def build_mredoc_ouput(trace_comp_res,unexpected_params, config, figures, validators, table_results, missing_parameter_sets, expected_variables, impl_param_filename_dict):
print ' -- Producing mredoc output'
import mredoc as mrd
def build_comp_section(param):
fig = figures[param]
trcs = sorted( trace_comp_res[param] )
comp_tbl_header, comp_tbl_data= zip( *[ ('%s.max_ptp' %c, trace_comp_res[param][c].max_ptp) for c in trcs])
return mrd.Section('Parameters: %s' % str(param),
mrd.VerticalColTable(comp_tbl_header, [comp_tbl_data] ),
mrd.Figure( mrd.Image(fig, auto_adjust=False), caption='Comparison'),
)
comparison_graphs = mrd.Section('Trace Comparisons', [build_comp_section(p) for p in figures.keys() ] )
tbl_comp_sections = []
for impl in impl_param_filename_dict:
s = build_mredoc_results_table(impl=impl, validators=validators, table_results=table_results, missing_parameter_sets=missing_parameter_sets, expected_variables=expected_variables)
tbl_comp_sections.append(s)
results_section = mrd.SectionNewPage('%s - %s' % ( config['scenario_short'].capitalize(), config['title'],),
mrd.Section('Overview',
mrd.Section('Description', mrd.VerbatimBlock(config['description'], caption='Description' ) ),
mrd.Section('Implementations', mrd.Paragraph('Tesing against: %s' % ', '.join(impl_param_filename_dict) ) ),
mrd.Section('Failures', mrd.Paragraph('TODO!')),
mrd.Section('Unexpected Files', mrd.Paragraph('Files:' + ','.join([str(u[1]) for u in unexpected_params]) )),
),
mrd.Section('Table Comparisons',*tbl_comp_sections ),
comparison_graphs,
)
return results_section
def build_simulation_details(self):
return mrd.SectionNewPage(
"Details",
self.build_singlecell_details(),
self.build_population_details(),
self.build_details_channels(),
)
def summarise_all(cls):
return mrd.SectionNewPage(
'Morphforge Configuration',
cls.summarise_channels(),
cls.summarise_currentclamps(),
cls.summarise_voltageclamps(),
cls.summarise_presynapticmechs(),
cls.summarise_postsynapticmechs(),
cls.summarise_tracemethods(),
)
def build_neuron_details(self, neuron):
return mrd.SectionNewPage(
'Neuron:%s' % neuron.name,
self._create_neuron_details_1_morphology(neuron),
self._create_neuron_details_2b_pta(neuron),
self._create_neuron_details_2_mta(neuron),
self._create_neuron_details_3a_presynapses(neuron),
self._create_neuron_details_3b_postsynapses(neuron),
self._create_neuron_details_3c_gapjunctions(neuron),
self._create_neuron_details_4_stimulation(neuron),
)
def build_details_channels(self):
mechs = sorted(self.sim.get_all_channels(), key=lambda i: i.name)
return mrd.SectionNewPage(
'Channels', *[self._build_details_channel(chl) for chl in mechs])
def build_simulation_overview(self):
return mrd.SectionNewPage('Overview', self.build_population_overview(),
self.build_population_complete_dot(),
self.build_singlecell_overview())