def main():
curr_path = determine_path()
json_data=open(curr_path + '/config/gql.conf')
gqltools.config = json.load(json_data)
gqllexer = lex.lex(module=gqltokens)
#gqlparser = yacc.yacc(module=gqlgrammar,write_tables=0,debug=0)
global_env = (None, {})
history_file = expanduser("~/.gql_history")
readline.set_completer(SimpleCompleter(gqltokens.reserved).complete)
readline.parse_and_bind("tab: complete")
if len(sys.argv) == 1:
try:
readline.read_history_file(history_file)
except IOError:
pass
while True:
try:
data = raw_input('> ')
if data != '':
readline.write_history_file(history_file)
#gqlast = None;
try:
gqlast = gqlparser.parse(data,\
lexer=gqllexer,\
tracking=True)
if (gqlast != None):
result = gqlinterp.interpret_cmdline(gqlast,\
global_env)
except Exception as e:
print str(e)
except KeyboardInterrupt:
print ''
break
except EOFError:
print
break
gqltools.clear_tmp_files()
else:
f = open(sys.argv[1], 'r')
data = f.read()
f.close()
gqlast = gqlparser.parse(data,lexer=gqllexer,tracking=True)
result = gqlinterp.interpret(gqlast)
gqltools.clear_tmp_files()
def test_tempfile_management(self):
R_file_name = gqltools.get_temp_file_name(pybedtools.get_tempdir(), "unittest", "tmp")
r = random.randint(1, sys.maxint)
f = open(R_file_name, "w")
f.write(str(r))
f.close()
# test to see if the file was created
self.assertTrue(os.path.isfile(R_file_name))
R = gqltypes.BED6(R_file_name, True)
gqltools.add_tmp_file(R)
gqltools.clear_tmp_files()
self.assertEqual(os.path.isfile(R_file_name), False)
def tearDown(self):
gqltools.clear_tmp_files()