def writeData(self, fp, image):
"""Save in YAML format."""
fp.seek(0)
expdev = session.experiment
instrdev = session.instrument
o = AutoDefaultODict()
instr = o['instrument']
instr['name'] = instrdev.instrument
instr['facility'] = instrdev.facility
instr['operator'] = ', '.join(instrdev.operators)
instr['website'] = instrdev.website
instr['references'] = [AutoDefaultODict({'doi': instrdev.doi})]
o['format']['identifier'] = self.__class__.filetype
for obj, unit in zip(self.objects, self.units):
o['format']['units'][obj] = unit
exp = o['experiment']
exp['number'] = expdev.propinfo.get('session', expdev.proposal)
exp['proposal'] = expdev.proposal
exp['title'] = expdev.title
exp['authors'] = []
for user in expdev.propinfo.get('users', []):
a = AutoDefaultODict()
a['name'] = user['name']
a['affiliation'] = user.get('affiliation')
a['roles'] = self._flowlist(['principal_investigator'])
exp['authors'].append(a)
for user in expdev.propinfo.get('localcontacts', []):
a = AutoDefaultODict()
a['name'] = user['name']
a['affiliation'] = user.get('affiliation')
a['roles'] = self._flowlist(['local_contact'])
exp['authors'].append(a)
meas = o['measurement']
meas['number'] = self.dataset.number
meas['unique_identifier'] = '%s/%s/%s' % (
expdev.proposal, self.dataset.counter, self.dataset.number)
hist = meas['history']
hist['started'] = nice_datetime(self.dataset.started)
hist['stopped'] = nice_datetime(currenttime())
sample = meas['sample']['description']
sample['name'] = expdev.sample.samplename
env = meas['sample']['environment'] = []
stats = self.dataset.valuestats
for (info, val) in zip(self.dataset.envvalueinfo,
self.dataset.envvaluelist):
entry = self._dict()
entry['name'] = info.name
entry['unit'] = info.unit
entry['value'] = val
if info.name in stats:
entry['mean'] = stats[info.name][0]
entry['stddev'] = stats[info.name][1]
entry['min'] = stats[info.name][2]
entry['max'] = stats[info.name][3]
env.append(entry)
self._write_instr_data(meas, image)
quickyaml.Dumper(width=self.max_yaml_width,
array_handling=self.yaml_array_handling).dump(o, fp)
fp.flush()
def _dict(self):
return AutoDefaultODict()