X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=R%2Fzoom.R;h=b24737612f73048e7594dc09450f587e5306f448;hb=50470fdeb74ae1e235e61ed6acfae81dd51f655c;hp=49deac2b013ed74ae6dc17c8b18c6a59277b56fd;hpb=a3ddfc06dd47c560b3ec5869ac104b0c68441eb1;p=ape.git

diff --git a/R/zoom.R b/R/zoom.R
index 49deac2..b247376 100644
--- a/R/zoom.R
+++ b/R/zoom.R
@@ -1,8 +1,8 @@
-## zoom.R (2008-04-16)
+## zoom.R (2009-07-27)
 
 ##   Zoom on a Portion of a Phylogeny
 
-## Copyright 2003-2008 Emmanuel Paradis
+## Copyright 2003-2009 Emmanuel Paradis
 
 ## This file is part of the R-package `ape'.
 ## See the file ../COPYING for licensing issues.
@@ -14,14 +14,13 @@ zoom <- function(phy, focus, subtree = FALSE, col = rainbow, ...)
     for (i in 1:n)
       if (is.character(focus[[i]]))
         focus[[i]] <- which(phy$tip.label %in% focus[[i]]) # fix by Yan Wong
-    if (is.function(col))
-      if (deparse(substitute(col)) == "grey")
-        col <- grey(1:n/n) else col <- col(n)
-    ext <- list()
-    length(ext) <- n
+    if (is.function(col)) {
+        col <- if (deparse(substitute(col)) == "grey") grey(1:n/n) else col(n)
+    }
+    ext <- vector("list", n)
     for (i in 1:n)
       ext[[i]] <- drop.tip(phy, phy$tip.label[-focus[[i]]],
-                           subtree = subtree)
+                           subtree = subtree, rooted = TRUE)
     nc <- round(sqrt(n)) + 1
     nr <- ceiling(sqrt(n))
     M <- matrix(0, nr, nc)