https://github.com/sn248/sundialr

R Interface to CVODE/CVODES/IDA functions in the SUNDIALS ODE solving C library
https://github.com/sn248/sundialr

ode-solver sundials

Last synced: about 1 month ago
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R Interface to CVODE/CVODES/IDA functions in the SUNDIALS ODE solving C library

• Host: GitHub
• URL: https://github.com/sn248/sundialr
• Owner: sn248
• License: other
• Created: 2016-06-11T03:47:29.000Z (almost 9 years ago)
• Default Branch: master
• Last Pushed: 2025-01-14T04:27:48.000Z (4 months ago)
• Last Synced: 2025-03-16T23:47:43.371Z (2 months ago)
• Topics: ode-solver, sundials
• Language: C
• Homepage: http://sn248.github.io/sundialr/
• Size: 183 MB
• Stars: 10
• Watchers: 2
• Forks: 5
• Open Issues: 3
• Metadata Files:
  • Readme: README.md
  • Changelog: NEWS
  • License: LICENSE

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README

        
# sundialr 

[![CRAN](https://www.r-pkg.org/badges/version/sundialr)](https://cran.r-project.org/package=sundialr) 

[![R-CMD-check](https://github.com/sn248/sundialr/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/sn248/sundialr/actions/workflows/R-CMD-check.yaml)

## sundialr

`sundialr` is a wrapper around a few of the solvers in the `SUNDIALS` ODE solving C library produced by the Lawrence Livermore National Laboratory and Southern Methodist University. More

information about `SUNDIALS` can be found [here](https://computing.llnl.gov/projects/sundials).

`SUNDIALS` is one of the most popular and well-respected ODE solving libraries available and 

`sundialr` provides a way to interface some of the `SUNDIALS` solvers in `R`. 

Currently `sundialr` provides an interface to the `serial` versions of `cvode` (for solving ODES), `cvodes` (for solving ODE with sensitivity equations) and `ida` (for solving differential-algebraic equations) using the Linear Solver (dense version).

A convenience function `cvsolve` is provided which allows solving a system of equations with

multiple discontinuities in solution. An application of such a system of equations would be 

to simulate the effect of multiple bolus doses of a drug in clinical pharmacokinetics. See the 

vignette for more details.

## What's new?

## Comments for version 0.1.6

+ Updated the upstream `SUNDIALS` to version 7.2.0

+ Complete overall of the build system to use `cmake` based installation

### Comments for version 0.1.5

+ Updated the upstream `SUNDIALS` to version 7.1.1. 

+ Fixed the `pkgdown` website

+ There was a bug in assigning absolute tolerance in equations. Fixed now.

## Comments for version 0.1.4.1.2

* Fixed the issue with forwarded email address.

### Release 0.1.4.1

+ Fixed the linking bug due to multiple defined symbols. No other change.

### Release 0.1.4

+ This version has version 5.2.0 of `SUNDIALS` (released in March 2020) at the back end.

+ A new function `cvsolve` is added. It allows solving ODEs with multiple discontinuities in the solution. See a complete use case in the vignette.

+ A `pkgdown` create site of the package is added.

+ A hex sticker for the package is released!

### Release 0.1.3 

+ This version has version 4.0.1 of `SUNDIALS` (released in Dec 2018) at the back end.

+ An interface to `CVODES` is added. It calculates forward sensitivities w.r.t all parameters of the ODE system.

+ Parameters can now be defined as an input parameter to the ODE function. This will allow performing parameter optimization via numerical optimizers.