Hello
I am running BlastX on remote and I would like to get the organism of the target. I am running
$ blastx -db nr -remote -max_target_seqs 5 -outfmt '6 qseqid sseqid evalue bitscore sgi sacc staxids sscinames' -query sequence.fa
but I get the warning:
Warning: [blastx] Taxonomy name lookup from taxid requires installation of taxdb database with ftp://ftp.ncbi.nlm.nih.gov/blast/db/taxdb.tar.gz
Query_1 gi|486047707|ref|WP_001506561.1| 2.87e-13 66.2 486047707 WP_001506561 2;562;164546 N/A;N/A;N/A
Query_1 gi|519784041|gb|EPP30712.1| 3.19e-13 66.2 519784041 EPP30712 1112248 N/A
Query_1 gi|1123886851|ref|WP_074413349.1| 3.21e-13 66.2 1123886851 WP_074413349 1783272 N/A
Query_1 gi|476900345|gb|ENB91008.1| 3.21e-13 66.2 476900345 ENB91008 1116146 N/A
Query_1 gi|1452330068|ref|WP_116348784.1| 3.23e-13 66.2 1452330068 WP_116348784 164546 N/A
I downloaded the taxdb files but where shall I place them so that blastx can see them? why is it not getting them directly from remote?
Tx
Did you try the solution here: getting sscinames in viral blastx query
You has asked this question a few months back which contained the solution above : C: remote blast requires installation of taxdb database
It is working now, but only on shell. I am having problems with the batch mode. Is there a config file I can modify? Thank you
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