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2021-11-18Updates after changing the default branch to mainJohannes Ranke2-4/+4
2021-11-17Update CAKE URLJohannes Ranke2-8/+5
2021-10-06Replace outdated JSS article URL by doiJohannes Ranke1-1/+1
Thanks to the hint of Achim Zeileis from the CRAN team
2021-10-01Update online docs to 1.0.5Johannes Ranke15-42/+46
2021-09-15Fix Open EFSA URL, changelog for 1.0.5v1.0.5Johannes Ranke4-6/+10
The EFSA URL failed on winbuilder because some cookie sets a different domain, so I am now using \href{} with the full link as link text instead of \url{}
2021-09-15Update test result to corrected data, version bumpJohannes Ranke6-28/+21
2021-09-15Use my drat repo for saemix masterJohannes Ranke1-3/+1
2021-09-15Try to make remotes::install_github work againJohannes Ranke1-0/+1
2021-09-15Update link for travis badgeJohannes Ranke2-2/+2
2021-09-15Correction of the dimethenamid datasetJohannes Ranke3-18/+10
The data given in previous mkin versions for "Borstel 2" (Staudenmaier 2013) are in fact a subset of the "Borstel 1" data, with the "Borstel 2" data simply being further analysed for isomer composition by Staudenmaier (2013). While correcting this, the URL of the RAR published by EFSA was updated, as the EFSA Register of Questions was replaced by the Open EFSA portal. This also affects the recent publication in "Environments" [1], where these two datasets were pooled. However, the influence on the final results can be expected to be minimal. Out of the 16 observations for the Borstel soil, five were erroneously duplicated which just changes the weight of the different sampling points and modifies the variance. The conclusions of the publication are qualitative and are not considered to be affected. [1] https://doi.org/10.3390/environments8080071
2021-07-29Add publication to README, update docsJohannes Ranke5-43/+36
2021-07-27Publication date for 1.0.4 in NEWS, update docsJohannes Ranke24-8/+8
2021-07-23Try explicit R version for travisJohannes Ranke1-1/+1
2021-07-23Update travis config, attempting to get R 4.1.0Johannes Ranke1-2/+0
2021-07-23Rerun tests, use current vdiffr on travisJohannes Ranke6-92/+58
2021-07-23Update vdiffr tests for version 1.0Johannes Ranke40-9110/+5248
2021-07-23Fix travis configJohannes Ranke1-0/+4
to use up to date versions of nlme, covr and devtools
2021-04-21Version 1.0.4 published yesterdayv1.0.4Johannes Ranke26-143/+158
2021-03-31Bug fix in plot.mkinfitJohannes Ranke128-248/+327
In residual plots, use xlab and xlim if appropriate
2021-02-24Clarify version status in NEWSJohannes Ranke3-4/+4
2021-02-24Rebuild docsJohannes Ranke15-11/+25
2021-02-24Reset graphical parameters with on.exit()Johannes Ranke6-5/+15
plot.mixed.mmkin did not reset graphical parameters at all. The other plotting functions did not use on.exit, so this change should make the use of the plotting functions safer.
2021-02-15Don't let pkgdown add release datesJohannes Ranke4-99/+57
It didn't pick up the release of 1.0.3, and most of the other release dates were duplicated.
2021-02-15Update README.htmlJohannes Ranke1-2/+3
2021-02-15Correct grant numbers in README, update docsJohannes Ranke9-35/+37
2021-02-15Improve README, introductory vignette and some other docsv1.0.3Johannes Ranke202-1097/+1553
Also bump version to 1.0.3.
2021-02-13Post-release update of README.htmlJohannes Ranke1-2/+15
2021-02-13Update for gmkin 0.6.12v1.0.2Johannes Ranke19-24/+43
mkinfit: Keep model names stored in mkinmod objects, avoiding their loss in gmkin
2021-02-06Increase test tolerance for parameter comparisonsv1.0.1Johannes Ranke5-15/+18
Platform dependence also revealed after upgrade to bullseye
2021-02-06Update static docsJohannes Ranke2-90/+91
2021-02-06Address issue revealed by additional tests on CRANJohannes Ranke5-18/+9
Remove tests relying on non-convergence of the FOMC fit to the FOCUS A dataset, as this is platform dependent. After the upgrade, the fit converges on this system as well, although neither ATLAS is used, nor R was configured disabling long doubles (these were the conditions under which the tests failed on CRAN).
2021-02-04Documentation improvements, mainly fixing example codeJohannes Ranke42-217/+266
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.
2021-02-04Update README.htmlJohannes Ranke1-40/+2
2021-02-03Prepare for v1.0.0v1.0.0Johannes Ranke199-3097/+4966
- 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
2021-01-25Update visual testsJohannes Ranke3-1895/+1895
2021-01-25Some more plotting improvementsJohannes Ranke3-8/+8
2021-01-25Change default ylab in plot.mkinfit, explicit ylab for plot.mmkinJohannes Ranke36-58/+62
See NEWS.md. Closes #12
2021-01-22Switch to the master branch of saemix develJohannes Ranke1-1/+1
2021-01-22We do not need to suppress saemix plots any moreJohannes Ranke2-16/+1
This makes fitting with saem within parallel::mclapply much faster and, surprisingly, much less hungry for RAM.
2021-01-11Rebuild docsJohannes Ranke14-73/+97
2021-01-06Make saemix and corresponding tests optionalJohannes Ranke16-118/+187
Address release critical check and test issues
2020-12-21plot.mixed: Possibility to overlay predictionsJohannes Ranke9-42/+95
2020-12-19Possibility to override automatic starting parameters for saemJohannes Ranke1-4/+10
2020-12-19Update docsJohannes Ranke6-17/+263
2020-12-19Dimethenamid data, normalisation optionsJohannes Ranke14-22/+254
2020-12-17Remove two skipped (on Travis) tests to reduce noiseJohannes Ranke3-217/+1
2020-12-17Another attempt to install saemixextension from my branchJohannes Ranke1-1/+1
2020-12-17nlme with varConstProp has been publishedJohannes Ranke1-4/+1
so no need to explicitly install it on Travis any more But as I reset my master branch of saemixextension to upstream we need my jr branch with the silent logLik method
2020-12-17Some package switched from git2r to gertJohannes Ranke1-0/+1
so we need libgit2-dev on the system
2020-12-16And add the second candidate modelJohannes Ranke4-1/+30

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