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2023-05-19Prepare release of v1.2.4v1.2.4Johannes Ranke1-1607/+319
- 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
2023-02-17Update benchmark results for 7950XJohannes Ranke1-1/+1
2023-02-13Merge branch 'main' into custom_lsoda_callJohannes Ranke1-67/+245
2023-01-09Prebuilt PDF vignettes, summary_listingJohannes Ranke1-66/+244
2022-11-16We get about 25% performance gainJohannes Ranke1-1/+1
with the custom lsoda call, avoiding repeated getNativeSymbolInfo calls. It's just that we should not be calling foreign functions from different packages, because the may change without notice. Using getNativeSymbolInfo for "call_lsoda" avoids the CRAN note, and a similar call could probably be used for "unlock_solver", avoiding the NOTE in checks for cran, but we should not do this in a CRAN package.
2022-07-12Rerun benchmarks on desktop computerJohannes Ranke1-2/+10
2022-03-02Make tests more platform independent, update docsJohannes Ranke1-3/+3
2022-02-09Adapt saemix interface to saemix 3.0 on CRANJohannes Ranke1-3/+3
2021-09-16Adapt and improve the dimethenamid vignetteJohannes Ranke1-1/+1
Adapt to the corrected data and unify control parameters for saemix and nlmixr with saem. Update docs
2021-09-16Merge branch 'master' into nlmixrJohannes Ranke1-6/+3
2021-07-23Rerun tests, use current vdiffr on travisJohannes Ranke1-48/+40
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke1-63/+45
Also bump version to 1.0.3.
2020-11-27Improved way to have persistent DLLs for mkinmodJohannes Ranke1-2/+2
Depends on inline >= 0.16.2 (including the bug fixes from eddelbuettel/inline#18), which provides 'moveDLL' to store the DLL for a compiled function in a safe place in case the argument 'dll_dir' is specified in the call to 'mkinmod'. Huge thanks to Dirk @eddelbuettel for his review and support for the work on the inline package.
2020-11-24Support storing mkinmod compiled code as CFunc objectsJohannes Ranke1-4/+43
With automatic reloading in mkinfit and mkinpredict in case the DLL is not loaded and the original DLL path has been cleaned up. Depends on jranke/inline@974bdea04fcedfafaab231e6f359c88270b56cb9 See inline#13
2020-10-15Reintroduce saemix helper functionsJohannes Ranke1-8/+17
2020-10-08Fix issues for releaseJohannes Ranke1-6/+6
2020-05-26Use all cores per default, confint toleranceJohannes Ranke1-2/+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.
2020-05-12Improve documentation, now using a spell checkerJohannes Ranke1-4/+4
2020-05-11Avoid merge() and data.frame() in cost functionJohannes Ranke1-51/+61
also for deSolve and eigenvalue based solutions. This noticeably increases performance for these methods, see test.log and benchmark vignette.
2019-07-05Static documentation rebuilt by pkgdownJohannes Ranke1-2/+2
2019-07-04Update README and introductory vignetteJohannes Ranke1-17/+26
2019-05-02Remove reference to archived kinfit packageJohannes Ranke1-34/+1413
from vignettes/mkin.Rmd Static documentation rebuilt by pkgdown
2018-01-14Load mkin quietly in vignettesJohannes Ranke1-3/+3
Static documentation articles rebuilt by pkgdown::build_articles()
2017-11-16Use html_vignette for FOCUS_D vignette, fix addressv0.9.46.3Johannes Ranke1-12/+7
Static documentation articles rebuilt by pkgdown::build_articles()
2017-07-21Fix another URL, vignette builder, rebuildJohannes Ranke1-1/+2
2017-07-21Recompile to get link in reference rightJohannes Ranke1-9/+13
2016-11-18Change main vignette titleJohannes Ranke1-10/+11
2016-11-17RebuildJohannes Ranke1-5/+5
2016-11-17Add comments to R code in mkin vignetteJohannes Ranke1-13/+23
2016-10-22Update way to specify encoding, improve FOCUS_L TOCJohannes Ranke1-22/+42
2016-09-28Add drat target and rebuild for dratJohannes Ranke1-0/+355
2016-09-10Static documentation rebuilt with current staticdocsJohannes Ranke1-349/+0
Using hadley/staticdocs commit #8c1069d from 8 days ago
2016-09-10Static documentation rebuilt by staticdocs::build_site()Johannes Ranke1-6/+8
2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke1-8/+2
2016-06-28Attempts to reduce vignette sizeJohannes Ranke1-3/+9
Reducing the size of some figures and switching of retina figures in the preamble only gives a small decrease in vignette size, but may be enough to get the size of the doc directory below 5 MB to avoid the NOTE in the corresponding check (which I did not get locally, nor on winbuilder using r-devel.
2016-06-28Avoid multicore fits in vignettes for passing CRAN checksJohannes Ranke1-4/+3
Also a small fix to the FOCUS Z vignette, and an update of the static documentation generated by staticdocs.
2016-06-27Complete mkin vignette, update FOCUS L vignetteJohannes Ranke1-13/+60
The mkin vignette now describes how confidence intervals and the t-test are calculated. The FOCUS L vignette is updated with the new floating toc provided by the current rmarkdown package, and also uses current, improved mkin functionality.
2016-06-24Convert main vignette to Rmd/html, add_err(), fixesJohannes Ranke1-0/+301

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