view tool-data/blastdb_d.loc.sample @ 9:9dabbfd73c8a draft

Uploaded v0.0.19, adds wrappers for rpsblast and rpstblastn with new blastdb_d.loc file for their protein domain database. Also includes other minor improvements.

#This is a sample file distributed with Galaxy that is used to define a
#list of protein domain databases, using three columns tab separated
#(longer whitespace are TAB characters):
#
#<unique_id>	<database_caption>	<base_name_path>
#
#The captions typically contain spaces and might end with the build date.
#It is important that the actual database name does not have a space in it,
#and that there are only two tabs on each line.
#
#You can download the NCBI provided databases as tar-balls from here:
#ftp://ftp.ncbi.nih.gov/pub/mmdb/cdd/little_endian/
#
#So, for example, if your database is CDD and the path to your base name
#is /data/blastdb/Cdd, then the blastdb_d.loc entry would look like this:
#
#Cdd{tab}NCBI Conserved Domains Database (CDD){tab}/data/blastdb/Cdd
#
#and your /data/blastdb directory would contain all of the files associated
#with the database, /data/blastdb/Cdd.*.
#
#Your blastdb_d.loc file should include an entry per line for each "base name"
#you have stored. For example:
#
#Cdd	NCBI CDD	/data/blastdb/domains/Cdd
#Kog	KOG (eukaryotes)	/data/blastdb/domains/Kog
#Cog	COG (prokaryotes)	/data/blastdb/domains/Cog
#Pfam	Pfam-A	/data/blastdb/domains/Pfam
#Smart	SMART	/data/blastdb/domains/Smart
#Tigr	TIGR	/data/blastdb/domains/Tigr
#Prk	Protein Clusters database	/data/blastdb/domains/Prk
#...etc...
#
#See also blastdb.loc which is for any nucleotide BLAST database, and
#blastdb_p.loc which is for any protein BLAST databases.