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2015-05-15Bump version as 0.9-35 is on CRAN nowJohannes Ranke1-1/+1
2015-05-15Merge branch 'master' into compile_odesJohannes Ranke2-7/+6
2015-05-15Remove dead link to KinGUII pagev0.9-35Johannes Ranke1-6/+5
2015-05-15Remove missing files from svn before commiting to r-forgeJohannes Ranke1-1/+1
2015-05-15Clean up meta informationJohannes Ranke2-4/+4
2015-05-15Make mkinmod quiet in testsJohannes Ranke7-13/+16
2015-05-15Merge branch 'master' into compile_odesJohannes Ranke19-431/+556
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
2015-05-15Update of vignettes during staticdoc documentationJohannes Ranke3-61/+61
2015-05-15Add synthetic data generated for UBA expertise, testsJohannes Ranke5-1/+135
The new tests are based on the results documented in the expertise I wrote for the UBA (currently unpublished).
2015-05-15Quote FME package name in DESCRIPTIONJohannes Ranke1-1/+1
2015-05-15Relax test tolerance for SFORB, FOCUS B and deSolveJohannes Ranke1-2/+2
While this was OK on my local windows machine, the test failed on winbuilder
2015-05-15Better description of the release procedureJohannes Ranke1-2/+2
2015-05-15Make FOMC test for FOCUS A robust towards non-convergenceJohannes Ranke1-5/+4
2015-05-15Also migrate test for mkinpredictJohannes Ranke1-28/+12
2015-05-15Correct the dateJohannes Ranke1-1/+1
2015-05-15Skip testing FOMC with FOCUS A WindowsJohannes Ranke1-9/+15
Testing the package on winbuilder shows that the Port algorithm does not converge on Windows with this combination, which is not a problem as the FOMC model is not appropriate for the dataset anyways.
2015-05-15Finished migration from RUnit to testthatJohannes Ranke9-316/+370
2015-05-14Start of migration from RUnit to testthatJohannes Ranke10-61/+58
2015-04-18Add a vignette showing the performance of compiled modelsJohannes Ranke10-15/+282
2015-04-17Add NEWS about compiled models, set the dateJohannes Ranke2-1/+14
2015-04-17Make compiled FOMC and DFOP models workJohannes Ranke3-6/+37
- Many thanks @karlines for the hint in ccSolve#1 how to declare the time variable and for writing the ccSolve package in the first place - Add tests for the compiled versions of the FOMC and DFOP models
2015-04-16Add tests for default solution method, fix one testJohannes Ranke1-3/+12
2015-04-16Order of parameters needs to be right for compiled modelsJohannes Ranke1-1/+1
2015-04-16Test what I wanted to testJohannes Ranke1-1/+1
2015-04-16Update copyright header, improve documentation of solution_typeJohannes Ranke4-16/+22
2015-04-16Check compiled mkinmod versions in examples and testsJohannes Ranke5-7/+56
Tests all pass (Linux)
2015-04-16Merge branch 'compile_odes'Johannes Ranke5-14/+57
2015-04-16Correctly close braces of examples sectionJohannes Ranke1-0/+1
2015-04-16Pending commit of an updated vignetteJohannes Ranke1-77/+76
2015-04-14Compile differential equation models with ccSolve packageJohannes Ranke5-14/+56
If the ccSolve package is available, and time is not in the right hand side of the equations (i.e. if only SFO and SFORB models are used), the differential equation model is compiled from auto-generated C code. Currently, one test (FOCUS 2006 D SFO_SFO) fails
2015-02-21Avoid NOTES in R CMD checkJohannes Ranke3-1/+6
- Export S3 methods - Avoid using undeclared variable names
2015-02-20Add termination message to mkinfit, prepare releaseJohannes Ranke3-2/+14
2015-02-20Fix printing the summary if iterations are not availableJohannes Ranke3-1/+6
This was broken for using method.modFit = "SANN"
2014-12-18Updated vignettes during staticdoc generationJohannes Ranke3-30/+30
2014-11-23Simply get rid of the warnings when drawing arrowsJohannes Ranke1-8/+7
2014-11-23Avoid spurious warning in mkinparplot, bump versionJohannes Ranke3-6/+18
2014-11-23Use model as in the original publicationJohannes Ranke1-1/+1
2014-11-21Update date and static docs for release to CRANv0.9-34Johannes Ranke4-278/+272
2014-11-20Add the year of the first distributed KinGUII versionJohannes Ranke1-3/+3
2014-11-13Update the dateJohannes Ranke1-1/+1
2014-11-13Exclude vignette building timestamp as R CMD check complainsJohannes Ranke1-0/+1
2014-11-13Fix code/documentation mismatchJohannes Ranke1-2/+2
2014-11-13Formatting and writing improvedJohannes Ranke1-1/+2
2014-11-13Expand the IORE example a bitJohannes Ranke1-3/+4
2014-11-12Add a hint about equivalence of FOMC and IORE modelsJohannes Ranke1-0/+2
2014-11-12Add an IORE example for parent decline kineticsJohannes Ranke1-0/+4
2014-11-12Update the FOCUS_Z vignette for default "Port" algorithmJohannes Ranke2-11/+4
2014-11-12Fix for IORE in mkinmodJohannes Ranke2-4/+9
2014-11-12Merge branch 'master' of https://github.com/jranke/mkin into ioreJohannes Ranke1-1/+1
2014-11-12IORE working for parent and metabolites, introduce mkinsubJohannes Ranke6-4/+84

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