diff README @ 19:1863e330fcfc draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README	Sat Jun 07 02:35:53 2014 -0400
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+SoftSearch Integrate through galaxy tool shed Guide
+
+1. What to do for softsearch installation. 
+
+---set tool dependency dir path by removing comment from,
+    #tool_dependency_dir = path/to/directory/ from universe_wsgi.ini file 
+
+
+2. How to install?
+
+---select galaxy main tool shed and type "softsearch_dependency" and install it.(it install binaries of softsearch).
+
+
+3. Access fasta file from Database instead of history.
+
+---Select fasta_indexes.loc file from local catch(from database).
+   go to /galaxy-dist/tool-data/toolshed.g2.bx.psu.edu/repos/plus91-technologies-pvt-ltd/softsearch/e3609c8714fb/
+
+---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	/path/to/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 require samtools(version above 0.1.18)