--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/tool-data/smalt_index.loc.sample	Wed Feb 13 13:27:44 2013 -0500
@@ -0,0 +1,29 @@
+#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
+