[Bio-software] problems with blast nr database

Jan Kosinski via bio-soft%40net.bio.net (by kosa from genesilico.pl)
Thu Jul 26 03:14:52 EST 2007


Hi,

We have got the same problem in our lab. BLAST crashes recently on 
several of our stations when run on nr database. The only solutions we 
found was to downgrade version of blast (even if you current version 
worked before!). Different versions of BLAST worked on different stations. 

.kosa

>
>    Hi!
>    I have been using blastall on my linux server very happyly till I
>    downloaded the last version of the nr database, which was splitted
>    into 2 packages nr.00 and nr.01. When I run my blastx searches against
>    this database the BLAST interrupted and I got a "segementation
>    violation" error message.
>    I have been cheking with other databases like the refseq and
>    everything worked fine. I also checked that this problem only happens
>    with the nr.01 database. I can run BLASTX using -d nr.00, with about
>    2000 sequences in a fasta file as a query, without problems. When I
>    try -d nr or -d nr.01 with the same fasta file, the BLAST interrupts
>    and I get the segementation violation error message.
>    I thought that the nr.01.tar.gz was corrupted during the download, but
>    I have downloaded this file at least 4 times during the last month, so
>    if the file was corrupted during the download it happened everytime
>    and did not happen with the other databases I downloead at the sanme
>    time.
>    Can anyone help me?
>    Thank you very much in advance
>    Javier
>   


:.



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