fixing something that went wrong with NAMESPACE generation

MoseleyBioinformaticsLab · Feb 28, 2024 · 5a98797 · 5a98797
1 parent bb4ec9e
commit 5a98797
Show file tree

Hide file tree

Showing 4 changed files with 13 additions and 28 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,5 +1,5 @@
 Package: categoryCompare2
-Version: 0.100.11
+Version: 0.100.12
 Title: Meta-Analysis of High-Throughput Experiments Using Feature
         Annotations
 Author: Robert M. Flight <[email protected]>

diff --git a/NAMESPACE b/NAMESPACE
@@ -59,26 +59,15 @@ exportClasses(combined_enrichment)
 exportClasses(hypergeom_features)
 exportClasses(node_assign)
 exportClasses(statistical_results)
-exportMethods(Extract)
-exportMethods(a)
 exportMethods(annotation_combinations)
 exportMethods(combine_annotations)
 exportMethods(combine_enrichments)
-exportMethods(enrich)
-exportMethods(enrichment)
-exportMethods(extract)
 exportMethods(extract_statistics)
-exportMethods(from)
 exportMethods(generate_annotation_graph)
 exportMethods(generate_table)
 exportMethods(get_significant_annotations)
-exportMethods(object.)
 exportMethods(remove_edges)
 exportMethods(show)
-exportMethods(single)
-exportMethods(statistical)
-exportMethods(stats)
-exportMethods(table)
 import(methods)
 importFrom(base64enc,dataURI)
 importFrom(colorspace,desaturate)

diff --git a/R/combine_enrichments.R b/R/combine_enrichments.R
@@ -576,16 +576,6 @@ setMethod("extract_statistics", signature = list(in_results = "combined_enrichme
                      use_names = base_enrich_names)
 }
 
-#' add data to graph
-#' 
-#' given a \code{\link{combined_enrichment}} object, add the data about the significant 
-#' and present annotations, their descriptions, links (if present), and all the statistics, 
-#' and add that data to the annotation graph object.
-#' 
-#' @param combined_enrichment a \code{\link{combined_enrichment}} object
-#' @exportMethod
-
-
 #' extract enrich stats
 #' 
 #' Extract statistical table from a single enrichment object.
@@ -601,3 +591,13 @@ extract_enrich_stats = function(enrichment_result)
   stats$description = enrichment_result@annotation@description[stats$ID]
   return(stats)
 }
+
+
+#' add data to graph
+#' 
+#' given a \code{\link{combined_enrichment}} object, add the data about the significant 
+#' and present annotations, their descriptions, links (if present), and all the statistics, 
+#' and add that data to the annotation graph object.
+#' 
+#' @param combined_enrichment a \code{\link{combined_enrichment}} object
+#' @exportMethod
diff --git a/man/extract_enrich_stats.Rd b/man/extract_enrich_stats.Rd