Mercurial > repos > galaxyp > blast_plus_remote_blastp

comparison tool-data/blastdb_p.loc.sample @ 2:a7f1634cd624

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author galaxyp
date Wed, 01 Oct 2014 20:59:56 -0400
parents
children 22a767177ac9
comparison
equal deleted inserted replaced
1:db990c5edc14 2:a7f1634cd624
1 #NOTE: This file comes from the tool galaxyp/blast_plus_remote_blastp
2 #
3 #This is a sample file distributed with Galaxy that is used to define a
4 #list of protein BLAST databases, using three columns tab separated
5 #(longer whitespace are TAB characters):
6 #
7 #<unique_id> <database_caption> <base_name_path>
8 #
9 #The captions typically contain spaces and might end with the build date.
10 #It is important that the actual database name does not have a space in
11 #it, and that there are only two tabs on each line.
12 #
13 #So, for example, if your database is NR and the path to your base name
14 #is /data/blastdb/nr, then the blastdb_p.loc entry would look like this:
15 #
16 #nr{tab}NCBI NR (non redundant){tab}/data/blastdb/nr
17 #
18 #and your /data/blastdb directory would contain all of the files associated
19 #with the database, /data/blastdb/nr.*.
20 #
21 #Your blastdb_p.loc file should include an entry per line for each "base name"
22 #you have stored. For example:
23 #
24 #nr_05Jun2010 NCBI NR (non redundant) 05 Jun 2010 /data/blastdb/05Jun2010/nr
25 #nr_15Aug2010 NCBI NR (non redundant) 15 Aug 2010 /data/blastdb/15Aug2010/nr
26 #...etc...
27 #
28 #You can download the NCBI provided protein databases like NR from here:
29 #ftp://ftp.ncbi.nlm.nih.gov/blast/db/
30 #
31 #See also blastdb.loc which is for any nucleotide BLAST database, and
32 #blastdb_d.loc which is for any protein domains databases (like CDD).