pcadapt

Package: pcadapt
Type: Package
Title: Fast Principal Component Analysis for Outlier Detection
Version: 3.0.2
Date: 2016-06-13
Author: Keurcien Luu, Michael G.B. Blum, Nicolas Duforet-Frebourg
Maintainer: Keurcien Luu <keurcien.luu@imag.fr>
Description: Methods to detect genetic markers involved in biological
adaptation. 'pcadapt' provides statistical tools for outlier detection based on
Principal Component Analysis.
License: GPL (>= 2)
Depends: robust, MASS
Suggests: knitr, qvalue, rmarkdown
Imports: ggplot2
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-06-14 13:46:52 UTC; luuk
VignetteBuilder: knitr
Repository: CRAN
Date/Publication: 2016-06-21 17:50:10

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'pcadapt' ...
** package 'pcadapt' successfully unpacked and MD5 sums checked
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c pcadapt.c -o pcadapt.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c all2pcadapt.c -o all2pcadapt.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_tools/Cov_line.c -o src_tools/Cov_line.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_tools/Data__f.c -o src_tools/Data__f.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_tools/linAlgebra.c -o src_tools/linAlgebra.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_tools/matrix.c -o src_tools/matrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_tools/random.c -o src_tools/random.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/d_sign.c -o src_Lapack/d_sign.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlapy2.c -o src_Lapack/dlapy2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorgl2.c -o src_Lapack/dorgl2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dasum.c -o src_Lapack/dasum.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlar1v.c -o src_Lapack/dlar1v.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorglq.c -o src_Lapack/dorglq.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/daxpy.c -o src_Lapack/daxpy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarf.c -o src_Lapack/dlarf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorgql.c -o src_Lapack/dorgql.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dbdsdc.c -o src_Lapack/dbdsdc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarfb.c -o src_Lapack/dlarfb.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorgqr.c -o src_Lapack/dorgqr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dbdsqr.c -o src_Lapack/dbdsqr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarfg.c -o src_Lapack/dlarfg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorgtr.c -o src_Lapack/dorgtr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dcopy.c -o src_Lapack/dcopy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarft.c -o src_Lapack/dlarft.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorm2l.c -o src_Lapack/dorm2l.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/ddot.c -o src_Lapack/ddot.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarnv.c -o src_Lapack/dlarnv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorm2r.c -o src_Lapack/dorm2r.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgebal.c -o src_Lapack/dgebal.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarra.c -o src_Lapack/dlarra.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dormbr.c -o src_Lapack/dormbr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgebd2.c -o src_Lapack/dgebd2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrb.c -o src_Lapack/dlarrb.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorml2.c -o src_Lapack/dorml2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgebrd.c -o src_Lapack/dgebrd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrc.c -o src_Lapack/dlarrc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dormlq.c -o src_Lapack/dormlq.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgelq2.c -o src_Lapack/dgelq2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrd.c -o src_Lapack/dlarrd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dormql.c -o src_Lapack/dormql.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgelqf.c -o src_Lapack/dgelqf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarre.c -o src_Lapack/dlarre.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dormqr.c -o src_Lapack/dormqr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgemm.c -o src_Lapack/dgemm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrf.c -o src_Lapack/dlarrf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dormtr.c -o src_Lapack/dormtr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgemmlig.c -o src_Lapack/dgemmlig.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrj.c -o src_Lapack/dlarrj.