--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/genetrack/genetrack_indexer.py	Fri Mar 09 19:37:19 2012 -0500
@@ -0,0 +1,42 @@
+#!/usr/bin/env python
+
+"""
+Wraps genetrack.scripts.tabs2genetrack so the tool can be executed from Galaxy.
+
+usage: %prog input output shift
+"""
+
+import sys, shutil, os
+from galaxy import eggs
+import pkg_resources
+pkg_resources.require( "GeneTrack" )
+
+from genetrack.scripts import tabs2genetrack
+from genetrack import logger
+
+if __name__ == "__main__":
+    import os
+    os.environ[ 'LC_ALL' ] = 'C' 
+    #os.system( 'export' )
+    
+    parser = tabs2genetrack.option_parser()
+
+    options, args = parser.parse_args()
+
+    # uppercase the format
+    options.format = options.format.upper()
+
+    if options.format not in ('BED', 'GFF'):
+        sys.stdout = sys.stderr
+        parser.print_help()
+        sys.exit(-1)
+
+    logger.disable(options.verbosity)
+
+    # missing file names
+    if not (options.inpname and options.outname and options.format):
+        parser.print_help()
+        sys.exit(-1)
+    else:
+        tabs2genetrack.transform(inpname=options.inpname, outname=options.outname,\
+            format=options.format, shift=options.shift, index=options.index, options=options)