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2023-11-16Update pkgdown docs to bootstrap 5 with searchJohannes Ranke1-162/+121
2023-10-14Update static docs and build logv1.2.6Johannes Ranke1-3/+7
2023-08-10Add a link to the new vignette in online docsJohannes Ranke1-0/+3
2023-08-09Update static docsv1.2.5Johannes Ranke1-1/+7
2023-05-19Prepare release of v1.2.4v1.2.4Johannes Ranke1-4/+8
- Update DESCRIPTION - Update Makefile to document how to use R-patched - Remove markup from two URLs to avoid CRAN NOTE - Switch two vignettes from html_document to html_vignette to save space in the docs directory, also avoiding a CRAN NOTE - Complete rebuild of pkgdown docs for release
2023-04-20Fix and rebuild documentation, see NEWSJohannes Ranke1-27/+84
I had to fix the two pathway vignettes, as they did not work with the released version any more. So they and the multistart vignette which got some small fixes as well were rebuilt. Complete rebuild of the online docs with the released version. The documentation of the 'hierarchial_kinetics' format had to be fixed as well.
2022-11-18Use cluster with two cores to reduce windows check timeJohannes Ranke1-1/+2
2022-11-18Update docsJohannes Ranke1-1/+9
2022-11-17Complete update of online docs for v1.2.0Johannes Ranke1-8/+19
2022-08-10Update static docsJohannes Ranke1-4/+7
2022-07-22Update static docsJohannes Ranke1-1/+7
2022-07-08Store DLL info in mkinmod objects for performanceJohannes Ranke1-2/+3
Thanks to Tomas Kalibera for his analysis of the problem on the r-package-devel mailing list and for the suggestion on how to fix it. See the current benchmark vignette for the new data on mkin 1.1.1 with R 4.2.1, with unprecedented performance.
2022-07-01Add R version to data in benchmark vignetteJohannes Ranke1-1/+1
2022-05-18Remove outdated comment in FOCUS L vignette, update docsJohannes Ranke1-36/+22
This also adds the first benchmark results obtained on my laptop system
2022-04-11Update static docsJohannes Ranke1-1/+5
2022-03-16Use saemix in help page, typo in vignetteJohannes Ranke1-2/+6
2022-03-07Remove nlmixr interface for release of mkin 1.1.0Johannes Ranke1-4/+3
I am postponing my attempts to get the nlmixr interface to CRAN, given some problems with nlmixr using R-devel under Windows, see https://github.com/nlmixrdevelopment/nlmixr/issues/596 and https://github.com/r-hub/rhub/issues/512, which is fixed by the removal of nlmixr from the testsuite. For the tests to be more platform independent, the biphasic mixed effects models test dataset was defined in a way that fitting should be more robust (less ill-defined).
2022-03-02Make tests more platform independent, update docsJohannes Ranke1-603/+339
2021-10-01Update online docs to 1.0.5Johannes Ranke1-1/+8
2021-07-27Publication date for 1.0.4 in NEWS, update docsJohannes Ranke1-2/+2
2021-04-21Version 1.0.4 published yesterdayv1.0.4Johannes Ranke1-0/+1
2021-03-31Bug fix in plot.mkinfitJohannes Ranke1-1/+1
In residual plots, use xlab and xlim if appropriate
2021-02-24Clarify version status in NEWSJohannes Ranke1-2/+2
2021-02-24Rebuild docsJohannes Ranke1-1/+9
2021-02-15Don't let pkgdown add release datesJohannes Ranke1-94/+49
It didn't pick up the release of 1.0.3, and most of the other release dates were duplicated.
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke1-1/+9
Also bump version to 1.0.3.
2021-02-13Update for gmkin 0.6.12v1.0.2Johannes Ranke1-2/+10
mkinfit: Keep model names stored in mkinmod objects, avoiding their loss in gmkin
2021-02-06Increase test tolerance for parameter comparisonsv1.0.1Johannes Ranke1-0/+1
Platform dependence also revealed after upgrade to bullseye
2021-02-06Update static docsJohannes Ranke1-88/+89
2021-02-04Documentation improvements, mainly fixing example codeJohannes Ranke1-2/+12
The errors in the example code were in the \dontrun sections, so they were not caught by CRAN checks. In addition, the static help files generated with pkgdown were cached, so I noticed the errors only after completely regenerating the documentation for version 1.0.0.
2021-02-03Prepare for v1.0.0v1.0.0Johannes Ranke1-6/+35
- Improve authorship and copyright information - Prepare pkgdown config - Remove dependence on saemix as we need the development version which is not ready for CRAN - Temporarily remove saemix interface to check code coverage of the rest
2020-10-15Update online docs for release versionJohannes Ranke1-5/+24
2020-05-27Add docs generated using released version 0.9.52Johannes Ranke1-15/+1
2020-05-26Use all cores per default, confint toleranceJohannes Ranke1-0/+2
Also, use more intelligent starting values for the variance of the random effects for saemix. While this does not appear to speed up the convergence, it shows where this variance is greatly reduced by using mixed-effects models as opposed to the separate independent fits.
2020-05-25First working version of saemix helper functionsJohannes Ranke1-1/+2
saemix_data depends on a development version of saemix, see pull request saemixdevelopment/saemixextension#2
2020-05-14Update version number, better example formattingJohannes Ranke1-1/+1
2020-05-14Add a parms method for mmkin objectsJohannes Ranke1-0/+8
2020-05-12Add a link to the benchmark vignette to the docsJohannes Ranke1-0/+3
2020-05-12Update vignettes and docsJohannes Ranke1-1/+1
2020-05-12Improve documentation, now using a spell checkerJohannes Ranke1-6/+15
2020-05-12Documentation improvements, rebuild static docsJohannes Ranke1-1/+1
2020-05-11Add analytical solution for DFOP-SFOJohannes Ranke1-1/+2
This is about twice as fast as deSolve compiled in the case of FOCUS D
2020-05-11Avoid merge() and data.frame() in cost functionJohannes Ranke1-1/+0
also for deSolve and eigenvalue based solutions. This noticeably increases performance for these methods, see test.log and benchmark vignette.
2020-05-07Another overhaul of analytical solutionsJohannes Ranke1-2/+4
Still in preparation for analytical solutions of coupled models
2020-05-07Static documentation rebuilt by pkgdownJohannes Ranke1-97/+74
2020-04-20Prepare release to address failed CRAN checkJohannes Ranke1-4/+13
2020-04-17News entry, static documentation rebuilt by pkgdownJohannes Ranke1-0/+1
2020-04-15Adapt endpoint() to also work for nlme.mmkin objectsJohannes Ranke1-1/+1
2020-04-15A plot method for nlme.mmkin fitsJohannes Ranke1-0/+1
2020-04-10Improve nlme function docsJohannes Ranke1-1/+1

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