def onNeutronExperiment(self, experiment):
instrument_id = experiment.instrument_id
if empty_id(instrument_id):
instrument = None
else:
configured_instrument = self.clerk.getConfiguredInstrument(
instrument_id)
configure_instrument = self(configured_instrument)
instrument = configured_instrument
experiment.instrument = instrument
sampleassembly_id = experiment.sampleassembly_id
if empty_id(sampleassembly_id):
sampleassembly = None
else:
sampleassembly = self.clerk.getSampleAssembly(sampleassembly_id)
sampleassembly = self(sampleassembly)
experiment.sampleassembly = sampleassembly
job_id = experiment.job_id
if empty_id(job_id):
job = None
else:
job = self.clerk.getJob(job_id)
job = self(job)
experiment.job = job
return experiment
def onConfiguredInstrument(self, configured):
instrument_id = configured.instrument_id
if empty_id(instrument_id):
# if instrument is not specified, configuration is not
# meaningful
configured.instrument = None
configured.configuration = None
return configured
instrument = self.clerk.getInstrument( instrument_id )
instrument = self(instrument)
configuration_id = configured.configuration_id
if empty_id(configuration_id):
# if configuration is not explicit,
# it will be explicitly stored in the instrument table.
# be sure that this 'instrument' (actually configuration)
# could contain
# less components than the original template instrument.
# it could contain no component too.
configuration = None
# create a new instrument record
#from vnf.dom.Instrument import Instrument
#instrument = self.clerk.new_ownedobject( Instrument )
#configuration_id = configured.configuration_id = instrument.id
#self.clerk.updateRecord( configured )
else:
configuration = self.clerk.getInstrumentConfiguration(
instrument_id, configuration_id )
configuration = self(configuration)
configured.instrument = instrument
configured.configuration = configuration
return configured
def onScatterer(self, scatterer):
matter_id = scatterer.matter_id
if empty_id( matter_id ):
matter = None
else:
matter = self.clerk.getMatter(matter_id )
matter = self(matter)
shape_id = scatterer.shape_id
if empty_id(shape_id):
shape = None
else:
shape = self.clerk.getShape(shape_id)
shape = self(shape)
scatterer.shape = shape
scatterer.matter = matter
try:
kernels = self.clerk.getScatteringKernels( scatterer.id )
except:
import traceback
self.clerk._debug.log(traceback.format_exc())
kernels = []
kernels = [ self(kernel) for kernel in kernels ]
scatterer.kernels = kernels
return scatterer
def onNeutronExperiment(self, experiment):
instrument_id = experiment.instrument_id
if empty_id( instrument_id ):
instrument = None
else:
configured_instrument = self.clerk.getConfiguredInstrument(
instrument_id )
configure_instrument = self(configured_instrument)
instrument = configured_instrument
experiment.instrument = instrument
sampleassembly_id = experiment.sampleassembly_id
if empty_id(sampleassembly_id):
sampleassembly = None
else:
sampleassembly = self.clerk.getSampleAssembly( sampleassembly_id )
sampleassembly = self(sampleassembly)
experiment.sampleassembly = sampleassembly
job_id = experiment.job_id
if empty_id(job_id):
job = None
else:
job = self.clerk.getJob( job_id )
job = self(job)
experiment.job = job
return experiment
def onConfiguredInstrument(self, configured):
instrument_id = configured.instrument_id
if empty_id(instrument_id):
# if instrument is not specified, configuration is not
# meaningful
configured.instrument = None
configured.configuration = None
return configured
instrument = self.clerk.getInstrument(instrument_id)
instrument = self(instrument)
configuration_id = configured.configuration_id
if empty_id(configuration_id):
# if configuration is not explicit,
# it will be explicitly stored in the instrument table.
# be sure that this 'instrument' (actually configuration)
# could contain
# less components than the original template instrument.
# it could contain no component too.
configuration = None
# create a new instrument record
#from vnf.dom.Instrument import Instrument
#instrument = self.clerk.new_ownedobject( Instrument )
#configuration_id = configured.configuration_id = instrument.id
#self.clerk.updateRecord( configured )
else:
configuration = self.clerk.getInstrumentConfiguration(
instrument_id, configuration_id)
configuration = self(configuration)
configured.instrument = instrument
configured.configuration = configuration
return configured
def onScatterer(self, scatterer):
matter_id = scatterer.matter_id
if empty_id(matter_id):
matter = None
else:
matter = self.clerk.getMatter(matter_id)
matter = self(matter)
shape_id = scatterer.shape_id
if empty_id(shape_id):
shape = None
else:
shape = self.clerk.getShape(shape_id)
shape = self(shape)
scatterer.shape = shape
scatterer.matter = matter
try:
kernels = self.clerk.getScatteringKernels(scatterer.id)
except:
import traceback
self.clerk._debug.log(traceback.format_exc())
kernels = []
kernels = [self(kernel) for kernel in kernels]
scatterer.kernels = kernels
return scatterer
def processUserInputs(self, commit = True):
'''process user inputs and save them to db
commit: if true, commit to database record.
