# HG changeset patch
# User fubar
# Date 1420864809 18000
# Node ID 363d6797d366053e6266cc9a010aac323cb13e9e
# Parent  5c7efaab6713f4e5341a0b2836e1ea1568e4f366
Uploaded

diff -r 5c7efaab6713 -r 363d6797d366 data_manager/rnastar_index_builder.py
--- a/data_manager/rnastar_index_builder.py	Fri Jan 09 23:34:32 2015 -0500
+++ b/data_manager/rnastar_index_builder.py	Fri Jan 09 23:40:09 2015 -0500
@@ -75,7 +75,6 @@
         sys.exit( return_code )
     tmp_stderr.close()
     data_table_entry = dict( value=sequence_id, dbkey=dbkey, name=sequence_name, path=fasta_base_name )
-    data_manager_dict = {}
     data_manager_dict = _add_data_table_entry( data_manager_dict, data_table_name, data_table_entry )
     return data_manager_dict
 
@@ -109,7 +108,7 @@
     except OSError:
         pass
     #build the index
-    data_manager_dict = build_rnastar_index( data_manager_dict = data_manager_dict, fasta_filename = options.fasta_filename, target_directory = target_directory,
+    data_manager_dict = build_rnastar_index( data_manager_dict = {}, fasta_filename = options.fasta_filename, target_directory = target_directory,
       dbkey = dbkey, sequence_id = sequence_id, sequence_name = sequence_name, data_table_name=options.data_table_name,
       sjdbOverhang=options.sjdbOverhang,sjdbGTFfile=options.sjdbGTFfile,
       sjdbFileChrStartEnd=options.sjdbFileChrStartEnd,sjdbGTFtagExonParentTranscript=options.sjdbGTFtagExonParentTranscript,