SoftSearch Integrate through galaxy tool shed Guide

1. What to do for SoftSearch.
 
   must login as a admin, for that you may change the universe_wsgi.ini file like remove comment.
   #admin_users = name@sample.com


2. How to install. 

   Go to Admin at top of galaxy and select "Search and browse tool sheds" from tool sheds, select "galaxy main 
   tool shed" and type "softsearch" and install.(It download all binaries).


3. Select fasta file from database.

   --Select fasta_indexes.loc file for that go to shed_tools/toolshed.g2.bx.psu.edu/repos/plus91-technologies/softsearch/
   3837fa11246b/softsearch/tool-data/

   --open the fasta_indexes.loc file and make changes like

        <unique_build_id>	<dbkey>	<display_name>	<file_base_path>

        eg: hg19full	hg19	Human (Homo sapiens): hg19 Full	/depot/data2/galaxy/hg19/sam/hg19full.fa

   --open shed_tool_data_table_conf.xml file and add following.

   	<tables>
	    <table name="fasta_indexes" comment_char="#">
      	    <columns>value, dbkey, name, path</columns>
       	    <file path="/path/to/fasta_indexes.loc" />
  	    </table>
	</tables>



Notes:

- It is a dependent tool it may require samtools(version above 0.1.18)