nadiv

Package: nadiv
Type: Package
Title: (Non)Additive Genetic Relatedness Matrices
Version: 2.14.3
Description: Constructs (non)additive genetic relationship matrices, and their inverses, from a pedigree to be used in linear mixed effect models (A.K.A. the 'animal model'). Also includes other functions to facilitate the use of animal models. Some functions have been created to be used in conjunction with the R package 'asreml' for the 'ASReml' software, which can be obtained upon purchase from 'VSN' international (http://www.vsni.co.uk/software/asreml).
Date: 2016-04-19
Authors@R: person("Matthew", "Wolak", email = "matthewwolak@gmail.com", role = c("cre", "aut"))
URL: http://github.com/matthewwolak/nadiv
BugReports: http://github.com/matthewwolak/nadiv/issues
Depends: Matrix
Suggests: parallel
Enhances: MCMCglmm, asreml
Imports: graphics, methods, stats
License: GPL (>= 2)
LazyData: yes
NeedsCompilation: yes
Packaged: 2016-04-19 12:46:43 UTC; matthew
Author: Matthew Wolak [cre, aut]
Maintainer: Matthew Wolak <matthewwolak@gmail.com>
Repository: CRAN
Date/Publication: 2016-04-19 17:34:56

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'nadiv' ...
** package 'nadiv' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ainv.cc -o ainv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_cumsum.c -o cs_cumsum.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_malloc.c -o cs_malloc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_multiply.c -o cs_multiply.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_norm.c -o cs_norm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_scatter.c -o cs_scatter.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_transpose.c -o cs_transpose.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cs_util.c -o cs_util.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dfc.cc -o dfc.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dij.cc -o dij.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dsim.cc -o dsim.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ga.cc -o ga.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c genedrop.cc -o genedrop.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c reT.cc -o reT.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sinv.cc -o sinv.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o nadiv.so ainv.o cs_cumsum.o cs_malloc.o cs_multiply.o cs_norm.o cs_scatter.o cs_transpose.o cs_util.o dfc.o dij.o dsim.o ga.o genedrop.o reT.o sinv.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/nadiv/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'nadiv'
    finding HTML links ... done
    F2009                                   html  
    FG90                                    html  
    LRTest                                  html  
    Mrode2                                  html  
    Mrode3                                  html  
    Mrode9                                  html  
    Q1988                                   html  
    aiCI                                    html  
    aiFun                                   html  
    aic                                     html  
    constrainFun                            html  
    drfx                                    html  
    findDFC                                 html  
    founderLine                             html  
    genAssign                               html  
    ggTutorial                              html  
    ggcontrib                               html  
    grfx                                    html  
    makeA                                   html  
    makeAA                                  html  
    makeAinv                                html  
    makeAstarMult                           html  
    makeD                                   html  
    makeDomEpi                              html  
    makeDsim                                html  
    makeS                                   html  
    nadiv-package                           html  
    numPed                                  html  
Rd warning: /tmp/Rtmpc1sgJG/R.INSTALL3dd12f072f88/nadiv/man/numPed.Rd:27: missing file link '['
Rd warning: /tmp/Rtmpc1sgJG/R.INSTALL3dd12f072f88/nadiv/man/numPed.Rd:40: missing file link '['
    parConstrainFun                         html  
    pcc                                     html  
    pin                                     html  
    prepPed                                 html  
    proLik                                  html  
    prunePed                                html  
    simGG                                   html  
    simPedDFC                               html  
    simPedHS                                html  
    sm2list                                 html  
    varTrans                                html  
    warcolak                                html  
** building package indices
** testing if installed package can be loaded
* DONE (nadiv)
Making 'packages.html' ... done