Last data update: 2014.03.03
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MCMCglmm
Package: MCMCglmm
Version: 2.22.1
Date: 2015-09-21
Title: MCMC Generalised Linear Mixed Models
Depends: Matrix, coda, ape
Imports: corpcor, tensorA, cubature, methods
Suggests: rgl, combinat, mvtnorm, orthopolynom
Author: Jarrod Hadfield
Maintainer: Jarrod Hadfield <j.hadfield@ed.ac.uk>
Description: MCMC Generalised Linear Mixed Models.
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2016-01-30 12:16:26 UTC; ripley
Repository: CRAN
Date/Publication: 2016-01-30 13:41:43
Install log
* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'MCMCglmm' ...
** package 'MCMCglmm' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c MCMCglmm.cc -o MCMCglmm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_add.c -o cs_add.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_addR.c -o cs_addR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_amd.c -o cs_amd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_cbind.c -o cs_cbind.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_chol.c -o cs_chol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_cholsol.c -o cs_cholsol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_compress.c -o cs_compress.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_counts.c -o cs_counts.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_cov2cor.c -o cs_cov2cor.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_dcmvnorm.c -o cs_dcmvnorm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_dfs.c -o cs_dfs.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_directsum.c -o cs_directsum.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_directsumupdate.c -o cs_directsumupdate.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_dmperm.c -o cs_dmperm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_dmvnorm.c -o cs_dmvnorm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_droptol.c -o cs_droptol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_dropzeros.c -o cs_dropzeros.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_dupl.c -o cs_dupl.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_entry.c -o cs_entry.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_ereach.c -o cs_ereach.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_etree.c -o cs_etree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_fkeep.c -o cs_fkeep.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_gaxpy.c -o cs_gaxpy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_happly.c -o cs_happly.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_house.c -o cs_house.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_inv.c -o cs_inv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_invR.c -o cs_invR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_ipvec.c -o cs_ipvec.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerA.c -o cs_kroneckerA.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerAupdate.c -o cs_kroneckerAupdate.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerDA.c -o cs_kroneckerDA.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerDI.c -o cs_kroneckerDI.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerI.c -o cs_kroneckerI.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerIadd.c -o cs_kroneckerIadd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerIupdate.c -o cs_kroneckerIupdate.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerSI.c -o cs_kroneckerSI.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_kroneckerSIupdate.c -o cs_kroneckerSIupdate.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_leaf.c -o cs_leaf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_load.c -o cs_load.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_lsolve.c -o cs_lsolve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_ltsolve.c -o cs_ltsolve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_lu.c -o cs_lu.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_lusol.c -o cs_lusol.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_maxtrans.c -o cs_maxtrans.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_omega.c -o cs_omega.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_omegaupdate.c -o cs_omegaupdate.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_permute.c -o cs_permute.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_pinv.c -o cs_pinv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_post.c -o cs_post.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_print.c -o cs_print.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_pvec.c -o cs_pvec.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_qr.c -o cs_qr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_qrsol.c -o cs_qrsol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rAnte.c -o cs_rAnte.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rCinvwishart.c -o cs_rCinvwishart.