-## write.nexus.R (2009-10-27)
+## write.nexus.R (2011-02-26)
## Write Tree File in Nexus Format
-## Copyright 2003-2009 Emmanuel Paradis
+## Copyright 2003-2011x Emmanuel Paradis
## This file is part of the R-package `ape'.
## See the file ../COPYING for licensing issues.
}
} else {
for (i in 1:ntree)
- obj[[i]]$tip.label <- checkLabel(obj[[i]]$tip.label)
+ obj[[i]]$tip.label <- checkLabel(obj[[i]]$tip.label)
}
+
+ title <- names(obj)
+ if (is.null(title))
+ title <- rep("UNTITLED", ntree)
+ else {
+ if (any(s <- title == "")) title[s] <- "UNTITLED"
+ }
+
for (i in 1:ntree) {
if (class(obj[[i]]) != "phylo") next
if (is.rooted(obj[[i]]))
- cat("\tTREE * UNTITLED = [&R] ", file = file, append = TRUE)
- else cat("\tTREE * UNTITLED = [&U] ", file = file, append = TRUE)
+ cat("\tTREE *,", title[i], "= [&R] ", file = file, append = TRUE)
+ else cat("\tTREE *", title[i], "= [&U] ", file = file, append = TRUE)
cat(write.tree(obj[[i]], file = ""),
"\n", sep = "", file = file, append = TRUE)
}