Re: [XMLPipeDB-developer] yeast export with gmbuilder-2.0b39

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

Hi,

In my past experience, it does not matter which name is chosen in the GUI 
wizard, the program does what it does anyway (that's one of the issues with 
the GUI, that drop down menu for species doesn't seem to matter).

I can confirm this, but since the export takes so long, I don't want to 
start it this morning while my students need the computer.  I can start it 
later, but we won't know the answer until tomorrow.

At some point in the near future, I hope we can dump the OrderedLocusNames 
set of tables since we don't need them and creating them is probably adding 
a lot of time to the export.

Kam

At 10:16 AM 2/3/2010, John David N. Dionisio wrote:
>Greetings,
>
>I believe the first two items may be related --- the species profile may 
>not have been triggered correctly if "Baker's yeast" is the chosen species 
>name.  Would it be possible to re-run an export with "Saccharomyces..." 
>chosen as the name?
>
>Good suggestion about embedding the version information...I'll include 
>that in some future build.
>
>John David N. Dionisio, PhD
>Assistant Professor, Computer Science
>Loyola Marymount University
>
>
>On Feb 3, 2010, at 8:24 AM, Kam Dahlquist wrote:
>
> > Hi,
> >
> > I checked the yeast gdb export that Bernadette started yesterday using the
> > gmbuilder-2.0b39.  There are a couple issues I can see right away:
> >
> > 1.  The SGD table is being created, but all it has are the fields ID, 
> Date,
> > Remarks.  The ID is the "S" form of the ID.  I went back and looked at the
> > export run last week with gmbuilder-2.ob38 and the SGD table is there,
> > exactly like this (I just must've missed it last time).  So anyway, this
> > build did not have any of the customizations you made for the SGD table.
> >
> > 2.  For some reason, these two versions of gmbuilder (38 and 39) are using
> > "Baker's yeast" instead of "Saccharomyces cerevisiae" as the species
> > name.  This means that they are automatically naming the database with a
> > "By_" prefix and also inserting "Baker's yeast" into the species fields
> > throughout the database.  This is odd because I don't think it was doing
> > this before.
> >
> > 3.  One last random thought.  Would it be possible to display the version
> > of GenMAPP Builder somewhere in the GUI interface, either in an About drop
> > down menu, or just as text at the bottom the active window like
> > "gmbuilder-2.0b39".  I realized that I could not easily check the version
> > number of the program while it was open.  Also, it would be nice to embed
> > the version of GenMAPP Builder into the gdb itself.  Perhaps by inserting
> > it into the Notes field of the Info table.  Language like "Created with
> > gmbuilder-2.0b39 available from
> > http://sourceforge.net/projects/xmlpipedb".  I know this is an extra
> > feature request, but it would be helpful.
> >
> > Thanks,
> > Kam
>
>
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