def application( output_folder="output", stdout_filename="test.txt",
config_filename="config.json",
report_name=sft.sft_output_filename,
debug=False):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename+ "\n"
print "config_filename: " + config_filename + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
sft.wait_for_done()
param_obj = load_emod_parameters(config_filename,debug)
output_obj = parse_output_file(stdout_filename, debug)
multipliers = output_obj[matches[0]]
infectiousness = output_obj[matches[1]]
create_report_file(param_obj, multipliers, infectiousness, report_name, debug)
def application( output_folder="output", stdout_filename="test.txt",
config_filename="config.json",
insetchart_name="InsetChart.json",
report_name=dtk_sft.sft_output_filename,
debug=False):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename+ "\n"
print "config_filename: " + config_filename + "\n"
print "insetchart_name: " + insetchart_name + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
dtk_sft.wait_for_done()
param_obj = isb_support.load_emod_parameters(config_filename)
simulation_timestep = param_obj[KEY_SIMULATION_TIMESTEP]
output_df = isb_support.parse_output_file(stdout_filename, simulation_timestep, debug)
report_df = isb_support.parse_json_report(output_folder, insetchart_name, debug)
isb_support.create_report_file(param_obj, output_df, report_df, report_name, debug)
def application( output_folder="output", stdout_filename="test.txt",
config_filename="config.json",campaign_filename="campaign.json",
demographics_filename = "../../demographics.json",
propertyreport_name="PropertyReport.json",
report_name=sft.sft_output_filename,
debug=False):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename+ "\n"
print "config_filename: " + config_filename + "\n"
print "campaign_filename: " + campaign_filename + "\n"
print "demographics_filename: " + demographics_filename + "\n"
print "propertyreport_name: " + propertyreport_name + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
sft.wait_for_done()
report_data_obj = parse_json_report(output_folder, propertyreport_name, debug)
create_report_file(report_data_obj, report_name, debug)
def application( output_folder="output", stdout_filename="test.txt",
config_filename="config.json",campaign_filename="campaign.json",
demographics_filename = "demographics_100_overlay.json",
insetchart_name="InsetChart.json",
report_name=sft.sft_output_filename,
debug=False):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename+ "\n"
print "config_filename: " + config_filename + "\n"
print "campaign_filename: " + campaign_filename + "\n"
print "demographics_filename: " + demographics_filename + "\n"
print "insetchart_name: " + insetchart_name + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
sft.wait_for_done()
param_obj = ips.load_emod_parameters(config_filename, debug)
campaign_obj = ips.load_campaign_file(campaign_filename, debug)
demographics_obj = ips.load_demographics_file(demographics_filename, debug)
report_data_obj = ips.parse_json_report(output_folder, insetchart_name, debug)
sft.plot_data_unsorted(report_data_obj[KEY_NEW_INFECTIONS],
title="new infections",
label1= "New Infections",
label2 = "NA",
xlabel="time steps", ylabel="new infection",
category = 'New_infections',
show = True )
sft.plot_data_unsorted(report_data_obj[KEY_STATISTICAL_POPULATION],
title="Statistical Population",
label1= "Statistical Population",
label2 = "NA",
xlabel = "time steps", ylabel="Statistical Population",
category = 'Statistical_popupation',
show = True, line = True)
ips.create_report_file(param_obj, campaign_obj, demographics_obj, report_data_obj, report_name, debug)
def application(output_folder="output",
stdout_filename="test.txt",
config_filename="config.json",
insetchart_name="InsetChart.json",
report_name=dtk_sft.sft_output_filename,
debug=False):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename + "\n"
print "config_filename: " + config_filename + "\n"
print "insetchart_name: " + insetchart_name + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
dtk_sft.wait_for_done()
param_obj = ISE_Support.load_emod_parameters(config_filename)
simulation_timestep = param_obj[KEY_SIMULATION_TIMESTEP]
if debug:
print "simulation time step is : {0} days".format(simulation_timestep)
output_df = ISE_Support.parse_output_file(stdout_filename,
simulation_timestep, debug)
report_df = ISE_Support.parse_json_report(output_folder, insetchart_name,
debug)
ISE_Support.create_report_file(param_obj, output_df, report_df,
report_name, debug)
def application(output_folder="output",
stdout_filename="test.txt",
config_filename="config.json",
campaign_filename="campaign.json",
demographics_filename="../../demographics.json",
propertyreport_name="InsetChart.json",
report_name=sft.sft_output_filename,
debug=True):
if debug:
print "output_folder: " + output_folder
print "stdout_filename: " + stdout_filename + "\n"
print "config_filename: " + config_filename + "\n"
print "campaign_filename: " + campaign_filename + "\n"
print "demographics_filename: " + demographics_filename + "\n"
print "propertyreport_name: " + propertyreport_name + "\n"
print "report_name: " + report_name + "\n"
print "debug: " + str(debug) + "\n"
sft.wait_for_done()
report_data_obj = parse_json_report(output_folder, propertyreport_name,
debug)
campaign_obj = load_campaign_file(campaign_filename, debug)
create_report_file(campaign_obj, report_data_obj, report_name, debug)
def application(output_folder="output",
config_filename="config.json",
jsonreport_name="InsetChart.json",
stdout_filename="test.txt",
report_name=sft.sft_output_filename,
debug=False):
if debug:
print("output_folder: " + output_folder)
print("config_filename: " + config_filename)
print("insetchart_name: " + jsonreport_name)
print("report_name: " + report_name)
print("debug: " + str(debug))
sft.wait_for_done()
config_object = dtk_iis.load_config_file(config_filename=config_filename,
debug=debug)
demographics_overlay_name = config_object[
dtk_iis.ConfigKeys.DEMOGRAPHIC_FILENAMES][-1]
campaign_name = config_object[dtk_iis.ConfigKeys.CAMPAIGN_FILENAME]
test_config_name = config_object[dtk_iis.ConfigKeys.CONFIG_NAME]
campaign_object = dtk_iis.load_campaign_file(campaign_name, debug)
outbreak_day = campaign_object[dtk_iis.CampaignKeys.START_DAY]
demographics_object = dtk_iis.load_demographics_file(
demographics_filename=demographics_overlay_name,
immunity_initialization_type=config_object[
dtk_iis.ConfigKeys.IMM_DIST_TYPE],
debug=debug)
average_immunity = demographics_object[
dtk_iis.DemographicFileKeys.KEY_AVERAGE_IMMUNITY]
sft.start_report_file(report_name, test_config_name)
individual_df = dtk_iis.parse_stdout_file(stdout_filename, debug=debug)
dtk_iis.test_immunity_within_age_range(individual_df,
max_age=365,
expected_immunity=0.0)
dtk_iis.test_immunity_within_age_range(individual_df,
max_age=730,
expected_immunity=0.4)
report_data_object = dtk_iis.parse_json_report(output_folder=output_folder,
report_name=jsonreport_name,
debug=debug)
statistical_population_channel = report_data_object[
dtk_iis.InsetChannels.STATISTICAL_POPULATION]
new_infections_channel = report_data_object[
dtk_iis.InsetChannels.NEW_INFECTIONS]
expected_infections_obj = dtk_iis.get_expected_infections(
statistical_population_channel,
average_immunity,
campaign_object,
debug=debug)
actual_infections = dtk_iis.get_actual_infections(new_infections_channel,
outbreak_day)
dtk_iis.create_report_file(expected_infections_obj,
actual_infections,
outbreak_day,
report_name,
debug=debug)