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rR.c -o cs_rR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rRsubinvwishart.c -o cs_rRsubinvwishart.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rSinvwishart.c -o cs_rSinvwishart.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_randperm.c -o cs_randperm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_reach.c -o cs_reach.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rinvwishart.c -o cs_rinvwishart.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_rwishart.c -o cs_rwishart.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_scc.c -o cs_scc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_schol.c -o cs_schol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_schur.c -o cs_schur.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_sortdv.c -o cs_sortdv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_spsolve.c -o cs_spsolve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_sqr.c -o cs_sqr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_symperm.c -o cs_symperm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_tdfs.c -o cs_tdfs.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_updown.c -o cs_updown.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_usolve.c -o cs_usolve.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
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cs_utsolve.c -o cs_utsolve.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dcmvnormR.cc -o dcmvnormR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dcutpoints.c -o dcutpoints.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c inverseA.cc -o inverseA.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pcmvnorm.c -o pcmvnorm.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rIW.cc -o rIW.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rante.cc -o rante.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rbv.cc -o rbv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rtcmvnorm.c -o rtcmvnorm.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rtcmvnormR.cc -o rtcmvnormR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rtnorm.c -o rtnorm.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rtnormR.cc -o rtnormR.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o MCMCglmm.so MCMCglmm.o cs_add.o cs_addR.o cs_amd.o cs_cbind.o cs_chol.o cs_cholsol.o cs_compress.o cs_counts.o cs_cov2cor.o cs_cumsum.o cs_dcmvnorm.o cs_dfs.o cs_directsum.o cs_directsumupdate.o cs_dmperm.o cs_dmvnorm.o cs_droptol.o cs_dropzeros.o cs_dupl.o cs_entry.o cs_ereach.o cs_etree.o cs_fkeep.o cs_gaxpy.o cs_happly.o cs_house.o cs_inv.o cs_invR.o cs_ipvec.o cs_kroneckerA.o cs_kroneckerAupdate.o cs_kroneckerDA.o cs_kroneckerDI.o cs_kroneckerI.o cs_kroneckerIadd.o cs_kroneckerIupdate.o cs_kroneckerSI.o cs_kroneckerSIupdate.o cs_leaf.o cs_load.o cs_lsolve.o cs_ltsolve.o cs_lu.o cs_lusol.o cs_malloc.o cs_maxtrans.o cs_multiply.o cs_norm.o cs_omega.o cs_omegaupdate.o cs_permute.o cs_pinv.o cs_post.o cs_print.o cs_pvec.o cs_qr.o cs_qrsol.o cs_rAnte.o cs_rCinvwishart.o cs_rR.o cs_rRsubinvwishart.o cs_rSinvwishart.o cs_randperm.o cs_reach.o cs_rinvwishart.o cs_rwishart.o cs_scatter.o cs_scc.o cs_schol.o cs_schur.o cs_sortdv.o cs_spsolve.o cs_sqr.o cs_symperm.o cs_tdfs.o cs_transpose.o cs_updown.o cs_usolve.o cs_util.o cs_utsolve.o dcmvnormR.o dcutpoints.o inverseA.o pcmvnorm.o rIW.o rante.o rbv.o rtcmvnorm.o rtcmvnormR.o rtnorm.o rtnormR.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/MCMCglmm/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'MCMCglmm'
finding HTML links ... done
BTdata html
BTped html
Ddivergence html
Dexpressions html
Dtensor html
KPPM html
MCMCglmm html
MCMCglmmPackage html
PlodiaPO html
PlodiaR html
PlodiaRB html
Ptensor html
SShorns html
Tri2M html
at.level html
at.set html
buildV html
commutation html
dcmvnorm html
evalDtensor html
gelman.prior html
inverseA html
knorm html
krzanowski.test html
kunif html
list2bdiag html
mult.memb html
path html
plot.MCMCglmm html
plotsubspace html
Rd warning: /tmp/RtmpFnopwK/R.INSTALL2f696b98b504/MCMCglmm/man/plotsubspace.Rd:32: missing file link 'rgl'
posterior.ante html
posterior.cor html
posterior.evals html
posterior.inverse html
posterior.mode html
predict.MCMCglmm html
prunePed html
rIW html
Rd warning: /tmp/RtmpFnopwK/R.INSTALL2f696b98b504/MCMCglmm/man/rIW.Rd:38: missing file link 'riwish'
Rd warning: /tmp/RtmpFnopwK/R.INSTALL2f696b98b504/MCMCglmm/man/rIW.Rd:41: missing file link 'riwish'
Rd warning: /tmp/RtmpFnopwK/R.INSTALL2f696b98b504/MCMCglmm/man/rIW.Rd:50: missing file link 'rwish'
rbv html
residuals.MCMCglmm html
rtcmvnorm html
rtnorm html
Rd warning: /tmp/RtmpFnopwK/R.INSTALL2f696b98b504/MCMCglmm/man/rtnorm.Rd:20: missing file link 'rtnorm'
simulate.MCMCglmm html
sir html
sm2asreml html
spl html
summary.MCMCglmm html
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (MCMCglmm)
Making 'packages.html' ... done
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