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2020-04-20Updated build and check logsv0.9.49.11Johannes Ranke1-1/+1
2020-04-07Add some tests for the nlme convenience functionsJohannes Ranke1-1/+1
2020-01-09Remove unused FME package from DESCRIPTION textJohannes Ranke1-1/+1
2019-11-04Scaled residual plotsJohannes Ranke1-1/+1
2019-11-01Fix bug in yesterdays release, add methods for BICJohannes Ranke1-1/+1
2019-09-18Add url: tag to _pkgdown.ymlJohannes Ranke1-0/+9
Static documentation rebuilt by pkgdown
2019-09-18Correct and rebuild docsJohannes Ranke1-9/+0
- Reconcile docs and code for max_twa_parent - Correct links to docs in twa vignette - Static documentation rebuilt by pkgdown
2019-07-05Static documentation rebuilt by pkgdownJohannes Ranke1-1/+1
2019-06-04Additional algorithm "d_c", more tests, docsJohannes Ranke1-0/+9
The new algorithm tries direct optimization of the likelihood, as well as a three step procedure. In this way, we consistently get the model with the highest likelihood for SFO, DFOP and HS for all 12 new test datasets.
2019-05-23Fix a bug that could lead to wrong chi2 error levelsJohannes Ranke1-9/+0
2019-05-03Improve error model fittingJohannes Ranke1-3/+1
Now we have a three stage fitting process for nonconstant error models: - Unweighted least squares - Only optimize the error model - Optimize both Static documentation rebuilt by pkgdown
2019-05-02Build logJohannes Ranke1-1/+3
2019-05-02Prepare for CRAN releaseJohannes Ranke1-3/+1
- Skip long running tests on CRAN as well to avoid timeout on winbuilder - Don't install benchmark results in the package, they are only needed in the git repository - Don't run example in man/add_err.Rd as it takes > 10 s on winbuilder - Rebuild docs
2019-05-02Better initials for error model parametersJohannes Ranke1-1/+3
- Also make it possible to specify initial values for error model parameters. - Run tests - Rebuild docs
2019-04-10Adapt tests, vignettes and examplesJohannes Ranke1-0/+9
- Write the NEWS - Static documentation rebuilt by pkgdown - Adapt mkinerrmin - Fix (hopefully all) remaining problems in mkinfit
2019-04-04Direct error model fitting worksJohannes Ranke1-9/+0
- No IRLS required - Removed optimization algorithms other than Port - Removed the dependency on FME - Fitting the error model 'obs' is much faster for the FOCUS_2006_D dataset and the FOMC_SFO model (1 second versus 3.4 seconds) - Vignettes build slower. Compiled models needs 3 minutes instead of 1.5 - For other vignettes, the trend is less clear. Some fits are faster, even for error_model = "const". FOCUS_Z is faster (34.9 s versus 44.1 s) - Standard errors and confidence intervals are slightly smaller - Removed code for plotting during the fit, as I hardly ever used it - Merged the two cost functions (using transformed and untransformed parameters) into one log-likelihood function
2019-02-26NAFTA SOP Attachment vignetteJohannes Ranke1-1/+0
Also: - Change rounding in print.nafta - Add dots argument to nafta() - Use cores=1 in examples - Restrict N in IORE model to values > 0
2019-02-26Add another NAFTA dataset + testJohannes Ranke1-0/+1
2019-02-25Shorten path to test plotJohannes Ranke1-3/+0
2019-02-25Fix tests and add plot and print for naftaJohannes Ranke1-0/+3
2019-02-21Remove unused codeJohannes Ranke1-1/+1
2018-09-18Support maximum twa for HS, test, docsJohannes Ranke1-1/+1
2018-09-14Update NEWSJohannes Ranke1-1/+1
Static documentation rebuilt by pkgdown
2018-09-14Exclude more example code from CRAN checksJohannes Ranke1-1/+1
to avoid NOTES about long execution times. Static documentation rebuilt by pkgdown with run_dont_run = TRUE
2018-09-13Enable new error model in gmkinJohannes Ranke1-1/+1
Also improve the irls fitting of the error model and add a test for FOCUS_2006_C where the second component of the error model is zero
2018-07-18Correct references to the Rocke and Lorenzato modelJohannes Ranke1-1/+1
Rename 'sigma_rl' to 'sigma_twocomp' as the Rocke and Lorenzato model assumes lognormal distribution for large y. Rebuild static documentation.
