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2014-08-25Bug fix and unit tests for mkinerrminJohannes Ranke9-98/+146
See NEWS.md for details
2014-08-25Remove intermediate vignette files when cleaningJohannes Ranke1-0/+1
2014-08-20Fix mkinfit for a special situationJohannes Ranke3-8/+10
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
2014-08-19Small reformulationsJohannes Ranke1-6/+5
2014-08-19Improve formatting of differential equations in outputJohannes Ranke5-4/+5
Rebuild of FOCUS_Z vignette with improved formatting
2014-08-02More to do, gathered during the software validation checksJohannes Ranke1-0/+2
2014-07-31More to do, gathered during the software validation checksJohannes Ranke1-0/+5
2014-07-25Fix internal naming of g for transform_fractions=FALSEJohannes Ranke3-3/+18
2014-07-24Improve formulationJohannes Ranke1-1/+1
2014-07-24Semantic correction in help fileJohannes Ranke1-1/+1
2014-07-24Bump version, better default for state.iniJohannes Ranke4-3/+16
2014-07-24Update vignettes with 0.9-32 just released to CRANJohannes Ranke3-39/+33
2014-07-24Avoid artificial zero residual in mkinresplotJohannes Ranke3-2/+5
2014-07-23Parallel metabolite formation with formation fractions in mkinerrminJohannes Ranke4-4/+10
2014-07-22Formatting TODOJohannes Ranke1-0/+1
2014-07-21Ignore vignette build timestampJohannes Ranke1-0/+1
2014-07-21Residual plots are importantJohannes Ranke1-0/+1
2014-07-21Simplify usage examplesJohannes Ranke1-17/+16
2014-07-21Bugfix, model shorthand, state.ini[[1]] from observed dataJohannes Ranke11-231/+279
- 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
2014-07-17Return complete list of initial states after fittingJohannes Ranke1-1/+4
This is useful for specifying state.ini in a subsequent call to mkinfit
2014-07-17Handle non-convergence and maximum number of iterationsJohannes Ranke7-95/+190
For details see NEWS.md
2014-07-16Merge branch 'master' into ioreJohannes Ranke3-3/+34
2014-07-16Insert empty lines to have R make separate entriesJohannes Ranke1-0/+30
2014-07-14Small improvements to usage examplesJohannes Ranke1-2/+3
2014-07-14Vignettes as just synced to the static documentation on r-forgeJohannes Ranke3-27/+21
2014-07-14Fix syncinc with r-forgeJohannes Ranke1-1/+1
2014-07-14Bump version as 0.9-31 was released todayJohannes Ranke1-1/+1
2014-07-14Merge bugfix branch 'master' into ioreJohannes Ranke8-109/+1212
Add IORE support to mkinerrmin
2014-07-14Nearly complete support for IORE, pending mkinerrminJohannes Ranke9-30/+98
2014-07-14Merge bugfix release 0.9-31 from 'master' into ioreJohannes Ranke2-2/+2
2014-07-14Bugfix release version 0.9-31Johannes Ranke8-30/+1136
2014-07-12First working fits with IORE modelJohannes Ranke8-11/+86
2014-07-11It is B. Mikolasch, not M. Mikolasch...Johannes Ranke2-2/+2
2014-07-11Update of syncing to r-forge without git-svnJohannes Ranke1-15/+12
2014-07-11Update the dateJohannes Ranke1-1/+1
2014-07-11Improve formatting in FOCUS_L vignette, rebuild vignettesJohannes Ranke28-0/+5
2014-07-07Coefficient matrix for formation fractions, no sink and one pathwayJohannes Ranke1-22/+26
2014-07-03Add a more complex usage exampleJohannes Ranke1-1/+17
2014-07-02Update of vignettesJohannes Ranke16-0/+0
2014-07-02Do not introduce formation fractions for singular pathwaysJohannes Ranke2-27/+29
- As a consequence, we do not need implicit formation fractions in mkinfit
2014-07-02Warning -> message, and only if initial parameter was not 1Johannes Ranke1-2/+4
2014-07-02Set implicit formation fraction to 1 even if set otherwise in parms.iniJohannes Ranke1-6/+8
2014-07-02Internal parameter transformations are optionalJohannes Ranke1-2/+2
2014-07-02Update vignettes - working flawlessly now!Johannes Ranke16-0/+0
2014-07-02Move handling of implicitly fixed formation fractions to mkinfitJohannes Ranke2-19/+11
2014-07-02TypoJohannes Ranke1-1/+1
2014-07-02Support formation fractions without sink pathway, updatesJohannes Ranke12-197/+317
2014-07-01One more source code commentJohannes Ranke1-0/+2
2014-07-01One more check, update source code commentJohannes Ranke1-2/+3

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