Changeset 1466:91c63a82359a

Timestamp:

08/04/08 10:20:23 (4 months ago)

Author:

greg

branch:

default

Message:

Better fix for gops command line parser, now properly handles no strand column.

Files:

• lib/galaxy/tools/util/galaxyops/__init__.py (modified) (1 diff)

lib/galaxy/tools/util/galaxyops/__init__.py

@@ -20 +20 @@
-    """Parse a columns command line argument into a four-tuple"""
-    if cols:
+        # Handle case where no strand column included - in this case, cols
+        # looks something like 1,2,3,
+        if cols.endswith( ',' ):
+            cols += '0'
-        col_list = map( lambda x: int( x ) - 1, cols.split(",") )
-        if len( col_list ) == 3:
-            # We only have  chrom, start and end cols, so we need to add a strand col
-            col_list.append( -1 )
-        return col_list
-    else: