Source code for

#!/usr/bin/env python

# Copyright 2011-2014 Biomedical Imaging Group Rotterdam, Departments of
# Medical Informatics and Radiology, Erasmus MC, Rotterdam, The Netherlands
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# See the License for the specific language governing permissions and
# limitations under the License.

import argparse
FASTR_LOG_TYPE = 'none'  # Do not get info about fastr

[docs]def get_parser(): parser = argparse.ArgumentParser() parser.add_argument('infile', metavar='result.pickle.gz', help='result file to cat') parser.add_argument('path', help='path of the data to print') return parser
[docs]def main(args=None, unknown_args=None): """ Print information from a job file """ if args is None and unknown_args is None: # No arguments were parsed yet, parse them now parser = get_parser() args, unknown_args = parser.parse_known_args() import gzip import os import pickle from pprint import pprint infile = args.infile path = args.path.strip('/').split('/') if os.path.isdir(infile): infile = os.path.join(infile, '__fastr_result__.pickle.gz') if not os.path.isfile(infile): print('ERROR: Input file does not exist!') return try: with as fh: job = pickle.load(fh) except IOError: print('ERROR: Could not open {} for reading'.format(infile)) data = job.info_store for part in path: try: data = data[part] except KeyError: raise KeyError('{} not found in {}'.format(part, data.keys())) if isinstance(data, str): for line in data.split('\n'): print line else: pprint(data)
if __name__ == '__main__': main()