add_item() now works correctly with the native pipe
(|>). The .data argument has been moved to
the first position (.data = NULL, ..., input), so the LHS
of |> is naturally routed to .data without
relying on magrittr’s . symbol. Existing code using
%>%, input=, or named ...
arguments is unaffected (#TODO).
input_block() and run_sim() now correctly
handle multiple blocks spanning different simulation levels (e.g.,
common_all_inputs and common_pt_inputs):
n_sensitivity is summed across all blocks, and binary-mode
parameter offsets are injected automatically so each block activates at
the right DSA iteration.
input_block() is a new helper that builds a complete
pick_val_v() expression from explicit base,
psa, sens, and names_out
arguments. The binary and dsa_indicators
parameters have been renamed to indicator_sens_binary and
sens_indicators respectively to align with
pick_val_v(). The dsa_names argument now
defaults to NULL, meaning all
sensitivity_names are treated as scenarios (one iteration
per name); supply dsa_names explicitly to designate which
names are DSA directions. Setting an entry in
sens_indicators to 0 now permanently excludes
that parameter from variation in both DSA and scenario analyses, and the
engine automatically deduces n_sensitivity from the number
of active parameters/groups.
pick_val_v() now correctly respects
indicator_psa in grouped mode
(indicator_sens_binary = FALSE). Previously, when
sens_bool = TRUE and psa_bool = TRUE, all
parameters drew from PSA regardless of indicator_psa;
parameters with indicator_psa = 0 now correctly draw from
base.
WARDEN 2.0.1
*adj_val now accepts a vectorized_f argument to speed computations in
the case of vectorized functions
WARDEN 2.0.0
Rcpp event based handler has been created using queues for high
efficiency. In the new system, a unique event per patient is accepted in
the queue, so small changes may be needed in codes where multiple
equally named events were set to accommodate the new system. This is to
ensure best practices and clarity regarding which events are modified,
in the queue, etc.
Simulation and engines have been redesigned and simplified to more
cleanly handle and report errors, debug mode and continue on error
functions.
Constrained based engine has been created, which allows to run
resource constrained DES, where resource and/or inputs can be shared
across patients within an arm. This can be activated by using run_sim
with constrained = TRUE.
Rcpp based discrete resources with their own queuing system have
been implemented (only interacted through R, working similar to R6
objects). This can be created by using resource_discrete()
Shared inputs have been created to be used in constrained DES (works
similar to R6 objects). This can be created by using
shared_input().
New vignette showcasing an example for constrained DES has been
created.
WARDEN 1.3.5
Accumulation backwards now uses active bindings to recognize which
ongoing outputs are being modified.
Deprecated modify_item_seq, modify_item as they are no longer needed
to run even if backwards = TRUE. Removed from all examples.
WARDEN 1.3.4
Unit tests for shared_inputs and run_sim_parallel added.
add_item and add_item2 have now been integrated into add_item, with
both behaviors being accepted. This means load_inputs has been
overwritten with the load_inputs2 form.
WARDEN 1.3.0
Rcpp versions of key functions have been implemented for speed
improvements: disc_cycle_v, disc_ongoing_v, disc_instant_v, qcond_*,
qtimecov, luck_adj
WARDEN 1.2.4
Added “adj_val” function, to reduce the need to call cycle events
which can hinder model speed.
Added “qtimecov” function, to predict time to events with time
changing covariates, to reduce the need to call cycle events which can
hinder model speed.
WARDEN 1.2.3
Added model run unit tests
Now the model can be run without specifying utilities, costs or
other outputs (only LYs will be accounted for)
Fixed an issue when timed_freq was active (now outputs are
correct)
WARDEN 1.2.2
Per cycle outcomes now correctly work, and a maximum number of
cycles argument has been implemented.
WARDEN 1.2.1
Discounting now correctly allocates to drq or drc depending on
output. Other inputs use drc.
WARDEN 1.2.0
Speed gains from rewritten internal compute_outputs function.
Implemented “random_stream” function (using method similar to R6) to
facilitate careful handling of random numbers.
WARDEN 1.1.0
Added “add_item2”, which allows to incorporate expressions directly
instead of a list, being faster and more consistent with “add_tte” and
“add_react_evt”.
Engine now fully utilizes environment for slightly faster analysis
when loading inputs.
WARDEN 1.0
Major update: now the engine uses environments instead of lists,
which allows user to remove “modify_item” and “modify_item_seq” from
their code, improving running speed by 20-40%
Secondary changes to accommodate this update applied throughout
(extract reactions, debug mode).
Debug mode now uses abstract syntax tree to capture assignments,
which can be limited in the presence of dynamic code assignments.
sens_iterator function added to facilitate looping through DSA or
multiple scenarios in a single model run. See the input selectors
vignette in the website for an example.
WARDEN 0.99.3
Minor fix in run_sim_parallel to ensure compatibility with future
package (had some “=T” instead of “=TRUE”)
Added BugsReport link in Description
WARDEN 0.99.2
Added qgamma_mse function
Added two articles for the website explaining more in detail WARDEN
and the use of sobol sequences
WARDEN 0.99.1
CRAN feedback implemented, including changes in documentation:
runif_stream function has been removed due to violation of CRAN
policy of global environment modification. It is suggested that the user
employs different methods (e.g., pre-drawing random numbers)
Now the user is allowed to select the starting seed for the
analysis
WARDEN 0.99
Now debug and continue_on_error will work on all stages, not only
for simulations
CRAN preparation changes
WARDEN 0.98
Repository is now public, Github Website has been set up
Website references are now split by topic
Added auxiliary functions to extract items and events from reactions
to easily see interconections in models
WARDEN 0.97
Update based on validation comments from Gabriel
Modified conditional quantile functions weibull and llogistic to
better match default R stats behavior
Set License to be GPL >=3
WARDEN 0.96
Update based on validation comments from Gabriel.
Renamed conditional quantile functions for consistency.
WARDEN 0.95
Seeds used by default have been changed to guarantee uniqueness
Added possibility of continuing to the next simulation on error (if
it occurs at the patient/arm level, not at the statics/structural
loading level)
Debug mode now exports log even if the simulation stops due to
error. If combined with continue on error, it will continue to export
log with the timestamp
WARDEN 0.94
Added possibility of accumulating outputs continuously backward or
forward using the accum_backward option in run_sim and
run_sim_parallel
WARDEN 0.93
Conditional quantile functions added and adjusted
Luck adjustment function added with instructions for user
WARDEN 0.92
Progress bar added for both parallel and standard computing
model
To use progress bar while in batch mode for a quarto document, make
sure to add in the knitr options knitr: opts_chunk: R.options:
progressr.enable: true
WARDEN 0.91
Debug mode exports a txt file
WARDEN 0.9
Warning, this commit will change previous results.
Sensitivity-level and simulaton-level seeds have been moved outside
the input loading loop as this caused correlation between inputs loaded
at those stages.
WARDEN 0.5
Initial set-up of news file
Summary of inputs has been overhauled to provide INMB through a WTP
argument
Summary now can also be provided across analyses to quickly obtain
DSA/scenario analysis results summarized