[Bioperl-l] dn/ds code from PAML howto not working
akarger at CGR.Harvard.edu
Tue Mar 27 16:40:13 EDT 2007
A client of mine stole the pairwise Ka/Ks code from the "Running PAML
from within Bioperl" section of the PAML HOWTO. It mostly seems to be
running fine. However, when we say
$result = $parser->next_result;
we get an undef $result.
1) Is there something I can look for in the output files to show me
whether it's a problem with Bioperl itself (Never!) or with CODEML?
2) Is there a previously known issue with Bioperl's incorrectly reading
such files? Bio::Root::Version says it's 1.5, by the way.
3) Something else I haven't thought of?
Research Computing, Life Sciences Division
More information about the Bioperl-l