BLAST jobs crashing - any ideas?

Nicolas Joly njoly at pasteur.fr
Wed Mar 8 04:10:45 EST 2000


Gary Williams <gwilliam at hgmp.mrc.ac.uk> écrit :
> 
> We are seeing increasing numbers of BLAST searches failing like this:
> 
> ---------------------------------------------------------------------------
> Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
> Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
> "Gapped BLAST and PSI-BLAST: a new generation of protein database search
> programs",  Nucleic Acids Res. 25:3389-3402.
> 
> Query= Z92844, 151798 bases, CBD5EE91 checksum.
>          (151,798 letters)
> 
> Database: new
>            312,486 sequences; 300,934,448 total letters
> 
> Searching.......................................
> ---------------------------------------------------------------------------
> 
> With no further output or error messages.
> It exits with a status value of 1.
> 
> We are running BLAST on SPARC and Intel machines with Solaris.
> We have large amounts of swap space available.
> (For example: Memory: 5120M real, 153M free, 322M swap in use, 12G swap free)
> 
> Is anyone else seeing this sort of thing?

We noticed this behaviour under Digital Unix v4.0f too, with the lastest
blast v2.0.11
 
> Does anyone have any idaes as to the cause or cure?

It seems to be platform independant ... ;-)

-- 
Nicolas Joly

Informatique Scientifique
Institut Pasteur, Paris.





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