def run(self, input_files, input_metadata, output_files):
"""
Standard function to call a task
"""
# input and output share most metadata
output_metadata = Metadata.get_child(input_metadata["input"],
output_files["output"])
# Run the tool
logger.info("SimpleTool1: Running task inputPlusOne")
task_status = self.inputPlusOne(input_files["input"],
output_files["output"])
logger.info("SimpleTool1: task inputPlusOne done")
if task_status:
logger.info("SimpleTool1: run successful")
return ({
"output": output_files["output"]
}, {
"output": output_metadata
})
logger.fatal("SimpleTool1: run failed")
return {}, {}
def run(self, input_files, input_metadata, output_files):
"""
Standard function to call tasks
"""
# perform checks
assert len(input_files["input"]) == len(input_metadata["input"])
# prepare outputs
logger.info("SimpleTool3: Preparing outputs")
output_pattern = output_files["output"]
output_files["output"] = []
output_metadata = {}
output_metadata["output"] = []
# Iteratively run the task
previous_input = input_files["input"][0]
previous_metadata = input_metadata["input"][0]
for i in range(len(input_files["input"]) - 1):
logger.info("SimpleTool3: Summing input {}", i)
# Add next input file:
next_input = input_files["input"][i + 1]
next_metadata = input_metadata["input"][i + 1]
# Pre-calculate output path and metadata
file_out = output_pattern.format(i)
metadata_out = Metadata.get_child(
(previous_metadata, next_metadata), file_out)
# run task
success = self.sumTwoFiles(previous_input, next_input, file_out)
if success:
# keep track of successful iterations
output_files["output"].append(file_out)
# input and outputs share most metadata
output_metadata["output"].append(metadata_out)
previous_input = file_out
previous_metadata = metadata_out
logger.info("SimpleTool3: Input {} successful", i)
else:
logger.warn("SimpleTool3: Input {} failed", i)
return output_files, output_metadata
def run(self, input_files, input_metadata, output_files):
"""
Standard function to call a task
"""
# input and output share most metadata
output_metadata = Metadata.get_child(input_metadata["input1"],
output_files["output"])
# Run the tool 2
logger.info("SimpleTool2: Running task sumTwoFiles")
task_status = self.sumTwoFiles(input_files["input1"],
input_files["input2"],
output_files["output"])
if task_status:
logger.info("SimpleTool2: run successful")
return (output_files, {"output": output_metadata})
logger.fatal("SimpleTool2: run failed")
return {}, {}