[WIP] fix variable error

openproblems-bio · Aug 16, 2024 · 4168527 · 4168527
1 parent 66f11a3
commit 4168527
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Showing 4 changed files with 6 additions and 10 deletions.
diff --git a/packages/r/openproblems/NAMESPACE b/packages/r/openproblems/NAMESPACE
@@ -2,14 +2,14 @@
 
 export(.render_example_process_property)
 export(.task_graph_get_root)
-export(anndata_struct_names)
 export(create_task_graph)
 export(find_project_root)
 export(format_comp_args_as_tibble)
 export(format_file_format)
 export(format_file_format_as_kable)
 export(list_as_tibble)
 export(list_contains_tibble)
+export(read_anndata_slots)
 export(read_api_files)
 export(read_comp_args)
 export(read_comp_info)

diff --git a/packages/r/openproblems/R/read_file.R b/packages/r/openproblems/R/read_file.R
@@ -64,7 +64,6 @@ read_file_info <- function(spec, path) {
 
 
 read_anndata_slots <- function(spec, path) {
-  anndata_struct_names <- c("obs", "var", "obsm", "obsp", "varm", "varp", "layers", "uns")
   map_df(
     anndata_struct_names,
     function(struct_name, slot) {

diff --git a/packages/r/openproblems/R/variables.R b/packages/r/openproblems/R/variables.R
@@ -0,0 +1,2 @@
+# variables used across the package
+anndata_struct_names <- c("obs", "var", "obsm", "obsp", "varm", "varp", "layers", "uns")
diff --git a/.../openproblems/man/anndata_struct_names.Rd → .../r/openproblems/man/read_anndata_slots.Rd b/.../openproblems/man/anndata_struct_names.Rd → .../r/openproblems/man/read_anndata_slots.Rd
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1,2 @@
		# variables used across the package
		anndata_struct_names <- c("obs", "var", "obsm", "obsp", "varm", "varp", "layers", "uns")