2018-01-07Don't run water sediment example to reduce time neededJohannes Ranke1-1/+6
Static documentation except articles rebuilt by pkgdown
2018-01-05Update _pkgdown.ymlJohannes Ranke1-6/+1
Static documentation except articles rebuilt by pkgdown
2018-01-05Experimental test data from UBA 2014 expertiseJohannes Ranke1-1/+1
- Typo in synthetic data for UBA - Static documentation except articles rebuilt by pkgdown
2017-11-16Update URLS in mkin vignetteJohannes Ranke1-1/+6
Static documentation except articles rebuilt by pkgdown
2017-11-16Add the code used for generating synthetic_data_for_UBAJohannes Ranke1-6/+1
Static documentation except articles rebuilt by pkgdown
2017-10-10Add ORCID to DESCRIPTION, released versionv0.9.46.2Johannes Ranke1-1/+1
Static documentation except articles rebuilt by pkgdown
2017-09-18Change Depends to ImportsJohannes Ranke1-1/+1
as recommended, e.g. by Uwe Ligges in his useR! 2017 keynote
2017-09-07Update Date in DESCRIPTION, last build logJohannes Ranke1-1/+6
2017-09-07Static documentation except articles rebuilt by pkgdownJohannes Ranke1-6/+1
2017-07-29Bump version, update NEWS and rebuild pkdown docsv0.9.46Johannes Ranke1-1/+1
2017-07-21Now the check passes on LinuxJohannes Ranke1-1/+1
2017-07-21Improve devtools::test() call, update logsJohannes Ranke1-1/+1
2017-05-05Static docs except articles rebuilt with current pkgdownJohannes Ranke1-1/+6
2016-12-21TWA calculation for SFO, FOMC and DFOP (parent)Johannes Ranke1-6/+1
2016-12-08Documentation and Makefile improvementsJohannes Ranke1-2/+7
- Fix the remaining links to static docs on r-forge in README - Build mkin_*.tar.gz packages in current directory - check and test (test.log unchanged)
2016-11-18Static documentation rebuilt by pkgdown::build_site(run_dont_run = TRUE)Johannes Ranke1-6/+1
Again with the jranke branch of jranke/pkgdown
2016-11-17RebuildJohannes Ranke1-1/+0
2016-09-28Add drat target and rebuild for dratJohannes Ranke1-1/+2
2016-06-28Build log for v0.9.44v0.9.44Johannes Ranke1-1/+6
2016-06-28Bump version for new release, rebuild static docsJohannes Ranke1-6/+1
The test test_FOMC_ill-defined leads to errors on several architectures/distributions, as apparent from CRAN checks, so we need a new release. Static documentation rebuilt by staticdocs::build_site()
2016-06-28Build log of the package just submitted to CRANv0.9.43Johannes Ranke1-1/+1
2016-06-28Avoid multicore fits in vignettes for passing CRAN checksJohannes Ranke1-1/+1
Also a small fix to the FOCUS Z vignette, and an update of the static documentation generated by staticdocs.
2016-04-21Avoid unnecessary stop in edge case, improve warningsJohannes Ranke1-1/+1
mkinfit: Do not error out in cases where the fit converges, but the Jacobian for the untransformed model cost can not be estimated. Give a warning instead and return NA for the t-test results. summary.mkinfit: Give a warning message when the covariance matrix can not be obtained. A test has been added to containing such an edge case to check that the warnings are correctly issued and the fit does not terminate.
2016-03-23Added 'from_max_mean' to 'mkinfit'.Johannes Ranke1-1/+1
- Now it is easier to do decline kinetics from the maximum occurrence - Static documentation rebuilt by staticdocs::build_site() - Fixed an URL in the README, thanks to the win-builder check with R-devel

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