[hg] galaxy 1532: Fix for interval to bed converter.

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[hg] galaxy 1532: Fix for interval to bed converter.

Greg Von Kuster
details:   http://www.bx.psu.edu/hg/galaxy/rev/3b6771227a43
changeset: 1532:3b6771227a43
user:      Dan Blankenberg <[hidden email]>
date:      Fri Sep 26 09:10:04 2008 -0400
description:
Fix for interval to bed converter.

1 file(s) affected in this change:

lib/galaxy/datatypes/converters/interval_to_bed_converter.py

diffs (11 lines):

diff -r aa1088e4c6c6 -r 3b6771227a43 lib/galaxy/datatypes/converters/interval_to_bed_converter.py
--- a/lib/galaxy/datatypes/converters/interval_to_bed_converter.py Thu Sep 25 15:03:05 2008 -0400
+++ b/lib/galaxy/datatypes/converters/interval_to_bed_converter.py Fri Sep 26 09:10:04 2008 -0400
@@ -38,6 +38,7 @@
     skipped_lines = 0
     first_skipped_line = 0
     out = open( output_name,'w' )
+    count = 0
     for count, region in enumerate( bx.intervals.io.NiceReaderWrapper( open( input_name, 'r' ), chrom_col=chromCol, start_col=startCol, end_col=endCol, strand_col=strandCol, fix_strand=True, return_header=False, return_comments=False ) ):
         try:
             if nameCol >= 0: