[mira_talk] Re: problem with miraSearchESTSNPs
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Sat, 12 Jun 2010 21:58:33 +0200
On Freitag 11 Juni 2010 Bastian Greshake wrote:
> i'm having some trouble while trying to run the snp-detection step2.
> I'll start the first step using:
>
> miraSearchESTSNPs
> --fastq
> --project=snpassembly
> --job=denovo,normal,sanger,esps1
> --noclipping=sanger
>
>
> This one works fine and it gives me corresponding output-files for step1.
> Then i'm trying to run step2 to using:
>
> miraSearchESTSNPs
> --job=denovo,normal,sanger,esps2
>
> This step stops stating:
> > Fatal Error (may be due to problems of the input data):
> > "You did not specify any input sequences to be loaded."
> >
> > ->Thrown: void Assembly::loadSequenceData_new()
> >
> > ->Caught: main
>
> I can't see why this happens as it looks like i use the 2nd step like the
> manual says. What could be the problem in here?
If in doubt, the manual is wrong :-)
I changed a couple of things lately and unfortunately didn't check everything
back in the manual, my bad.
Fortunately, the fix is easy: change
miraSearchESTSNPs --job=denovo,normal,sanger,esps2
to
miraSearchESTSNPs --job=denovo,normal,esps2
And similarly for step3.
I've fixed this in the current docs to be delivered with the next version.
B.
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