid_minor_x}{Boolean. Do you need minor grid lines for x-axis?} + +\item{grid_minor_y}{Boolean. Do you need minor grid lines for y-axis?} + +\item{grid_minor_color}{Minor grid lines color.} + +\item{grid_minor_x_size}{Minor X line size.} + +\item{grid_minor_y_size}{Minor Y line size.} + +\item{caption_position_to_plot}{TRUE or FALSE. Positioning to plot or to panel?} + +\item{...}{Additional arguments passed to `ggplot2::gg_theme()`.} +} +\value{ +The base REACH theme +} +\description{ +Give some reach colors and fonts to a ggplot. +} diff --git a/man/waffle.Rd b/man/waffle.Rd new file mode 100644 index 0000000..a46d9aa --- /dev/null +++ b/man/waffle.Rd @@ -0,0 +1,53 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/waffle.R +\name{waffle} +\alias{waffle} +\title{Simple waffle chart} +\usage{ +waffle( + df, + x, + y, + n_rows = 10, + size = 2, + x_title = NULL, + x_lab = NULL, + title = NULL, + subtitle = NULL, + caption = NULL, + arrange = TRUE, + theme = theme_reach(axis_x = FALSE, axis_y = FALSE, legend_position = "bottom", + legend_direction = "horizontal", title_hjust = 0.5) +) +} +\arguments{ +\item{df}{A data frame.} + +\item{x}{A character column or coercible as a character column. Will give the waffle's fill color.} + +\item{y}{A numeric column (if plotting proportion, make sure to have percentages between 0 and 100 and not 0 and 1).} + +\item{n_rows}{Number of rows. Default to 10.} + +\item{size}{Width of the separator between blocks (defaults to 2).} + +\item{x_title}{The x scale title. Default to NULL.} + +\item{x_lab}{The x scale caption. Default to NULL.} + +\item{title}{Plot title. Default to NULL.} + +\item{subtitle}{Plot subtitle. Default to NULL.} + +\item{caption}{Plot caption. Default to NULL.} + +\item{arrange}{TRUE or FALSE. Arrange by highest percentage first.} + +\item{theme}{Whatever theme. Default to theme_reach().} +} +\value{ +A waffle chart +} +\description{ +Simple waffle chart +} diff --git a/renv.lock b/renv.lock deleted file mode 100644 index 5479592..0000000 --- a/renv.lock +++ /dev/null @@ -1,4788 +0,0 @@ -{ - "R": { - "Version": "4.5.1", - "Repositories": [ - { - "Name": "CRAN", - "URL": "https://p3m.dev/cran/latest" - } - ] - }, - "Packages": { - "DT": { - "Package": "DT", - "Version": "0.33", - "Source": "Repository", - "Type": "Package", - "Title": "A Wrapper of the JavaScript Library 'DataTables'", - "Authors@R": "c( person(\"Yihui\", \"Xie\", role = \"aut\"), person(\"Joe\", \"Cheng\", email = \"joe@posit.co\", role = c(\"aut\", \"cre\")), person(\"Xianying\", \"Tan\", role = \"aut\"), person(\"JJ\", \"Allaire\", role = \"ctb\"), person(\"Maximilian\", \"Girlich\", role = \"ctb\"), person(\"Greg\", \"Freedman Ellis\", role = \"ctb\"), person(\"Johannes\", \"Rauh\", role = \"ctb\"), person(\"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables in htmlwidgets/lib\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js in htmlwidgets/lib\"), person(\"Leon\", \"Gersen\", role = c(\"ctb\", \"cph\"), comment = \"noUiSlider in htmlwidgets/lib\"), person(\"Bartek\", \"Szopka\", role = c(\"ctb\", \"cph\"), comment = \"jquery.highlight.js in htmlwidgets/lib\"), person(\"Alex\", \"Pickering\", role = c(\"ctb\")), person(\"William\", \"Holmes\", role = c(\"ctb\")), person(\"Mikko\", \"Marttila\", role = c(\"ctb\")), person(\"Andres\", \"Quintero\", role = c(\"ctb\")), person(\"Stéphane\", \"Laurent\", role = c(\"ctb\")), person(given = \"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", - "Description": "Data objects in R can be rendered as HTML tables using the JavaScript library 'DataTables' (typically via R Markdown or Shiny). 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[cph] (libuv subcomponent: inet_pton and inet_ntop, contained in src/libuv/src/inet.c), Alexander Chemeris [cph] (libuv subcomponent: stdint-msvc2008.h (from msinttypes)), Google, Inc. [cph] (libuv subcomponent: pthread-fixes.c), Sony Mobile Communcations AB [cph] (libuv subcomponent: pthread-fixes.c), Berkeley Software Design Inc. [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Kenneth MacKay [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Emergya (Cloud4all, FP7/2007-2013, grant agreement no 289016) [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Steve Reid [aut] (SHA-1 implementation), James Brown [aut] (SHA-1 implementation), Bob Trower [aut] (base64 implementation), Alexander Peslyak [aut] (MD5 implementation), Trantor Standard Systems [cph] (base64 implementation), Igor Sysoev [cph] (http-parser)", - "Maintainer": "Winston Chang ", - "Repository": "RSPM", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_24" - }, - "httr2": { - "Package": "httr2", - "Version": "1.1.2", - "Source": "Repository", - "Title": "Perform HTTP Requests and Process the Responses", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(\"Maximilian\", \"Girlich\", role = \"ctb\") )", - "Description": "Tools for creating and modifying HTTP requests, then performing them and processing the results. 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Wilke [aut] (Original author, ), Thomas Lin Pedersen [aut] ()", - "Maintainer": "Hadley Wickham ", - "Repository": "RSPM", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_24" - }, - "jpeg": { - "Package": "jpeg", - "Version": "0.1-11", - "Source": "Repository", - "Title": "Read and write JPEG images", - "Author": "Simon Urbanek [aut, cre, cph] (https://urbanek.org, )", - "Authors@R": "person(\"Simon\", \"Urbanek\", role=c(\"aut\",\"cre\",\"cph\"), email=\"Simon.Urbanek@r-project.org\", comment=c(\"https://urbanek.org\", ORCID=\"0000-0003-2297-1732\"))", - "Maintainer": "Simon Urbanek ", - "Depends": [ - "R (>= 2.9.0)" - ], - "Description": "This package provides an easy and simple way to read, write and display bitmap images stored in the JPEG format. It can read and write both files and in-memory raw vectors.", - "License": "GPL-2 | GPL-3", - "SystemRequirements": "libjpeg", - "URL": "https://www.rforge.net/jpeg/", - "BugReports": "https://github.com/s-u/jpeg/issues", - "NeedsCompilation": "yes", - "Repository": "CRAN", - "Encoding": "UTF-8", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_17" - }, - "jquerylib": { - "Package": "jquerylib", - "Version": "0.1.4", - "Source": "Repository", - "Title": "Obtain 'jQuery' as an HTML Dependency Object", - "Authors@R": "c( person(\"Carson\", \"Sievert\", role = c(\"aut\", \"cre\"), email = \"carson@rstudio.com\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Joe\", \"Cheng\", role = \"aut\", email = \"joe@rstudio.com\"), person(family = \"RStudio\", role = \"cph\"), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/lib/jquery-AUTHORS.txt\") )", - "Description": "Obtain any major version of 'jQuery' () and use it in any webpage generated by 'htmltools' (e.g. 'shiny', 'htmlwidgets', and 'rmarkdown'). 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The function rst2pdf() requires rst2pdf (https://github.com/rst2pdf/rst2pdf).", - "Collate": "'block.R' 'cache.R' 'citation.R' 'hooks-html.R' 'plot.R' 'utils.R' 'defaults.R' 'concordance.R' 'engine.R' 'highlight.R' 'themes.R' 'header.R' 'hooks-asciidoc.R' 'hooks-chunk.R' 'hooks-extra.R' 'hooks-latex.R' 'hooks-md.R' 'hooks-rst.R' 'hooks-textile.R' 'hooks.R' 'output.R' 'package.R' 'pandoc.R' 'params.R' 'parser.R' 'pattern.R' 'rocco.R' 'spin.R' 'table.R' 'template.R' 'utils-conversion.R' 'utils-rd2html.R' 'utils-string.R' 'utils-sweave.R' 'utils-upload.R' 'utils-vignettes.R' 'zzz.R'", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Yihui Xie [aut, cre] (, https://yihui.org), Abhraneel Sarma [ctb], Adam Vogt [ctb], Alastair Andrew [ctb], Alex Zvoleff [ctb], Amar Al-Zubaidi [ctb], Andre Simon [ctb] (the CSS files under inst/themes/ were derived from the Highlight package http://www.andre-simon.de), Aron Atkins [ctb], Aaron Wolen [ctb], Ashley Manton [ctb], Atsushi Yasumoto [ctb] (), Ben Baumer [ctb], Brian Diggs [ctb], Brian Zhang [ctb], Bulat Yapparov [ctb], Cassio Pereira [ctb], Christophe Dervieux [ctb], David Hall [ctb], David Hugh-Jones [ctb], David Robinson [ctb], Doug Hemken [ctb], Duncan Murdoch [ctb], Elio Campitelli [ctb], Ellis Hughes [ctb], Emily Riederer [ctb], Fabian Hirschmann [ctb], Fitch Simeon [ctb], Forest Fang [ctb], Frank E Harrell Jr [ctb] (the Sweavel package at inst/misc/Sweavel.sty), Garrick Aden-Buie [ctb], Gregoire Detrez [ctb], Hadley Wickham [ctb], Hao Zhu [ctb], Heewon Jeon [ctb], Henrik Bengtsson [ctb], Hiroaki Yutani [ctb], Ian Lyttle [ctb], Hodges Daniel [ctb], Jacob Bien [ctb], Jake Burkhead [ctb], James Manton [ctb], Jared Lander [ctb], Jason Punyon [ctb], Javier Luraschi [ctb], Jeff Arnold [ctb], Jenny Bryan [ctb], Jeremy Ashkenas [ctb, cph] (the CSS file at inst/misc/docco-classic.css), Jeremy Stephens [ctb], Jim Hester [ctb], Joe Cheng [ctb], Johannes Ranke [ctb], John Honaker [ctb], John Muschelli [ctb], Jonathan Keane [ctb], JJ Allaire [ctb], Johan Toloe [ctb], Jonathan Sidi [ctb], Joseph Larmarange [ctb], Julien Barnier [ctb], Kaiyin Zhong [ctb], Kamil Slowikowski [ctb], Karl Forner [ctb], Kevin K. 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Supports RSA, DSA and EC curves P-256, P-384, P-521, and curve25519. Cryptographic signatures can either be created and verified manually or via x509 certificates. AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public key) encryption or EC for Diffie Hellman. High-level envelope functions combine RSA and AES for encrypting arbitrary sized data. Other utilities include key generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random number generator, and 'bignum' math methods for manually performing crypto calculations on large multibyte integers.", - "License": "MIT + file LICENSE", - "URL": "https://jeroen.r-universe.dev/openssl", - "BugReports": "https://github.com/jeroen/openssl/issues", - "SystemRequirements": "OpenSSL >= 1.0.2", - "VignetteBuilder": "knitr", - "Imports": [ - "askpass" - ], - "Suggests": [ - "curl", - "testthat (>= 2.1.0)", - "digest", - "knitr", - "rmarkdown", - "jsonlite", - "jose", - "sodium" - ], - "RoxygenNote": "7.3.2", - "Encoding": "UTF-8", - "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Oliver Keyes [ctb]", - "Maintainer": "Jeroen Ooms ", - "Repository": "RSPM", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_17" - }, - "palmerpenguins": { - "Package": "palmerpenguins", - "Version": "0.1.1", - "Source": "Repository", - "Title": "Palmer Archipelago (Antarctica) Penguin Data", - "Date": "2022-08-12", - "Authors@R": "c( person(given = \"Allison\", family = \"Horst\", role = c(\"aut\", \"cre\"), email = \"ahorst@ucsb.edu\", comment = c(ORCID = \"0000-0002-6047-5564\")), person(given = \"Alison\", family = \"Hill\", role = c(\"aut\"), email = \"apresstats@gmail.com\", comment = c(ORCID = \"0000-0002-8082-1890\")), person(given = \"Kristen\", family = \"Gorman\", role = c(\"aut\"), email = \"kbgorman@alaska.edu\", comment = c(ORCID = \"0000-0002-0258-9264\")) )", - "Description": "Size measurements, clutch observations, and blood isotope ratios for adult foraging Adélie, Chinstrap, and Gentoo penguins observed on islands in the Palmer Archipelago near Palmer Station, Antarctica. Data were collected and made available by Dr. Kristen Gorman and the Palmer Station Long Term Ecological Research (LTER) Program.", - "License": "CC0", - "Encoding": "UTF-8", - "LazyData": "true", - "RoxygenNote": "7.2.1.9000", - "Depends": [ - "R (>= 2.10)" - ], - "Suggests": [ - "knitr", - "rmarkdown", - "tibble", - "ggplot2", - "dplyr", - "tidyr", - "recipes" - ], - "URL": "https://allisonhorst.github.io/palmerpenguins/, https://github.com/allisonhorst/palmerpenguins", - "BugReports": "https://github.com/allisonhorst/palmerpenguins/issues", - "NeedsCompilation": "no", - "Author": "Allison Horst [aut, cre] (), Alison Hill [aut] (), Kristen Gorman [aut] ()", - "Maintainer": "Allison Horst ", - "Repository": "CRAN" - }, - "pillar": { - "Package": "pillar", - "Version": "1.10.2", - "Source": "Repository", - "Title": "Coloured Formatting for Columns", - "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\"), person(given = \"RStudio\", role = \"cph\"))", - "Description": "Provides 'pillar' and 'colonnade' generics designed for formatting columns of data using the full range of colours provided by modern terminals.", - "License": "MIT + file LICENSE", - "URL": "https://pillar.r-lib.org/, https://github.com/r-lib/pillar", - "BugReports": "https://github.com/r-lib/pillar/issues", - "Imports": [ - "cli (>= 2.3.0)", - "glue", - "lifecycle", - "rlang (>= 1.0.2)", - "utf8 (>= 1.1.0)", - "utils", - "vctrs (>= 0.5.0)" - ], - "Suggests": [ - "bit64", - "DBI", - "debugme", - "DiagrammeR", - "dplyr", - "formattable", - "ggplot2", - "knitr", - "lubridate", - "nanotime", - "nycflights13", - "palmerpenguins", - "rmarkdown", - "scales", - "stringi", - "survival", - "testthat (>= 3.1.1)", - "tibble", - "units (>= 0.7.2)", - "vdiffr", - "withr" - ], - "VignetteBuilder": "knitr", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.2.9000", - "Config/testthat/edition": "3", - "Config/testthat/parallel": "true", - "Config/testthat/start-first": "format_multi_fuzz, format_multi_fuzz_2, format_multi, ctl_colonnade, ctl_colonnade_1, ctl_colonnade_2", - "Config/autostyle/scope": "line_breaks", - "Config/autostyle/strict": "true", - "Config/gha/extra-packages": "units=?ignore-before-r=4.3.0", - "Config/Needs/website": "tidyverse/tidytemplate", - "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], RStudio [cph]", - "Maintainer": "Kirill Müller ", - "Repository": "RSPM" - }, - "pkgbuild": { - "Package": "pkgbuild", - "Version": "1.4.8", - "Source": "Repository", - "Title": "Find Tools Needed to Build R Packages", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", role = \"aut\"), person(\"Jim\", \"Hester\", role = \"aut\"), person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", - "Description": "Provides functions used to build R packages. Locates compilers needed to build R packages on various platforms and ensures the PATH is configured appropriately so R can use them.", - "License": "MIT + file LICENSE", - "URL": "https://github.com/r-lib/pkgbuild, https://pkgbuild.r-lib.org", - "BugReports": "https://github.com/r-lib/pkgbuild/issues", - "Depends": [ - "R (>= 3.5)" - ], - "Imports": [ - "callr (>= 3.2.0)", - "cli (>= 3.4.0)", - "desc", - "processx", - "R6" - ], - "Suggests": [ - "covr", - "cpp11", - "knitr", - "Rcpp", - "rmarkdown", - "testthat (>= 3.2.0)", - "withr (>= 2.3.0)" - ], - "Config/Needs/website": "tidyverse/tidytemplate", - "Config/testthat/edition": "3", - "Config/usethis/last-upkeep": "2025-04-30", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut], Jim Hester [aut], Gábor Csárdi [aut, cre], Posit Software, PBC [cph, fnd] (ROR: )", - "Maintainer": "Gábor Csárdi ", - "Repository": "RSPM" - }, - "pkgconfig": { - "Package": "pkgconfig", - "Version": "2.0.3", - "Source": "Repository", - "Title": "Private Configuration for 'R' Packages", - "Author": "Gábor Csárdi", - "Maintainer": "Gábor Csárdi ", - "Description": "Set configuration options on a per-package basis. Options set by a given package only apply to that package, other packages are unaffected.", - "License": "MIT + file LICENSE", - "LazyData": "true", - "Imports": [ - "utils" - ], - "Suggests": [ - "covr", - "testthat", - "disposables (>= 1.0.3)" - ], - "URL": "https://github.com/r-lib/pkgconfig#readme", - "BugReports": "https://github.com/r-lib/pkgconfig/issues", - "Encoding": "UTF-8", - "NeedsCompilation": "no", - "Repository": "RSPM" - }, - "pkgdown": { - "Package": "pkgdown", - "Version": "2.1.3", - "Source": "Repository", - "Title": "Make Static HTML Documentation for a Package", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Jay\", \"Hesselberth\", role = \"aut\", comment = c(ORCID = \"0000-0002-6299-179X\")), person(\"Maëlle\", \"Salmon\", role = \"aut\", comment = c(ORCID = \"0000-0002-2815-0399\")), person(\"Olivier\", \"Roy\", role = \"aut\"), person(\"Salim\", \"Brüggemann\", role = \"aut\", comment = c(ORCID = \"0000-0002-5329-5987\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", - "Description": "Generate an attractive and useful website from a source package. 'pkgdown' converts your documentation, vignettes, 'README', and more to 'HTML' making it easy to share information about your package online.", - "License": "MIT + file LICENSE", - "URL": "https://pkgdown.r-lib.org/, https://github.com/r-lib/pkgdown", - "BugReports": "https://github.com/r-lib/pkgdown/issues", - "Depends": [ - "R (>= 4.0.0)" - ], - "Imports": [ - "bslib (>= 0.5.1)", - "callr (>= 3.7.3)", - "cli (>= 3.6.1)", - "desc (>= 1.4.0)", - "downlit (>= 0.4.4)", - "fontawesome", - "fs (>= 1.4.0)", - "httr2 (>= 1.0.2)", - "jsonlite", - "openssl", - "purrr (>= 1.0.0)", - "ragg (>= 1.4.0)", - "rlang (>= 1.1.4)", - "rmarkdown (>= 2.27)", - "tibble", - "whisker", - "withr (>= 2.4.3)", - "xml2 (>= 1.3.1)", - "yaml" - ], - "Suggests": [ - "covr", - "diffviewer", - "evaluate (>= 0.24.0)", - "gert", - "gt", - "htmltools", - "htmlwidgets", - "knitr (>= 1.50)", - "lifecycle", - "magick", - "methods", - "pkgload (>= 1.0.2)", - "quarto", - "rsconnect", - "rstudioapi", - "rticles", - "sass", - "testthat (>= 3.1.3)", - "tools" - ], - "VignetteBuilder": "knitr, quarto", - "Config/Needs/website": "usethis, servr", - "Config/potools/style": "explicit", - "Config/testthat/edition": "3", - "Config/testthat/parallel": "true", - "Config/testthat/start-first": "build-article, build-quarto-article, build-reference", - "Encoding": "UTF-8", - "SystemRequirements": "pandoc", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut, cre] (ORCID: ), Jay Hesselberth [aut] (ORCID: ), Maëlle Salmon [aut] (ORCID: ), Olivier Roy [aut], Salim Brüggemann [aut] (ORCID: ), Posit Software, PBC [cph, fnd] (ROR: )", - "Maintainer": "Hadley Wickham ", - "Repository": "CRAN" - }, - "pkgload": { - "Package": "pkgload", - "Version": "1.4.0", - "Source": "Repository", - "Title": "Simulate Package Installation and Attach", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", role = \"aut\"), person(\"Winston\", \"Chang\", role = \"aut\"), person(\"Jim\", \"Hester\", role = \"aut\"), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(\"R Core team\", role = \"ctb\", comment = \"Some namespace and vignette code extracted from base R\") )", - "Description": "Simulates the process of installing a package and then attaching it. This is a key part of the 'devtools' package as it allows you to rapidly iterate while developing a package.", - "License": "GPL-3", - "URL": "https://github.com/r-lib/pkgload, https://pkgload.r-lib.org", - "BugReports": "https://github.com/r-lib/pkgload/issues", - "Depends": [ - "R (>= 3.4.0)" - ], - "Imports": [ - "cli (>= 3.3.0)", - "desc", - "fs", - "glue", - "lifecycle", - "methods", - "pkgbuild", - "processx", - "rlang (>= 1.1.1)", - "rprojroot", - "utils", - "withr (>= 2.4.3)" - ], - "Suggests": [ - "bitops", - "jsonlite", - "mathjaxr", - "pak", - "Rcpp", - "remotes", - "rstudioapi", - "testthat (>= 3.2.1.1)", - "usethis" - ], - "Config/Needs/website": "tidyverse/tidytemplate, ggplot2", - "Config/testthat/edition": "3", - "Config/testthat/parallel": "TRUE", - "Config/testthat/start-first": "dll", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.1", - "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut], Winston Chang [aut], Jim Hester [aut], Lionel Henry [aut, cre], Posit Software, PBC [cph, fnd], R Core team [ctb] (Some namespace and vignette code extracted from base R)", - "Maintainer": "Lionel Henry ", - "Repository": "RSPM" - }, - "plyr": { - "Package": "plyr", - "Version": "1.8.9", - "Source": "Repository", - "Title": "Tools for Splitting, Applying and Combining Data", - "Authors@R": "person(\"Hadley\", \"Wickham\", , \"hadley@rstudio.com\", role = c(\"aut\", \"cre\"))", - "Description": "A set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each piece and then put all the pieces back together. For example, you might want to fit a model to each spatial location or time point in your study, summarise data by panels or collapse high-dimensional arrays to simpler summary statistics. The development of 'plyr' has been generously supported by 'Becton Dickinson'.", - "License": "MIT + file LICENSE", - "URL": "http://had.co.nz/plyr, https://github.com/hadley/plyr", - "BugReports": "https://github.com/hadley/plyr/issues", - "Depends": [ - "R (>= 3.1.0)" - ], - "Imports": [ - "Rcpp (>= 0.11.0)" - ], - "Suggests": [ - "abind", - "covr", - "doParallel", - "foreach", - "iterators", - "itertools", - "tcltk", - "testthat" - ], - "LinkingTo": [ - "Rcpp" - ], - "Encoding": "UTF-8", - "LazyData": "true", - "RoxygenNote": "7.2.3", - "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre]", - "Maintainer": "Hadley Wickham ", - "Repository": "CRAN", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_24" - }, - "png": { - "Package": "png", - "Version": "0.1-8", - "Source": "Repository", - "Title": "Read and write PNG images", - "Author": "Simon Urbanek ", - "Maintainer": "Simon Urbanek ", - "Depends": [ - "R (>= 2.9.0)" - ], - "Description": "This package provides an easy and simple way to read, write and display bitmap images stored in the PNG format. It can read and write both files and in-memory raw vectors.", - "License": "GPL-2 | GPL-3", - "SystemRequirements": "libpng", - "URL": "http://www.rforge.net/png/", - "NeedsCompilation": "yes", - "Repository": "CRAN", - "Encoding": "UTF-8", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_27" - }, - "praise": { - "Package": "praise", - "Version": "1.0.0", - "Source": "Repository", - "Title": "Praise Users", - "Author": "Gabor Csardi, Sindre Sorhus", - "Maintainer": "Gabor Csardi ", - "Description": "Build friendly R packages that praise their users if they have done something good, or they just need it to feel better.", - "License": "MIT + file LICENSE", - "LazyData": "true", - "URL": "https://github.com/gaborcsardi/praise", - "BugReports": "https://github.com/gaborcsardi/praise/issues", - "Suggests": [ - "testthat" - ], - "Collate": "'adjective.R' 'adverb.R' 'exclamation.R' 'verb.R' 'rpackage.R' 'package.R'", - "NeedsCompilation": "no", - "Repository": "RSPM", - "Encoding": "UTF-8" - }, - "prettyunits": { - "Package": "prettyunits", - "Version": "1.2.0", - "Source": "Repository", - "Title": "Pretty, Human Readable Formatting of Quantities", - "Authors@R": "c( person(\"Gabor\", \"Csardi\", email=\"csardi.gabor@gmail.com\", role=c(\"aut\", \"cre\")), person(\"Bill\", \"Denney\", email=\"wdenney@humanpredictions.com\", role=c(\"ctb\"), comment=c(ORCID=\"0000-0002-5759-428X\")), person(\"Christophe\", \"Regouby\", email=\"christophe.regouby@free.fr\", role=c(\"ctb\")) )", - "Description": "Pretty, human readable formatting of quantities. Time intervals: '1337000' -> '15d 11h 23m 20s'. Vague time intervals: '2674000' -> 'about a month ago'. Bytes: '1337' -> '1.34 kB'. Rounding: '99' with 3 significant digits -> '99.0' p-values: '0.00001' -> '<0.0001'. Colors: '#FF0000' -> 'red'. Quantities: '1239437' -> '1.24 M'.", - "License": "MIT + file LICENSE", - "URL": "https://github.com/r-lib/prettyunits", - "BugReports": "https://github.com/r-lib/prettyunits/issues", - "Depends": [ - "R(>= 2.10)" - ], - "Suggests": [ - "codetools", - "covr", - "testthat" - ], - "RoxygenNote": "7.2.3", - "Encoding": "UTF-8", - "NeedsCompilation": "no", - "Author": "Gabor Csardi [aut, cre], Bill Denney [ctb] (), Christophe Regouby [ctb]", - "Maintainer": "Gabor Csardi ", - "Repository": "RSPM" - }, - "processx": { - "Package": "processx", - "Version": "3.8.6", - "Source": "Repository", - "Title": "Execute and Control System Processes", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\", \"cph\"), comment = c(ORCID = \"0000-0001-7098-9676\")), person(\"Winston\", \"Chang\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(\"Ascent Digital Services\", role = c(\"cph\", \"fnd\")) )", - "Description": "Tools to run system processes in the background. It can check if a background process is running; wait on a background process to finish; get the exit status of finished processes; kill background processes. It can read the standard output and error of the processes, using non-blocking connections. 