def run_script(
target_folder, tool_definition, result_arguments, data_type_by_suffix,
environment=None):
result_properties, timestamp = OrderedDict(), time.time()
result_arguments = dict(result_arguments, target_folder=target_folder)
result_configuration = _ResultConfiguration(target_folder)
result_configuration.write_header(tool_definition, result_arguments)
command_terms = split_arguments(render_command(tool_definition[
'command_template'], result_arguments).replace('\n', ' '))
try:
with cd(tool_definition['configuration_folder']):
command_process = subprocess.Popen(
command_terms, stdout=subprocess.PIPE, stderr=subprocess.PIPE,
env=environment or SCRIPT_ENVIRONMENT)
except OSError:
standard_output, standard_error = None, 'Command not found'
else:
standard_output, standard_error = [
x.rstrip().decode('utf-8') for x in command_process.communicate()]
if command_process.returncode:
result_properties['return_code'] = command_process.returncode
result_properties.update(_process_streams(
standard_output, standard_error, target_folder, tool_definition,
data_type_by_suffix))
result_properties['execution_time_in_seconds'] = time.time() - timestamp
result_configuration.write_footer(result_properties)
return result_properties
def run_git(command_args, folder=None, exception_by_error=None):
if not folder:
folder = getcwd()
exception_by_error = dict(
{
"Could not read": BadURL,
"Not a git repository": BadRepository,
"not found": BadURL,
"not a tree object": BadCommitHash,
"Not a valid object name": BadCommitHash,
},
**(exception_by_error or {})
)
with cd(folder):
output = run_command(command_args, exception_by_error)
return str(output) # Convert bytes to str in Python 3
def run_script(tool_definition,
result_arguments,
result_folder,
target_folder=None,
environment=None):
timestamp, environment = time.time(), environment or {}
if 'target_folder' in tool_definition['argument_names']:
y = make_folder(abspath(target_folder or join(result_folder, 'y')))
result_arguments = OrderedDict(result_arguments, target_folder=y)
# Record
result_configuration = ResultConfiguration(result_folder)
result_configuration.save_tool_location(tool_definition)
result_configuration.save_result_arguments(result_arguments, environment)
# Run
command_terms = split_arguments(
render_command(tool_definition['command_template'],
result_arguments).replace('\n', ' '))
result_properties = OrderedDict()
try:
with cd(tool_definition['configuration_folder']):
command_process = subprocess.Popen(command_terms,
stdout=subprocess.PIPE,
stderr=subprocess.PIPE,
env=merge_dictionaries(
environment,
SCRIPT_ENVIRONMENT))
except OSError:
standard_output, standard_error = None, 'Command not found'
else:
standard_output, standard_error = [
x.rstrip().decode('utf-8') for x in command_process.communicate()
]
if command_process.returncode:
result_properties['return_code'] = command_process.returncode
# Save
result_properties.update(
_process_streams(standard_output, standard_error, result_folder,
tool_definition))
result_properties['execution_time_in_seconds'] = time.time() - timestamp
result_configuration.save_result_properties(result_properties)
result_configuration.save_result_script(tool_definition, result_arguments)
if 'target_folder' in tool_definition['argument_names']:
link_path(join(result_folder, 'y'), result_arguments['target_folder'])
return result_properties
def run_script(
tool_definition, result_arguments, result_folder, target_folder=None,
environment=None):
timestamp, environment = time.time(), environment or {}
if 'target_folder' in tool_definition['argument_names']:
y = make_folder(abspath(target_folder or join(result_folder, 'y')))
result_arguments = OrderedDict(result_arguments, target_folder=y)
# Record
result_configuration = ResultConfiguration(result_folder)
result_configuration.save_tool_location(tool_definition)
result_configuration.save_result_arguments(result_arguments, environment)
# Run
command_terms = split_arguments(render_command(tool_definition[
'command_template'], result_arguments).replace('\n', ' '))
result_properties = OrderedDict()
try:
with cd(tool_definition['configuration_folder']):
command_process = subprocess.Popen(
command_terms, stdout=subprocess.PIPE, stderr=subprocess.PIPE,
env=merge_dictionaries(environment, SCRIPT_ENVIRONMENT))
except OSError:
standard_output, standard_error = None, 'Command not found'
else:
standard_output, standard_error = [x.rstrip().decode(
'utf-8') for x in command_process.communicate()]
if command_process.returncode:
result_properties['return_code'] = command_process.returncode
# Save
result_properties.update(_process_streams(
standard_output, standard_error, result_folder, tool_definition))
result_properties['execution_time_in_seconds'] = time.time() - timestamp
result_configuration.save_result_properties(result_properties)
result_configuration.save_result_script(tool_definition, result_arguments)
if 'target_folder' in tool_definition['argument_names']:
link_path(join(result_folder, 'y'), result_arguments['target_folder'])
return result_properties
