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Article #2533Re: error in run blastpgp
From: David Lapointe
Date: Wed, 05 Jan 2011 12:37
Date: Wed, 05 Jan 2011 12:37
46 lines
5261 bytes
5261 bytes
On Jan 4, 6:38�am, hamze rahimi <buksan...@gmail.com> wrote: > Dear expert > > I download blast-2.2.18-ia32-linux.tar.gz and unzipped. when I want run > under command, I find this error > > [buksanbio@localhost bin]$ ./blastpgp -v 5000 -b 0 -j 3 -h 0.002 -d > /home/buksanbio/nr/ -i 535.fasta -C.Chk �> /dev/null > [blastpgp] WARNING: Unable to open .pin > > or > > [buksanbio@localhost bin]$ ./blastpgp -v 5000 -b 0 -j 3 -h 0.002 -d ~/nr/* > -i 535.fasta -C.Chk �> /dev/null > [blastpgp] ERROR: Arguments must start with '-' (the offending argument #11 > was: '/home/buksanbio/nrfilt/nr.00.pin') > > as recommanded �in doc file I convert database by this command: > ./formatdb -i ~/.../nr -p T -o T > > nr is my database that contain these files: > nr.00.phr �nr.00.psd �nr.01.pin �nr.01.psi �nr.02.pnd �nr.02.psq �nr.03.pni > nr.04.phr �nr.04.psd > nr.00.pin �nr.00.psi �nr.01.pnd �nr.01.psq �nr.02.pni �nr.03.phr �nr.03.psd > nr.04.pin �nr.04.psi > nr.00.pnd �nr.00.psq �nr.01.pni �nr.02.phr �nr.02.psd �nr.03.pin �nr.03.psi > nr.04.pnd �nr.04.psq > nr.00.pni �nr.01.phr �nr.01.psd �nr.02.pin �nr.02.psi �nr.03.pnd �nr.03.psq > nr.04.pni �nr.pal > > what is problem? > thanks a lot for any help > > -- > Yours sincerely > Rahimi Hamzeh > PhD student in Medical Biotechnology > Pasteur institute > e mail: > buksan...@gmail.com nr is not a directory but the base name of your database. so -d ~/nr/ would not work but ~/nr would. Alternately indicate in .ncbirc where your formatted databases are located. D
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