UCSC.utils 1.5.1

Get rid of internal utility load_package_gracefully() and use
S4Vectors:::load_package_gracefully() instead.

Author: hpages

DESCRIPTION

@@ -10,12 +10,12 @@ biocViews: Infrastructure, GenomeAssembly, Annotation, GenomeAnnotation,
 	DataImport
 URL: https://bioconductor.org/packages/UCSC.utils
 BugReports: https://github.com/Bioconductor/UCSC.utils/issues
-Version: 1.5.0
+Version: 1.5.1
 License: Artistic-2.0
 Encoding: UTF-8
 Authors@R: person("Hervé", "Pagès", role=c("aut", "cre"),
 	          email="[email protected]")
-Imports: methods, stats, httr, jsonlite, S4Vectors
+Imports: methods, stats, httr, jsonlite, S4Vectors (>= 0.47.6)
 Suggests: DBI, RMariaDB, GenomeInfoDb, testthat, knitr, rmarkdown, BiocStyle
 VignetteBuilder: knitr
 Collate: 00utils.R

R/00utils.R

@@ -1,14 +1,5 @@
 cached_rest_api_results <- new.env(parent=emptyenv())
 
-load_package_gracefully <- function(package, ...)
-{
-    if (!requireNamespace(package, quietly=TRUE))
-        stop("Could not load package ", package, ". Is it installed?\n\n  ",
-             wmsg("Note that ", ..., " requires the ", package, " package. ",
-                  "Please install it with:"),
-             "\n\n    BiocManager::install(\"", package, "\")")
-}
-
 
 ### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 ### make_data_frame_from_list_of_rows()

R/UCSC_dbselect.R

@@ -86,8 +86,8 @@ UCSC_dbselect <- function(dbname, from, columns=NULL, where=NULL, MoreSQL=NULL,
                           host="genome-mysql.soe.ucsc.edu",
                           port=3306)
 {
-    load_package_gracefully("DBI", "UCSC_dbselect()")
-    load_package_gracefully("RMariaDB", "UCSC_dbselect()")
+    S4Vectors:::load_package_gracefully("DBI", "by UCSC_dbselect()")
+    S4Vectors:::load_package_gracefully("RMariaDB", "by UCSC_dbselect()")
 
     SQL <- .make_SQL_SELECT(from, columns=columns, where=where, MoreSQL=MoreSQL)
     dbconn <- DBI::dbConnect(RMariaDB::MariaDB(), dbname=dbname,