@@ -221,7 +216,7 @@

Major changes

summary.mkinfit(): A one-sided t-test for significant difference of untransformed parameters from zero is now always shown, based on the assumption of normal distribution for estimators of all untransformed parameters. Use with caution, as this assumption is unrealistic e.g. for rate constants in these nonlinear kinetic models.

summary.mkinfit(): A one-sided t-test for significant difference of untransformed parameters from zero is now always shown, based on the assumption of normal distribution for estimators of all untransformed parameters. Use with caution, as this assumption is unrealistic e.g. for rate constants in these nonlinear kinetic models.
If a compiler (gcc) is installed, use a version of the differential equation model compiled from C code, which is a huge performance boost for models where only the deSolve method works.
mkinmod(): Create a list component $cf (of class CFuncList) in the list returned by mkinmod, if a version can be compiled from autogenerated C code (see above).
mkinfit(): Set the default solution_type to deSolve when a compiled version of the model is present, except when an analytical solution is possible.

Bug fixes

mkinparplot(): Avoid warnings that occurred when not all confidence intervals were available in the summary of the fit
print.summary.mkinfit(): Fix printing the summary for the case that the number of iterations is not available
print.summary.mkinfit(): Fix printing the summary for the case that the number of iterations is not available
NAMESPACE: export S3 methods plot.mkinfit, summary.mkinfit and print.summary.mkinfit to satisfy R CMD check on R-devel
mkinparplot(): Avoid warning in R CMD check about undeclared global variable Lower

@@ -289,14 +284,14 @@

mkinfit(): The internally fitted parameter for g was named g_ilr even when transform_fractions=FALSE
mkinfit(): The initial value (state.ini) for the parent compound was not set when the parent was not the (only) variable with the highest value in the observed data.
mkinerrmin(): When checking for degrees of freedom for metabolites, check if their time zero value is fixed instead of checking if the observed value is zero. This ensures correct calculation of degrees of freedom also in cases where the metabolite residue at time zero is greater zero.
plot.mkinfit(): Avoid a warning message about only using the first component of ylim that occurred when ylim was specified explicitly
plot.mkinfit(): Avoid a warning message about only using the first component of ylim that occurred when ylim was specified explicitly

The formatting of differential equations in the summary was improved by wrapping overly long lines
The FOCUS_Z vignette was rebuilt with the above improvement and using a width of 70 to avoid output outside of the grey area
print.summary.mkinfit(): Avoid a warning that occurred when gmkin showed summaries ofinitial fits without iterations
print.summary.mkinfit(): Avoid a warning that occurred when gmkin showed summaries ofinitial fits without iterations
mkinfit(): Avoid a warning that occurred when summarising a fit that was performed with maxitmodFit = 0 as done in gmkin for configuring new fits.