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changeset 24:8578d978014c draft

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Uploaded
author plus91-technologies
date Mon, 09 Jun 2014 06:02:39 -0400
parents 3837fa11246b
children 06e32c8b5682
files README
diffstat 1 files changed, 39 insertions(+), 0 deletions(-) [+]
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+++ b/README 	Mon Jun 09 06:02:39 2014 -0400
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+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)