Installation instructions
Model data
Tutorial
Usage
Running on a cluster
Help and support
Contributing
Documentation
Developer’s guide
Changelog
Acknowledgements
MetaWards
Docs
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Index
Index
_
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A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
L
|
M
|
N
|
O
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P
|
R
|
S
|
T
|
U
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V
|
W
|
X
|
Y
|
Z
_
__init__() (metawards.Demographic method)
(metawards.Demographics method)
(metawards.Disease method)
(metawards.Infections method)
(metawards.InputFiles method)
(metawards.Link method)
(metawards.Links method)
(metawards.Network method)
(metawards.Networks method)
(metawards.Node method)
(metawards.Nodes method)
(metawards.OutputFiles method)
(metawards.Parameters method)
(metawards.Population method)
(metawards.Populations method)
(metawards.VariableSet method)
(metawards.VariableSets method)
(metawards.WardInfo method)
(metawards.WardInfos method)
(metawards.Workspace method)
(metawards.utils.NullProfiler method)
(metawards.utils.Profiler method)
A
accepts_stage() (in module metawards.utils)
add() (metawards.Demographics method)
add_lookup() (in module metawards.utils)
add_seeds() (metawards.Parameters method)
add_wards_network_distance() (in module metawards.utils)
additional_seeds (metawards.Parameters attribute)
adjust() (metawards.VariableSet method)
adjustable_help() (metawards.VariableSet static method)
adjustment (metawards.Demographic attribute)
advance_additional() (in module metawards.iterators)
advance_additional_omp() (in module metawards.iterators)
advance_fixed() (in module metawards.iterators)
advance_fixed_omp() (in module metawards.iterators)
advance_foi() (in module metawards.iterators)
advance_foi_omp() (in module metawards.iterators)
advance_imports() (in module metawards.iterators)
advance_imports_omp() (in module metawards.iterators)
advance_infprob() (in module metawards.iterators)
advance_infprob_omp() (in module metawards.iterators)
advance_play() (in module metawards.iterators)
advance_play_omp() (in module metawards.iterators)
advance_recovery() (in module metawards.iterators)
advance_recovery_omp() (in module metawards.iterators)
aggregate() (metawards.Infections method)
(metawards.Networks method)
aggregate_networks() (in module metawards.utils)
align_strings() (in module metawards.utils)
allocate_vaccination() (in module metawards.utils)
alternate_codes (metawards.WardInfo attribute)
alternate_names (metawards.WardInfo attribute)
animate_plots() (in module metawards.analysis)
append() (metawards.Populations method)
(metawards.VariableSets method)
assert_not_null() (metawards.Links method)
(metawards.Nodes method)
assert_sane() (metawards.Network method)
(metawards.Networks method)
(metawards.Population method)
assert_sane_network() (in module metawards.utils)
assert_valid_index() (metawards.Links method)
(metawards.Nodes method)
authority (metawards.WardInfo attribute)
authority_code (metawards.WardInfo attribute)
auto_bzip() (metawards.OutputFiles method)
B
begin_p (metawards.Node attribute)
begin_to (metawards.Node attribute)
beta (metawards.Disease attribute)
build() (metawards.Infections static method)
(metawards.Network static method)
(metawards.Networks static method)
(metawards.Workspace static method)
build_custom_iterator() (in module metawards.iterators)
build_play_matrix() (in module metawards.utils)
build_wards_network() (in module metawards.utils)
C
call_function_on_network() (in module metawards.utils)
child_total() (metawards.utils.Profiler method)
clear() (metawards.Infections method)
clear_all_infections() (in module metawards.utils)
close() (metawards.OutputFiles method)
code (metawards.WardInfo attribute)
contrib_foi (metawards.Disease attribute)
coordinates (metawards.InputFiles attribute)
copy() (metawards.Demographics method)
(metawards.Links method)
(metawards.Network method)
(metawards.Networks method)
(metawards.Nodes method)
create_average_plot() (in module metawards.analysis)
create_double_array() (in module metawards.utils)
create_fingerprint() (metawards.VariableSet static method)
create_int_array() (in module metawards.utils)
create_overview_plot() (in module metawards.analysis)
create_string_array() (in module metawards.utils)
create_thread_generators() (in module metawards.utils)
D
daily_imports (metawards.Parameters attribute)
date (metawards.Population attribute)
day (metawards.Population attribute)
delete_ran_binomial() (in module metawards.utils)
Demographic (class in metawards)
Demographics (class in metawards)
demographics (metawards.Demographics attribute)
(metawards.Networks attribute)
Disease (class in metawards)
disease_params (metawards.Parameters attribute)
distance (metawards.Link attribute)
E
E_in_wards (metawards.Workspace attribute)
end_p (metawards.Node attribute)
end_to (metawards.Node attribute)
extract_custom() (in module metawards.extractors)
extract_default() (in module metawards.extractors)
extract_large() (in module metawards.extractors)
extract_none() (in module metawards.extractors)
