NEWS.md
Added a evid suffix of 60 for cases where evid=2 adds an on event
Initialize all variables to NA
Removed linear compartment solutions with gradients from rxode2parse (and rxode2) when compiled with intel c++ compiler (since it crashes while compiling).
Fixed m1mac string issues as requested by CRAN
Added ability to query R user functions in a rxode2 model (will force single threaded solve)
Moved core rxFunParse and rxRmFunParse here so that C and R user function clashes can be handled
Model variables now tracks which compartments have a lag-time defined
For compartment with steady state doses (NONMEM equivalent SS=1, SS=2), an additional tracking time-point is added at to track the time when the lagged dose is given. As an upshot, the lagged dose will start at the steady state concentration shifted by + ii - lag in rxode2 (currently for ode systems only)
This release calculates non bio-availability adjusted duration for all rates instead of trying to figure the rate duration during solving.
Make double assignment an error, ie a <- b <-
NA times are ignored (with warning)
Steady state bolus doses with addl are treated as non steady state events (like what is observed in NONMEM)
Timsort was upgraded; drop radix support in rxode2 structure
etTrans now supports keeping logical vectors (with the appropriate version of rxode2).
Security fixes were applied as requested by CRAN
data.table explicitly in the R code (before was imported only in C/C++ code)‘linCmt()’ translations of ‘alpha’, ‘beta’, ‘gamma’, ‘k21’, ‘k31’, ‘vc’ now error instead of ignoring ‘gamma’ and ‘k31’ to give 2 cmt solution
transit compartment internal code now changes dose to 0.0 when no dose has been administered to the depot compartment. This way dosing to the central compartment (without dosing to the transit compartment) will not give a NA for the depot compartment (and consequently for the central compartment)
Moved rxDerived here and added tests for it here as well.
Moved etTransParse here and added tests for it here as well (makes up most of etTrans). In addition the following changes were made to etTransParse()/etTrans():
The internal translation (etTrans()) will not drop times when infusions stop. Before, if the infusion stopped after the last observation the time when the infusion stopped would be dropped. This interferes with linCmt() models.
Breaking change/bug fix evid=2 are considered observations when translating data to internal rxode2 event structure
Fix edge case to find infusion duration when it is the first item of the dosing record at time 0.
Fixed a bug for certain infusions where the rate, ii and/or ss data items were dropped from the output when addDosing=TRUE
Also have internal functions to convert between classic NONMEM events and rxode2 events
Have an internal function that gives information on the linear compartmental model translation type, which could be useful for babelmixr2
‘time’ in model is now case insensitive
Use function declaration in rxode2parseGetTranslation() to determine thread safety of functions available to rxode2
Add check for correct number of function arguments to parser.
Like R, known functions can be assigned as a variable and the function can still be called (while not changing the variable value). For example you can have a variable gamma as well as a function gamma().
Fix garbled error messages that occur with certain messages.
Fixed errors that occurred when using capitalized AMT variables in the model.