#!/usr/bin/env python

#=========================================================================

# This is OPEN SOURCE SOFTWARE governed by the Gnu General Public

# License (GPL) version 3, as described at www.opensource.org.

# Copyright (C)2016 William H. Majoros (martiandna@gmail.com).

#=========================================================================

from __future__ import (absolute_import, division, print_function,

unicode_literals, generators, nested_scopes, with_statement)

from builtins import (bytes, dict, int, list, object, range, str, ascii,

chr, hex, input, next, oct, open, pow, round, super, filter, map, zip)

from EssexParser import EssexParser

import sys

BASE="/Users/bmajoros/python/test/data"

filename=BASE+"/HG00096-1-subset.essex"

parser=EssexParser(filename)

while(True):

root=parser.nextElem()

if(not root): break

#root.printXML(sys.stdout); print("\n")

elem=root.pathQuery("reference-transcript/variants")

if(elem): elem.printXML(sys.stdout); print("\n")