extract_small() (in module metawards.extractors)
extract_values() (metawards.VariableSet static method)
F
fill_in_gaps() (in module metawards.utils)
find() (metawards.WardInfos method)
fingerprint() (metawards.VariableSet method)
flush() (metawards.OutputFiles method)
G
get_available_num_threads() (in module metawards.utils)
get_filename() (metawards.OutputFiles method)
get_finalise_functions() (in module metawards.utils)
get_functions() (in module metawards.utils)
get_index() (metawards.Demographics method)
get_initialise_functions() (in module metawards.utils)
get_min_max_distances() (in module metawards.utils)
(metawards.Network method)
get_model_loop_functions() (in module metawards.utils)
get_name() (metawards.Demographics method)
get_number_of_processes() (in module metawards.utils)
get_path() (metawards.OutputFiles method)
get_repository() (metawards.Parameters static method)
get_version_string() (in module metawards)
,
[1]
get_work_index() (metawards.Infections method)
(metawards.Network method)
H
has_different_work_matrix() (metawards.Infections method)
(metawards.Network method)
how_many_vaccinated() (in module metawards.utils)
I
I_in_wards (metawards.Workspace attribute)
identifier (metawards.InputFiles attribute)
identifier2 (metawards.InputFiles attribute)
ifrom (metawards.Link attribute)
import_animate_modules() (in module metawards.analysis)
import_graphics_modules() (in module metawards.analysis)
incidence (metawards.Workspace attribute)
inf_tot (metawards.Workspace attribute)
infecteds (metawards.Population attribute)
Infections (class in metawards)
info (metawards.Network attribute)
initial (metawards.Population attribute)
initial_inf (metawards.Parameters attribute)
initialise_infections() (in module metawards.utils)
(metawards.Network method)
(metawards.Networks method)
initialise_play_infections() (in module metawards.utils)
input_files (metawards.Parameters attribute)
InputFiles (class in metawards)
interaction_matrix (metawards.Demographics attribute)
is_closed() (metawards.OutputFiles method)
is_null() (metawards.utils.Profiler method)
is_open() (metawards.OutputFiles method)
iterate_custom() (in module metawards.iterators)
iterate_default() (in module metawards.iterators)
iterate_weekday() (in module metawards.iterators)
iterate_weekend() (in module metawards.iterators)
iterate_working_week() (in module metawards.iterators)
ito (metawards.Link attribute)
L
label (metawards.Node attribute)
latent (metawards.Population attribute)
length_day (metawards.Parameters attribute)
Link (class in metawards)
Links (class in metawards)
links (metawards.Network attribute)
load() (metawards.Demographics static method)
(metawards.Disease static method)
(metawards.InputFiles static method)
(metawards.Parameters static method)
lookup (metawards.InputFiles attribute)
lookup_columns (metawards.InputFiles attribute)
M
make_compatible_with() (metawards.VariableSet method)
max_links (metawards.Network attribute)
max_nodes (metawards.Network attribute)
merge_evenly() (in module metawards.mixers)
metawards (module)
metawards.analysis (module)
metawards.app (module)
metawards.extractors (module)
metawards.iterators (module)
metawards.mixers (module)
metawards.movers (module)
metawards.utils (module)
mix_custom() (in module metawards.mixers)
mix_default() (in module metawards.mixers)
mix_evenly() (in module metawards.mixers)
mix_none() (in module metawards.mixers)
model_name() (metawards.InputFiles method)
model_path() (metawards.InputFiles method)
model_version() (metawards.InputFiles method)
move_custom() (in module metawards.movers)
move_default() (in module metawards.movers)
move_from_play_to_work() (metawards.Network method)
(metawards.Networks method)
move_population_from_play_to_work() (in module metawards.utils)
move_population_from_work_to_play() (in module metawards.utils)
N
N_INF_CLASSES (metawards.Infections attribute)
n_inf_classes (metawards.Workspace attribute)
N_INF_CLASSES() (metawards.Disease method)
n_inf_wards (metawards.Population attribute)
(metawards.Workspace attribute)
name (metawards.Demographic attribute)
(metawards.Network attribute)
(metawards.WardInfo attribute)
name() (metawards.utils.Profiler method)
Network (class in metawards)
Networks (class in metawards)
nlinks (metawards.Infections attribute)
(metawards.Network attribute)
nnodes (metawards.Infections attribute)
(metawards.Network attribute)
(metawards.Workspace attribute)
Node (class in metawards)
Nodes (class in metawards)
nodes (metawards.Network attribute)
nodes_to_track (metawards.InputFiles attribute)
nplay (metawards.Network attribute)
nsubnets (metawards.Infections attribute)
NullProfiler (class in metawards.utils)
O
open() (metawards.OutputFiles method)
open_subdir() (metawards.OutputFiles method)
output_basic() (in module metawards.extractors)
output_core() (in module metawards.extractors)
output_core_omp() (in module metawards.extractors)
output_core_serial() (in module metawards.extractors)
output_dir() (metawards.OutputFiles method)
output_dispersal() (in module metawards.extractors)
output_incidence() (in module metawards.extractors)
output_prevalence() (in module metawards.extractors)
