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2015-04-14Compile differential equation models with ccSolve packageJohannes Ranke1-2/+4
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
2015-02-20Add termination message to mkinfit, prepare releaseJohannes Ranke1-1/+1
2014-11-23Avoid spurious warning in mkinparplot, bump versionJohannes Ranke1-2/+2
2014-11-21Update date and static docs for release to CRANv0.9-34Johannes Ranke1-1/+1
2014-11-13Update the dateJohannes Ranke1-1/+1
2014-10-22Always include 0 on y axis when plotting during the fitJohannes Ranke1-1/+1
2014-10-15Switch to using the Port algorithm per defaultJohannes Ranke1-4/+4
2014-10-14Further formatting improvement for differential equationsJohannes Ranke1-1/+1
2014-10-12Use title case for the titleJohannes Ranke1-2/+2
Tried to adhere to the Chicago Manual of Style, but am not sure about "with".
2014-10-11Start new development versionJohannes Ranke1-1/+1
2014-10-11Updates intended for releasing mkin 0.9-33Johannes Ranke1-1/+1
2014-08-20Fix mkinfit for a special situationJohannes Ranke1-1/+1
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.
2014-08-19Improve formatting of differential equations in outputJohannes Ranke1-2/+3
Rebuild of FOCUS_Z vignette with improved formatting
2014-07-25Fix internal naming of g for transform_fractions=FALSEJohannes Ranke1-1/+1
2014-07-24Bump version, better default for state.iniJohannes Ranke1-1/+1
2014-07-24Avoid artificial zero residual in mkinresplotJohannes Ranke1-1/+1
2014-07-23Parallel metabolite formation with formation fractions in mkinerrminJohannes Ranke1-1/+1
2014-07-21Bugfix, model shorthand, state.ini[[1]] from observed dataJohannes Ranke1-1/+1
- 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 Ranke1-1/+1
For details see NEWS.md
2014-07-14Bump version as 0.9-31 was released todayJohannes Ranke1-1/+1
2014-07-14Bugfix release version 0.9-31Johannes Ranke1-1/+1
2014-07-11It is B. Mikolasch, not M. Mikolasch...Johannes Ranke1-1/+1
2014-07-11Update the dateJohannes Ranke1-1/+1
2014-06-27Bump version as mkin 0.9-29 was just releasedJohannes Ranke1-1/+1
2014-06-26Start new version, add xlim to mkinresplotJohannes Ranke1-2/+2
2014-05-20Step back regarding confidence intervals of formation fractionsJohannes Ranke1-1/+1
- Don't give confidence intervals for formation fractions that belong to a set, only for single formation fractions - Update the vignette with history and background - Correct 'isotropic' into 'isometric' in the ilr documentation, the README and the comments in transform_odeparms - Candidate for release to CRAN
2014-05-15Start new version number, Fix #5 (Inf values in mkinparplot)Johannes Ranke1-2/+2
2014-05-09Update the dateJohannes Ranke1-1/+1
2014-05-08Reorder URLsJohannes Ranke1-1/+2
2014-05-07Bump version so gmkin can depend on a GUI-less versionJohannes Ranke1-1/+1
2014-05-07Update for release to r-forgeJohannes Ranke1-1/+1
2014-05-07Fork the GUI into package gmkin. See ChangeLog for detailsJohannes Ranke1-3/+1
2014-05-02Update of the FOCUS Z vignette, release candidateJohannes Ranke1-1/+1
2014-04-28Fix version, write ChangeLogJohannes Ranke1-1/+1
2014-04-28Bump versionJohannes Ranke1-2/+2
2014-04-28Remove unused RSVGTipsDevice from suggested packagesJohannes Ranke1-1/+1
2014-04-25McCall 2,4,5-T dataset, lower bound for transform_rates=FALSEJohannes Ranke1-1/+1
2014-04-22Possibility to fit without parameter transformationJohannes Ranke1-2/+2
2014-03-24Source of gWidgetsWWW2 package to comply with CRAN policyJohannes Ranke1-1/+3
2014-03-20Add copyright information and bugreport URLJohannes Ranke1-3/+5
2014-02-27Format of gmkin workspace files, copyright, updatesJohannes Ranke1-2/+3
- Change the format of the workspace files of gmkin so they can be distributed in the mkin package - Add gmkin workspace datasets FOCUS_2006_gmkin and FOCUS_2006_Z_gmkin - Restrict the unit test with the Schaefer data to parent and primary metabolites as formation fraction and DT50 for A2 are higly correlated and passing the test is platform dependent. For example, the test fails in 1 out of 14 platforms on CRAN as of today - Add Eurofins Regulatory AG copyright notices - Import FME and deSolve instead of depending on them to have cleaner startup
2014-01-22Merge branch 'master' of https://github.com/jranke/mkinJohannes Ranke1-2/+2
Conflicts: DESCRIPTION R/mkinfit.R
2014-01-17- Use mkinmod$spec instead of mkinmod$map wherever possible, in order to ↵Johannes Ranke1-1/+1
make it possible to to modify mkinmod$map when the mapping of internal to observed variables should be changed. Note that such modifications will confuse plot.mkinfit and summary.mkinfit. Setting the class attribute to modFit makes summary.modFit useable in such a case
2013-12-04Update ChangeLog and DESCRIPTIONJohannes Ranke1-2/+2
2013-11-18Add GUI start function, keep GUI here in mkinJohannes Ranke1-3/+5
2013-11-17Conflicts:jranke1-3/+4
README.md TODO git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@163 edb9625f-4e0d-4859-8d74-9fd3b1da38cb
2013-11-06Another version bump as 0.9.24 is on CRAN nowjranke1-1/+1
git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@142 edb9625f-4e0d-4859-8d74-9fd3b1da38cb
2013-11-06Version bump as I have just release 0.9.23 to CRANjranke1-1/+1
git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@141 edb9625f-4e0d-4859-8d74-9fd3b1da38cb
2013-11-06- New candidate for release containing the latest changes to the GUIjranke1-1/+1
- Checking and releasing myself as r-forge has a stuffed build pipeline git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@139 edb9625f-4e0d-4859-8d74-9fd3b1da38cb
2013-11-05- Update of changelog and description file for release to CRANjranke1-1/+1
git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/mkin@138 edb9625f-4e0d-4859-8d74-9fd3b1da38cb

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