dMod

Package: dMod
Type: Package
Title: Dynamic Modeling and Parameter Estimation in ODE Models
Version: 0.3.1
Date: 2016-05-12
Author: Daniel Kaschek
Maintainer: Daniel Kaschek <daniel.kaschek@physik.uni-freiburg.de>
Description: The framework provides functions to generate ODEs of reaction
networks, parameter transformations, observation functions, residual functions,
etc. The framework follows the paradigm that derivative information should be
used for optimization whenever possible. Therefore, all major functions produce
and can handle expressions for symbolic derivatives.
License: GPL (>= 2)
Depends: cOde, trust, ggplot2, stringr
Suggests: MASS, rPython, deSolve, rootSolve, pander, knitr, rmarkdown
RoxygenNote: 5.0.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-05-18 14:28:57 UTC; kaschek
Repository: CRAN
Date/Publication: 2016-05-18 17:26:06

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'dMod' ...
** package 'dMod' successfully unpacked and MD5 sums checked
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'dMod'
    finding HTML links ... done
    P                                       html  
    Pexpl                                   html  
    Pimpl                                   html  
    Xd                                      html  
    Xf                                      html  
    Xs                                      html  
    Xt                                      html  
    Y                                       html  
    addReaction                             html  
    as.data.frame.eqnlist                   html  
    as.eqnvec                               html  
    as.objlist                              html  
    as.parframe                             html  
    as.parvec.parframe                      html  
    attrs                                   html  
    blockdiagSymb                           html  
    combine                                 html  
    compare                                 html  
    conservedQuantities                     html  
    constraintL2                            html  
    controls                                html  
    coordTransform                          html  
    createExample                           html  
    datalist                                html  
    datapointL2                             html  
    detectFreeCores                         html  
    dot                                     html  
    eqnlist                                 html  
    eqnvec                                  html  
    exmpextr                                html  
    expand.grid.alt                         html  
    extractExamples                         html  
    fitErrorModel                           html  
    forcingsSymb                            html  
    format.eqnvec                           html  
    funC0                                   html  
    getCoefficients                         html  
    getConditions                           html  
    getDerivs                               html  
    getFluxes                               html  
    getParameters                           html  
    getReactions                            html  
    ggopen                                  html  
    lbind                                   html  
    load.parlist                            html  
    loadTemplate                            html  
    long2wide                               html  
    lsdMod                                  html  
    mssample                                html  
    mstrust                                 html  
    finding level-2 HTML links ... done

    nll                                     html  
    normL2                                  html  
    nullZ                                   html  
    objframe                                html  
    objlist                                 html  
    obsfn                                   html  
    odemodel                                html  
    parfn                                   html  
    parframe                                html  
    parlist                                 html  
    parvec                                  html  
    plot.datalist                           html  
    plot.parlist                            html  
    plotArray                               html  
    plotCombined                            html  
    plotData                                html  
    plotFluxes                              html  
    plotPars                                html  
    plotPaths                               html  
    plotPrediction                          html  
    plotProfile                             html  
    plotValues                              html  
    plus-.datalist                          html  
    plus-.fn                                html  
    plus-.objfn                             html  
    plus-.objlist                           html  
    prdfn                                   html  
    prdframe                                html  
    prdlist                                 html  
    print.eqnlist                           html  
    print.eqnvec                            html  
    print.parfn                             html  
    print.parvec                            html  
    print0                                  html  
    priorL2                                 html  
    profile                                 html  
    progressBar                             html  
    python.version.request                  html  
    python.version.rpython                  html  
    python.version.sys                      html  
    reduceReplicates                        html  
    repWithNames                            html  
    res                                     html  
    resolveRecurrence                       html  
    rref                                    html  
    runbg                                   html  
    scale_color_dMod                        html  
    scale_fill_dMod                         html  
    stat.parlist                            html  
    steadyStates                            html  
    strelide                                html  
    strpad                                  html  
    submatrix                               html  
    subset.eqnlist                          html  
    summary.eqnvec                          html  
    symmetryDetection                       html  
    theme_dMod                              html  
    times-.fn                               html  
    wide2long                               html  
    wide2long.data.frame                    html  
    wide2long.list                          html  
    wide2long.matrix                        html  
    write.eqnlist                           html  
Rd warning: /tmp/RtmpD5hZDy/R.INSTALL1ceb17e10792/dMod/man/write.eqnlist.Rd:12: missing file link 'write.csv'
    wrss                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (dMod)
Making 'packages.html' ... done