#This is a sample file distributed with Galaxy that enables tools
#to use a directory of SRMA indexed sequences data files. You will need
#to create these data files and then create a srma_index.loc file 
#similar to this one (store it in this directory) that points to 
#the directories in which those files are stored. The srma_index.loc 
#file has this format (white space is the TAB character):
#
#<build>	<fasta_file>
#
#So, for example, if you had hg18 indexed and stored in 
#/depot/data2/galaxy/srma/hg18/, 
#then the srma_index.loc entry would look like this:
#
#hg18	/depot/data2/galaxy/srma/hg18/hg18.fa
#
#and your /depot/data2/galaxy/srma/hg18/ directory
#would contain the following three files:
#hg18.fa
#hg18.dict
#hg18.fa.fai
#
#The dictionary file for each reference (ex. hg18.dict) must be 
#created via Picard (http://picard.sourceforge.net). Note that
#the dict file does not have the .fa extension although the
#path list in the loc file does include it.