aboutsummaryrefslogtreecommitdiff
path: root/NEWS.md
AgeCommit message (Collapse)AuthorFilesLines
2015-06-23Hopefully fix compiling on Solaris, verbose optionJohannes Ranke1-1/+5
- Only declare the time variable in the C code when needed in the derivatives. - Add the option to show verbose output of cfunction() when compiling the model to a shared library.
2015-06-22Version bump, correct benchmark in vignette/compiled_modelsJohannes Ranke1-0/+7
Reorganisation of the vignette generation in the Makefile. Improved YAML header in the R markdown vignettes. Rebuilt vignettes with the package installed.
2015-06-21Do the t-test for untransformed parametersv0.9-36Johannes Ranke1-0/+1
2015-06-20Correction and improvement of NEWSJohannes Ranke1-2/+2
2015-06-20Low-level generation of compiled modelsJohannes Ranke1-1/+1
As it is unclear if and when ccSolve will be published on CRAN, the generation, compilation and use of the C version of the system of differential equations was developed for mkin, inspired and guided by the code from the ccSolve package. Many thanks again to Karline Soetaert for all of her work on this and other R packages. Now all model types, including the Hockey-Stick model for the parent compund and the IORE model for parent and/or metabolites can be compiled.
2015-06-05News entry for new vignette FOCUS_DJohannes Ranke1-0/+4
2015-05-18Fix format of NEWS.mdJohannes Ranke1-7/+3
2015-05-15Clean up meta informationJohannes Ranke1-1/+0
2015-05-15Merge branch 'master' into compile_odesJohannes Ranke1-0/+7
Conflicts (resolved manually, deleting code that I had integrated into the RUnit tests for testing the compiled version): .gitignore DESCRIPTION inst/unitTests/runit.mkinerrmin.R inst/unitTests/runit.mkinfit.R tests/testthat/test_mkinpredict_SFO_SFO.R vignettes/FOCUS_L.html
2015-05-15Add synthetic data generated for UBA expertise, testsJohannes Ranke1-0/+2
The new tests are based on the results documented in the expertise I wrote for the UBA (currently unpublished).
2015-05-15Finished migration from RUnit to testthatJohannes Ranke1-0/+5
2015-04-17Add NEWS about compiled models, set the dateJohannes Ranke1-0/+13
2015-02-21Avoid NOTES in R CMD checkJohannes Ranke1-0/+2
- Export S3 methods - Avoid using undeclared variable names
2015-02-20Add termination message to mkinfit, prepare releaseJohannes Ranke1-0/+4
2015-02-20Fix printing the summary if iterations are not availableJohannes Ranke1-0/+1
This was broken for using method.modFit = "SANN"
2014-11-23Avoid spurious warning in mkinparplot, bump versionJohannes Ranke1-0/+6
2014-11-13Formatting and writing improvedJohannes Ranke1-1/+2
2014-11-12IORE working for parent and metabolites, introduce mkinsubJohannes Ranke1-0/+1
2014-11-12Merge branch 'master' into ioreJohannes Ranke1-6/+75
2014-10-22Always include 0 on y axis when plotting during the fitJohannes Ranke1-0/+2
2014-10-15Switch to using the Port algorithm per defaultJohannes Ranke1-0/+4
2014-10-14Further formatting improvement for differential equationsJohannes Ranke1-0/+4
2014-10-11Start new development versionJohannes Ranke1-0/+2
2014-10-11Updates intended for releasing mkin 0.9-33Johannes Ranke1-0/+2
2014-10-06Avoid a warning produced by initial fits in gmkinJohannes Ranke1-1/+2
2014-08-29Avoid an unnecessary warningJohannes Ranke1-4/+4
2014-08-25Bug fix and unit tests for mkinerrminJohannes Ranke1-0/+7
See NEWS.md for details
2014-08-20Fix mkinfit for a special situationJohannes Ranke1-0/+2
See NEWS.md: When the parent was not the (only) variable with the highest value out of all variables in the observed data, it could happen that the initial value (state.ini) was not initialised.
2014-08-20Update NEWS with change from yesterdayJohannes Ranke1-0/+6
2014-07-25Fix internal naming of g for transform_fractions=FALSEJohannes Ranke1-0/+4
2014-07-24Bump version, better default for state.iniJohannes Ranke1-0/+6
2014-07-24Avoid artificial zero residual in mkinresplotJohannes Ranke1-0/+2
2014-07-23Parallel metabolite formation with formation fractions in mkinerrminJohannes Ranke1-0/+4
2014-07-21Bugfix, model shorthand, state.ini[[1]] from observed dataJohannes Ranke1-0/+6
- The bug occurred when using transform_rates=FALSE for FOMC, DFOP or HS - Make it possible to use mkinfit("SFO", ...) - Take initial mean value at time zero for the variable with the highest value in the observed data - Update of vignette/FOCUS_L - Improve the Makefile to build single vignettes
2014-07-17Handle non-convergence and maximum number of iterationsJohannes Ranke1-4/+26
For details see NEWS.md
2014-07-16Merge branch 'master' into ioreJohannes Ranke1-0/+30
2014-07-16Insert empty lines to have R make separate entriesJohannes Ranke1-0/+30
2014-07-14Merge bugfix branch 'master' into ioreJohannes Ranke1-2/+10
Add IORE support to mkinerrmin
2014-07-14Nearly complete support for IORE, pending mkinerrminJohannes Ranke1-0/+6
2014-07-14Bugfix release version 0.9-31Johannes Ranke1-0/+8
2014-07-02Support formation fractions without sink pathway, updatesJohannes Ranke1-2/+18
2014-06-30Link to the gmkin page on githubJohannes Ranke1-1/+1
2014-06-30Put the hint to the github commit log to the endJohannes Ranke1-2/+4
2014-06-30Format the NEWS file in markdown, add Makefile targetJohannes Ranke1-0/+67

Contact - Imprint