Move code to R directory.

1 files changed, 119 insertions, 0 deletions

diff --git a/R/guix.install.R b/R/guix.install.R
new file mode 100644
index 0000000..466015a
--- /dev/null
+++ b/R/guix.install.R
@@ -0,0 +1,119 @@
+## Copyright (C) 2020, 2021 Ricardo Wurmus
+##
+## This program is free software: you can redistribute it and/or modify
+## it under the terms of the GNU General Public License as published by
+## the Free Software Foundation, either version 3 of the License, or
+## (at your option) any later version.
+##
+## This program is distributed in the hope that it will be useful,
+## but WITHOUT ANY WARRANTY; without even the implied warranty of
+## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+## GNU General Public License for more details.
+##
+## You should have received a copy of the GNU General Public License
+## along with this program.  If not, see <http://www.gnu.org/licenses/>.
+
+## TODO:
+## - allow installation of more than one package
+
+guix.install <- function (package, profile = NULL, guix = "guix", archive = NULL)
+{
+    if (is.null (profile)) {
+        ## Use the default profile unless otherwise specified.
+        guix_profile <- Sys.getenv ("GUIX_PROFILE", unset = NA)
+        if (is.na (guix_profile)) {
+            profile <- paste (Sys.getenv ("HOME"), ".guix-profile", sep = "/")
+        } else {
+            profile <- guix_profile
+        }
+    } else {
+        ## Create the parent directory if necessary.
+        parent <- dirname (profile)
+        if (! dir.exists (parent)) {
+            dir.create (parent, recursive = TRUE)
+        }
+    }
+
+    ## Location of on-the-fly generated packages
+    scratch <- paste (Sys.getenv ("HOME"), ".Rguix", "packages.scm", sep = "/")
+
+    ## split package path, put scratch location first
+    package_path <- NULL
+    old_package_path <- Sys.getenv ("GUIX_PACKAGE_PATH")
+    entries <- strsplit (old_package_path, ":")[[1]]
+    package_path <- paste (unique (c(dirname (scratch), entries)), sep = ":")
+    Sys.setenv (GUIX_PACKAGE_PATH=package_path)
+
+    is_url <- length (grep ("^https?://", package)) > 0
+
+    if (!is_url) {
+        ## The normalized name used by Guix packages
+        guix_name <- paste0 ("r-", gsub ("[^a-z0-9]", "-", tolower (package)))
+
+        ## Does the package already exist?
+        error <- system2 (guix, c("show", guix_name),
+                          stdout = NULL, stderr = NULL)
+    }
+    
+    ## Attempt to import the package
+    if (is_url || (error > 0)) {
+        ## Build a scratch module
+        if (! dir.exists (dirname (scratch))) {
+            dir.create (dirname (scratch), recursive = TRUE)
+        }
+        if (! file.exists (scratch)) {
+            cat ("
+(define-module (packages)
+  #:use-module (gnu)
+  #:use-module (guix)
+  #:use-module (guix git-download)
+  #:use-module (guix hg-download)
+  #:use-module (guix build-system r)
+  #:use-module (guix licenses))
+", file = scratch)
+        }
+
+        if (is.null (archive)) {
+            archive <- if (is_url) {
+                           "git" # TODO: what about hg?
+                       } else {
+                           ## The importer will retry importing from CRAN if a
+                           ## package is not found on Bioconductor.
+                           "bioconductor"
+                       }
+        }
+
+        definitions <- suppressWarnings (system2 (guix, c("import", "cran",
+                                                          "--recursive",
+                                                          "--style=specification",
+                                                          paste ("--archive", archive, sep = "="),
+                                                          package),
+                                                  stdout = TRUE))
+
+        ## Abort on error
+        status <- attr (definitions, "status")
+        if (!is.null (status) && (status > 0)) {
+            stop (paste("Failed to import", package))
+        }
+
+        ## Get guix_name from definitions
+        pattern <- "\\(name \"([^\"]+)\"\\)"
+        name <- grep (pattern, definitions, value = TRUE)
+        guix_name <- sub (pattern, "\\1", name)
+
+        ## Store generated package definitions.
+        cat (";; Imported from within R at ", date(), "\n",
+             file = scratch, append = TRUE)
+        cat (definitions, sep = "\n",
+             file = scratch, append = TRUE)
+    }
+
+    ## Install the package.
+    error <- system2 (guix, c("package", paste ("--profile", profile, sep = "="),
+                              "--install", guix_name))
+
+    ## Extend the R load path.
+    if (error == 0) {
+        .libPaths (paste (profile, "site-library", sep = "/"))
+    }
+}