SH: all

.Rbuildignore

@@ -14,3 +14,5 @@ vignettes/.Rhistory
 nobioc
 ^.*\.Rproj$
 ^\.Rproj\.user$
+_pkgdown.yml
+docs/

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: gRbase
-Version: 2.0.2
+Version: 2.0.3
 Title: A Package for Graphical Modelling in R
 Author: Søren Højsgaard <[email protected]>
 Maintainer: Søren Højsgaard <[email protected]>
@@ -38,5 +38,5 @@ Suggests:
     markdown,
     knitr
 LinkingTo: Rcpp (>= 0.11.1), RcppEigen, RcppArmadillo
-RoxygenNote: 7.3.1
+RoxygenNote: 7.3.2
 Roxygen: list(markdown = TRUE)

NAMESPACE

@@ -130,7 +130,6 @@ export(get_cliques)
 export(get_subset)
 export(get_superset)
 export(graph_as)
-export(intersectPrim)
 export(iplot)
 export(is.DAG)
 export(is.DG)
@@ -172,7 +171,6 @@ export(list2rhsFormula)
 export(list2rhsf)
 export(listify_dots)
 export(makeDimNames)
-export(matchPrim)
 export(matrix2list)
 export(maxClique)
 export(maxCliqueMAT)
@@ -198,7 +196,6 @@ export(nodes)
 export(nodes_)
 export(nonEdgeList)
 export(nonEdgeListMAT)
-export(outerPrim)
 export(pairs2num)
 export(parents)
 export(parray)
@@ -217,7 +214,6 @@ export(ripMAT)
 export(rowSumsPrim)
 export(rowmat2list)
 export(separates)
-export(setdiffPrim)
 export(simplicialNodes)
 export(simulateArray)
 export(slice2entry)
@@ -276,8 +272,6 @@ export(ug)
 export(ug2dag)
 export(ugList)
 export(ugi)
-export(uniquePrim)
-export(unlistPrim)
 export(valueLabels)
 export(varNames)
 export(vchi)

NEWS

@@ -1,3 +1,12 @@
+gRbase v2.0.3 (Release date: 2024-10-14)
+==========================================
+
+Changes:
+
+* All references to graphNEL objects, the graph package etc should be
+  removed now. Everything related to graphs evolves around igraphs and
+  adjacency matrices.
+
 gRbase v2.0.2 (Release date: 2024-06-04)
 ==========================================
 

_pkgdown.yml

@@ -0,0 +1,22 @@
+reference:
+- title: Functions in gRbase
+  desc: > 
+    Functions in gRain to be used in the future.
+  contents:
+  - lacks_concepts(c("dataset"))
+- title: Old names
+  desc: >    
+    These functions are kept in the package for backward compatibility. They may be deprecated in the future. 
+  contents:
+  - has_concept("old_names")
+- title: Datasets 
+  desc: >    
+    These functions are kept in the package for backward compatibility. They may be deprecated in the future. 
+  contents:
+  - has_concept("dataset")
+
+
+## - title: Complete reference
+##   desc: ~
+##   contents:
+##   - matches(".*")