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removed apt-get install from install.R
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,68 +1,69 @@ | ||
| #' @export | ||
| use_mh_tutorial_template <- function(title = "tutorial", dir = NULL, file = "index.qmd") { | ||
| active_dir <- getwd() | ||
| if (is.null(dir)) { | ||
| dir <- file.path(active_dir, gsub(" ", "_", title)) | ||
| } | ||
| if (dir.exists(dir)) { | ||
| rlang::abort("a directory with the same name already exists.") | ||
| } | ||
| dir.create(dir) | ||
| setwd(dir) | ||
| yaml_proj <- readLines(system.file("templates", "quarto.yaml", package = "usemh")) | ||
| writeLines( | ||
| whisker::whisker.render( | ||
| yaml_proj, | ||
| data = list("Package" = title, "file" = file) | ||
| ), "_quarto.yml" | ||
| ) | ||
| file.copy(system.file("templates", "tutorial.qmd", package = "usemh"), file) | ||
| file.copy(system.file("templates", "apa.csl", package = "usemh"), "apa.csl") | ||
| file.copy(system.file("templates", "references.bib", package = "usemh"), "references.bib") | ||
| write("/.quarto/", ".gitignore", append = TRUE) | ||
| cli::cli_alert_info("basic tutorial files created in {dir}. After finishing writing the tutorial run {.fn use_mh_tutorial_utils}") | ||
| on.exit(setwd(active_dir)) | ||
| active_dir <- getwd() | ||
| if (is.null(dir)) { | ||
| dir <- file.path(active_dir, gsub(" ", "_", title)) | ||
| } | ||
| if (dir.exists(dir)) { | ||
| rlang::abort("a directory with the same name already exists.") | ||
| } | ||
| dir.create(dir) | ||
| setwd(dir) | ||
| yaml_proj <- readLines(system.file("templates", "quarto.yaml", package = "usemh")) | ||
| writeLines( | ||
| whisker::whisker.render( | ||
| yaml_proj, | ||
| data = list("Package" = title, "file" = file) | ||
| ), "_quarto.yml" | ||
| ) | ||
| file.copy(system.file("templates", "tutorial.qmd", package = "usemh"), file) | ||
| file.copy(system.file("templates", "apa.csl", package = "usemh"), "apa.csl") | ||
| file.copy(system.file("templates", "references.bib", package = "usemh"), "references.bib") | ||
| write("/.quarto/", ".gitignore", append = TRUE) | ||
| cli::cli_alert_info("basic tutorial files created in {dir}. After finishing writing the tutorial run {.fn use_mh_tutorial_utils}") | ||
| on.exit(setwd(active_dir)) | ||
| } | ||
|
|
||
| #' @export | ||
| use_mh_tutorial_utils <- function(title = NULL, file = NULL, overwrite = TRUE) { | ||
| if (!quarto::is_using_quarto()) { | ||
| rlang::abort("no tutorial (qmd file) found in current directory.") | ||
| } | ||
| if (is.null(file)) { | ||
| qmd_files <- list.files(pattern = "*qmd") | ||
| if (length(qmd_files) > 1) { | ||
| rlang::abort("more than one qmd file found, please specify file parameter") | ||
| } | ||
| file <- qmd_files | ||
| if (!quarto::is_using_quarto()) { | ||
| rlang::abort("no tutorial (qmd file) found in current directory.") | ||
| } | ||
| if (is.null(file)) { | ||
| qmd_files <- list.files(pattern = "*qmd") | ||
| if (length(qmd_files) > 1) { | ||
| rlang::abort("more than one qmd file found, please specify file parameter") | ||
| } | ||
| if (is.null(title)) { | ||
| txt <- suppressWarnings(readLines(file)) | ||
| title <- gsub("title: ", "", txt[grepl("^title:", txt)]) | ||
| if (length(title) == 0) { | ||
| rlang::abort("no title field found in file.") | ||
| } | ||
| } | ||
| if (!file.exists("_quarto.yml") || isTRUE(overwrite)) { | ||
| usethis::use_template( | ||
| "quarto.yaml", "_quarto.yml", | ||
| data = list("Package" = title, "file" = file), package = "usemh" | ||
| ) | ||
| usethis::use_git_ignore("/.quarto/") | ||
| } | ||
| notebook <- paste0(tools::file_path_sans_ext(file), ".ipynb") | ||
| if (!file.exists(notebook) || isTRUE(overwrite)) { | ||
| system(paste0("quarto convert ", file, " --output ", notebook)) # TODO: Error handling | ||
| } | ||
| quarto:::quarto_use(args = c("binder", "--no-prompt")) | ||
| if (!file.exists("install.R") || isTRUE(overwrite)) { | ||
| .create_install_R() | ||
| file <- qmd_files | ||
| } | ||
| if (is.null(title)) { | ||
| txt <- suppressWarnings(readLines(file)) | ||
| title <- gsub("title: ", "", txt[grepl("^title:", txt)]) | ||
| if (length(title) == 0) { | ||
| rlang::abort("no title field found in file.") | ||
| } | ||
| } | ||
| if (!file.exists("_quarto.yml") || isTRUE(overwrite)) { | ||
| usethis::use_template( | ||
| "quarto.yaml", "_quarto.yml", | ||
| data = list("Package" = title, "file" = file), package = "usemh" | ||
| ) | ||
| usethis::use_git_ignore("/.quarto/") | ||
| } | ||
| notebook <- paste0(tools::file_path_sans_ext(file), ".ipynb") | ||
| if (!file.exists(notebook) || isTRUE(overwrite)) { | ||
| system(paste0("quarto convert ", file, " --output ", notebook)) # TODO: Error handling | ||
| } | ||
| quarto:::quarto_use(args = c("binder", "--no-prompt")) | ||
| if (!file.exists("install.R") || isTRUE(overwrite)) { | ||
| .create_install_R() | ||
| } | ||
| } | ||
|
|
||
| .create_install_R <- function(path = ".") { | ||
| deps <- unique(renv::dependencies(path)$Package) | ||
| reqs <- remotes::system_requirements("ubuntu", "22.04", package = deps) | ||
| writeLines(reqs, "apt.txt") | ||
| writeLines(paste0('install.packages("', deps, '")'), "install.R") | ||
| deps <- unique(renv::dependencies(path)$Package) | ||
| reqs <- remotes::system_requirements("ubuntu", "22.04", package = deps) | ||
| reqs <- gsub("apt-get install -y ", "", reqs) | ||
| writeLines(reqs, "apt.txt") | ||
| writeLines(paste0('install.packages("', deps, '")'), "install.R") | ||
| } |