diff imagej2_create_image.py @ 4:48f25b8408e1 draft

planemo upload commit 18df9e67efd4adafcde4eb9b62cd815e4afe9733-dirty
author iuc
date Wed, 26 Aug 2015 14:37:18 -0400
parents bb65623b90a8
children
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line diff
--- a/imagej2_create_image.py	Tue Aug 04 11:15:10 2015 -0400
+++ b/imagej2_create_image.py	Wed Aug 26 14:37:18 2015 -0400
@@ -13,8 +13,6 @@
     parser.add_argument( '--depth', dest='depth', type=int, help='Image depth (specifies the number of stack slices)' )
     parser.add_argument( '--image_type', dest='image_type', help='Image type' )
     parser.add_argument( '--image_title', dest='image_title', default='', help='Image title' )
-    parser.add_argument( '--max_heap_size_type', dest='max_heap_size_type', help='Type (default or megabytes) of max_heap_size value' )
-    parser.add_argument( '--max_heap_size', dest='max_heap_size', help='Maximum size of the memory allocation pool used by the JVM.' )
     parser.add_argument( '--output_datatype', dest='output_datatype', help='Output image format' )
     parser.add_argument( '--jython_script', dest='jython_script', help='Path to the Jython script' )
     parser.add_argument( '--out_fname', help='Path to the output file' )
@@ -22,8 +20,6 @@
 
     tmp_dir = imagej2_base_utils.get_temp_dir()
     tmp_image_path = imagej2_base_utils.get_temporary_image_path( tmp_dir, args.output_datatype )
-    # Set the size of the memory allocation pool used by the JVM.
-    memory_size = imagej2_base_utils.get_max_heap_size_value( args.max_heap_size_type, args.max_heap_size )
 
     # Define command response buffers.
     tmp_out = tempfile.NamedTemporaryFile().name
@@ -31,7 +27,7 @@
     tmp_err = tempfile.NamedTemporaryFile().name
     tmp_stderr = open( tmp_err, 'wb' )
     # Build the command line.
-    cmd = imagej2_base_utils.get_base_command_imagej2( memory_size, jython_script=args.jython_script )
+    cmd = imagej2_base_utils.get_base_command_imagej2( None, jython_script=args.jython_script )
     if cmd is None:
         imagej2_base_utils.stop_err( "ImageJ not found!" )
     cmd += ' %s %d %d %d %s %s' % ( args.image_title, args.width, args.height, args.depth, args.image_type, tmp_image_path )