#This is a sample file distributed with Galaxy that enables tools
#to use a directory of Smalt indexed sequences data files. You will need
#to create these data files and then create a smalt_index.loc file
#similar to this one (store it in this directory) that points to
#the directories in which those files are stored. The smalt_index.loc
#file has this format (longer white space characters are TAB characters):
#
#<unique_build_id>   <dbkey>   <display_name>   <file_path>
#
#So, for example, if you had phiX indexed stored in 
#/depot/data2/galaxy/phiX/base/, 
#then the smalt_index.loc entry would look like this:
#
#phiX174	phiX	phiX Pretty	/depot/data2/galaxy/phiX/base/phiX.fa
#
#and your /depot/data2/galaxy/phiX/base/ directory
#would contain hg19.fa.* files:
#
#-rw-r--r--  1 cborroto    universe 527388 2005-09-13 10:12 phix.fa.sma
#-rw-r--r--  1 cborroto    universe 269808 2005-09-13 10:12 phiX.fa.smi
#
#Your smalt_index.loc file should include an entry per line for each
#index set you have stored. The "file" in the path does not actually
#exist, but it is the prefix for the actual index files.  For example:
#
#phiX174	phiX	phiX174	/depot/data2/galaxy/phiX/base/phiX.fa
#hg18canon	hg18	hg18 Canonical	/depot/data2/galaxy/hg18/base/hg18canon.fa
#hg18full	hg18	hg18 Full	/depot/data2/galaxy/hg18/base/hg18full.fa