def parse_stdout_file(curr_timestep=0, stdout_filename="test.txt", debug=False):
"""
:param curr_timestep: first timestep from config
:param stdout_filename: file to parse (test.txt)
:param debug: whether or not we write an additional file that's full of the matched lines
:return: an array of lines of interest
"""
filtered_lines = []
update_time = "Update(): Time:"
incubation_timer = "Incubation_timer calculated as"
art_notify_event = "notifyOnEvent"
incubation_timer_update = "LifeCourseLatencyTimerUpdate"
time = 0
with open(stdout_filename) as logfile:
for line in logfile:
if update_time in line:
time += 1
elif incubation_timer_update in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
elif incubation_timer in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
elif art_notify_event in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
if debug:
with open("filtered_lines.txt", "w") as outfile:
outfile.writelines(filtered_lines)
return filtered_lines
def parse_stdout_file(curr_timestep=0,
stdout_filename="test.txt",
debug=False):
"""
:param curr_timestep: first timestep from config
:param stdout_filename: file to parse (test.txt)
:param debug: whether or not we write an additional file that's full of the matched lines
:return: array of lines of interest
"""
died_of_coinfection = "died of CoInfection"
state_active_symptomatic = "infectionstatechange TBActivation "
filtered_lines = []
update_time = "Update(): Time:"
time = 0
with open(stdout_filename) as logfile:
for line in logfile:
if update_time in line:
time += 1
elif died_of_coinfection in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
elif state_active_symptomatic in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
if debug:
with open("filtered_lines.txt", "w") as outfile:
outfile.writelines(filtered_lines)
return filtered_lines
def parse_stdout_file(curr_timestep=0,
stdout_filename="test.txt",
debug=False):
"""
:param curr_timestep: first timestep from config
:param stdout_filename: file to parse (test.txt)
:param debug: whether or not we write an additional file that's full of the matched lines
:return: array of lines of interest
"""
new_infection_state = "SetNewInfectionState"
filtered_lines = []
update_time = "Update(): Time:"
incubation_timer = "InitializeLatentInfection"
time = 0
with open(stdout_filename) as logfile:
for line in logfile:
if update_time in line:
time += 1
elif new_infection_state in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
elif incubation_timer in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
if debug:
with open("filtered_lines.txt", "w") as outfile:
outfile.writelines(filtered_lines)
return filtered_lines
def parse_stdout_file(curr_timestep=0,
stdout_filename="test.txt",
debug=False):
"""
:param curr_timestep: first timestep from config
:param stdout_filename: file to parse (test.txt)
:param debug: whether or not we write an additional file that's full of the matched lines
:return: array of lines of interest
"""
expose = "Expose: Individual"
filtered_lines = []
update_time = "Update(): Time:"
time = 0
with open(stdout_filename) as logfile:
for line in logfile:
if update_time in line:
time += 1
if expose in line:
ind = int(dtk_sft.get_val("Individual ", line))
if ind <= 100: # do not look at imported people
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
if debug:
with open("filtered_lines.txt", "w") as outfile:
outfile.writelines(filtered_lines)
return filtered_lines
def parse_stdout_file(curr_timestep=0,
stdout_filename="test.txt",
debug=False):
"""
:param curr_timestep: first timestep from config
:param stdout_filename: file to parse (test.txt)
:param debug: whether or not we write an additional file that's full of the matched lines
:return: an array of filtered lines
"""
update_infectiousness = "UpdateInfectiousness Individual"
update_time = "Update(): Time:"
time = 0
filtered_lines = []
with open(stdout_filename) as logfile:
for line in logfile:
if update_time in line:
time += 1
if update_infectiousness in line:
new_line = dtk_sft.add_time_stamp(time, line)
filtered_lines.append(new_line)
if debug:
with open("filtered_lines.txt", "w") as outfile:
outfile.writelines(filtered_lines)
return filtered_lines