[Phylobase-commits] r538 - in pkg: . man

[noreply at r-forge.r-project.org]

Author: bbolker
Date: 2009-08-20 21:09:27 +0200 (Thu, 20 Aug 2009)
New Revision: 538

Modified:
   pkg/NAMESPACE
   pkg/man/printphylo4.Rd
Log:
 tweak docs; hide drawDetails.bublegend



Modified: pkg/NAMESPACE
===================================================================
--- pkg/NAMESPACE	2009-08-20 18:54:12 UTC (rev 537)
+++ pkg/NAMESPACE	2009-08-20 19:09:27 UTC (rev 538)
@@ -67,7 +67,7 @@
 
 # plotting functions
 export(treePlot, plotOneTree, tip.data.plot)
-export(phyloXXYY, phylobubbles, drawDetails.bubLegend)
+export(phyloXXYY, phylobubbles)
 
 # misc functions
 export(extractTree, tbind)
@@ -85,6 +85,7 @@
 ## presumably these should remain hidden
 #export(.createLabels, .createEdge, .phylo4Data, orderIndex, .genlab,
 #    .chnumsort, .phylo4ToDataFrame, .bubLegendGrob)
+## hidden: drawDetails.bubLegend)
 
 ## recently removed:
 ##  tree.plot

Modified: pkg/man/printphylo4.Rd
===================================================================
--- pkg/man/printphylo4.Rd	2009-08-20 18:54:12 UTC (rev 537)
+++ pkg/man/printphylo4.Rd	2009-08-20 19:09:27 UTC (rev 538)
@@ -5,13 +5,13 @@
 Prints a phylo4 or phylo4d object in data.frame format with user-friendly column names
 }
 \usage{
-printphylo4(x, printall = TRUE)
+printphylo4(x, edgeOrder=c("pretty","real"), printall = TRUE)
 }
 \arguments{
-  \item{x}{a phylo4 tree or phylo4d tree+data object}
+  \item{x}{a \code{phylo4} tree or \code{phylo4d} tree+data object}
   \item{edgeOrder}{in the data frame returned, the option 'pretty' returns the internal nodes
-  followed by the tips, the option 'real' returns the nodes in the order they are stored
-  in the edge matrix.}
+    followed by the tips, the option 'real' returns the nodes in the order they are stored
+    in the edge matrix.}
   \item{printall}{default prints entire tree. printall=FALSE returns the first 6 rows}
 }
 \details{