def testFn_ReadString(self):
"""Test the wdl built-in functional equivalent of 'read_string()'."""
some_str = 'some string'
path = self._write_temp_file('read_string', content=some_str)
self.assertEqual(some_str, read_string(path))
# with preceding newlines. Cromwell strips from the front and the end.
path = self._write_temp_file('read_string',
content='\n\n\n' + some_str)
self.assertEqual(some_str, read_string(path))
# with trailing newlines
path = self._write_temp_file('read_string', content=some_str + '\n\n')
self.assertEqual(some_str, read_string(path))
def run(self, fileStore):
fileStore.logToMaster("hostTask")
tempDir = fileStore.getLocalTempDir()
try:
os.makedirs(os.path.join(tempDir, 'execution'))
except OSError as e:
if e.errno != errno.EEXIST:
raise
i = self.id_i
try:
# Intended to deal with "optional" inputs that may not exist
# TODO: handle this better
command0 = r'''
hostname
sleep 30
'''
except:
command0 = ''
cmd = command0
cmd = textwrap.dedent(cmd.strip("\n"))
this_process = subprocess.Popen(cmd,
shell=True,
stdout=subprocess.PIPE,
stderr=subprocess.PIPE)
stdout, stderr = this_process.communicate()
taskID = 'i'
result = (read_string((stdout)))
rvDict = {"taskID": taskID, "result": result}
return rvDict