negative_gilist with blast2.2.25

[angele_5073]

Hi everyone,

I want to use the option negative_gilist from blastp with the version blast2.2.25.

I need to search a query against the swissprot database but I want to remove a set of sequences in my swissprot database. I saw that negative_gilist to restrict search of database to everything except the listed GIs . Here is my command line that I used:

/blast-2.2.25/bin/blastp -num_alignments 100 -evalue 1 -db /db/uniprot/uniprot/uniprot_sprot.fasta -query seq.fasta -out seq.out -negative_gilist sequence.gi.txt

*sequence.gi.txt is a GI list of the sequence that blastp doesn't have to take into account during the search.

I obtain this error message:
BLAST Database error: GI list specified but no ISAM file found for GI

I searched what was the ISAM file and I found that it was additional file for the database as db.phr db.pin db.psq.... My swissprot database is formatted with formatdb with the option -o T, so it should give all the ISAM file. I noticed that I don't have the file with extensions: .pni and .pnd which seems to contain GI information.
I can't figure it out why (I tried to reformat the database with formatdb andmakeblast_db, I can't obtain this file) but I don't know if it is why negative_gilist does not work.

Thanks for any help!