since that has been changing.
also a minor code clean up.
# retrieve config step
cfg_filepath = os.path.join(conf_info.analysis_dir,
# retrieve config step
cfg_filepath = os.path.join(conf_info.analysis_dir,
status_retrieve_cfg = retrieve_config(conf_info,
flowcell,
cfg_filepath,
status_retrieve_cfg = retrieve_config(conf_info,
flowcell,
cfg_filepath,
ferr = open(stderr_filepath, 'w')
pipe = subprocess.Popen(['goat_pipeline.py',
ferr = open(stderr_filepath, 'w')
pipe = subprocess.Popen(['goat_pipeline.py',
- '--GERALD=%s' % (conf_info.config_filepath),
- #'--tiles=s_4_0100,s_4_0101,s_4_0102,s_4_0103,s_4_0104',
+ '--GERALD=%s' % (conf_info.config_filepath),
'--make',
conf_info.analysis_dir],
'--make',
conf_info.analysis_dir],
- stdout=fout,
- stderr=ferr)
+ stdout=fout,
+ stderr=ferr)
print "Configuring pipeline: %s" % (time.ctime())
error_code = pipe.wait()
print "Configuring pipeline: %s" % (time.ctime())
error_code = pipe.wait()