[Bioperl-guts-l] [Bug 2326] New: bp_fast_load_gff creates mostly empty tables.

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Thu Jun 28 03:08:07 EDT 2007


http://bugzilla.open-bio.org/show_bug.cgi?id=2326

           Summary: bp_fast_load_gff creates mostly empty tables.
           Product: BioPerl
           Version: 1.5 branch
          Platform: Other
               URL: http://sourceforge.net/mailarchive/forum.php?thread_name
                    =20070621121309.GA11108%40kunpuu.plessy.org&forum_name=g
                    mod-gbrowse
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Bio::DB::GFF
        AssignedTo: bioperl-guts-l at bioperl.org
        ReportedBy: charles-debian-nospam at plessy.org


Dear developpers,

When using bp_fast_load_gff on files generated from gmod's blast2gff.pl script,
the only table which gets entries is fmeta, despite the standard output which
says "SUCCESS: 42031 features successfully loaded".

The issue has been discussed in more details on the Generic Genome Browser
mailing list:

http://sourceforge.net/mailarchive/forum.php?thread_name=20070621121309.GA11108%40kunpuu.plessy.org&forum_name=gmod-gbrowse

Have a nice day,

-- 
Charles Plessy
Wako, Saitama, Japan


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