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2022-03-07Update maintainer e-mail addressJohannes Ranke1-1/+1
2022-03-07Remove nlmixr interface for release of mkin 1.1.0Johannes Ranke124-4983/+3230
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).
2022-03-03Reintroduce the skipped test, with a workaroundJohannes Ranke1-8/+15
2022-03-03Add R-devel to travis configJohannes Ranke1-0/+1
2022-03-03Skip a test that assigns to the global environmentJohannes Ranke1-0/+1
2022-03-03R-devel with openblasJohannes Ranke2-54/+27
2022-03-03Update link to 2,4-D dataJohannes Ranke5-4/+4
2022-03-03More work to try to pass tests on R-devel winbuilderJohannes Ranke9-91/+107
2022-03-02Skip some tests on CRAN to reduce loadJohannes Ranke1-0/+2
In the hope that winbuilder will cope better then
2022-03-02Make tests more platform independent, update docsJohannes Ranke241-16887/+32692
2022-03-02Fix nlmixr fits with parallel metabolitesJohannes Ranke4-17/+80
2022-03-02Add a test for tffm0()Johannes Ranke4-23/+41
2022-03-01Avoid using cat() for default output, testsJohannes Ranke5-21/+29
2022-03-01Let travis wait for covrJohannes Ranke1-1/+1
as the last build timed out after not receiving output for 10 min in this step.
2022-03-01Use current R in travisJohannes Ranke1-1/+1
2022-03-01Add some more testsJohannes Ranke10-47/+83
2022-03-01Some more tests for nlmixr.mmkinJohannes Ranke4-0/+80
2022-03-01Add a test for the DMTA dataJohannes Ranke1-39/+41
comparing nlme and saemix. This test shows a reasonable evaluation of the DMTA data with nlme and saemix, which was missing, as the data used in the paper are flawed.
2022-03-01Make it possible to fix parameters in saem.mmkinJohannes Ranke1-2/+3
By actually passing dot arguments (that can include fixed.estim) to saemixModel, as advertised in the docs.
2022-03-01Make it possible to specify a vector of fixed effectsJohannes Ranke1-1/+1
as obtained by mean_degparms(..., random = FALSE), instead of the list obtained by mean_degparms(, ... random = TRUE) that is passed by nlme.mmkin to nlme by default.
2022-02-28Add test for summary.nlmixr.mmkinJohannes Ranke3-0/+118
2022-02-28Relax a test for travisJohannes Ranke2-27/+27
2022-02-28Improve tests, skip some on TravisJohannes Ranke7-26/+73
Respect digits argument when printing correlations in summaries
2022-02-28Update travis config and _pkgdown.ymlJohannes Ranke3-7/+5
2022-02-28Update docsJohannes Ranke58-17943/+18865
2022-02-28Add nlmixr tests, reorganize, test intervals()Johannes Ranke6-176/+236
2022-02-28With saemix 3.0 on CRAN there's no need to check for it in testsJohannes Ranke5-126/+79
2022-02-28Improve dimethenamid vignetteJohannes Ranke3-241/+126
2022-02-28Improve algorithm summary for saemix fitsJohannes Ranke1-1/+3
2022-02-10GNUMakefile: Convince testthat to give dynamic outputJohannes Ranke2-161/+11
This means that we still get the \r in the test logs so so the postprocessing with sed works unmodified
2022-02-09Adapt saemix interface to saemix 3.0 on CRANJohannes Ranke19-1520/+1674
2022-02-08Merge branch 'nlmixr'Johannes Ranke316-3091/+27257
2022-01-11Update static docsnlmixrJohannes Ranke20-9255/+12062
2022-01-11Update the dimethenamid vignette with current saemixJohannes Ranke14-162/+153
Convergence is faster with this version (@ecomets mentioned that there was a bugfix lately that could lead to faster convergence). However, if I use too many iterations (i.e. 10 000 as in the last version of this vignette), I get an error in solving omega.teta during later iterations, apparently due to overparameterisation of the DFOP model in this case.
2021-12-08PD in Freiburg statt BremenJohannes Ranke1-1/+1
2021-11-18Update HTML version of READMEJohannes Ranke1-2/+2
2021-11-18Updates after changing the default branch to mainJohannes Ranke2-4/+4
2021-11-17Update required saemix version, update testsJohannes Ranke9-1526/+1525
2021-11-17Use the official master branch of saemixJohannes Ranke1-1/+1
As my changes were merged meanwhile
2021-11-17Update CAKE URLJohannes Ranke2-8/+5
2021-11-17Update CAKE URLJohannes Ranke2-8/+5
2021-10-08Round initial population values for nlmixrJohannes Ranke1-3/+3
This avoids numerical instabilities that sometimes occur with the FOCEI algorithm in nlmixr when the initial values are very close to the optimum values
2021-10-06Replace outdated JSS article URL by doiJohannes Ranke1-1/+1
Thanks to the hint of Achim Zeileis from the CRAN team
2021-10-06Replace outdated JSS article URL by doiJohannes Ranke1-1/+1
Thanks to the hint of Achim Zeileis from the CRAN team
2021-10-05Update docsJohannes Ranke18-1572/+10195
2021-10-05Fix nlmixr for logit transformed parametersJohannes Ranke1-4/+11
2021-10-01Bump date to update online dev docsJohannes Ranke1-1/+1
2021-10-01Update online docs to 1.0.5Johannes Ranke15-42/+46
2021-09-29Reduce noise in nlmixr.mmkin output in examplesJohannes Ranke6-4171/+99
2021-09-27intervals() methods, more DFOP/tc variantsJohannes Ranke43-250/+1255

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