[XMLPipeDB-developer] Plasmodium bug/task list

[Kam D. <kda...@lm...>]

Hi,

I've completed testing the Plasmodium gdb I exported last November 
and updated the SourceForge wiki.

Plasmodium has it's own task list page, which I've updated 
here: 
https://sourceforge.net/apps/mediawiki/xmlpipedb/index.php?title=Plasmodium_falciparum_Task_List

The testing report can be found 
here: 
https://sourceforge.net/apps/mediawiki/xmlpipedb/index.php?title=Gene_Database_Testing_Report_P._falciparum_20101115

The source files and gdb are on a new Plasmodium falciparum page on 
the Fall 2010 BiolDB 
wiki:  https://www.cs.lmu.edu/biodb/fall2010/index.php/Plasmodium_falciparum

Here is the list of bugs/action items that I've listed:

1.  The OrderedLocusNames table in the gdb only has 1 ID out of 5345 
repored by the TallyEngine. This also affects all other tables 
related to OrderedLocusNames.

2.  The GeneId table in the database has 6 fewer IDs than reported by 
the TallyEngine (Mycobacterium smegmatis and Mycobacterium 
tuberculosis also have mysterious GeneId issues with the TallyEngine).

3.  The count for EMBL IDs in the gdb also seems low, it's lower than 
the 2009 version of the gdb. There's no way to tell at this point 
whether this is due to a change in annotation by UniProt or is a bug 
with GenMAPP Builder.

Thanks,
Kam