For some reason I am having an issue with the Uniprot db. I am
formatting it the same way as I do the ncbi dbs (nt,nr,est_*) but
when I try to run a query I get this ( on Rocks 4.2.1).
[blastall] ERROR: ncbiapi [000.000]
gi|13661819|gb|AAK38111.1|AF360549_1: SeqPortNew:
lcl|1634_/share/bio/ncbi/db/uniprot.035 stop(857) >= len(140)
4p1_11806: p4_error: interrupt SIGx: 13
p6_32441: p4_error: interrupt SIGx: 13
p8_14461: p4_error: interrupt SIGx: 13
p11_30683: p4_error: interrupt SIGx: 13
p12_30261: p4_error: interrupt SIGx: 13
p17_8587: p4_error: interrupt SIGx: 13
p19_32715: p4_error: interrupt SIGx: 13
p23_31858: p4_error: interrupt SIGx: 13
p26_785: p4_error: interrupt SIGx: 13
....
I don't have any lines longer than 120 char.
Here is the format command that I'm using (-o T with or without give
same error).
zcat uniprot.gz | mpiformatdb -i stdin -N 36 --skip-reorder -t uniprot
-p T {-o T }
David
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