'''
# prepare a record to accept user inputs
if self.inventory.id == '':
record = self.createRecord()
else:
record = self.getRecord( )
# transfer user inputs to db record
for prop in self.parameters:
setattr(
record, prop,
self.inventory.getTraitValue( prop ) )
continue
# commit if requested
if commit:
director = self.director
if empty_id(record.id):
#if record is new, create a new db record
id = new_id( director )
record.id = id
director.clerk.insertRecord( record )
else:
#otherwise, update the record
director.clerk.updateRecord( record )
pass # endif
return record
def getRecord(self):
'get DB record'
id = self.inventory.id
if empty_id(id): return
director = self.director
clerk = director.clerk
return clerk.getRecordByID( self.DBTable, id )
def processUserInputs(self, commit=True):
'''process user inputs and save them to db
commit: if true, commit to database record.
'''
# prepare a record to accept user inputs
if self.inventory.id == '':
record = self.createRecord()
else:
record = self.getRecord()
# transfer user inputs to db record
for prop in self.parameters:
setattr(record, prop, self.inventory.getTraitValue(prop))
continue
# commit if requested
if commit:
director = self.director
if empty_id(record.id):
#if record is new, create a new db record
id = new_id(director)
record.id = id
director.clerk.newRecord(record)
else:
#otherwise, update the record
director.clerk.updateRecord(record)
pass # endif
return record
def onConfiguredScatterer(self, configured):
scatterer_id = configured.scatterer_id
if empty_id(scatterer_id):
scatterer = None
else:
scatterer = self.clerk.getScatterer( scatterer_id )
scatterer = self(scatterer)
configured.scatterer = scatterer
configuration_id = configured.configuration_id
if empty_id( configuration_id ): configuration = None
else:
configuration = self.clerk.getScatterer( configuration_id )
configuration = self(configuration)
pass # endif
configured.configuration = configuration
return configured
def onConfiguredScatterer(self, configured):
scatterer_id = configured.scatterer_id
if empty_id(scatterer_id):
scatterer = None
else:
scatterer = self.clerk.getScatterer(scatterer_id)
scatterer = self(scatterer)
configured.scatterer = scatterer
configuration_id = configured.configuration_id
if empty_id(configuration_id): configuration = None
else:
configuration = self.clerk.getScatterer(configuration_id)
configuration = self(configuration)
pass # endif
configured.configuration = configuration
return configured
def onJob(self, job):
server = job.server
if empty_id(server):
computation_server= None
else:
computation_server = self.clerk.getServer( server )
computation_server = self(computation_server)
job.computation_server = computation_server
job.short_description = job.jobName
return job
def onJob(self, job):
server = job.server
if empty_id(server):
computation_server = None
else:
computation_server = self.clerk.getServer(server)
computation_server = self(computation_server)
job.computation_server = computation_server
job.short_description = job.jobName
return job
def apply(self, configuration):
scatterer = self.scatterer
# scatterer is a container of matter and shape
matter = scatterer.matter.realmatter
shape = scatterer.shape.realshape
# the configuration is also a container of matter and shape
# if it exists
if configuration is None: return
matter_id = configuration.matter_id
if not empty_id(matter_id):
# need implementation here
pass
return
def _checkstatus(self, director):
experiment = director.clerk.getNeutronExperiment(
self.inventory.id )
self.name_assigned = experiment.short_description not in [None, '']
instrument_id = experiment.instrument_id
if not empty_id( instrument_id ):
configured = director.clerk.getConfiguredInstrument(instrument_id)
self.instrument_configured = not empty_id( configured.instrument_id )
pass
sampleenvironment_id = experiment.sampleenvironment_id
self.sample_environment_configured = not empty_id( sampleenvironment_id )
sampleassembly_id = experiment.sampleassembly_id
if not empty_id( sampleassembly_id ):
sampleassembly = director.clerk.getSampleAssembly(
sampleassembly_id )
scatterers = director.clerk.getConfiguredScatterers(
sampleassembly_id)
samples = filter(
lambda scatterer: scatterer.label == 'sample',
scatterers)
if len(samples) == 0: return
if len(samples) > 1: raise RuntimeError, "more than 1 sample"
sample = samples[0]
self.sample_prepared = not empty_id(sample.scatterer_id)