'processx' can poll a process for standard output or error, with a timeout. It can also poll several processes at once.", - "License": "MIT + file LICENSE", - "URL": "https://processx.r-lib.org, https://github.com/r-lib/processx", - "BugReports": "https://github.com/r-lib/processx/issues", - "Depends": [ - "R (>= 3.4.0)" - ], - "Imports": [ - "ps (>= 1.2.0)", - "R6", - "utils" - ], - "Suggests": [ - "callr (>= 3.7.3)", - "cli (>= 3.3.0)", - "codetools", - "covr", - "curl", - "debugme", - "parallel", - "rlang (>= 1.0.2)", - "testthat (>= 3.0.0)", - "webfakes", - "withr" - ], - "Config/Needs/website": "tidyverse/tidytemplate", - "Config/testthat/edition": "3", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.1.9000", - "NeedsCompilation": "yes", - "Author": "Gábor Csárdi [aut, cre, cph] (), Winston Chang [aut], Posit Software, PBC [cph, fnd], Ascent Digital Services [cph, fnd]", - "Maintainer": "Gábor Csárdi ", - "Repository": "RSPM", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_17" - }, - "progress": { - "Package": "progress", - "Version": "1.2.3", - "Source": "Repository", - "Title": "Terminal Progress Bars", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Rich\", \"FitzJohn\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", - "Description": "Configurable Progress bars, they may include percentage, elapsed time, and/or the estimated completion time. They work in terminals, in 'Emacs' 'ESS', 'RStudio', 'Windows' 'Rgui' and the 'macOS' 'R.app'. 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This is the 'lite' version of the 'viridis' package that also contains 'ggplot2' bindings for discrete and continuous color and fill scales and can be found at .", - "License": "MIT + file LICENSE", - "Encoding": "UTF-8", - "Depends": [ - "R (>= 2.10)" - ], - "Suggests": [ - "hexbin (>= 1.27.0)", - "ggplot2 (>= 1.0.1)", - "testthat", - "covr" - ], - "URL": "https://sjmgarnier.github.io/viridisLite/, https://github.com/sjmgarnier/viridisLite/", - "BugReports": "https://github.com/sjmgarnier/viridisLite/issues/", - "RoxygenNote": "7.2.3", - "NeedsCompilation": "no", - "Author": "Simon Garnier [aut, cre], Noam Ross [ctb, cph], Bob Rudis [ctb, cph], Marco Sciaini [ctb, cph], Antônio Pedro Camargo [ctb, cph], Cédric Scherer [ctb, cph]", - "Repository": "RSPM" - }, - "vroom": { - "Package": "vroom", - "Version": "1.6.5", - "Source": "Repository", - "Title": "Read and Write Rectangular Text Data Quickly", - "Authors@R": "c( person(\"Jim\", \"Hester\", role = \"aut\", comment = c(ORCID = \"0000-0002-2739-7082\")), person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Jennifer\", \"Bryan\", , \"jenny@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-6983-2759\")), person(\"Shelby\", \"Bearrows\", role = \"ctb\"), person(\"https://github.com/mandreyel/\", role = \"cph\", comment = \"mio library\"), person(\"Jukka\", \"Jylänki\", role = \"cph\", comment = \"grisu3 implementation\"), person(\"Mikkel\", \"Jørgensen\", role = \"cph\", comment = \"grisu3 implementation\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", - "Description": "The goal of 'vroom' is to read and write data (like 'csv', 'tsv' and 'fwf') quickly. 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Also supports XML schema validation; for 'XSLT' transformations see the 'xslt' package.", - "License": "MIT + file LICENSE", - "URL": "https://xml2.r-lib.org, https://r-lib.r-universe.dev/xml2", - "BugReports": "https://github.com/r-lib/xml2/issues", - "Depends": [ - "R (>= 3.6.0)" - ], - "Imports": [ - "cli", - "methods", - "rlang (>= 1.1.0)" - ], - "Suggests": [ - "covr", - "curl", - "httr", - "knitr", - "magrittr", - "mockery", - "rmarkdown", - "testthat (>= 3.2.0)", - "xslt" - ], - "VignetteBuilder": "knitr", - "Config/Needs/website": "tidyverse/tidytemplate", - "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", - "SystemRequirements": "libxml2: libxml2-dev (deb), libxml2-devel (rpm)", - "Collate": "'S4.R' 'as_list.R' 'xml_parse.R' 'as_xml_document.R' 'classes.R' 'format.R' 'import-standalone-obj-type.R' 'import-standalone-purrr.R' 'import-standalone-types-check.R' 'init.R' 'nodeset_apply.R' 'paths.R' 'utils.R' 'xml2-package.R' 'xml_attr.R' 'xml_children.R' 'xml_document.R' 'xml_find.R' 'xml_missing.R' 'xml_modify.R' 'xml_name.R' 'xml_namespaces.R' 'xml_node.R' 'xml_nodeset.R' 'xml_path.R' 'xml_schema.R' 'xml_serialize.R' 'xml_structure.R' 'xml_text.R' 'xml_type.R' 'xml_url.R' 'xml_write.R' 'zzz.R'", - "Config/testthat/edition": "3", - "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut], Jim Hester [aut], Jeroen Ooms [aut, cre], Posit Software, PBC [cph, fnd], R Foundation [ctb] (Copy of R-project homepage cached as example)", - "Maintainer": "Jeroen Ooms ", - "Repository": "RSPM", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_28" - }, - "yaml": { - "Package": "yaml", - "Version": "2.3.10", - "Source": "Repository", - "Type": "Package", - "Title": "Methods to Convert R Data to YAML and Back", - "Date": "2024-07-22", - "Suggests": [ - "RUnit" - ], - "Author": "Shawn P Garbett [aut], Jeremy Stephens [aut, cre], Kirill Simonov [aut], Yihui Xie [ctb], Zhuoer Dong [ctb], Hadley Wickham [ctb], Jeffrey Horner [ctb], reikoch [ctb], Will Beasley [ctb], Brendan O'Connor [ctb], Gregory R. Warnes [ctb], Michael Quinn [ctb], Zhian N. Kamvar [ctb], Charlie Gao [ctb]", - "Maintainer": "Shawn Garbett ", - "License": "BSD_3_clause + file LICENSE", - "Description": "Implements the 'libyaml' 'YAML' 1.1 parser and emitter () for R.", - "URL": "https://github.com/vubiostat/r-yaml/", - "BugReports": "https://github.com/vubiostat/r-yaml/issues", - "NeedsCompilation": "yes", - "Repository": "RSPM", - "Encoding": "UTF-8", - "Platform": "x86_64-pc-linux-gnu-manylinux_2_17" - } - } -} diff --git a/renv/.gitignore b/renv/.gitignore deleted file mode 100644 index 0ec0cbb..0000000 --- a/renv/.gitignore +++ /dev/null @@ -1,7 +0,0 @@ -library/ -local/ -cellar/ -lock/ -python/ -sandbox/ -staging/ diff --git a/renv/activate.R b/renv/activate.R deleted file mode 100644 index 90b251c..0000000 --- a/renv/activate.R +++ /dev/null @@ -1,1334 +0,0 @@ - -local({ - - # the requested version of renv - version <- "1.1.4" - attr(version, "sha") <- NULL - - # the project directory - project <- Sys.getenv("RENV_PROJECT") - if (!nzchar(project)) - project <- getwd() - - # use start-up diagnostics if enabled - diagnostics <- Sys.getenv("RENV_STARTUP_DIAGNOSTICS", unset = "FALSE") - if (diagnostics) { - start <- Sys.time() - profile <- tempfile("renv-startup-", fileext = ".Rprof") - utils::Rprof(profile) - on.exit({ - utils::Rprof(NULL) - elapsed <- signif(difftime(Sys.time(), start, units = "auto"), digits = 2L) - writeLines(sprintf("- renv took %s to run the autoloader.", format(elapsed))) - writeLines(sprintf("- Profile: %s", profile)) - print(utils::summaryRprof(profile)) - }, add = TRUE) - } - - # figure out whether the autoloader is enabled - enabled <- local({ - - # first, check config option - override <- getOption("renv.config.autoloader.enabled") - if (!is.null(override)) - return(override) - - # if we're being run in a context where R_LIBS is already set, - # don't load -- presumably we're being run as a sub-process and - # the parent process has already set up library paths for us - rcmd <- Sys.getenv("R_CMD", unset = NA) - rlibs <- Sys.getenv("R_LIBS", unset = NA) - if (!is.na(rlibs) && !is.na(rcmd)) - return(FALSE) - - # next, check environment variables - # prefer using the configuration one in the future - envvars <- c( - "RENV_CONFIG_AUTOLOADER_ENABLED", - "RENV_AUTOLOADER_ENABLED", - "RENV_ACTIVATE_PROJECT" - ) - - for (envvar in envvars) { - envval <- Sys.getenv(envvar, unset = NA) - if (!is.na(envval)) - return(tolower(envval) %in% c("true", "t", "1")) - } - - # enable by default - TRUE - - }) - - # bail if we're not enabled - if (!enabled) { - - # if we're not enabled, we might still need to manually load - # the user profile here - profile <- Sys.getenv("R_PROFILE_USER", unset = "~/.Rprofile") - if (file.exists(profile)) { - cfg <- Sys.getenv("RENV_CONFIG_USER_PROFILE", unset = "TRUE") - if (tolower(cfg) %in% c("true", "t", "1")) - sys.source(profile, envir = globalenv()) - } - - return(FALSE) - - } - - # avoid recursion - if (identical(getOption("renv.autoloader.running"), TRUE)) { - warning("ignoring recursive attempt to run renv autoloader") - return(invisible(TRUE)) - } - - # signal that we're loading renv during R startup - options(renv.autoloader.running = TRUE) - on.exit(options(renv.autoloader.running = NULL), add = TRUE) - - # signal that we've consented to use renv - options(renv.consent = TRUE) - - # load the 'utils' package eagerly -- this ensures that renv shims, which - # mask 'utils' packages, will come first on the search path - library(utils, lib.loc = .Library) - - # unload renv if it's already been loaded - if ("renv" %in% loadedNamespaces()) - unloadNamespace("renv") - - # load bootstrap tools - ansify <- function(text) { - if (renv_ansify_enabled()) - renv_ansify_enhanced(text) - else - renv_ansify_default(text) - } - - renv_ansify_enabled <- function() { - - override <- Sys.getenv("RENV_ANSIFY_ENABLED", unset = NA) - if (!is.na(override)) - return(as.logical(override)) - - pane <- Sys.getenv("RSTUDIO_CHILD_PROCESS_PANE", unset = NA) - if (identical(pane, "build")) - return(FALSE) - - testthat <- Sys.getenv("TESTTHAT", unset = "false") - if (tolower(testthat) %in% "true") - return(FALSE) - - iderun <- Sys.getenv("R_CLI_HAS_HYPERLINK_IDE_RUN", unset = "false") - if (tolower(iderun) %in% "false") - return(FALSE) - - TRUE - - } - - renv_ansify_default <- function(text) { - text - } - - renv_ansify_enhanced <- function(text) { - - # R help links - pattern <- "`\\?(renv::(?:[^`])+)`" - replacement <- "`\033]8;;x-r-help:\\1\a?