Mercurial > repos > rmarenco > hubarchivecreator

diff util/subtools.py @ 26:df42241d3731 draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit c11beb58525fe6453a2180fe7783f6e8b0151901-dirty
author yating-l
date Mon, 03 Jul 2017 17:30:20 -0400
parents 99dad5f9444c
children 7e8a8b732db3
line wrap: on
line diff
--- a/util/subtools.py	Fri Jun 02 17:36:24 2017 -0400
+++ b/util/subtools.py	Mon Jul 03 17:30:20 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