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/drot.c -o src_Lapack/drot.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgemv.c -o src_Lapack/dgemv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrk.c -o src_Lapack/dlarrk.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/drotg.c -o src_Lapack/drotg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgeqr2.c -o src_Lapack/dgeqr2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrr.c -o src_Lapack/dlarrr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dscal.c -o src_Lapack/dscal.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgeqrf.c -o src_Lapack/dgeqrf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlarrv.c -o src_Lapack/dlarrv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dstebz.c -o src_Lapack/dstebz.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dger.c -o src_Lapack/dger.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlartg.c -o src_Lapack/dlartg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dstedc.c -o src_Lapack/dstedc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgesdd.c -o src_Lapack/dgesdd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaruv.c -o src_Lapack/dlaruv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dstein.c -o src_Lapack/dstein.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgesvd.c -o src_Lapack/dgesvd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlas2.c -o src_Lapack/dlas2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dstemr.c -o src_Lapack/dstemr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgetf2.c -o src_Lapack/dgetf2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlascl.c -o src_Lapack/dlascl.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsteqr.c -o src_Lapack/dsteqr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgetrf.c -o src_Lapack/dgetrf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd0.c -o src_Lapack/dlasd0.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsterf.c -o src_Lapack/dsterf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgetri.c -o src_Lapack/dgetri.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd1.c -o src_Lapack/dlasd1.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsvdc.c -o src_Lapack/dsvdc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dgetrs.c -o src_Lapack/dgetrs.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd2.c -o src_Lapack/dlasd2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dswap.c -o src_Lapack/dswap.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/disnan.c -o src_Lapack/disnan.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd3.c -o src_Lapack/dlasd3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsyevr.c -o src_Lapack/dsyevr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlabrd.c -o src_Lapack/dlabrd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd4.c -o src_Lapack/dlasd4.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsymv.c -o src_Lapack/dsymv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlacpy.c -o src_Lapack/dlacpy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd5.c -o src_Lapack/dlasd5.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsyr2.c -o src_Lapack/dsyr2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlae2.c -o src_Lapack/dlae2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd6.c -o src_Lapack/dlasd6.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsyr2k.c -o src_Lapack/dsyr2k.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaebz.c -o src_Lapack/dlaebz.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd7.c -o src_Lapack/dlasd7.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsytd2.c -o src_Lapack/dsytd2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed0.c -o src_Lapack/dlaed0.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasd8.c -o src_Lapack/dlasd8.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dsytrd.c -o src_Lapack/dsytrd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed1.c -o src_Lapack/dlaed1.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasda.c -o src_Lapack/dlasda.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dtrmm.c -o src_Lapack/dtrmm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed2.c -o src_Lapack/dlaed2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasdq.c -o src_Lapack/dlasdq.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dtrmv.c -o src_Lapack/dtrmv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed3.c -o src_Lapack/dlaed3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasdt.c -o src_Lapack/dlasdt.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dtrsm.c -o src_Lapack/dtrsm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed4.c -o src_Lapack/dlaed4.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaset.c -o src_Lapack/dlaset.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dtrti2.c -o src_Lapack/dtrti2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed5.c -o src_Lapack/dlaed5.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasq1.c -o src_Lapack/dlasq1.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dtrtri.c -o src_Lapack/dtrtri.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed6.c -o src_Lapack/dlaed6.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasq2.c -o src_Lapack/dlasq2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/i_nint.c -o src_Lapack/i_nint.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed7.c -o src_Lapack/dlaed7.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasq5.c -o src_Lapack/dlasq5.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/idamax.c -o src_Lapack/idamax.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed8.c -o src_Lapack/dlaed8.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasq6.c -o src_Lapack/dlasq6.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/ieeeck.c -o src_Lapack/ieeeck.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaed9.c -o src_Lapack/dlaed9.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasr.c -o src_Lapack/dlasr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/ilaenv.c -o src_Lapack/ilaenv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaeda.c -o src_Lapack/dlaeda.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasrt.c -o src_Lapack/dlasrt.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/iparmq.c -o src_Lapack/iparmq.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaev2.c -o src_Lapack/dlaev2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlassq.c -o src_Lapack/dlassq.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/lsame.c -o src_Lapack/lsame.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlagtf.c -o src_Lapack/dlagtf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlasv2.c -o src_Lapack/dlasv2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/pow_dd.c -o src_Lapack/pow_dd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlagts.c -o src_Lapack/dlagts.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaswp.c -o src_Lapack/dlaswp.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/pow_di.c -o src_Lapack/pow_di.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaisnan.c -o src_Lapack/dlaisnan.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlatrd.c -o src_Lapack/dlatrd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/pow_ii.c -o src_Lapack/pow_ii.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlamch.c -o src_Lapack/dlamch.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlazq3.c -o src_Lapack/dlazq3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/s_cat.c -o src_Lapack/s_cat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlamrg.c -o src_Lapack/dlamrg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlazq4.c -o src_Lapack/dlazq4.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/s_cmp.c -o src_Lapack/s_cmp.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlaneg.c -o src_Lapack/dlaneg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dnrm2.c -o src_Lapack/dnrm2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/s_copy.c -o src_Lapack/s_copy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlange.c -o src_Lapack/dlange.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorg2l.c -o src_Lapack/dorg2l.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/xerbla.c -o src_Lapack/xerbla.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlanst.c -o src_Lapack/dlanst.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorg2r.c -o src_Lapack/dorg2r.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dlansy.c -o src_Lapack/dlansy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_Lapack/dorgbr.c -o src_Lapack/dorgbr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/ancestrymap.c -o src_convert/ancestrymap.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/io_tools.c -o src_convert/io_tools.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/error_matrix.c -o src_convert/error_matrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/geno.c -o src_convert/geno.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/io_data_double.c -o src_convert/io_data_double.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/ped.c -o src_convert/ped.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/io_data_float.c -o src_convert/io_data_float.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/io_data_int.c -o src_convert/io_data_int.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/register_convert.c -o src_convert/register_convert.