\\1\033]8;;\a`" - text <- gsub(pattern, replacement, text, perl = TRUE) - - # runnable code - pattern <- "`(renv::(?:[^`])+)`" - replacement <- "`\033]8;;x-r-run:\\1\a\\1\033]8;;\a`" - text <- gsub(pattern, replacement, text, perl = TRUE) - - # return ansified text - text - - } - - renv_ansify_init <- function() { - - envir <- renv_envir_self() - if (renv_ansify_enabled()) - assign("ansify", renv_ansify_enhanced, envir = envir) - else - assign("ansify", renv_ansify_default, envir = envir) - - } - - `%||%` <- function(x, y) { - if (is.null(x)) y else x - } - - catf <- function(fmt, ..., appendLF = TRUE) { - - quiet <- getOption("renv.bootstrap.quiet", default = FALSE) - if (quiet) - return(invisible()) - - msg <- sprintf(fmt, ...) - cat(msg, file = stdout(), sep = if (appendLF) "\n" else "") - - invisible(msg) - - } - - header <- function(label, - ..., - prefix = "#", - suffix = "-", - n = min(getOption("width"), 78)) - { - label <- sprintf(label, ...) - n <- max(n - nchar(label) - nchar(prefix) - 2L, 8L) - if (n <= 0) - return(paste(prefix, label)) - - tail <- paste(rep.int(suffix, n), collapse = "") - paste0(prefix, " ", label, " ", tail) - - } - - heredoc <- function(text, leave = 0) { - - # remove leading, trailing whitespace - trimmed <- gsub("^\\s*\\n|\\n\\s*$", "", text) - - # split into lines - lines <- strsplit(trimmed, "\n", fixed = TRUE)[[1L]] - - # compute common indent - indent <- regexpr("[^[:space:]]", lines) - common <- min(setdiff(indent, -1L)) - leave - text <- paste(substring(lines, common), collapse = "\n") - - # substitute in ANSI links for executable renv code - ansify(text) - - } - - bootstrap <- function(version, library) { - - friendly <- renv_bootstrap_version_friendly(version) - section <- header(sprintf("Bootstrapping renv %s", friendly)) - catf(section) - - # attempt to download renv - catf("- Downloading renv ... ", appendLF = FALSE) - withCallingHandlers( - tarball <- renv_bootstrap_download(version), - error = function(err) { - catf("FAILED") - stop("failed to download:\n", conditionMessage(err)) - } - ) - catf("OK") - on.exit(unlink(tarball), add = TRUE) - - # now attempt to install - catf("- Installing renv ... ", appendLF = FALSE) - withCallingHandlers( - status <- renv_bootstrap_install(version, tarball, library), - error = function(err) { - catf("FAILED") - stop("failed to install:\n", conditionMessage(err)) - } - ) - catf("OK") - - # add empty line to break up bootstrapping from normal output - catf("") - - return(invisible()) - } - - renv_bootstrap_tests_running <- function() { - getOption("renv.tests.running", default = FALSE) - } - - renv_bootstrap_repos <- function() { - - # get CRAN repository - cran <- getOption("renv.repos.cran", "https://cloud.r-project.org") - - # check for repos override - repos <- Sys.getenv("RENV_CONFIG_REPOS_OVERRIDE", unset = NA) - if (!is.na(repos)) { - - # check for RSPM; if set, use a fallback repository for renv - rspm <- Sys.getenv("RSPM", unset = NA) - if (identical(rspm, repos)) - repos <- c(RSPM = rspm, CRAN = cran) - - return(repos) - - } - - # check for lockfile repositories - repos <- tryCatch(renv_bootstrap_repos_lockfile(), error = identity) - if (!inherits(repos, "error") && length(repos)) - return(repos) - - # retrieve current repos - repos <- getOption("repos") - - # ensure @CRAN@ entries are resolved - repos[repos == "@CRAN@"] <- cran - - # add in renv.bootstrap.repos if set - default <- c(FALLBACK = "https://cloud.r-project.org") - extra <- getOption("renv.bootstrap.repos", default = default) - repos <- c(repos, extra) - - # remove duplicates that might've snuck in - dupes <- duplicated(repos) | duplicated(names(repos)) - repos[!dupes] - - } - - renv_bootstrap_repos_lockfile <- function() { - - lockpath <- Sys.getenv("RENV_PATHS_LOCKFILE", unset = "renv.lock") - if (!file.exists(lockpath)) - return(NULL) - - lockfile <- tryCatch(renv_json_read(lockpath), error = identity) - if (inherits(lockfile, "error")) { - warning(lockfile) - return(NULL) - } - - repos <- lockfile$R$Repositories - if (length(repos) == 0) - return(NULL) - - keys <- vapply(repos, `[[`, "Name", FUN.VALUE = character(1)) - vals <- vapply(repos, `[[`, "URL", FUN.VALUE = character(1)) - names(vals) <- keys - - return(vals) - - } - - renv_bootstrap_download <- function(version) { - - sha <- attr(version, "sha", exact = TRUE) - - methods <- if (!is.null(sha)) { - - # attempting to bootstrap a development version of renv - c( - function() renv_bootstrap_download_tarball(sha), - function() renv_bootstrap_download_github(sha) - ) - - } else { - - # attempting to bootstrap a release version of renv - c( - function() renv_bootstrap_download_tarball(version), - function() renv_bootstrap_download_cran_latest(version), - function() renv_bootstrap_download_cran_archive(version) - ) - - } - - for (method in methods) { - path <- tryCatch(method(), error = identity) - if (is.character(path) && file.exists(path)) - return(path) - } - - stop("All download methods failed") - - } - - renv_bootstrap_download_impl <- function(url, destfile) { - - mode <- "wb" - - # https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17715 - fixup <- - Sys.info()[["sysname"]] == "Windows" && - substring(url, 1L, 5L) == "file:" - - if (fixup) - mode <- "w+b" - - args <- list( - url = url, - destfile = destfile, - mode = mode, - quiet = TRUE - ) - - if ("headers" %in% names(formals(utils::download.file))) { - headers <- renv_bootstrap_download_custom_headers(url) - if (length(headers) && is.character(headers)) - args$headers <- headers - } - - do.call(utils::download.file, args) - - } - - renv_bootstrap_download_custom_headers <- function(url) { - - headers <- getOption("renv.download.headers") - if (is.null(headers)) - return(character()) - - if (!is.function(headers)) - stopf("'renv.download.headers' is not a function") - - headers <- headers(url) - if (length(headers) == 0L) - return(character()) - - if (is.list(headers)) - headers <- unlist(headers, recursive = FALSE, use.names = TRUE) - - ok <- - is.character(headers) && - is.character(names(headers)) && - all(nzchar(names(headers))) - - if (!ok) - stop("invocation of 'renv.download.headers' did not return a named character vector") - - headers - - } - - renv_bootstrap_download_cran_latest <- function(version) { - - spec <- renv_bootstrap_download_cran_latest_find(version) - type <- spec$type - repos <- spec$repos - - baseurl <- utils::contrib.url(repos = repos, type = type) - ext <- if (identical(type, "source")) - ".tar.gz" - else if (Sys.info()[["sysname"]] == "Windows") - ".zip" - else - ".tgz" - name <- sprintf("renv_%s%s", version, ext) - url <- paste(baseurl, name, sep = "/") - - destfile <- file.path(tempdir(), name) - status <- tryCatch( - renv_bootstrap_download_impl(url, destfile), - condition = identity - ) - - if (inherits(status, "condition")) - return(FALSE) - - # report success and return - destfile - - } - - renv_bootstrap_download_cran_latest_find <- function(version) { - - # check whether binaries are supported on this system - binary <- - getOption("renv.bootstrap.binary", default = TRUE) && - !identical(.Platform$pkgType, "source") && - !identical(getOption("pkgType"), "source") && - Sys.info()[["sysname"]] %in% c("Darwin", "Windows") - - types <- c(if (binary) "binary", "source") - - # iterate over types + repositories - for (type in types) { - for (repos in renv_bootstrap_repos()) { - - # build arguments for utils::available.packages() call - args <- list(type = type, repos = repos) - - # add custom headers if available -- note that - # utils::available.packages() will pass this to download.file() - if ("headers" %in% names(formals(utils::download.file))) { - headers <- renv_bootstrap_download_custom_headers(repos) - if (length(headers) && is.character(headers)) - args$headers <- headers - } - - # retrieve package database - db <- tryCatch( - as.data.frame( - do.call(utils::available.packages, args), - stringsAsFactors = FALSE - ), - error = identity - ) - - if (inherits(db, "error")) - next - - # check for compatible entry - entry <- db[db$Package %in% "renv" & db$Version %in% version, ] - if (nrow(entry) == 0) - next - - # found it; return spec to caller - spec <- list(entry = entry, type = type, repos = repos) - return(spec) - - } - } - - # if we got here, we failed to find renv - fmt <- "renv %s is not available from your declared package repositories" - stop(sprintf(fmt, version)) - - } - - renv_bootstrap_download_cran_archive <- function(version) { - - name <- sprintf("renv_%s.tar.gz", version) - repos <- renv_bootstrap_repos() - urls <- file.path(repos, "src/contrib/Archive/renv", name) - destfile <- file.path(tempdir(), name) - - for (url in urls) { - - status <- tryCatch( - renv_bootstrap_download_impl(url, destfile), - condition = identity - ) - - if (identical(status, 0L)) - return(destfile) - - } - - return(FALSE) - - } - - renv_bootstrap_download_tarball <- function(version) { - - # if the user has provided the path to a tarball via - # an environment variable, then use it - tarball <- Sys.getenv("RENV_BOOTSTRAP_TARBALL", unset = NA) - if (is.na(tarball)) - return() - - # allow directories - if (dir.exists(tarball)) { - name <- sprintf("renv_%s.tar.gz", version) - tarball <- file.path(tarball, name) - } - - # bail if it doesn't exist - if (!file.exists(tarball)) { - - # let the user know we weren't able to honour their request - fmt <- "- RENV_BOOTSTRAP_TARBALL is set (%s) but does not exist." - msg <- sprintf(fmt, tarball) - warning(msg) - - # bail - return() - - } - - catf("- Using local tarball '%s'.", tarball) - tarball - - } - - renv_bootstrap_github_token <- function() { - for (envvar in c("GITHUB_TOKEN", "GITHUB_PAT", "GH_TOKEN")) { - envval <- Sys.getenv(envvar, unset = NA) - if (!is.na(envval)) - return(envval) - } - } - - renv_bootstrap_download_github <- function(version) { - - enabled <- Sys.getenv("RENV_BOOTSTRAP_FROM_GITHUB", unset = "TRUE") - if (!identical(enabled, "TRUE")) - return(FALSE) - - # prepare download options - token <- renv_bootstrap_github_token() - if (is.null(token)) - token <- "" - - if (nzchar(Sys.which("curl")) && nzchar(token)) { - fmt <- "--location --fail --header \"Authorization: token %s\"" - extra <- sprintf(fmt, token) - saved <- options("download.file.method", "download.file.extra") - options(download.file.method = "curl", download.file.extra = extra) - on.exit(do.call(base::options, saved), add = TRUE) - } else if (nzchar(Sys.which("wget")) && nzchar(token)) { - fmt <- "--header=\"Authorization: token %s\"" - extra <- sprintf(fmt, token) - saved <- options("download.file.method", "download.file.extra") - options(download.file.method = "wget", download.file.extra = extra) - on.exit(do.call(base::options, saved), add = TRUE) - } - - url <- file.path("https://api.github.com/repos/rstudio/renv/tarball", version) - name <- sprintf("renv_%s.tar.gz", version) - destfile <- file.path(tempdir(), name) - - status <- tryCatch( - renv_bootstrap_download_impl(url, destfile), - condition = identity - ) - - if (!identical(status, 0L)) - return(FALSE) - - renv_bootstrap_download_augment(destfile) - - return(destfile) - - } - - # Add Sha to DESCRIPTION. This is stop gap until #890, after which we - # can use renv::install() to fully capture metadata. - renv_bootstrap_download_augment <- function(destfile) { - sha <- renv_bootstrap_git_extract_sha1_tar(destfile) - if (is.null(sha)) { - return() - } - - # Untar - tempdir <- tempfile("renv-github-") - on.exit(unlink(tempdir, recursive = TRUE), add = TRUE) - untar(destfile, exdir = tempdir) - pkgdir <- dir(tempdir, full.names = TRUE)[[1]] - - # Modify description - desc_path <- file.path(pkgdir, "DESCRIPTION") - desc_lines <- readLines(desc_path) - remotes_fields <- c( - "RemoteType: github", - "RemoteHost: api.github.com", - "RemoteRepo: renv", - "RemoteUsername: rstudio", - "RemotePkgRef: rstudio/renv", - paste("RemoteRef: ", sha), - paste("RemoteSha: ", sha) - ) - writeLines(c(desc_lines[desc_lines != ""], remotes_fields), con = desc_path) - - # Re-tar - local({ - old <- setwd(tempdir) - on.exit(setwd(old), add = TRUE) - - tar(destfile, compression = "gzip") - }) - invisible() - } - - # Extract the commit hash from a git archive. Git archives include the SHA1 - # hash as the comment