Dear All, firstly (albeit perhaps a bit belatedly) a Happy New Year to all.
I'm trying to automate the process of constructing a neighbor joining tree (in the standard Newick format) using fneighbor, and I almost got there. The command line I arrived at is: fneighbor -filter -auto -progress N -treeprint N -printdata N -trout Y -outtreefile stdout The output this produces is: Neighbor-Joining/UPGMA method version 3.69 10 Populations Neighbor-joining method Negative branch lengths allowed followed by the Newick tree I'm after. The only problem is that Newick parsers don't really expect those initial lines quoted above. For the time being I've worked around this by reading and discarding the first 11 lines of output before handing over to the parser. But is there a more elegant way which I've missed? Best regards & thanks in advance, Jan -- +- Jan T. Kim -------------------------------------------------------+ | email: jtt...@gmail.com | | WWW: http://www.jtkim.dreamhosters.com/ | *-----=< hierarchical systems are for files, not for humans >=-----* _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss