matsen/pplacer — Issue #212: rppr pdprune unable to read tree
Author: koadman
Created: 2012-01-24 20:31:05+00:00
State: open

rppr pdprune is unable to read this tree, which is the greengenes 16s tree reformatted to remove egregious characters:

http://edhar.genomecenter.ucdavis.edu/~koadman/16s_noeol

I'm not sure whether this is a data formatting problem or a bug in rppr, but other tree software seems to be able to parse the newick so I thought I should report it as a possible issue. rppr parses most of the tree, but reports an error when reading the root node. Attempts to name the root node and give it a branch length and terminate the line with a ; had no effect.