Yuyu, I had the same problem recently, download the latest blastserver from ncbi ftp://ftp.ncbi.nih.gov/blast/server/wwwblast_Feb.10.2003/. There was a limit to the total length of databases names you could add in blast.rc in versions prioir to Jun 2002. If the problem persists than have multiple entries of the blast program in blast.rc ie. add blastp newdata on another line. Hope this helps. Arshad Khan Pathogenesis and genomics unit Division of Immunity & Infection Medical School University of Birmingham Edgbaston, B15 2TT Birmingham UK -----Original Message----- From: Jeremy Mann [mailto:jeremy@bioc09.v19.uthscsa.edu] Sent: 26 March 2003 21:27 To: bioclusters@bioinformatics.org Cc: yuyu.bai@syngenta.com Subject: Re: [Bioclusters] standalone blast server problem > We downloaded a standalone blast web server from NCBI website last year. > It has been working fine until very recently. A few new datasets with > long names > were added into the directory where we have all the blastable datasets. > After that, blastn > works for some datasets and all other types of blast search don't work. > If I remove these long-name > datasets, everything would work. There are no strange characters in > these names except > a few have '+' sign in the name. The problem doesn't go away if I only > remove the ones with '+' sign. > These long-name datasets themselves work ok for blastn search. The > problem is that their existence interfere > with normal function of other datasets. > If you know the cause of this problem. Please help, many thanks. > Yu-yu If your using the preformatted datasets, then you'll need to update to the 2.2.5 of the BLAST binaries since they are introducing a slightly new format to the databases. I think this is what your experiencing. -- Jeremy Mann jeremy@biochem.uthscsa.edu University of Texas Health Science Center Bioinformatics Core Facility http://www.bioinformatics.uthscsa.edu Phone: (210) 567-2672 _______________________________________________ Bioclusters maillist - Bioclusters@bioinformatics.org https://bioinformatics.org/mailman/listinfo/bioclusters