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2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke14-105/+105
2016-06-28Update NEWSJohannes Ranke1-2/+2
2016-06-28The location of my local svn directory has changedJohannes Ranke1-1/+1
2016-06-28Static documentation rebuilt by staticdocs::build_site()Johannes Ranke14-108/+108
2016-06-28Avoid multicore fits in vignettes for passing CRAN checksJohannes Ranke59-650/+1636
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 Ranke7-123/+108
2016-06-28Do not watch vignettes for builds without rebuilding themJohannes Ranke1-1/+1
This avoids the situation that a new function is needed in a vignette but the first thing that the build tries to do is building it.
2016-06-27Bump version for publication, update staticdocsJohannes Ranke1-2/+2
2016-06-27Complete mkin vignette, update FOCUS L vignetteJohannes Ranke6-467/+554
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.
2016-06-27Improve listing of weights in output, update NEWSJohannes Ranke4-11/+23
2016-06-27Show chi2 in plot.mkinfit, round with signifJohannes Ranke5-13/+40
2016-06-25Fix the plot margins for combined plotsJohannes Ranke5-11/+49
2016-06-25Now the old behaviour is restored for compatibility reasonsJohannes Ranke3-16/+26
When observed variables are not shown in separate plots, the residual plot is shown in the lower third of the total plotting area
2016-06-25Working state, but not backwards compatibleJohannes Ranke5-69/+134
In this commit, the separatation of plots for observed variables works. The formatting should be improved. However, in gmkin, plotting with show_residuals = TRUE is used, and the GUI expects that the residual plot is below the main plot. This behaviour should be restored.
2016-06-24Convert main vignette to Rmd/html, add_err(), fixesJohannes Ranke11-106/+581
2016-06-24TypoJohannes Ranke1-1/+1
2016-06-17Change the title of the package, small bugfixJohannes Ranke3-12/+15
2016-06-17Remove misplaced commentJohannes Ranke1-4/+1
2016-06-09Fix a bug in the listing of formation fractionsJohannes Ranke3-5/+9
The bug could only occur if a parent compound with a metabolite would end in the letter 'f' and was therefore not noticed earlier
2016-04-21Avoid unnecessary stop in edge case, improve warningsJohannes Ranke6-11/+69
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.
2016-03-25Remove outdated reference to the inline packageJohannes Ranke3-4/+9
2016-03-24Static documentation rebuilt by staticdocs::build_site()v0.9.42Johannes Ranke47-617/+440
2016-03-24Address feedback from CRAN submissionJohannes Ranke41-220/+411
- Put the CRAN URL that the badge points to into canonical form. I had missed the requirement to use the canonical form before, as the R CMD check message complained about a (possibily) invalid URL, so I overlooked the explanation later in the check log. Thanks to Uwe for his patience. Fix checked with winbuilder. - Slightly reduced the build time for the compiled_models vignette by skipping the warm-up. 3 repetitions are necessary for the autoplot method to work
2016-03-23Static documentation rebuilt by staticdocs::build_site()Johannes Ranke13-61/+61
2016-03-23Added 'from_max_mean' to 'mkinfit'.Johannes Ranke54-225/+259
- 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
2015-12-10Improve print method for mkinmodJohannes Ranke2-2/+5
2015-12-09Improve mkinmod error message for missing target compartment definitionJohannes Ranke2-0/+3
Closes #6.
2015-12-09Static documentation rebuilt by staticdocs::build_site()Johannes Ranke17-95/+79
2015-12-09Some updates and simplifications of the READMEJohannes Ranke2-33/+10
2015-11-13Add plots to compiled_models vignette, rebuild staticdocsJohannes Ranke51-207/+238
2015-11-13Bump version, change to version number format as shown in summariesJohannes Ranke2-2/+6
2015-11-09Update staticdocsv0.9-41Johannes Ranke13-106/+79
2015-11-09Exclude more mkinmod examples, as winbuilder NOTEs > 5 sJohannes Ranke1-1/+1
2015-11-09Vignettes rebuilt by staticdocs::build_site() for static documentation on ↵Johannes Ranke14-54/+212
r-forge
2015-11-09Rebuild vignettes and static documentationJohannes Ranke70-41/+16302
2015-11-09Re-add the compiled models vignetteJohannes Ranke1-0/+101
This was accidentally deleted in 438a889c37ffdf8f0c6585092da6abdb63b4575e on June 30!
2015-11-09Export print.mkinds and rebuild vignettesJohannes Ranke7-7/+13
2015-11-09Do not include unnecessary mathjax in README.htmlJohannes Ranke2-10/+1
2015-11-06Improve formatting of summaryJohannes Ranke1-4/+4
2015-10-24Improve printing method for mkinmodJohannes Ranke1-1/+1
2015-10-24Sort sampling times in mkindsJohannes Ranke1-1/+1
2015-10-21Avoid an error printing old mkinfit summariesJohannes Ranke2-5/+14
2015-10-19Add the R6 class mkindsJohannes Ranke7-4/+61
2015-10-19Make plot.mkinfit work with models where full_name components are NULLJohannes Ranke2-0/+67
2015-10-19Add a print method for mkinmod objectsJohannes Ranke5-1/+39
2015-10-16Full compound names in models that are shown in the plotJohannes Ranke7-14/+27
2015-10-02Some maintenanceJohannes Ranke2-21/+20
2015-08-22Commit README.md containing the source of the last commitJohannes Ranke1-0/+5
2015-08-22Add a prominent link to the static documentation on R-ForgeJohannes Ranke1-0/+4
2015-08-22Add a link to the cgit repo browser at jrwb.deJohannes Ranke2-1/+2

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