# need to test if kernel is configured
# ...
# probably need a canned solution here for the demo...
self.kernel_configured = True
pass
if not self.kernel_configured: return
if experiment.ncount <=0 : return
if empty_id(experiment.job_id): return
job = director.clerk.getJob( experiment.job_id )
self.allconfigured = True
# the last is to check if all files for this experiment
# are generated
return
def _checkstatus(self, director):
experiment = director.clerk.getNeutronExperiment(self.inventory.id)
self.name_assigned = experiment.short_description not in [None, '']
instrument_id = experiment.instrument_id
if not empty_id(instrument_id):
configured = director.clerk.getConfiguredInstrument(instrument_id)
self.instrument_configured = not empty_id(configured.instrument_id)
pass
sampleenvironment_id = experiment.sampleenvironment_id
self.sample_environment_configured = not empty_id(sampleenvironment_id)
sampleassembly_id = experiment.sampleassembly_id
if not empty_id(sampleassembly_id):
sampleassembly = director.clerk.getSampleAssembly(
sampleassembly_id)
scatterers = director.clerk.getConfiguredScatterers(
sampleassembly_id)
samples = filter(lambda scatterer: scatterer.label == 'sample',
scatterers)
if len(samples) == 0: return
if len(samples) > 1: raise RuntimeError, "more than 1 sample"
sample = samples[0]
self.sample_prepared = not empty_id(sample.scatterer_id)
# need to test if kernel is configured
# ...
# probably need a canned solution here for the demo...
self.kernel_configured = True
pass
if not self.kernel_configured: return
if experiment.ncount <= 0: return
if empty_id(experiment.job_id): return
job = director.clerk.getJob(experiment.job_id)
self.allconfigured = True
# the last is to check if all files for this experiment
# are generated
return
# run button
submit = form.control(name="submit", type="submit", value="Run")
return page
def run(self, director):
try:
page = director.retrieveSecurePage( 'neutronexperiment' )
except AuthenticationError, err:
return err.page
experiment = director.clerk.getNeutronExperiment(
self.inventory.id)
job_id = experiment.job_id
if empty_id(job_id):
raise RuntimeError, "job not yet established"
job_id = experiment.job_id
job = director.clerk.getJob( job_id )
try:
Scheduler.schedule(job, director)
experiment.status = 'submitted'
except Exception, err:
raise
import traceback
experiment.status = 'submissionfailed'
job.error = traceback.format_exc()
# update db
page = director.retrieveSecurePage( 'neutronexperimentwizard' )
except AuthenticationError, err:
return err.page
try:
self.processFormInputs( director )
except InputProcessingError, err:
errors = err.errors
self.form_received = None
director.routine = 'configure_instrument'
return self.configure_instrument( director, errors = errors )
experiment = director.clerk.getNeutronExperiment(
self.inventory.id )
# make sure instrument is configured
if empty_id( experiment.instrument_id ):
director.routine = 'select_instrument'
return self.select_instrument( director )
# get configured instrument
configured_instrument = director.clerk.getConfiguredInstrument(
experiment.instrument_id )
# make sure it has a instrument and it is configured
if empty_id( configured_instrument.instrument_id ) or \
empty_id( configured_instrument.configuration_id ):
director.routine = 'select_instrument'
return self.select_instrument( director )
# update experiment status
director.clerk.updateRecord( experiment )
director.routine = 'sample_environment'
try:
page = director.retrieveSecurePage('neutronexperimentwizard')
except AuthenticationError, err:
return err.page
try:
self.processFormInputs(director)
except InputProcessingError, err:
errors = err.errors
self.form_received = None
director.routine = 'configure_instrument'
return self.configure_instrument(director, errors=errors)
experiment = director.clerk.getNeutronExperiment(self.inventory.id)
# make sure instrument is configured
if empty_id(experiment.instrument_id):
director.routine = 'select_instrument'
return self.select_instrument(director)
# get configured instrument
configured_instrument = director.clerk.getConfiguredInstrument(
experiment.instrument_id)
# make sure it has a instrument and it is configured
if empty_id( configured_instrument.instrument_id ) or \
empty_id( configured_instrument.configuration_id ):
director.routine = 'select_instrument'
return self.select_instrument(director)
# update experiment status
director.clerk.updateRecord(experiment)
director.routine = 'sample_environment'