Use less stringent cache, update examples again

Author: multimeric

.github/workflows/check-bioc.yml

@@ -107,16 +107,14 @@ jobs:
         uses: actions/cache@v2
         with:
           path: ${{ env.R_LIBS_USER }}
-          key: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2-${{ hashFiles('.github/depends.Rds') }}
-          restore-keys: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2-
+          key: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2
 
       - name: Cache R packages on Linux
         if: "!contains(github.event.head_commit.message, '/nocache') && runner.os == 'Linux' "
         uses: actions/cache@v2
         with:
           path: /home/runner/work/_temp/Library
-          key: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2-${{ hashFiles('.github/depends.Rds') }}
-          restore-keys: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2-
+          key: ${{ env.cache-version }}-${{ runner.os }}-biocversion-RELEASE_3_15-r-4.2
 
       - name: Install Linux system dependencies
         if: runner.os == 'Linux'

R/query.R

@@ -256,7 +256,7 @@ as.sparse.DelayedMatrix <- function(x) {
 #' @return A Seurat object containing the same data as a call to get_SingleCellExperiment.
 #' @examples
 #' meta <- get_metadata() |> head(2)
-#' seurat <- get_seurat(meta, repository = Sys.getenv("REMOTE_HCA"), cache_directory)
+#' seurat <- get_seurat(meta)
 #'
 get_seurat <- function(...) {
   get_SingleCellExperiment(...) |> as.Seurat(data = NULL)