Please forward an example of the error-provoking query sequence. I'm curious to see if I can replicate this behavior. -Chris Dwan University of Minnesota > I'm experiencing trouble with blastall 2.2.9 running blastn on a linux > cluster against a recently downloaded version of the 'nt' database from > ncbi. Intermittently I get a segmentation fault partway through the > search. > > This happens both with precompiled blast and blast I compile myself. It > happens on a two dual xeon systems running redhat9.0 and a dual athlon > system running redhat7.1. Both systems have 4GB ram. It happens with > several different query sequences, but never with the est nucleotide > database. It also happens if I use fastacmd to dump the ncbi nt > database > into fasta format and then formatdb it myself. Blastdbs are kept > locally > so its not a networking issue. > > Strangely this also happens with blastall2.2.6 on the athlon system, > I've > not tested it on the xeon systems (or other releases). > > So I would guess, given the variety of systems, that its a bug which nt > provokes specifically - but then I assume huge numbers of people must > use > blast to search nt on linux boxes and would have noticed already if > this > were the case. Anyone have any ideas what might be going on? > > > Justin > jacp1@mole.bio.cam.ac.uk > > _______________________________________________ > Bioclusters maillist - Bioclusters@bioinformatics.org > https://bioinformatics.org/mailman/listinfo/bioclusters >