# HG changeset patch
# User iuc
# Date 1491818783 14400
# Node ID b99040168706cd8c01241d135d71ceb6e7610756
# Parent  dc28cd6a1d44d52c0da681ca31bf2b8437fdeb91
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_picard_index_builder commit 59ee07d9786f1a090053b4a13192247872389d61

diff -r dc28cd6a1d44 -r b99040168706 data_manager/picard_index_builder.py
--- a/data_manager/picard_index_builder.py	Tue Apr 04 18:12:10 2017 -0400
+++ b/data_manager/picard_index_builder.py	Mon Apr 10 06:06:23 2017 -0400
@@ -31,7 +31,7 @@
     prefix = os.path.splitext( fasta_base_name )[0]
     sym_linked_fasta_filename = os.path.join( target_directory, fasta_base_name )
     os.symlink( fasta_filename, sym_linked_fasta_filename )
-    args = [ 'java', '-Xmx4G', '-jar', os.path.join( os.environ[ 'JAVA_JAR_PATH' ], 'CreateSequenceDictionary.jar' ), 'R=%s' % sym_linked_fasta_filename, 'O=%s.dict' % prefix ]
+    args = [ 'picard', 'CreateSequenceDictionary', 'R=%s' % sym_linked_fasta_filename, 'O=%s.dict' % prefix ]
     proc = subprocess.Popen( args=args, shell=False, cwd=target_directory )
     return_code = proc.wait()
     if return_code: