expoTree

Package: expoTree
Type: Package
Title: Calculate density dependent likelihood of a phylogenetic tree
Version: 1.0.1
Date: 2013-09-03
Author: Gabriel E Leventhal, partly adapted from MATLAB code by Awad H. Al-Mohy and using the routines DLNAC1 and DLARPC by Sheung Hun Cheng, and DLAPST from ScaLAPACK.
Maintainer: Gabriel E Leventhal <gabriel@leventhal.ch>
Depends: R (>= 2.12.0), ape, deSolve
Description: Calculates the density dependent likelihood of a phylogenetic tree. It takes branching and sampling times as an argument and integrates the likelihood function over the whole tree.
License: BSD_3_clause + file LICENCE
Packaged: 2013-09-03 12:01:29 UTC; gabriel
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2013-09-03 14:12:55

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'expoTree' ...
** package 'expoTree' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c RsimTrees.cpp -o RsimTrees.o
f95   -fpic  -g -O2  -c dlacn1.f -o dlacn1.o
f95   -fpic  -g -O2  -c dlapst.f -o dlapst.o
f95   -fpic  -g -O2  -c dlarpc.f -o dlarpc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c expmv.c -o expmv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c expo.c -o expo.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c expoTree.c -o expoTree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c expomv.c -o expomv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c normAm.c -o normAm.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c simulate_trees.cpp -o simulate_trees.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c stdeg.c -o stdeg.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o expoTree.so RsimTrees.o dlacn1.o dlapst.o dlarpc.o expmv.o expo.o expoTree.o expomv.o normAm.o simulate_trees.o stdeg.o -L/home/ddbj/local/lib64/R/lib -lRlapack -L/home/ddbj/local/lib64/R/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/expoTree/libs
** R
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'expoTree'
    finding HTML links ... done
    ape2time                                html  
    finding level-2 HTML links ... done

    epi2tree                                html  
    expoTree-package                        html  
    expoTree.optim                          html  
    infExpoTree                             html  
    plotLTT                                 html  
    runExpoTree                             html  
    sim.epi                                 html  
** building package indices
** testing if installed package can be loaded
* DONE (expoTree)
Making 'packages.html' ... done