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# viga_blastdb.loc
# This is a *.loc.sample file distributed with Galaxy that enables tools
# to use a directory of indexed data files. This one is for Bowtie2 and Tophat2.
# See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
# First create these data files and save them in your own data directory structure.
# Then, create a bowtie_indices.loc file to use those indexes with tools.
# Copy this file, save it with the same name (minus the .sample), 
# follow the format examples, and store the result in this directory.
# The file should include an one line entry for each index set.
# The path points to the "basename" for the set, not a specific file.
# It has four text columns seperated by TABS.
#
# <unique_build_id>	<dbkey>	<display_name>	<file_base_path>
#
# So, for example, if you had hg18 indexes stored in:
#
#    /data/databases/blast/nr/nr
#
# containing hg19 genome and hg19.*.bt2 files, such as:
#    -rw-rw-r-- 1 james   james   914M Feb 10 18:56 hg19canon.fa
#    -rw-rw-r-- 1 james   james   914M Feb 10 18:56 hg19canon.1.bt2
#    -rw-rw-r-- 1 james   james   683M Feb 10 18:56 hg19canon.2.bt2
#    -rw-rw-r-- 1 james   james   3.3K Feb 10 16:54 hg19canon.3.bt2
#    -rw-rw-r-- 1 james   james   683M Feb 10 16:54 hg19canon.4.bt2
#    -rw-rw-r-- 1 james   james   914M Feb 10 20:45 hg19canon.rev.1.bt2
#    -rw-rw-r-- 1 james   james   683M Feb 10 20:45 hg19canon.rev.2.bt2
#
# then the viga_blastdb.loc entry could look like this:

#nr	nr	Non_redundant (nr)	/data/databases/blast/nr/nr
#swissprot	swissprot	Swissprot (swissprot)	/data/databases/blast/swissprot/swissprot