Release/1.5.0

[kylebaron]

mrgsolve 1.5.0

• New functions mwrite_yaml() and mwrite_cpp() can write a model object back to a file, accounting for all updates since the model was read from native mrgsolve format using mread() (#1213).

• New function mread_yaml() for reading back models written out with mwrite_yaml() (#1213).

• New functions in evtools plugin: evt::replace() works like evt::bolus(), but will replace the amount in a given compartment rather than add to it (#1203).

• The nm-vars plugin now exposes DEXP(), LOG10(), COS() and SIN() for use in the mrgsolve C++ code blocks (#1199).

• An error is now generated when KA is equal to CL/VC while simulating from the one-compartment model with analytical solution invoked through $PKMODEL (#1179, #1197).

Bugs Fixed

• A bug was fixed when certain data frame inputs were passed to as_data_set() (#1115, #1196).

[kylebaron]

Macbuilder

Status: 1 NOTE

```r * using log directory ‘/Volumes/PkgBuild/work/1721935390-9e96e3ba5df39c7f/packages/big-sur-arm64/results/4.4/mrgsolve.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.3.1 * using session charset: UTF-8 * checking for file ‘mrgsolve/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mrgsolve’ version ‘1.5.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘mrgsolve’ can be installed ... [18s/20s] OK * used C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used SDK: ‘MacOSX11.3.sdk’ * checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: libs 5.3Mb * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] OK * checking whether startup messages can be suppressed ... [0s/0s] OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [4s/4s] OK * checking Rd files ... [0s/0s] OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... [0s/0s] OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking compiled code ... OK * checking examples ... [3s/3s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [6s/7s] OK Running ‘testthat.R’ [6s/7s] * checking PDF version of manual ... [4s/4s] OK * DONE Status: 1 NOTE * using check arguments '--no-clean-on-error ' * elapsed time (check, wall clock): 0:53 ```

Winbuilder

There was also a compiler warning for comparison of signed and unsigned integers; going to fix that in a short PR.

UPDATE: fixed in #1218

```r * using log directory 'd:/RCompile/CRANguest/R-devel/mrgsolve.Rcheck' * using R Under development (unstable) (2024-07-24 r86924 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'mrgsolve/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'mrgsolve' version '1.5.0' * package encoding: UTF-8 * checking CRAN incoming feasibility ... [11s] Note_to_CRAN_maintainers Maintainer: 'Kyle T Baron ' * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'mrgsolve' can be installed ... OK * used C++ compiler: 'g++.exe (GCC) 13.2.0' * checking installed package size ... OK * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [18s] OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking examples ... [13s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [23s] OK Running 'testthat.R' [22s] * checking PDF version of manual ... [17s] OK * checking HTML version of manual ... [19s] OK * DONE Status: OK ```