index = -1
for row in csv_reader:
index += 1
if index == 0:
metids = row[1:]
else:
sampleid = row[0]
metvals = row[1:]
minlen = min(len(metids), len(metvals))
write_meta_values(h5, h5writepath, str(sampleid),
metids[0:minlen], metvals[0:minlen],
parameters['overwrite'] == 'yes')
if __name__ == "__main__":
tic()
settings = OptionsHolder(__doc__, ImportMetaSet_options)
settings.description = 'Metadata import'
settings.do = 'yes'
printlog(settings.program_description)
#Parse command line parameters
try:
settings.parse_command_line_args()
except Exception as inst:
printlog('!!! Error in command line parameters: !!!')
printlog(inst)
printlog('\nRun python ' + sys.argv[0] +
' --help for command line options information!')
sys.exit(-1)
parameters = settings.parameters
idx = np.argmin(test*ref)
divpoint = mididx[idx]+1
return divpoint
def export(self):
"""
Prepares peak alignment parameter set for export
"""
self.minsegwidth = self.minsegwidth * self.rtrange[1]
self.maxpeakshift = self.maxpeakshift * self.rtrange[1]
if __name__ == "__main__":
tic();
settings=OptionsHolder(__doc__, InternalAlign_options);
settings.description='Profile Alignment';
settings.do='yes';
printlog(settings.program_description);
try:
settings.parse_command_line_args()
except Exception as inst:
printlog('!!! Error in command line parameters: !!!');
printlog(inst);
printlog('\nRun python ' + sys.argv[0] + ' --help for command line options information!');
sys.exit(-1)
parameters = settings.parameters;
if parameters['logfile'] != '':
start_log(parameters['logfile'], overwrite_existing = (parameters['overwrite_logfile'] == 'yes'), verbosity_level = parameters['verbose']);