markovchain

Package: markovchain
Type: Package
Title: Easy Handling Discrete Time Markov Chains
Version: 0.4.4
Date: 2016-05-10
Author: Giorgio Alfredo Spedicato [aut,cre], Tae Seung Kang [aut], Sai Bhargav Yalamanchi [aut], Mildenberger Thoralf [ctb], Deepak Yadav [ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Description: Functions and S4 methods to create and manage discrete time Markov chains (DTMC) more easily. In addition functions to perform statistical (fitting and drawing random variates) and probabilistic (analysis of DTMC proprieties) analysis are provided.
License: GPL-2
Depends: R (>= 3.0.0), methods
Imports: igraph, Matrix, matlab, expm, stats4, parallel, Rcpp (>=
0.11.5), RcppParallel, utils, stats
Suggests: knitr, testthat, diagram, DiagrammeR, msm, etm, Rsolnp,
knitcitations, rmarkdown
VignetteBuilder: utils, knitr
LinkingTo: Rcpp, RcppParallel, RcppArmadillo
SystemRequirements: GNU make
LazyLoad: yes
ByteCompile: yes
BugReports: http://github.com/spedygiorgio/markovchain/issues
URL: http://github.com/spedygiorgio/markovchain/
NeedsCompilation: yes
Packaged: 2016-05-11 22:48:01 UTC; Giorgio
Repository: CRAN
Date/Publication: 2016-05-12 14:47:38

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'markovchain' ...
** package 'markovchain' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 0_classesAndMethods.cpp -o 0_classesAndMethods.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 0_ctmcClassesAndMethodsSAI.cpp -o 0_ctmcClassesAndMethodsSAI.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 1_ctmcFunctions4Fitting.cpp -o 1_ctmcFunctions4Fitting.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 1_fitHigherOrder.cpp -o 1_fitHigherOrder.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 1_functions4Fitting.cpp -o 1_functions4Fitting.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 2_probabilistic.cpp -o 2_probabilistic.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c 3_multinomCI.cpp -o 3_multinomCI.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppParallel/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o markovchain.so 0_classesAndMethods.o 0_ctmcClassesAndMethodsSAI.o 1_ctmcFunctions4Fitting.o 1_fitHigherOrder.o 1_functions4Fitting.o 2_probabilistic.o 3_multinomCI.o RcppExports.o -L/home/ddbj/local/lib64/R/lib -lRlapack -L/home/ddbj/local/lib64/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/markovchain/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
in method for 'coerce' with signature '"msm","markovchain"': no definition for class "msm"
in method for 'coerce' with signature '"msm.est","markovchain"': no definition for class "msm.est"
in method for 'coerce' with signature '"etm","markovchain"': no definition for class "etm"
in method for 'coerce' with signature '"markovchain","igraph"': no definition for class "igraph"
Creating a generic function for 'predict' from package 'stats' in package 'markovchain'
** help
*** installing help indices
  converting help for package 'markovchain'
    finding HTML links ... done
    HigherOrderMarkovChain-class            html  
    absorbingStates                         html  
    blanden                                 html  
    conditionalDistribution                 html  
    craigsendi                              html  
    ctmc-class                              html  
    ctmcFit                                 html  
    firstPassage                            html  
    fitHigherOrderMarkovChain               html  
    generatorToTransitionMatrix             html  
    holson                                  html  
    inferHyperparam                         html  
    is.accessible                           html  
    is.irreducible                          html  
    markovchain-class                       html  
    markovchain-package                     html  
    markovchainFit                          html  
    markovchainList-class                   html  
    markovchainListFit                      html  
    multinomialConfidenceIntervals          html  
    predictiveDistribution                  html  
    preproglucacon                          html  
    priorDistribution                       html  
    rain                                    html  
    randomSampler                           html  
    rctmc                                   html  
    states                                  html  
    steadyStates                            html  
    transitionProbability                   html  
    verifyMarkovProperty                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (markovchain)
Making 'packages.html' ... done