[Gmod-help] polypeptide view in Gbrowse

[Newton Vidal]

Dear all,

I am starting to work with GMOD and Chado, and I have uploaded genbank files
from five different protozoan genomes, using bp_genbank2gff3.pl and
gmod_bulk_load_gff3.pl scripts in our local chado v. 1.0 database.

I have run into two major problems when visualizing data with Gbrowse v.
1.69:

·        The polypeptide feature shows nucleic acid sequence instead of
amino acid, when clicked;
·        For four of the genomes (Leishmania sp. and Trypanosoma brucei) the
others features work fine, but for T. cruzi, no data is provided when I
click its features.

I have edited chado.conf file to work with my database and added the lines
below:

[Polypeptide]
feature      = polypeptide
glyph        = transcript
height       = 10
key          = Polypeptide
bgcolor      = green

I'm sending attached T. brucei and T. cruzi's GFF files and gbrowse conf
file. I have a 80MB dump file and I can share it if needed.

Thanks in advance,

Newton Vidal
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://brie4.cshl.edu/pipermail/gmod-help/attachments/20081216/a9d3c9a8/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: Tbrucei.gff
Type: application/octet-stream
Size: 20017 bytes
Desc: not available
URL: <http://brie4.cshl.edu/pipermail/gmod-help/attachments/20081216/a9d3c9a8/attachment.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: Tcruzi.gff
Type: application/octet-stream
Size: 13966 bytes
Desc: not available
URL: <http://brie4.cshl.edu/pipermail/gmod-help/attachments/20081216/a9d3c9a8/attachment-0001.obj>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: testdb.conf
Type: application/octet-stream
Size: 3928 bytes
Desc: not available
URL: <http://brie4.cshl.edu/pipermail/gmod-help/attachments/20081216/a9d3c9a8/attachment-0002.obj>