upload version 2.5.4 to CRAN

Author: EricArcher

DESCRIPTION

@@ -7,13 +7,13 @@ Description: Estimate significance of importance metrics
     metrics for each predictor variable and p-value of
     observed. Provides summary and visualization functions for 'randomForest' 
     results.
-Version: 2.5.3
+Version: 2.5.4
 Authors@R: c(
   EA = person("Eric", "Archer", email = "eric.archer@noaa.gov", role = c("aut", "cre")))
 URL: https://github.com/EricArcher/rfPermute
 BugReports: https://github.com/EricArcher/rfPermute/issues
 Depends:
-    R (>= 4.0.0)
+    R (>= 4.1.0)
 Imports:
     abind (>= 1.4),
     dplyr (>= 1.0),

R/plotProximity.R

@@ -31,7 +31,7 @@
 #'   
 #' @return a list with: 
 #'  \item{prox.mds}{the MDS scores of the selected dimensions} 
-#'  \item{g}{\code{\link{ggplot}} object}
+#'  \item{g}{a \code{ggplot2} object}
 #' 
 #' @author Eric Archer \email{eric.archer@@noaa.gov}
 #' 

R/rfPermute.R

@@ -4,7 +4,7 @@
 #'   model by permuting the response variable. Produces null distribution of 
 #'   importance metrics for each predictor variable and p-value of observed.
 #'
-#' @param x,y,formula,data,subset,na.action,\dots See \code{\link{randomForest}} 
+#' @param x,y,formula,data,subset,na.action,\dots See \code{\link[randomForest]{randomForest}} 
 #'   for definitions. In \code{as.randomForest} this is either a 
 #'   \code{randomForest} or \code{rfPermute} object to be converted to a
 #'   \code{randomForest} object.

R/summary.R

@@ -28,7 +28,7 @@
 #' 
 summary.randomForest <- function(object, ...) {
   print(object, ...)
-  print(plotTrace(object, plot = F))
+  print(plotTrace(object, plot = FALSE))
 }
 
 #' @rdname summary

README.md

@@ -59,11 +59,11 @@ devtools::install_github('EricArcher/rfPermute')
 
 ## Changelog
 
-### version 2.5.3 (devel)
+### version 2.5.4 (on CRAN)
 
 * fixed print.rfPermute output for regression models.  
 
-### version 2.5.2 (CRAN)
+### version 2.5.2
 
 * fixed bug in plotImportance heatmap to now properly choose top rather than bottom `n` predictors.
 * update package documentation for CRAN