[khmer] Iowa corn run test

Ramakrishnan Srinivasan ramrs at nyu.edu
Wed Apr 16 06:44:56 PDT 2014

Hello Emeric,

Thank you for the email. I just checked the code, and there seems to be a
tiny bug. It should be fixed within the day, and I shall send an update
once the patch is done.

Thank you for identifying the bug!

If you would like to correct it on your local copy, you might try changing
the '.ht' in Line #74, Col 28 of scripts/make-initial-stoptags.py to '.pt'
so it looks like this:

    infiles = [graphbase + '.pt', graphbase + '.tagset']


On Wed, Apr 16, 2014 at 8:55 AM, Emeric Sevin <emeric.sevin at u-bordeaux.fr>wrote:

> Hi all,
> Not sure this is the designated list for my question, but I just can't
> seem to find a better destination contact.
> My problem will likely be pretty low-profile, but I've tried to run the
> Iowa Corn test case you provided (https://khmer.readthedocs.
> org/en/latest/partitioning-big-data.html), and I'm confronted with a
> frustrating setback. Basically everything works fine during the first
> partition step, but when I try to break up the lump in the 2nd pass,
> make-initial-stoptags.py keeps exiting with this message:
>     ERROR: Input file lump.ht does not exist; exiting
> Indeed, no lump.ht file is created by load-graph.py, and I can't find any
> option or trigger which would allow me to correct that...
> even though I've been following your cookbook almost to the letter (except
> memory-wise)....
> Thanks in advance for your answer,
> Best regards
> Emeric
> _______________________________________________
> khmer mailing list
> khmer at lists.idyll.org
> http://lists.idyll.org/listinfo/khmer
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