--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/reverse.py	Thu Jun 20 11:02:36 2013 -0400
@@ -0,0 +1,50 @@
+from os.path import dirname, join, abspath
+import sys
+from optparse import OptionParser
+from ConfigParser import SafeConfigParser
+import subprocess
+
+DEBUG = False
+
+
+def main():
+    (options, args) = _parse_args()
+    format_args = (options.input, options.output)
+    _run_shell("cat '%s' > '%s'" % format_args)
+    _run_dbtoolkit("com.compomics.dbtoolkit.toolkit.ReverseFASTADB", "'%s' | head --lines -4 >> '%s'" % \
+                       format_args)
+
+
+def _run_shell(command):
+    if DEBUG:
+        print "Running shell command %s" % command
+    _exec(command)
+
+
+def _run_dbtoolkit(java_class, args):
+    command_prefix = "java -cp %s" % _dbtoolkit_jar_path()
+    _exec("%s %s %s" % (command_prefix, java_class, args))
+
+
+def _dbtoolkit_jar_path():
+    py_path = __file__
+    jar_path = join(dirname(py_path), "dbtoolkit-4.2", "dbtoolkit-4.2.jar")
+    return jar_path
+
+def _exec(command):
+    proc = subprocess.Popen(args=command, shell=True)
+    return_code = proc.wait()
+    if return_code != 0:
+        print "Error executing command [%s], return code is %d" % (command, return_code)
+        sys.exit(return_code)
+
+
+def _parse_args():
+    parser = OptionParser()
+    parser.add_option("-i", "--input")
+    parser.add_option("-o", "--output")
+    return parser.parse_args()
+
+
+if __name__ == "__main__":
+    main()