Re: [XMLPipeDB-developer] gmb2b33-debugging stuck in loop

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

Hi,

I was out the last few days; I've just started an export of P aerugenosa 
now and I'll let you know what happens (probably tomorrow).

Kam

At 11:48 PM 8/6/2009, John David N. Dionisio wrote:
>I looked through all three log files, plus the code that generated the
>log statements, and it looks like this is actually a case where the
>act of logging (since it was much more verbose than before) ended up
>being a bottleneck on the export's progress. Things actually seemed to
>be going OK, albeit extremely slowly because every relationship that
>was generated wrote 4 lines to the log file (disk-related activities
>take 100-1000 times longer to finish, so it's not too farfetched to
>surmise that the generation of 4 lines per relationship would slow
>things down that much).
>
>Thus, I've released a non-debug (i.e., less verbose) version of
>GenMAPP Builder to SourceForge.  Since the logging level is the only
>change, I've kept the version at 2.0b33, but without the "-debug"
>suffix now.
>
>Give this one a shot, and keep me posted...the amount of information
>in gmbuilder.log should now be more in line with 2.0b32 and prior.
>
>John David N. Dionisio, PhD
>Assistant Professor, Computer Science
>Loyola Marymount University
>
>
>On Aug 6, 2009, at 11:45 AM, Dahlquist, Kam D. wrote:
>
> > Hi,
> >
> > I let the gmb2b33-debugging export of P. auregenosa go overnight.
> > It was still stuck at the same place this morning, so I killed it.
> >
> > I'm attaching the last log file and a screenshot of the console
> > taken right before I killed it (assuming that the list can handle
> > attachments).  Each log is ~5 MB, so I'll have to attach the other
> > ones in separate e-mails.  I'll see how this one is handled first.
> >
> > Unfortunately, the Gene Ontology tables were still empty as before,
> > although that is not where it seems to have gotten stuck.  It seems
> > to have gotten stuck building the relationship tables.
> >
> > Kam
>
>
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