output_trajectory() (in module metawards.extractors)
output_wards_trajectory() (in module metawards.extractors)
OutputFiles (class in metawards)
overall (metawards.Networks attribute)
P
Parameters (class in metawards)
params (metawards.Network attribute)
(metawards.Networks attribute)
pinf_tot (metawards.Workspace attribute)
play (metawards.Infections attribute)
(metawards.InputFiles attribute)
(metawards.Network attribute)
play_ratio (metawards.Demographic attribute)
play_size (metawards.InputFiles attribute)
play_suscept (metawards.Node attribute)
plength_day (metawards.Parameters attribute)
Population (class in metawards)
population (metawards.Network attribute)
(metawards.Population attribute)
population() (metawards.Links method)
(metawards.Nodes method)
Populations (class in metawards)
position (metawards.InputFiles attribute)
prepare_worker() (in module metawards.utils)
Profiler (class in metawards.utils)
progress (metawards.Disease attribute)
R
R_in_wards (metawards.Workspace attribute)
ran_binomial() (in module metawards.utils)
ran_int() (in module metawards.utils)
ran_uniform() (in module metawards.utils)
random_seed (metawards.Demographics attribute)
read() (metawards.VariableSet static method)
(metawards.VariableSets static method)
read_done_file() (in module metawards.utils)
read_variables() (metawards.Parameters static method)
recalculate_play_denominator_day() (in module metawards.utils)
recalculate_work_denominator_day() (in module metawards.utils)
recovereds (metawards.Population attribute)
redirect_output() (in module metawards.utils)
region (metawards.WardInfo attribute)
region_code (metawards.WardInfo attribute)
remove() (metawards.OutputFiles static method)
repeat() (metawards.VariableSets method)
repeat_index() (metawards.VariableSet method)
rescale_play_matrix() (in module metawards.utils)
(metawards.Network method)
(metawards.Networks method)
reset_everything() (in module metawards.utils)
(metawards.Network method)
(metawards.Networks method)
reset_play_matrix() (in module metawards.utils)
reset_play_susceptibles() (in module metawards.utils)
reset_work_matrix() (in module metawards.utils)
resize() (metawards.Links method)
(metawards.Nodes method)
resize_array() (in module metawards.utils)
run() (metawards.Network method)
(metawards.Networks method)
run_model() (in module metawards.utils)
run_models() (in module metawards.utils)
run_worker() (in module metawards.utils)
S
S_in_wards (metawards.Workspace attribute)
safe_eval_float() (in module metawards.utils)
save_summary_plots() (in module metawards.analysis)
scale_link_susceptibles() (in module metawards.utils)
scale_node_susceptibles() (in module metawards.utils)
scale_susceptibles() (metawards.Links method)
(metawards.Network method)
(metawards.Nodes method)
scale_uv (metawards.Population attribute)
seed (metawards.InputFiles attribute)
seed_ran_binomial() (in module metawards.utils)
set_disease() (metawards.Parameters method)
set_input_files() (metawards.Parameters method)
set_variables() (metawards.Parameters method)
setup_additional_seeds() (in module metawards.iterators)
setup_core() (in module metawards.extractors)
setup_seed_all_wards() (in module metawards.iterators)
setup_seed_specified_ward() (in module metawards.iterators)
setup_seed_wards() (in module metawards.iterators)
specialise() (metawards.Demographic method)
(metawards.Demographics method)
(metawards.Network method)
(metawards.Population method)
start() (metawards.utils.Profiler method)
start_symptom (metawards.Disease attribute)
stop() (metawards.utils.Profiler method)
string_to_ints() (in module metawards.utils)
strip_demographics() (metawards.Populations method)
subinfs (metawards.Infections attribute)
subnets (metawards.Networks attribute)
subpops (metawards.Population attribute)
subspaces (metawards.Workspace attribute)
summary() (metawards.Population method)
suscept (metawards.Link attribute)
susceptibles (metawards.Population attribute)
T
to_seed (metawards.Network attribute)
too_ill_to_move (metawards.Disease attribute)
total (metawards.Population attribute)
total() (metawards.utils.Profiler method)
total_inf_ward (metawards.Workspace attribute)
total_new_inf_ward (metawards.Workspace attribute)
U
update() (metawards.Network method)
(metawards.Networks method)
user_params (metawards.Parameters attribute)
uv (metawards.InputFiles attribute)
UV (metawards.Parameters attribute)
uv_filename (metawards.Parameters attribute)
V
vaccinate_same_id() (in module metawards.utils)
variable_names() (metawards.VariableSet method)
variable_values() (metawards.VariableSet method)
variables() (metawards.VariableSet method)
VariableSet (class in metawards)
VariableSets (class in metawards)
W
WardInfo (class in metawards)
WardInfos (class in metawards)
wards (metawards.WardInfos attribute)
weekend (metawards.InputFiles attribute)
weight (metawards.Link attribute)
work (metawards.Infections attribute)
(metawards.InputFiles attribute)
work_ratio (metawards.Demographic attribute)
work_size (metawards.InputFiles attribute)
Workspace (class in metawards)
X
x (metawards.Node attribute)
Y
y (metawards.Node attribute)
Z
zero_all() (metawards.Workspace method)