[Bioperl-l] PAML parser failed for PAML 4.3b and 4.1

[pkuonline]

Hi Everyone,

I used the latest Bioperl build, http://www.bioperl.org/DIST/nightly_builds/bioperl-live.tar.gz and tried to parse CODEML result. I searched the mail list and found current PAML parser is compatible with PAML 4.3a, http://lists.open-bio.org/pipermail/bioperl-l/2009-November/031602.html. However, recently, Ziheng Yang updates his PAML to 4.3b. I found the parser does not work. More strangely, I tested it on the old PAML 4.1 result and also failed. 

I attached my CODEML outputs here to see whether you guys have some idea. 

Many thanks ahead!
 				
Best regards,
-------------------------------------------------------------
Yong Zhang
Ph.D, Research Scholar
Manyuan Long's Lab
University of Chicago
-------------- next part --------------
A non-text attachment was scrubbed...
Name: rst4.1
Type: application/octet-stream
Size: 60616 bytes
Desc: not available
URL: <http://lists.open-bio.org/pipermail/bioperl-l/attachments/20091223/6e91b939/attachment-0004.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: mlc4.1
Type: application/octet-stream
Size: 11635 bytes
Desc: not available
URL: <http://lists.open-bio.org/pipermail/bioperl-l/attachments/20091223/6e91b939/attachment-0005.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: mlc4.3b
Type: application/octet-stream
Size: 11330 bytes
Desc: not available
URL: <http://lists.open-bio.org/pipermail/bioperl-l/attachments/20091223/6e91b939/attachment-0006.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: rst4.3b
Type: application/octet-stream
Size: 60616 bytes
Desc: not available
URL: <http://lists.open-bio.org/pipermail/bioperl-l/attachments/20091223/6e91b939/attachment-0007.obj>