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2019-04-04Direct error model fitting worksJohannes Ranke4-220/+1650
- 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 Ranke1-0/+243
Also: - Change rounding in print.nafta - Add dots argument to nafta() - Use cores=1 in examples - Restrict N in IORE model to values > 0
2019-01-31Restore NAMESPACEJohannes Ranke2-60/+389
which was accidentally overwritten by pkgdown -> roxygen
2018-09-14Remove two vignettes from the package but not from docsJohannes Ranke7-642/+3454
- Rebuild static documentation - Adapt test to new approach to two component error model where the model is inadequate
2018-07-18Correct references to the Rocke and Lorenzato modelJohannes Ranke4-539/+440
Rename 'sigma_rl' to 'sigma_twocomp' as the Rocke and Lorenzato model assumes lognormal distribution for large y. Rebuild static documentation.
2018-03-09Another rebuild of the static docsJohannes Ranke1-19/+19
Now with rbenchmark installed, to get results for the compiled_models vignette
2018-03-01Static documentation rebuilt using current pkgdown::build_site()Johannes Ranke2-347/+439
2018-01-16Updates in the FOCUS Z vignetteJohannes Ranke3-61/+50
To make the text consistent with the results produced by the current mkin version. Static documentation articles rebuilt by pkgdown::build_articles()
2018-01-14Load mkin quietly in vignettesJohannes Ranke9-74/+69
Static documentation articles rebuilt by pkgdown::build_articles()
2017-11-16Use html_vignette for FOCUS_D vignette, fix addressv0.9.46.3Johannes Ranke6-145/+67
Static documentation articles rebuilt by pkgdown::build_articles()
2017-11-16Update URLS in mkin vignetteJohannes Ranke1-2/+2
Static documentation except articles rebuilt by pkgdown
2017-09-14Convert FOCUS Z vignette to rmarkdown/htmlJohannes Ranke4-99/+542
- Static documentation rebuilt by pkgdown::build_articles() - DESCRIPTION: Version bump and current date
2017-07-21Fix another URL, vignette builder, rebuildJohannes Ranke8-64/+68
2017-07-21Recompile to get link in reference rightJohannes Ranke1-9/+13
2017-07-21Recompiled vignetteJohannes Ranke1-0/+0
2017-07-21Reduce vignette sizesJohannes Ranke4-366/+98
2017-07-21Fix the URL of FOCUS kineticsJohannes Ranke2-3/+3
2017-07-21Rename twa to max_twa_parent, update docsJohannes Ranke2-15/+25
2017-05-05Static docs except articles rebuilt with current pkgdownJohannes Ranke4-72/+78
2017-05-05Switch from microbenchmark to rbenchmarkJohannes Ranke2-112/+94
2017-03-28Change vignette format for twa vignette, update docsJohannes Ranke3-0/+185
2017-03-28Fix the formula in the twa vignetteJohannes Ranke2-2/+2
2017-03-04Mention pkgdown.jrwb.de/mkin in READMEJohannes Ranke2-0/+57
Add very small twa vignette, update pkgdown docs
2016-12-08Documentation and Makefile improvementsJohannes Ranke1-0/+0
- 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)
2016-11-18Fix links in README, configure navbar, rebuild docsJohannes Ranke4-58/+64
2016-11-18Change main vignette titleJohannes Ranke2-11/+12
2016-11-17RebuildJohannes Ranke4-62/+63
2016-11-17Satisfy CRAN checks, also on R-develJohannes Ranke1-3/+3
- Use https for canonical R URLs - Update CAKE URL to one giving a valid SSL certificate
2016-11-17Remove trailing whitespace, clean headersJohannes Ranke4-69/+69
Also ignore test.R in the top level directory, as it is not meant to be public
2016-11-17Improve yaml header, remove trailing whitespaceJohannes Ranke2-66/+78
Now the year is showing in the reference, and the TOC is not collapsed.
2016-11-17Use plot_sep in FOCUS D vignetteJohannes Ranke2-19/+23
2016-11-17Add comments to R code in mkin vignetteJohannes Ranke2-17/+35
2016-11-04Static documentation rebuilt by pkgdown::build_site()Johannes Ranke1-31/+33
With updated pkgdown with my PR
2016-11-04Shorten headings for better look with pkgdownJohannes Ranke1-2/+2
2016-10-22Improve yaml formattingJohannes Ranke1-1/+1
2016-10-22Update way to specify encoding, improve FOCUS_L TOCJohannes Ranke9-124/+149
2016-09-28Add drat target and rebuild for dratJohannes Ranke5-0/+1854
2016-09-10Static documentation rebuilt with current staticdocsJohannes Ranke5-1838/+0
Using hadley/staticdocs commit #8c1069d from 8 days ago
2016-09-10Static documentation rebuilt by staticdocs::build_site()Johannes Ranke5-68/+72
2016-06-28Bump version for new release, rebuild static docsJohannes Ranke4-51/+51
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()
2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke5-75/+59
2016-06-28Attempts to reduce vignette sizeJohannes Ranke8-66/+86
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.
2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke4-39/+39
2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke4-40/+40
2016-06-28Avoid multicore fits in vignettes for passing CRAN checksJohannes Ranke7-97/+303
Also a small fix to the FOCUS Z vignette, and an update of the static documentation generated by staticdocs.
2016-06-28Convenience wrapper plot_sep, further vignette updatesJohannes Ranke3-122/+94
2016-06-27Complete mkin vignette, update FOCUS L vignetteJohannes Ranke5-466/+553
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 Ranke4-93/+410
2016-03-25Remove outdated reference to the inline packageJohannes Ranke1-2/+1
2016-03-24Static documentation rebuilt by staticdocs::build_site()v0.9.42Johannes Ranke5-394/+210

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