Merge branch 'dev'

DESCRIPTION

@@ -1,15 +1,15 @@
 Package: sparsebn
 Title: Learning Sparse Bayesian Networks from High-Dimensional Data
-Version: 0.0.2
-Date: 2016-11-28
+Version: 0.0.3
+Date: 2017-03-10
 Authors@R: person("Bryon", "Aragam", email = "sparsebn@gmail.com", role = c("aut", "cre"))
 Maintainer: Bryon Aragam <sparsebn@gmail.com>
 Description: Fast methods for learning sparse Bayesian networks from high-dimensional data using sparse regularization. Designed to incorporate mixed experimental and observational data with thousands of variables with either continuous or discrete observations.
 Depends:
     R (>= 3.2.3),
-    sparsebnUtils (>= 0.0.3),
-    ccdrAlgorithm (>= 0.0.2),
-    discretecdAlgorithm (>= 0.0.2)
+    sparsebnUtils (>= 0.0.4),
+    ccdrAlgorithm (>= 0.0.3),
+    discretecdAlgorithm (>= 0.0.3)
 Suggests:
     knitr,
     rmarkdown,
@@ -20,6 +20,6 @@ Suggests:
 URL: https://github.com/itsrainingdata/sparsebn
 BugReports: https://github.com/itsrainingdata/sparsebn/issues
 License: GPL (>= 2)
-RoxygenNote: 5.0.1
+RoxygenNote: 6.0.1
 VignetteBuilder: knitr
 LazyData: true

NEWS.md

@@ -1,3 +1,9 @@
+# sparsebn 0.0.3
+
+## Bug fixes
+
+* Minor bug fixes
+
 # sparsebn 0.0.2
 
 ## Features

R/sparsebn-main.R

@@ -47,12 +47,10 @@
 #'
 #' @examples
 #'
-#' \dontrun{
 #' # Estimate a DAG from the cytometry data
 #' data(cytometryContinuous)
 #' dat <- sparsebnData(cytometryContinuous$data, type = "c", ivn = cytometryContinuous$ivn)
 #' estimate.dag(dat)
-#' }
 #'
 #' @export
 estimate.dag <- function(data,
@@ -133,12 +131,10 @@ estimate.dag <- function(data,
 #'
 #' @examples
 #'
-#' \dontrun{
 #' data(cytometryContinuous)
 #' dat <- sparsebnData(cytometryContinuous$data, type = "c", ivn = cytometryContinuous$ivn)
 #' estimate.covariance(dat) # estimate covariance
 #' estimate.precision(dat)  # estimate precision
-#' }
 #'
 #' @name estimate.covariance
 #' @rdname estimate.covariance

R/sparsebn-plotting.R

@@ -30,7 +30,7 @@
 #' @param ... Additional arguments to \code{\link{plot}}.
 #'
 #' @export
-plotDAG <- function(x){
+plotDAG <- function(x, ...){
     ### Must use igraph for the default method
     current_plot_pkg <- getPlotPackage()
     if(current_plot_pkg != "igraph"){

cran-comments.md

@@ -1,19 +1,16 @@
 ## Test environments
-* local OS X install, R 3.3.2
-* ubuntu 12.04.5 (travis-ci), R 3.3.2 (oldrel, devel, and release)
+* local OS X install, R 3.3.3
+* ubuntu 12.04.5 (travis-ci), R 3.3.3 (oldrel, devel, and release)
 * win-builder (devel and release)
+* r-hub (oldrel, devel, and release)
 
 ## R CMD check results
 There were no ERRORs, WARNINGs, or NOTEs.
 
-## CRAN notes
-
-The current warnings listed for v0.0.1 at https://cran.rstudio.com/web/checks/check_results_sparsebn.html are a result of recent updates to the dependencies for this submission. The current submission remedies all of these issues.
-
 ## Dependencies
 
 CHECK has been run on all dependencies and passed.
 
 ## Reverse dependencies
 
-There are no reverse dependencies.
+There are no reverse dependencies.