field of the tarball pax extended header - # (see https://www.kernel.org/pub/software/scm/git/docs/git-archive.html) - # For GitHub archives this should be the first header after the default one - # (512 byte) header. - renv_bootstrap_git_extract_sha1_tar <- function(bundle) { - - # open the bundle for reading - # We use gzcon for everything because (from ?gzcon) - # > Reading from a connection which does not supply a 'gzip' magic - # > header is equivalent to reading from the original connection - conn <- gzcon(file(bundle, open = "rb", raw = TRUE)) - on.exit(close(conn)) - - # The default pax header is 512 bytes long and the first pax extended header - # with the comment should be 51 bytes long - # `52 comment=` (11 chars) + 40 byte SHA1 hash - len <- 0x200 + 0x33 - res <- rawToChar(readBin(conn, "raw", n = len)[0x201:len]) - - if (grepl("^52 comment=", res)) { - sub("52 comment=", "", res) - } else { - NULL - } - } - - renv_bootstrap_install <- function(version, tarball, library) { - - # attempt to install it into project library - dir.create(library, showWarnings = FALSE, recursive = TRUE) - output <- renv_bootstrap_install_impl(library, tarball) - - # check for successful install - status <- attr(output, "status") - if (is.null(status) || identical(status, 0L)) - return(status) - - # an error occurred; report it - header <- "installation of renv failed" - lines <- paste(rep.int("=", nchar(header)), collapse = "") - text <- paste(c(header, lines, output), collapse = "\n") - stop(text) - - } - - renv_bootstrap_install_impl <- function(library, tarball) { - - # invoke using system2 so we can capture and report output - bin <- R.home("bin") - exe <- if (Sys.info()[["sysname"]] == "Windows") "R.exe" else "R" - R <- file.path(bin, exe) - - args <- c( - "--vanilla", "CMD", "INSTALL", "--no-multiarch", - "-l", shQuote(path.expand(library)), - shQuote(path.expand(tarball)) - ) - - system2(R, args, stdout = TRUE, stderr = TRUE) - - } - - renv_bootstrap_platform_prefix_default <- function() { - - # read version component - version <- Sys.getenv("RENV_PATHS_VERSION", unset = "R-%v") - - # expand placeholders - placeholders <- list( - list("%v", format(getRversion()[1, 1:2])), - list("%V", format(getRversion()[1, 1:3])) - ) - - for (placeholder in placeholders) - version <- gsub(placeholder[[1L]], placeholder[[2L]], version, fixed = TRUE) - - # include SVN revision for development versions of R - # (to avoid sharing platform-specific artefacts with released versions of R) - devel <- - identical(R.version[["status"]], "Under development (unstable)") || - identical(R.version[["nickname"]], "Unsuffered Consequences") - - if (devel) - version <- paste(version, R.version[["svn rev"]], sep = "-r") - - version - - } - - renv_bootstrap_platform_prefix <- function() { - - # construct version prefix - version <- renv_bootstrap_platform_prefix_default() - - # build list of path components - components <- c(version, R.version$platform) - - # include prefix if provided by user - prefix <- renv_bootstrap_platform_prefix_impl() - if (!is.na(prefix) && nzchar(prefix)) - components <- c(prefix, components) - - # build prefix - paste(components, collapse = "/") - - } - - renv_bootstrap_platform_prefix_impl <- function() { - - # if an explicit prefix has been supplied, use it - prefix <- Sys.getenv("RENV_PATHS_PREFIX", unset = NA) - if (!is.na(prefix)) - return(prefix) - - # if the user has requested an automatic prefix, generate it - auto <- Sys.getenv("RENV_PATHS_PREFIX_AUTO", unset = NA) - if (is.na(auto) && getRversion() >= "4.4.0") - auto <- "TRUE" - - if (auto %in% c("TRUE", "True", "true", "1")) - return(renv_bootstrap_platform_prefix_auto()) - - # empty string on failure - "" - - } - - renv_bootstrap_platform_prefix_auto <- function() { - - prefix <- tryCatch(renv_bootstrap_platform_os(), error = identity) - if (inherits(prefix, "error") || prefix %in% "unknown") { - - msg <- paste( - "failed to infer current operating system", - "please file a bug report at https://github.com/rstudio/renv/issues", - sep = "; " - ) - - warning(msg) - - } - - prefix - - } - - renv_bootstrap_platform_os <- function() { - - sysinfo <- Sys.info() - sysname <- sysinfo[["sysname"]] - - # handle Windows + macOS up front - if (sysname == "Windows") - return("windows") - else if (sysname == "Darwin") - return("macos") - - # check for os-release files - for (file in c("/etc/os-release", "/usr/lib/os-release")) - if (file.exists(file)) - return(renv_bootstrap_platform_os_via_os_release(file, sysinfo)) - - # check for redhat-release files - if (file.exists("/etc/redhat-release")) - return(renv_bootstrap_platform_os_via_redhat_release()) - - "unknown" - - } - - renv_bootstrap_platform_os_via_os_release <- function(file, sysinfo) { - - # read /etc/os-release - release <- utils::read.table( - file = file, - sep = "=", - quote = c("\"", "'"), - col.names = c("Key", "Value"), - comment.char = "#", - stringsAsFactors = FALSE - ) - - vars <- as.list(release$Value) - names(vars) <- release$Key - - # get os name - os <- tolower(sysinfo[["sysname"]]) - - # read id - id <- "unknown" - for (field in c("ID", "ID_LIKE")) { - if (field %in% names(vars) && nzchar(vars[[field]])) { - id <- vars[[field]] - break - } - } - - # read version - version <- "unknown" - for (field in c("UBUNTU_CODENAME", "VERSION_CODENAME", "VERSION_ID", "BUILD_ID")) { - if (field %in% names(vars) && nzchar(vars[[field]])) { - version <- vars[[field]] - break - } - } - - # join together - paste(c(os, id, version), collapse = "-") - - } - - renv_bootstrap_platform_os_via_redhat_release <- function() { - - # read /etc/redhat-release - contents <- readLines("/etc/redhat-release", warn = FALSE) - - # infer id - id <- if (grepl("centos", contents, ignore.case = TRUE)) - "centos" - else if (grepl("redhat", contents, ignore.case = TRUE)) - "redhat" - else - "unknown" - - # try to find a version component (very hacky) - version <- "unknown" - - parts <- strsplit(contents, "[[:space:]]")[[1L]] - for (part in parts) { - - nv <- tryCatch(numeric_version(part), error = identity) - if (inherits(nv, "error")) - next - - version <- nv[1, 1] - break - - } - - paste(c("linux", id, version), collapse = "-") - - } - - renv_bootstrap_library_root_name <- function(project) { - - # use project name as-is if requested - asis <- Sys.getenv("RENV_PATHS_LIBRARY_ROOT_ASIS", unset = "FALSE") - if (asis) - return(basename(project)) - - # otherwise, disambiguate based on project's path - id <- substring(renv_bootstrap_hash_text(project), 1L, 8L) - paste(basename(project), id, sep = "-") - - } - - renv_bootstrap_library_root <- function(project) { - - prefix <- renv_bootstrap_profile_prefix() - - path <- Sys.getenv("RENV_PATHS_LIBRARY", unset = NA) - if (!is.na(path)) - return(paste(c(path, prefix), collapse = "/")) - - path <- renv_bootstrap_library_root_impl(project) - if (!is.null(path)) { - name <- renv_bootstrap_library_root_name(project) - return(paste(c(path, prefix, name), collapse = "/")) - } - - renv_bootstrap_paths_renv("library", project = project) - - } - - renv_bootstrap_library_root_impl <- function(project) { - - root <- Sys.getenv("RENV_PATHS_LIBRARY_ROOT", unset = NA) - if (!is.na(root)) - return(root) - - type <- renv_bootstrap_project_type(project) - if (identical(type, "package")) { - userdir <- renv_bootstrap_user_dir() - return(file.path(userdir, "library")) - } - - } - - renv_bootstrap_validate_version <- function(version, description = NULL) { - - # resolve description file - # - # avoid passing lib.loc to `packageDescription()` below, since R will - # use the loaded version of the package by default anyhow. note that - # this function should only be called after 'renv' is loaded - # https://github.com/rstudio/renv/issues/1625 - description <- description %||% packageDescription("renv") - - # check whether requested version 'version' matches loaded version of renv - sha <- attr(version, "sha", exact = TRUE) - valid <- if (!is.null(sha)) - renv_bootstrap_validate_version_dev(sha, description) - else - renv_bootstrap_validate_version_release(version, description) - - if (valid) - return(TRUE) - - # the loaded version of renv doesn't match the requested version; - # give the user instructions on how to proceed - dev <- identical(description[["RemoteType"]], "github") - remote <- if (dev) - paste("rstudio/renv", description[["RemoteSha"]], sep = "@") - else - paste("renv", description[["Version"]], sep = "@") - - # display both loaded version + sha if available - friendly <- renv_bootstrap_version_friendly( - version = description[["Version"]], - sha = if (dev) description[["RemoteSha"]] - ) - - fmt <- heredoc(" - renv %1$s was loaded from project library, but this project is configured to use renv %2$s. - - Use `renv::record(\"%3$s\")` to record renv %1$s in the lockfile. - - Use `renv::restore(packages = \"renv\")` to install renv %2$s into the project library. - ") - catf(fmt, friendly, renv_bootstrap_version_friendly(version), remote) - - FALSE - - } - - renv_bootstrap_validate_version_dev <- function(version, description) { - - expected <- description[["RemoteSha"]] - if (!is.character(expected)) - return(FALSE) - - pattern <- sprintf("^\\Q%s\\E", version) - grepl(pattern, expected, perl = TRUE) - - } - - renv_bootstrap_validate_version_release <- function(version, description) { - expected <- description[["Version"]] - is.character(expected) && identical(expected, version) - } - - renv_bootstrap_hash_text <- function(text) { - - hashfile <- tempfile("renv-hash-") - on.exit(unlink(hashfile), add = TRUE) - - writeLines(text, con = hashfile) - tools::md5sum(hashfile) - - } - - renv_bootstrap_load <- function(project, libpath, version) { - - # try to load renv from the project library - if (!requireNamespace("renv", lib.loc = libpath, quietly = TRUE)) - return(FALSE) - - # warn if the version of renv loaded does not match - renv_bootstrap_validate_version(version) - - # execute renv load hooks, if any - hooks <- getHook("renv::autoload") - for (hook in hooks) - if (is.function(hook)) - tryCatch(hook(), error = warnify) - - # load the project - renv::load(project) - - TRUE - - } - - renv_bootstrap_profile_load <- function(project) { - - # if RENV_PROFILE is already set, just use that - profile <- Sys.getenv("RENV_PROFILE", unset = NA) - if (!is.na(profile) && nzchar(profile)) - return(profile) - - # check for a profile file (nothing to do if it doesn't exist) - path <- renv_bootstrap_paths_renv("profile", profile = FALSE, project = project) - if (!file.exists(path)) - return(NULL) - - # read the profile, and set it if it exists - contents <- readLines(path, warn = FALSE) - if (length(contents) == 0L) - return(NULL) - - # set RENV_PROFILE - profile <- contents[[1L]] - if (!profile %in% c("", "default")) - Sys.setenv(RENV_PROFILE = profile) - - profile - - } - - renv_bootstrap_profile_prefix <- function() { - profile <- renv_bootstrap_profile_get() - if (!is.null(profile)) - return(file.path("profiles", profile, "renv")) - } - - renv_bootstrap_profile_get <- function() { - profile <- Sys.getenv("RENV_PROFILE", unset = "") - renv_bootstrap_profile_normalize(profile) - } - - renv_bootstrap_profile_set <- function(profile) { - profile <- renv_bootstrap_profile_normalize(profile) - if (is.null(profile)) - Sys.unsetenv("RENV_PROFILE") - else - Sys.setenv(RENV_PROFILE = profile) - } - - renv_bootstrap_profile_normalize <- function(profile) { - - if (is.null(profile) || profile %in% c("", "default")) - return(NULL) - - profile - - } - - renv_bootstrap_path_absolute <- function(path) { - - substr(path, 