--- a/env/bin/prov-compare	Thu May 14 16:47:39 2020 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,127 +0,0 @@
-#!/Users/pldms/Development/Projects/2020/david-matthews-galaxy/guppy_basecaller/env/bin/python3
-# encoding: utf-8
-"""
-prov-compare -- Compare two PROV-JSON, PROV-XML, or RDF (PROV-O) files for equivalence
-
-@author:     Trung Dong Huynh
-
-@copyright:  2016 University of Southampton, United Kingdom. All rights reserved.
-
-@license:    MIT Licence
-
-@contact:    trungdong@donggiang.com
-@deffield    updated: 2016-10-19
-"""
-
-from argparse import ArgumentParser, RawDescriptionHelpFormatter, FileType
-import os
-import sys
-import logging
-import traceback
-import six
-
-from prov.model import ProvDocument
-
-
-logger = logging.getLogger(__name__)
-
-__all__ = []
-__version__ = 0.1
-__date__ = '2015-06-16'
-__updated__ = '2016-10-19'
-
-DEBUG = 0
-TESTRUN = 0
-PROFILE = 0
-
-
-@six.python_2_unicode_compatible
-class CLIError(Exception):
-    """Generic exception to raise and log different fatal errors."""
-    def __init__(self, msg):
-        super(CLIError).__init__(type(self))
-        self.msg = "E: %s" % msg
-
-    def __str__(self):
-        return self.msg
-
-
-def main(argv=None):  # IGNORE:C0111
-    """Command line options."""
-
-    if argv is None:
-        argv = sys.argv
-    else:
-        sys.argv.extend(argv)
-
-    program_name = os.path.basename(sys.argv[0])
-    program_version = "v%s" % __version__
-    program_build_date = str(__updated__)
-    program_version_message = '%%(prog)s %s (%s)' % (program_version, program_build_date)
-    program_shortdesc = __import__('__main__').__doc__.split("\n")[1]
-    program_license = '''%s
-
-  Created by Trung Dong Huynh on %s.
-  Copyright 2016 University of Southampton. All rights reserved.
-
-  Licensed under the MIT License
-  https://github.com/trungdong/prov/blob/master/LICENSE
-
-  Distributed on an "AS IS" basis without warranties
-  or conditions of any kind, either express or implied.
-
-USAGE
-''' % (program_shortdesc, str(__date__))
-
-    try:
-        # Setup argument parser
-        parser = ArgumentParser(description=program_license, formatter_class=RawDescriptionHelpFormatter)
-        parser.add_argument('file1', nargs='?', type=FileType('r'))
-        parser.add_argument('file2', nargs='?', type=FileType('r'))
-        parser.add_argument('-f', '--format1', dest='format1', action='store', default='json',
-                            help='File 1\'s format: json or xml')
-        parser.add_argument('-F', '--format2', dest='format2', action='store', default='json',
-                            help='File 2\'s format: json or xml')
-        parser.add_argument('-V', '--version', action='version', version=program_version_message)
-
-        args = None
-        try:
-            # Process arguments
-            args = parser.parse_args()
-            doc1 = ProvDocument.deserialize(args.file1, format=args.format1.lower())
-            doc2 = ProvDocument.deserialize(args.file2, format=args.format2.lower())
-            return doc1 != doc2
-
-        finally:
-            if args:
-                if args.file1:
-                    args.file1.close()
-                if args.file2:
-                    args.file2.close()
-
-    except Exception as e:
-        if DEBUG or TESTRUN:
-            traceback.print_exc()
-            raise e
-        indent = len(program_name) * " "
-        sys.stderr.write(program_name + ": " + str(e) + "\n")
-        sys.stderr.write(indent + "  for help use --help")
-        return 2
-
-if __name__ == "__main__":
-    logging.basicConfig(level=(logging.DEBUG if DEBUG else logging.INFO))
-    if TESTRUN:
-        import doctest
-        doctest.testmod()
-    if PROFILE:
-        import cProfile
-        import pstats
-        profile_filename = 'prov_compare_profile.txt'
-        cProfile.run('main()', profile_filename)
-        statsfile = open("profile_stats.txt", "wb")
-        p = pstats.Stats(profile_filename, stream=statsfile)
-        stats = p.strip_dirs().sort_stats('cumulative')
-        stats.print_stats()
-        statsfile.close()
-        sys.exit(0)
-    sys.exit(main())