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/io_error.c -o src_convert/io_error.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I. -I/usr/local/include    -fpic  -g -O2  -c src_convert/vcf2geno.c -o src_convert/vcf2geno.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o pcadapt.so pcadapt.o all2pcadapt.o src_tools/Cov_line.o src_tools/Data__f.o src_tools/linAlgebra.o src_tools/matrix.o src_tools/random.o src_Lapack/d_sign.o src_Lapack/dlapy2.o src_Lapack/dorgl2.o src_Lapack/dasum.o src_Lapack/dlar1v.o src_Lapack/dorglq.o src_Lapack/daxpy.o src_Lapack/dlarf.o src_Lapack/dorgql.o src_Lapack/dbdsdc.o src_Lapack/dlarfb.o src_Lapack/dorgqr.o src_Lapack/dbdsqr.o src_Lapack/dlarfg.o src_Lapack/dorgtr.o src_Lapack/dcopy.o src_Lapack/dlarft.o src_Lapack/dorm2l.o src_Lapack/ddot.o src_Lapack/dlarnv.o src_Lapack/dorm2r.o src_Lapack/dgebal.o src_Lapack/dlarra.o src_Lapack/dormbr.o src_Lapack/dgebd2.o src_Lapack/dlarrb.o src_Lapack/dorml2.o src_Lapack/dgebrd.o src_Lapack/dlarrc.o src_Lapack/dormlq.o src_Lapack/dgelq2.o src_Lapack/dlarrd.o src_Lapack/dormql.o src_Lapack/dgelqf.o src_Lapack/dlarre.o src_Lapack/dormqr.o src_Lapack/dgemm.o src_Lapack/dlarrf.o src_Lapack/dormtr.o src_Lapack/dgemmlig.o src_Lapack/dlarrj.o src_Lapack/drot.o src_Lapack/dgemv.o src_Lapack/dlarrk.o src_Lapack/drotg.o src_Lapack/dgeqr2.o src_Lapack/dlarrr.o src_Lapack/dscal.o src_Lapack/dgeqrf.o src_Lapack/dlarrv.o src_Lapack/dstebz.o src_Lapack/dger.o src_Lapack/dlartg.o src_Lapack/dstedc.o src_Lapack/dgesdd.o src_Lapack/dlaruv.o src_Lapack/dstein.o src_Lapack/dgesvd.o src_Lapack/dlas2.o src_Lapack/dstemr.o src_Lapack/dgetf2.o src_Lapack/dlascl.o src_Lapack/dsteqr.o src_Lapack/dgetrf.o src_Lapack/dlasd0.o src_Lapack/dsterf.o src_Lapack/dgetri.o src_Lapack/dlasd1.o src_Lapack/dsvdc.o src_Lapack/dgetrs.o src_Lapack/dlasd2.o src_Lapack/dswap.o src_Lapack/disnan.o src_Lapack/dlasd3.o src_Lapack/dsyevr.o src_Lapack/dlabrd.o src_Lapack/dlasd4.o src_Lapack/dsymv.o src_Lapack/dlacpy.o src_Lapack/dlasd5.o src_Lapack/dsyr2.o src_Lapack/dlae2.o src_Lapack/dlasd6.o src_Lapack/dsyr2k.o src_Lapack/dlaebz.o src_Lapack/dlasd7.o src_Lapack/dsytd2.o src_Lapack/dlaed0.o src_Lapack/dlasd8.o src_Lapack/dsytrd.o src_Lapack/dlaed1.o src_Lapack/dlasda.o src_Lapack/dtrmm.o src_Lapack/dlaed2.o src_Lapack/dlasdq.o src_Lapack/dtrmv.o src_Lapack/dlaed3.o src_Lapack/dlasdt.o src_Lapack/dtrsm.o src_Lapack/dlaed4.o src_Lapack/dlaset.o src_Lapack/dtrti2.o src_Lapack/dlaed5.o src_Lapack/dlasq1.o src_Lapack/dtrtri.o src_Lapack/dlaed6.o src_Lapack/dlasq2.o src_Lapack/i_nint.o src_Lapack/dlaed7.o src_Lapack/dlasq5.o src_Lapack/idamax.o src_Lapack/dlaed8.o src_Lapack/dlasq6.o src_Lapack/ieeeck.o src_Lapack/dlaed9.o src_Lapack/dlasr.o src_Lapack/ilaenv.o src_Lapack/dlaeda.o src_Lapack/dlasrt.o src_Lapack/iparmq.o src_Lapack/dlaev2.o src_Lapack/dlassq.o src_Lapack/lsame.o src_Lapack/dlagtf.o src_Lapack/dlasv2.o src_Lapack/pow_dd.o src_Lapack/dlagts.o src_Lapack/dlaswp.o src_Lapack/pow_di.o src_Lapack/dlaisnan.o src_Lapack/dlatrd.o src_Lapack/pow_ii.o src_Lapack/dlamch.o src_Lapack/dlazq3.o src_Lapack/s_cat.o src_Lapack/dlamrg.o src_Lapack/dlazq4.o src_Lapack/s_cmp.o src_Lapack/dlaneg.o src_Lapack/dnrm2.o src_Lapack/s_copy.o src_Lapack/dlange.o src_Lapack/dorg2l.o src_Lapack/xerbla.o src_Lapack/dlanst.o src_Lapack/dorg2r.o src_Lapack/dlansy.o src_Lapack/dorgbr.o src_convert/ancestrymap.o src_convert/io_tools.o src_convert/error_matrix.o src_convert/geno.o src_convert/io_data_double.o src_convert/ped.o src_convert/io_data_float.o src_convert/io_data_int.o src_convert/register_convert.o src_convert/io_error.o src_convert/vcf2geno.o -L/home/ddbj/local/lib64/R/lib -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/pcadapt/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'pcadapt'
    finding HTML links ... done
    compute.pval                            html  
    corpca                                  html  
    create.pcadapt                          html  
    get.pc                                  html  
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    get.score.color                         html  
    manhattan.plotting                      html  
    neutral.plotting                        html  
    pcadapt-package                         html  
    pcadapt                                 html  
    plot.pcadapt                            html  
    pvalqq.plotting                         html  
    read.pcadapt                            html  
    score.plotting                          html  
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** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (pcadapt)
Making 'packages.html' ... done