Mercurial > repos > yating-l > hubarchivecreator

diff util/subtools.py @ 57:b39dd0b5a166 draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit ce28781f52a4f84039de300cb41e3982f2e8bf51-dirty
author yating-l
date Fri, 30 Jun 2017 14:49:14 -0400
parents 04cc7c2e7b47
children 4ca7cbf2d9b8
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line diff
--- a/util/subtools.py	Fri Jun 02 17:28:01 2017 -0400
+++ b/util/subtools.py	Fri Jun 30 14:49:14 2017 -0400
@@ -182,7 +182,7 @@
     return p
 
 def bedToBigBed(sorted_bed_file_name, chrom_sizes_file_name, big_bed_file_name,
-                typeOption=None, autoSql=None, tab=False):
+                typeOption=None, autoSql=None, tab=False, extraIndex=None):
     """
     Call bedToBigBed on sorted_bed_file_name, using chrom_sizes_file_name and write the result into big_bed_file_name
     :param sorted_bed_file_name:
@@ -209,6 +209,9 @@
         array_call.append(autoSql)
     if tab:
         array_call.append('-tab')
+    if extraIndex:
+        index = ''.join(['-extraIndex=', extraIndex])
+        array_call.append(index)
 
     p = _handleExceptionAndCheckCall(array_call)
     return p