1L, 1L) %in% c("~", "/", "\\") || ( - substr(path, 1L, 1L) %in% c(letters, LETTERS) && - substr(path, 2L, 3L) %in% c(":/", ":\\") - ) - - } - - renv_bootstrap_paths_renv <- function(..., profile = TRUE, project = NULL) { - renv <- Sys.getenv("RENV_PATHS_RENV", unset = "renv") - root <- if (renv_bootstrap_path_absolute(renv)) NULL else project - prefix <- if (profile) renv_bootstrap_profile_prefix() - components <- c(root, renv, prefix, ...) - paste(components, collapse = "/") - } - - renv_bootstrap_project_type <- function(path) { - - descpath <- file.path(path, "DESCRIPTION") - if (!file.exists(descpath)) - return("unknown") - - desc <- tryCatch( - read.dcf(descpath, all = TRUE), - error = identity - ) - - if (inherits(desc, "error")) - return("unknown") - - type <- desc$Type - if (!is.null(type)) - return(tolower(type)) - - package <- desc$Package - if (!is.null(package)) - return("package") - - "unknown" - - } - - renv_bootstrap_user_dir <- function() { - dir <- renv_bootstrap_user_dir_impl() - path.expand(chartr("\\", "/", dir)) - } - - renv_bootstrap_user_dir_impl <- function() { - - # use local override if set - override <- getOption("renv.userdir.override") - if (!is.null(override)) - return(override) - - # use R_user_dir if available - tools <- asNamespace("tools") - if (is.function(tools$R_user_dir)) - return(tools$R_user_dir("renv", "cache")) - - # try using our own backfill for older versions of R - envvars <- c("R_USER_CACHE_DIR", "XDG_CACHE_HOME") - for (envvar in envvars) { - root <- Sys.getenv(envvar, unset = NA) - if (!is.na(root)) - return(file.path(root, "R/renv")) - } - - # use platform-specific default fallbacks - if (Sys.info()[["sysname"]] == "Windows") - file.path(Sys.getenv("LOCALAPPDATA"), "R/cache/R/renv") - else if (Sys.info()[["sysname"]] == "Darwin") - "~/Library/Caches/org.R-project.R/R/renv" - else - "~/.cache/R/renv" - - } - - renv_bootstrap_version_friendly <- function(version, shafmt = NULL, sha = NULL) { - sha <- sha %||% attr(version, "sha", exact = TRUE) - parts <- c(version, sprintf(shafmt %||% " [sha: %s]", substring(sha, 1L, 7L))) - paste(parts, collapse = "") - } - - renv_bootstrap_exec <- function(project, libpath, version) { - if (!renv_bootstrap_load(project, libpath, version)) - renv_bootstrap_run(project, libpath, version) - } - - renv_bootstrap_run <- function(project, libpath, version) { - - # perform bootstrap - bootstrap(version, libpath) - - # exit early if we're just testing bootstrap - if (!is.na(Sys.getenv("RENV_BOOTSTRAP_INSTALL_ONLY", unset = NA))) - return(TRUE) - - # try again to load - if (requireNamespace("renv", lib.loc = libpath, quietly = TRUE)) { - return(renv::load(project = project)) - } - - # failed to download or load renv; warn the user - msg <- c( - "Failed to find an renv installation: the project will not be loaded.", - "Use `renv::activate()` to re-initialize the project." - ) - - warning(paste(msg, collapse = "\n"), call. = FALSE) - - } - - renv_json_read <- function(file = NULL, text = NULL) { - - jlerr <- NULL - - # if jsonlite is loaded, use that instead - if ("jsonlite" %in% loadedNamespaces()) { - - json <- tryCatch(renv_json_read_jsonlite(file, text), error = identity) - if (!inherits(json, "error")) - return(json) - - jlerr <- json - - } - - # otherwise, fall back to the default JSON reader - json <- tryCatch(renv_json_read_default(file, text), error = identity) - if (!inherits(json, "error")) - return(json) - - # report an error - if (!is.null(jlerr)) - stop(jlerr) - else - stop(json) - - } - - renv_json_read_jsonlite <- function(file = NULL, text = NULL) { - text <- paste(text %||% readLines(file, warn = FALSE), collapse = "\n") - jsonlite::fromJSON(txt = text, simplifyVector = FALSE) - } - - renv_json_read_patterns <- function() { - - list( - - # objects - list("{", "\t\n\tobject(\t\n\t", TRUE), - list("}", "\t\n\t)\t\n\t", TRUE), - - # arrays - list("[", "\t\n\tarray(\t\n\t", TRUE), - list("]", "\n\t\n)\n\t\n", TRUE), - - # maps - list(":", "\t\n\t=\t\n\t", TRUE), - - # newlines - list("\\u000a", "\n", FALSE) - - ) - - } - - renv_json_read_envir <- function() { - - envir <- new.env(parent = emptyenv()) - - envir[["+"]] <- `+` - envir[["-"]] <- `-` - - envir[["object"]] <- function(...) { - result <- list(...) - names(result) <- as.character(names(result)) - result - } - - envir[["array"]] <- list - - envir[["true"]] <- TRUE - envir[["false"]] <- FALSE - envir[["null"]] <- NULL - - envir - - } - - renv_json_read_remap <- function(object, patterns) { - - # repair names if necessary - if (!is.null(names(object))) { - - nms <- names(object) - for (pattern in patterns) - nms <- gsub(pattern[[2L]], pattern[[1L]], nms, fixed = TRUE) - names(object) <- nms - - } - - # repair strings if necessary - if (is.character(object)) { - for (pattern in patterns) - object <- gsub(pattern[[2L]], pattern[[1L]], object, fixed = TRUE) - } - - # recurse for other objects - if (is.recursive(object)) - for (i in seq_along(object)) - object[i] <- list(renv_json_read_remap(object[[i]], patterns)) - - # return remapped object - object - - } - - renv_json_read_default <- function(file = NULL, text = NULL) { - - # read json text - text <- paste(text %||% readLines(file, warn = FALSE), collapse = "\n") - - # convert into something the R parser will understand - patterns <- renv_json_read_patterns() - transformed <- text - for (pattern in patterns) - transformed <- gsub(pattern[[1L]], pattern[[2L]], transformed, fixed = TRUE) - - # parse it - rfile <- tempfile("renv-json-", fileext = ".R") - on.exit(unlink(rfile), add = TRUE) - writeLines(transformed, con = rfile) - json <- parse(rfile, keep.source = FALSE, srcfile = NULL)[[1L]] - - # evaluate in safe environment - result <- eval(json, envir = renv_json_read_envir()) - - # fix up strings if necessary -- do so only with reversible patterns - patterns <- Filter(function(pattern) pattern[[3L]], patterns) - renv_json_read_remap(result, patterns) - - } - - - # load the renv profile, if any - renv_bootstrap_profile_load(project) - - # construct path to library root - root <- renv_bootstrap_library_root(project) - - # construct library prefix for platform - prefix <- renv_bootstrap_platform_prefix() - - # construct full libpath - libpath <- file.path(root, prefix) - - # run bootstrap code - renv_bootstrap_exec(project, libpath, version) - - invisible() - -}) diff --git a/renv/settings.json b/renv/settings.json deleted file mode 100644 index ffdbb32..0000000 --- a/renv/settings.json +++ /dev/null @@ -1,19 +0,0 @@ -{ - "bioconductor.version": null, - "external.libraries": [], - "ignored.packages": [], - "package.dependency.fields": [ - "Imports", - "Depends", - "LinkingTo" - ], - "ppm.enabled": null, - "ppm.ignored.urls": [], - "r.version": null, - "snapshot.type": "implicit", - "use.cache": true, - "vcs.ignore.cellar": true, - "vcs.ignore.library": true, - "vcs.ignore.local": true, - "vcs.manage.ignores": true -} diff --git a/test-example.R b/test-example.R deleted file mode 100644 index c917a9a..0000000 --- a/test-example.R +++ /dev/null @@ -1,97 +0,0 @@ -# dat <- data.frame( -# x = c(15, 34, 59, 21, 33, 66), -# y = c("Admin A", "Admin B", "Admin C", "Admin C", "Admin B", "Admin A"), -# group = c("Displaced", "Non displaced", "Non displaced", "Displaced", "Displaced", "Non displaced") -# ) - - -library(visualizeR) - -# dat |> -# bar( -# x = "y", -# y = "x", -# #group = "group", -# group_title = "Displacement Status", -# flip = T, -# add_text = T, -# title = "In Admin A and C, Non-Displaced Persons Face Greater WASH Challenges Than Their Displaced Counterparts", -# subtitle = "% of households not accessing WASH services by admin 1 and displacement status", -# caption = "Source: FAO 2022. No message is a real one. Fake data are used in this example. As a cautiom, no decision should be made based on this plot.", -# ) + -# theme_bar(flip = T, add_text = T) + -# scale_color_visualizer_discrete() + -# scale_fill_visualizer_discrete() - - -library(rio) -dat <- import("https://raw.githubusercontent.com/holtzy/data_to_viz/master/Example_dataset/11_SevCatOneNumNestedOneObsPerGroup.csv") - -dumbbell( - df, - "stat", - "setting", - "admin1", - title = "% of HHs that reported open defecation as sanitation facility", - group_y_title = "Admin 1", - group_x_title = "Setting" -) - -library(dplyr) -library(data.table) -# dat as a data.table if it4s not -if (!checkmate::test_data_table(dat)) { - rlang::warn("Converting dat to data.table.") - data.table::setDT(dat) -} - -# in all character columns, tranform empty string to NA -vars_chr <- colnames(dat)[sapply(dat, is.character)] -dat[, (vars_chr) := lapply(.SD, function(x) fifelse(x == "", NA_character_, x)), .SDcols = vars_chr] - -# in value, if -1 replace with NA -dat[, value := fifelse(value == -1, NA_real_, value)] - -# remove lines where value is NA (in place) -dat <- dat[!is.na(value), ] - -dat - # arrange(value) |> - # group_by(region) |> - # mutate(key = forcats::fct_reorder(key, value)) |> - - - -dumbbell( - dat |> arrange(value) |> tail(50) |> mutate( - value = value/1000000, - key = ifelse(key == "Democratic Republic of the Congo", "DRC", key)) |> - filter(region %in% c("Europe", "Americas")), - "value", - "region", - "key", - title = "% of HHs that reported open defecation as sanitation facility", - group_y_title = "Admin 1", - group_x_title = "Setting", point_size = 3, line_to_y_axis = T - -) - - -bar( - df = dat |> arrange(value) |> tail(20) |> mutate( - value = value/1000000, - key = ifelse(key == "Democratic Republic of the Congo", "DRC", key)), - x = "key", - y = "value", - group = "region", - group_title = "Region", - order = "grouped", - x_rm_na = T, - y_rm_na = T, - group_rm_na = T, - flip = F, - title = "Population of Global Regions in Million", -) + -theme_bar(flip = F, axis_text_x_angle = 45) + -scale_color_visualizer_discrete() + -scale_fill_visualizer_discrete() diff --git a/test.R b/test.R deleted file mode 100644 index aa7a869..0000000 --- a/test.R +++ /dev/null @@ -1,22 +0,0 @@ -library(visualizeR) -library(ggplot2) - -# Example usagea -# Sample data -data <- data.frame( - category = c("A", "B", "C", "D"), - value = c(3, 7, 9, 5) -) - -library(visualizeR) -library(ggplot2) -# Regular bar plot -p1 <- - bar( - df = data, - x = "category", - y = "value", - flip = F - ) + - theme_bar(flip = F) -p1 diff --git a/tests/testthat.R b/tests/testthat.R deleted file mode 100644 index ffac804..0000000 --- a/tests/testthat.R +++ /dev/null @@ -1,12 +0,0 @@ -# This file is part of the standard setup for testthat. -# It is recommended that you do not modify it. -# -# Where should you do additional test configuration? -# Learn more about the roles of various files in: -# * https://r-pkgs.org/testing-design.html#sec-tests-files-overview -# * https://testthat.r-lib.org/articles/special-files.html - -library(testthat) -library(visualizeR) - -test_check("visualizeR") diff --git a/tests/testthat/test-color.R b/tests/testthat/test-color.R deleted file mode 100644 index ee09eea..0000000 --- a/tests/testthat/test-color.R +++ /dev/null @@ -1,86 +0,0 @@ -# Tests for color functions - -test_that("color returns expected hex codes", { - # Test default behavior (returning all colors when no args provided) - all_colors <- color(unname = FALSE) - expect_type(all_colors, "character") - expect_true(length(all_colors) > 0) - expect_named(all_colors) - - # Test requesting specific colors - expect_identical(color("white"), "#FFFFFF") - expect_identical(color("black"), "#000000") - - # Test requesting multiple colors - expect_identical( - color("white", "black"), - c("#FFFFFF", "#000000") - ) - - # Test requesting multiple colors with names preserved - named_colors <- color("white", "black", unname = FALSE) - expect_identical( - named_colors, - c(white = "#FFFFFF", black = "#000000") - ) - - # Test requesting non-existent color - expect_error( - color("nonexistent_color"), - "Some colors not defined" - ) -}) - -test_that("color_pattern works as expected", { - # Positive test cases - cat_colors <- color_pattern("cat_", unname = FALSE) - expect_true(length(cat_colors) > 0) - expect_true(all(startsWith(names(cat_colors), "cat_"))) - - seq_colors <- color_pattern("seq_") - expect_true(length(seq_colors) > 0) - - # Test with a pattern that should match nothing - expect_warning( - color_pattern("xyz_nonexistent_"), - "No colors match the pattern" - ) - - # Test argument validation - expect_error(color_pattern(123)) - expect_error(color_pattern(c("cat_", "seq_"))) - expect_error( - color_pattern("cat_", unname = "yes"), - "Assertion on 'unname' failed" - ) -}) - -test_that("color function parameter validation", { - # Empty call should return all colors - all_colors <- color() - expect_type(all_colors, "character") - expect_true(length(all_colors) > 0) - - # unname parameter behavior - named_all <- color(unname = FALSE) - expect_named(named_all) - unnamed_all <- color(unname = TRUE) - expect_null(names(unnamed_all)) - - # Test validation of ... arguments to ensure they're strings - expect_error(color(123), "Assertion on 'Argument #1' failed") - expect_error(color(TRUE), "Assertion on 'Argument #1' failed") - expect_error( - color(list("white")), - "Assertion on 'Argument #1' failed" - ) - - # Test that vectors are not allowed - expect_error( - color(c("white", "black")), - "Assertion on 'Argument #1' failed: Must have length 1." - ) - - # Multiple arguments should still work as long as each is a single string - expect_length(color("white", "black"), 2) -}) diff --git a/tests/testthat/test-lollipop.R b/tests/testthat/test-lollipop.R deleted file mode 100644 index 70fd05f..0000000 --- a/tests/testthat/test-lollipop.R +++ /dev/null @@ -1,245 +0,0 @@ -test_that("lollipop generates correct base plot structure", { - test_data <- data.frame( - category = c("A", "B", "C", "D", "E"), - value = c(25, 40, 15, 35, 30), - stringsAsFactors = FALSE - ) - - p <- lollipop(df = test_data, x = "category", y = "value") - - # Check that the plot is a ggplot object - expect_s3_class(p, "ggplot") - - # Check that the plot contains the essential layers - expect_true(any(sapply(p$layers, function(x) inherits(x$geom, "GeomPoint")))) - expect_true(any(sapply(p$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))) - - # Check that the data is correctly mapped - expect_equal(rlang::as_name(p$mapping$x), "category") - expect_equal(rlang::as_name(p$mapping$y), "value") -}) - -test_that("horizontal lollipop (hlollipop) flips coordinates", { - test_data <- data.frame( - category = c("A", "B", "C", "D", "E"), - value = c(25, 40, 15, 35, 30), - stringsAsFactors = FALSE - ) - - p <- hlollipop(df = test_data, x = "category", y = "value") - - # Check that coordinates are flipped - expect_true(any(sapply(p$layers, function(x) inherits(x$geom, "GeomPoint")))) - expect_true(any(sapply(p$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))) - expect_true(inherits(p$coordinates, "CoordFlip")) -}) - -test_that("grouped lollipop uses side-by-side positioning", { - test_data <- data.frame( - category = c("A", "B", "C", "A", "B", "C"), - value = c(25, 40, 15, 35, 30, 45), - group = c("Group 1", "Group 1", "Group 1", "Group 2", "Group 2", "Group 2"), - stringsAsFactors = FALSE - ) - - p <- lollipop(df = test_data, x = "category", y = "value", group = "group") - - # Check that group aesthetic is set for fill - expect_equal(rlang::as_name(p$mapping$fill), "group") - - # Check for group-related mappings - expect_true(length(grep("group", as.character(p$mapping))) > 0) - - # Check that position dodge is used for points and lineranges - linerange_layer <- which(sapply(p$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))[1] - point_layer <- which(sapply(p$layers, function(x) { - inherits(x$geom, "GeomPoint") - }))[1] - - expect_true(inherits(p$layers[[point_layer]]$position, "PositionDodge")) - expect_true(inherits(p$layers[[linerange_layer]]$position, "PositionDodge")) -}) - -test_that("dodge_width parameter controls group spacing", { - test_data <- data.frame( - category = c("A", "B", "A", "B"), - value = c(25, 40, 35, 30), - group = c("Group 1", "Group 1", "Group 2", "Group 2"), - stringsAsFactors = FALSE - ) - - # Create plots with different dodge widths - p1 <- lollipop( - df = test_data, - x = "category", - y = "value", - group = "group", - dodge_width = 0.5 - ) - p2 <- lollipop( - df = test_data, - x = "category", - y = "value", - group = "group", - dodge_width = 1.0 - ) - - # Extract position dodge objects - linerange_layer1 <- which(sapply(p1$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))[1] - linerange_layer2 <- which(sapply(p2$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))[1] - - dodge1 <- p1$layers[[linerange_layer1]]$position - dodge2 <- p2$layers[[linerange_layer2]]$position - - # Check that dodge width is correctly set - expect_equal(dodge1$width, 0.5) - expect_equal(dodge2$width, 1.0) -}) - -test_that("lollipop handles missing values correctly", { - test_data <- data.frame( - category = c("A", "B", "C", "D", NA), - value = c(25, 40, NA, 35, 30), - group = c("Group 1", NA, "Group 1", "Group 2", "Group 1"), - stringsAsFactors = FALSE - ) - - # With default NA removal - p <- lollipop( - df = test_data, - x = "category", - y = "value", - group = "group" - ) - - # Should only have 2 rows of data (A and D) - expect_equal(nrow(p$data), 2) - - # With specific NA handling - p2 <- lollipop( - df = test_data, - x = "category", - y = "value", - group = "group", - x_rm_na = FALSE, - y_rm_na = FALSE, - group_rm_na = FALSE - ) - - # Should have more rows since we're not removing NAs - expect_true(nrow(p2$data) > 2) -}) - -test_that("lollipop applies ordering correctly", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - stringsAsFactors = FALSE - ) - - # With y ordering - p1 <- lollipop( - df = test_data, - x = "category", - y = "value", - order = "y" - ) - - # With no ordering - p2 <- lollipop( - df = test_data, - x = "category", - y = "value", - order = "none" - ) - - # We don't test the specific order since it depends on the implementation - # of reorder_by, which is tested separately. Instead, just check that - # the ordered and unordered versions are different. - - # Convert factor to character for comparison - plot_categories_y <- as.character(p1$data$category) - plot_categories_none <- as.character(p2$data$category) - - # The ordered version should be different than the unordered version - expect_false(identical(plot_categories_y, plot_categories_none)) -}) - -test_that("lollipop handles facets correctly", { - test_data <- data.frame( - category = rep(c("A", "B", "C"), 2), - value = c(25, 40, 15, 35, 30, 45), - facet_var = rep(c("Facet 1", "Facet 2"), each = 3), - stringsAsFactors = FALSE - ) - - p <- lollipop( - df = test_data, - x = "category", - y = "value", - facet = "facet_var" - ) - - # Check that facet is applied - expect_true(!is.null(p$facet)) -}) - -test_that("lollipop respects custom appearance settings", { - test_data <- data.frame( - category = c("A", "B", "C"), - value = c(25, 40, 15), - stringsAsFactors = FALSE - ) - - custom_color <- "#FF5733" - custom_line_color <- "#33FF57" - custom_dot_size <- 5 - custom_line_size <- 1.5 - custom_alpha <- 0.7 - - p <- lollipop( - df = test_data, - x = "category", - y = "value", - add_color = custom_color, - line_color = custom_line_color, - dot_size = custom_dot_size, - line_size = custom_line_size, - alpha = custom_alpha - ) - - # Find the point and linerange layers - point_layer <- which(sapply(p$layers, function(x) { - inherits(x$geom, "GeomPoint") - }))[1] - linerange_layer <- which(sapply(p$layers, function(x) { - inherits(x$geom, "GeomLinerange") - }))[1] - - # Check that point and linerange layers exist - expect_true(point_layer > 0) - expect_true(linerange_layer > 0) - - # Check that size parameters match - expect_equal(p$layers[[point_layer]]$aes_params$size, custom_dot_size) - expect_equal(p$layers[[point_layer]]$aes_params$alpha, custom_alpha) - - # Check that proper colors are applied somewhere in the plot - # We don't test for exact color values since the implementation might vary - # Just check that the plot was created successfully - expect_s3_class(p, "ggplot") - - # Verify that some aes_params exist in the layers - all_aes_params <- lapply(p$layers, function(l) names(l$aes_params)) - expect_true(length(unlist(all_aes_params)) > 0) -}) diff --git a/tests/testthat/test-palette.R b/tests/testthat/test-palette.R deleted file mode 100644 index 6bd4051..0000000 --- a/tests/testthat/test-palette.R +++ /dev/null @@ -1,71 +0,0 @@ -# Tests for palette functions - -test_that("palette returns expected color vectors", { - # Test default palette - default_pal <- palette() - expect_type(default_pal, "character") - expect_length(default_pal, 5) # cat_5_main has 5 colors - - # Test specific palette - cat_3_pal <- palette("cat_3_aquamarine") - expect_type(cat_3_pal, "character") - expect_length(cat_3_pal, 3) - - # Test reversed palette - reversed_pal <- palette("cat_5_main", reverse = TRUE) - expect_equal(reversed_pal, rev(palette("cat_5_main"))) - - # Test custom palettes - custom_pal <- palette("cat_3_custom_1") - expect_equal(custom_pal, c("#003F5C", "#58508D", "#FFA600")) -}) - -test_that("show_palettes option works", { - # Test show_palettes parameter - pal_names <- palette(show_palettes = TRUE) - expect_type(pal_names, "character") - expect_true(length(pal_names) > 0) - expect_true("cat_5_main" %in% pal_names) - expect_true("cat_3_custom_1" %in% pal_names) -}) - -test_that("palette handles errors correctly", { - # Test non-existent palette - expect_error( - palette("not_a_real_palette"), - "Palette not defined" - ) - - # Test parameter validation - expect_error(palette(palette = 123)) - expect_error(palette(palette = c("cat_5_main", "cat_3_custom_1"))) - expect_error(palette(reverse = "yes")) - expect_error(palette(show_palettes = "TRUE")) -}) - -test_that("all palette entries are valid colors", { - # Get all palette names - pal_names <- palette(show_palettes = TRUE) - - # Check each palette contains valid colors - for (pal_name in pal_names) { - pal_colors <- palette(pal_name) - - # Check that each color can be processed by grDevices - for (color in pal_colors) { - expect_true( - # Check if the color is valid by converting it to RGB - !is.na(grDevices::col2rgb(color)[1, 1]), - info = paste("Invalid color in palette", pal_name, ":", color) - ) - } - } -}) - -test_that("palettes have expected lengths", { - # Check specific palette lengths - expect_length(palette("cat_2_yellow"), 2) - expect_length(palette("cat_3_aquamarine"), 3) - expect_length(palette("cat_5_main"), 5) - expect_length(palette("cat_8_tol_adapted"), 8) -}) diff --git a/tests/testthat/test-palette_gen.R b/tests/testthat/test-palette_gen.R deleted file mode 100644 index a38e068..0000000 --- a/tests/testthat/test-palette_gen.R +++ /dev/null @@ -1,223 +0,0 @@ -# Tests for palette_gen functions - -test_that("palette_gen validates parameters correctly", { - # Check that invalid type throws error - expect_error( - palette_gen("cat_5_main", "invalid_type"), - "Assertion on 'type' failed" - ) - - # Check that invalid palette throws error - expect_error( - palette_gen(123, "categorical"), - "Assertion on 'palette' failed" - ) - expect_error( - palette_gen(c("cat_5_main", "cat_3_custom_1"), "categorical"), - "Assertion on 'palette' failed" - ) - - # Check that invalid direction throws error - expect_error( - palette_gen("cat_5_main", "categorical", direction = 0), - "Assertion on 'abs\\(direction\\) == 1' failed" - ) - expect_error( - palette_gen("cat_5_main", "categorical", direction = 2), - "Assertion on 'direction' failed" - ) - - # Check valid types don't error - expect_type(palette_gen("cat_5_main", "categorical"), "closure") - expect_type(palette_gen("cat_5_main", "sequential"), "closure") - expect_type(palette_gen("div_5_orange_blue", "divergent"), "closure") -}) - -test_that("palette_gen returns appropriate function types", { - # Categorical palette should return a function - cat_fn <- palette_gen("cat_5_main", "categorical") - expect_true(is.function(cat_fn)) - - # Sequential palette should return a function - seq_fn <- palette_gen("cat_5_main", "sequential") - expect_true(is.function(seq_fn)) - - # Divergent palette should return a function - div_fn <- palette_gen("div_5_orange_blue", "divergent") - expect_true(is.function(div_fn)) -}) - -test_that("palette_gen dispatches to correct function types", { - # Test for categorical type - cat_result <- palette_gen("cat_5_main", "categorical", direction = -1) - expect_true(is.function(cat_result)) - - # Verify it behaves like a categorical palette function - expect_equal(length(cat_result(3)), 3) - expect_type(cat_result(3), "character") - - # Test for sequential type - seq_result <- palette_gen("cat_5_main", "sequential", direction = -1) - expect_true(is.function(seq_result)) - - # Verify it behaves like a sequential palette function - expect_equal(length(seq_result(5)), 5) - expect_type(seq_result(5), "character") - - # Test for divergent type - should work like sequential - div_result <- palette_gen("div_5_orange_blue", "divergent", direction = -1) - expect_true(is.function(div_result)) - expect_equal(length(div_result(7)), 7) - expect_type(div_result(7), "character") -}) - -test_that("palette_gen_categorical validates parameters", { - # Test palette parameter validation - expect_error( - palette_gen_categorical(palette = 123), - "Assertion on 'palette' failed" - ) - expect_error( - palette_gen_categorical(palette = c("cat_5_main", "cat_3_custom_1")), - "Assertion on 'palette' failed" - ) - - # Test direction parameter validation - expect_error( - palette_gen_categorical(direction = 0), - "Assertion on 'abs\\(direction\\) == 1' failed" - ) - expect_error( - palette_gen_categorical(direction = 2), - "Assertion on 'direction' failed" - ) - expect_error( - palette_gen_categorical(direction = -2), - "Assertion on 'direction' failed" - ) - expect_error( - palette_gen_categorical(direction = "1"), - "Assertion on 'direction' failed" - ) -}) - -test_that("palette_gen_categorical returns a function", { - fn <- palette_gen_categorical() - expect_true(is.function(fn)) -}) - -test_that("palette_gen_categorical function generates correct colors", { - # Get the palette function - fn <- palette_gen_categorical("cat_5_main") - - # Get the actual colors from the palette - pal_colors <- palette("cat_5_main") - - # Test default behavior (return all colors) - expect_equal(fn(NULL), pal_colors) - - # Test specific number of colors - expect_equal(fn(3), pal_colors[1:3]) - - # Test direction reversal - rev_fn <- palette_gen_categorical("cat_5_main", direction = -1) - expect_equal(rev_fn(NULL), rev(pal_colors)) -}) - -test_that("palette_gen_categorical warns when requesting too many colors", { - fn <- palette_gen_categorical("cat_3_aquamarine") - expect_warning(fn(10), "Not enough colors in this palette!") -}) - -test_that("palette_gen_sequential validates parameters", { - # Test palette parameter validation - expect_error( - palette_gen_sequential(palette = 123), - "Assertion on 'palette' failed" - ) - expect_error( - palette_gen_sequential(palette = c("cat_5_main", "cat_3_custom_1")), - "Assertion on 'palette' failed" - ) - - # Test direction parameter validation - expect_error( - palette_gen_sequential(direction = 0), - "Assertion on 'abs\\(direction\\) == 1' failed" - ) - expect_error( - palette_gen_sequential(direction = 2), - "Assertion on 'direction' failed" - ) - expect_error( - palette_gen_sequential(direction = -2), - "Assertion on 'direction' failed" - ) - expect_error( - palette_gen_sequential(direction = "1"), - "Assertion on 'direction' failed" - ) -}) - -test_that("palette_gen_sequential returns a colorRampPalette function", { - # Test with default parameters - fn_default <- palette_gen_sequential() - expect_true(is.function(fn_default)) - - # Test with specific palette - fn <- palette_gen_sequential("cat_5_main") - expect_true(is.function(fn)) - - # colorRampPalette functions take an integer and return a character vector - colors <- fn(10) - expect_type(colors, "character") - expect_length(colors, 10) - - # Each color should be a valid hex code - hex_pattern <- "^#[0-9A-Fa-f]{6}$" - for (color in colors) { - expect_match(color, hex_pattern) - } -}) - -test_that("palette_gen_sequential handles direction parameter correctly", { - # Create functions with opposite directions - fn1 <- palette_gen_sequential("cat_5_main", direction = 1) - fn2 <- palette_gen_sequential("cat_5_main", direction = -1) - - # Generate colors - colors1 <- fn1(5) - colors2 <- fn2(5) - - # Colors should be different when direction is different - expect_false(identical(colors1, colors2)) -}) - -test_that("palette_gen functions work with all available palettes", { - # Get all palette names - pal_names <- palette(show_palettes = TRUE) - - for (pal_name in pal_names) { - # Test categorical - check only that it returns a function - cat_fn <- tryCatch( - palette_gen_categorical(pal_name), - error = function(e) NULL - ) - if (!is.null(cat_fn)) { - expect_true(is.function(cat_fn)) - # Use min(3, length of palette colors) to avoid warning - n_colors <- min(3, length(palette(pal_name))) - expect_type(cat_fn(n_colors), "character") - } - - # Test sequential - check only that it returns a function - seq_fn <- tryCatch( - palette_gen_sequential(pal_name), - error = function(e) NULL - ) - if (!is.null(seq_fn)) { - expect_true(is.function(seq_fn)) - expect_type(seq_fn(3), "character") - } - } -}) diff --git a/tests/testthat/test-reorder_by.R b/tests/testthat/test-reorder_by.R deleted file mode 100644 index 34db021..0000000 --- a/tests/testthat/test-reorder_by.R +++ /dev/null @@ -1,160 +0,0 @@ -test_that("reorder_by works with character columns", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - group = c("Group 1", "Group 2", "Group 1", "Group 2", "Group 1"), - stringsAsFactors = FALSE - ) - - # Test order by values (y) - result <- reorder_by(test_data, "category", "value", order = "y") - expected_order <- c("D", "B", "E", "C", "A") - expect_equal(as.character(result$category), expected_order) - - # Test reversed order - result_rev <- reorder_by( - test_data, - "category", - "value", - order = "y", - dir_order = -1 - ) - expect_equal(as.character(result_rev$category), rev(expected_order)) - - # Test alphabetical order - result_alpha <- reorder_by(test_data, "category", "value", order = "x") - expect_equal(as.character(result_alpha$category), c("A", "B", "C", "D", "E")) -}) - -test_that("reorder_by works with factor columns", { - test_data <- data.frame( - category = factor(c("B", "A", "D", "C", "E")), - value = c(25, 40, 15, 35, 30), - group = factor(c("Group 1", "Group 2", "Group 1", "Group 2", "Group 1")) - ) - - # Test order by values (y) - result <- reorder_by(test_data, "category", "value", order = "y") - expect_true(is.factor(result$category)) - expect_equal(as.character(result$category), c("D", "B", "E", "C", "A")) - - # Test factor levels - expect_equal(levels(result$category), c("D", "B", "E", "C", "A")) -}) - -test_that("reorder_by handles grouped ordering correctly", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - group = c("Group 1", "Group 2", "Group 1", "Group 2", "Group 1"), - stringsAsFactors = FALSE - ) - - # Test grouped_y ordering - result <- reorder_by( - test_data, - "category", - "value", - group = "group", - order = "grouped_y" - ) - - # Group 1 items should be ordered by value within Group 1 - group1_items <- result[result$group == "Group 1", "category"] - group1_values <- result[result$group == "Group 1", "value"] - expect_true(all(group1_values == sort(group1_values))) - - # Group 2 items should be ordered by value within Group 2 - group2_items <- result[result$group == "Group 2", "category"] - group2_values <- result[result$group == "Group 2", "value"] - expect_true(all(group2_values == sort(group2_values))) - - # Test grouped_x ordering - result_x <- reorder_by( - test_data, - "category", - "value", - group = "group", - order = "grouped_x" - ) - - # Groups should remain intact, and items should be ordered alphabetically within groups - group1_items_x <- as.character(result_x[ - result_x$group == "Group 1", - "category" - ]) - expect_equal(group1_items_x, sort(group1_items_x)) -}) - -test_that("reorder_by handles fallback cases", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - stringsAsFactors = FALSE - ) - - # Test empty group with grouped_y - expect_warning( - result <- reorder_by( - test_data, - "category", - "value", - group = "", - order = "grouped_y" - ), - "Group is empty" - ) - # Should fall back to ordering by y - expect_equal(as.character(result$category), c("D", "B", "E", "C", "A")) - - # Test empty group with grouped_x - expect_warning( - result_x <- reorder_by( - test_data, - "category", - "value", - group = "", - order = "grouped_x" - ), - "Group is empty" - ) - # Should fall back to alphabetical ordering - expect_equal(as.character(result_x$category), c("A", "B", "C", "D", "E")) -}) - -test_that("reorder_by preserves row data correctly", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - extra = c("x1", "x2", "x3", "x4", "x5"), - stringsAsFactors = FALSE - ) - - # Test that reordering preserves all columns and their associations - result <- reorder_by(test_data, "category", "value", order = "y") - - # Values should correspond to the correct categories - expect_equal(result$value[result$category == "A"], 40) - expect_equal(result$value[result$category == "B"], 25) - expect_equal(result$value[result$category == "C"], 35) - expect_equal(result$value[result$category == "D"], 15) - expect_equal(result$value[result$category == "E"], 30) - - # Extra column should maintain its associations - expect_equal(result$extra[result$category == "A"], "x2") - expect_equal(result$extra[result$category == "B"], "x1") -}) - -test_that("reorder_by handles no reordering case", { - test_data <- data.frame( - category = c("B", "A", "D", "C", "E"), - value = c(25, 40, 15, 35, 30), - stringsAsFactors = FALSE - ) - - # Test no reordering - result <- reorder_by(test_data, "category", "value", order = "none") - - # Order should be preserved from the original data - expect_equal(as.character(result$category), c("B", "A", "D", "C", "E")) -}) diff --git a/vignettes/.gitignore b/vignettes/.gitignore deleted file mode 100644 index 9e2bd63..0000000 --- a/vignettes/.gitignore +++ /dev/null @@ -1,4 +0,0 @@ -*.html -*.R - -/.quarto/ diff --git a/visualizeR.Rproj b/visualizeR.Rproj index ffb476d..497f8bf 100644 --- a/visualizeR.Rproj +++ b/visualizeR.Rproj @@ -1,5 +1,4 @@ Version: 1.0 -ProjectId: e1665596-bf01-400a-b4a1-2f46436c0b23 RestoreWorkspace: Default SaveWorkspace: Default