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Last data update: 2014.03.03
Matrix

Package: Matrix
Version: 1.2-6
Date: 2016-04-28
Priority: recommended
Title: Sparse and Dense Matrix Classes and Methods
Author: Douglas Bates <bates@stat.wisc.edu> and Martin Maechler
Maintainer: Martin Maechler <mmaechler+Matrix@gmail.com>
Contact: Doug and Martin <Matrix-authors@R-project.org>
Description: Classes and methods for dense and sparse matrices and
operations on them using 'LAPACK' and 'SuiteSparse'.
Depends: R (>= 3.0.1)
Imports: methods, graphics, grid, stats, utils, lattice
Suggests: expm, MASS
Enhances: MatrixModels, graph, SparseM, sfsmisc
Encoding: UTF-8
LazyData: no
LazyDataNote: not possible, since we use data/*.R *and* our classes
ByteCompile: yes
BuildResaveData: no
License: GPL (>= 2) | file LICENCE
URL: http://Matrix.R-forge.R-project.org/
NeedsCompilation: yes
Packaged: 2016-04-28 14:49:36 UTC; maechler
Repository: CRAN
Date/Publication: 2016-05-02 15:51:43
● Cran Task View: Econometrics, Multivariate
● 24 images, 115 functions, 3 datasets
● Reverse Depends: 217
Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'Matrix' ...
** package 'Matrix' successfully unpacked and MD5 sums checked
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c CHMfactor.c -o CHMfactor.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c Csparse.c -o Csparse.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c TMatrix_as.c -o TMatrix_as.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c Tsparse.c -o Tsparse.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c init.c -o init.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c Mutils.c -o Mutils.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c chm_common.c -o chm_common.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c cs.c -o cs.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c cs_utils.c -o cs_utils.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dense.c -o dense.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dgCMatrix.c -o dgCMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dgTMatrix.c -o dgTMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dgeMatrix.c -o dgeMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dpoMatrix.c -o dpoMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dppMatrix.c -o dppMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dsCMatrix.c -o dsCMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dsyMatrix.c -o dsyMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dspMatrix.c -o dspMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dtCMatrix.c -o dtCMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dtTMatrix.c -o dtTMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dtrMatrix.c -o dtrMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c dtpMatrix.c -o dtpMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c factorizations.c -o factorizations.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c ldense.c -o ldense.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c lgCMatrix.c -o lgCMatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c sparseQR.c -o sparseQR.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I./SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c abIndex.c -o abIndex.o
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD'
( cd Lib ; make clean )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD/Lib'
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD/Lib'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD'
( cd Source ; make clean )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD/Source'
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD/Source'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD'
( cd Source ; make clean )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD/Source'
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD/Source'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/SuiteSparse_config'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/SuiteSparse_config'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD'
( cd Lib ; make )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD/Lib'
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_aat.c -o cholmod_aat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_add.c -o cholmod_add.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_band.c -o cholmod_band.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_change_factor.c -o cholmod_change_factor.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_common.c -o cholmod_common.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_complex.c -o cholmod_complex.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_copy.c -o cholmod_copy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_dense.c -o cholmod_dense.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_error.c -o cholmod_error.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_factor.c -o cholmod_factor.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_memory.c -o cholmod_memory.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_sparse.c -o cholmod_sparse.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_transpose.c -o cholmod_transpose.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_triplet.c -o cholmod_triplet.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Core/cholmod_version.c -o cholmod_version.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Check/cholmod_check.c -o cholmod_check.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Check/cholmod_read.c -o cholmod_read.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Check/cholmod_write.c -o cholmod_write.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_amd.c -o cholmod_amd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_analyze.c -o cholmod_analyze.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_colamd.c -o cholmod_colamd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_etree.c -o cholmod_etree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_factorize.c -o cholmod_factorize.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_postorder.c -o cholmod_postorder.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_rcond.c -o cholmod_rcond.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_resymbol.c -o cholmod_resymbol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_rowcolcounts.c -o cholmod_rowcolcounts.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_rowfac.c -o cholmod_rowfac.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_solve.c -o cholmod_solve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Cholesky/cholmod_spsolve.c -o cholmod_spsolve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_drop.c -o cholmod_drop.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_horzcat.c -o cholmod_horzcat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_norm.c -o cholmod_norm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_scale.c -o cholmod_scale.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_sdmult.c -o cholmod_sdmult.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_ssmult.c -o cholmod_ssmult.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_submatrix.c -o cholmod_submatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_vertcat.c -o cholmod_vertcat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../MatrixOps/cholmod_symmetry.c -o cholmod_symmetry.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Modify/cholmod_rowadd.c -o cholmod_rowadd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Modify/cholmod_rowdel.c -o cholmod_rowdel.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Modify/cholmod_updown.c -o cholmod_updown.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Supernodal/cholmod_super_numeric.c -o cholmod_super_numeric.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Supernodal/cholmod_super_solve.c -o cholmod_super_solve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -c ../Supernodal/cholmod_super_symbolic.c -o cholmod_super_symbolic.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_aat.c -o cholmod_l_aat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_add.c -o cholmod_l_add.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_band.c -o cholmod_l_band.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_change_factor.c -o cholmod_l_change_factor.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_common.c -o cholmod_l_common.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_complex.c -o cholmod_l_complex.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_copy.c -o cholmod_l_copy.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_dense.c -o cholmod_l_dense.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_error.c -o cholmod_l_error.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_factor.c -o cholmod_l_factor.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_memory.c -o cholmod_l_memory.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_sparse.c -o cholmod_l_sparse.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_transpose.c -o cholmod_l_transpose.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_triplet.c -o cholmod_l_triplet.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Core/cholmod_version.c -o cholmod_l_version.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Check/cholmod_check.c -o cholmod_l_check.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Check/cholmod_read.c -o cholmod_l_read.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Check/cholmod_write.c -o cholmod_l_write.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_amd.c -o cholmod_l_amd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_analyze.c -o cholmod_l_analyze.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_colamd.c -o cholmod_l_colamd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_etree.c -o cholmod_l_etree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_factorize.c -o cholmod_l_factorize.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_postorder.c -o cholmod_l_postorder.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_rcond.c -o cholmod_l_rcond.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_resymbol.c -o cholmod_l_resymbol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_rowcolcounts.c -o cholmod_l_rowcolcounts.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_rowfac.c -o cholmod_l_rowfac.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_solve.c -o cholmod_l_solve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Cholesky/cholmod_spsolve.c -o cholmod_l_spsolve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_drop.c -o cholmod_l_drop.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_horzcat.c -o cholmod_l_horzcat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_norm.c -o cholmod_l_norm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_scale.c -o cholmod_l_scale.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_sdmult.c -o cholmod_l_sdmult.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_ssmult.c -o cholmod_l_ssmult.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_submatrix.c -o cholmod_l_submatrix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_vertcat.c -o cholmod_l_vertcat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../MatrixOps/cholmod_symmetry.c -o cholmod_l_symmetry.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Modify/cholmod_rowadd.c -o cholmod_l_rowadd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Modify/cholmod_rowdel.c -o cholmod_l_rowdel.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Modify/cholmod_updown.c -o cholmod_l_updown.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Supernodal/cholmod_super_numeric.c -o cholmod_l_super_numeric.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Supernodal/cholmod_super_solve.c -o cholmod_l_super_solve.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../../AMD/Include -I../../AMD/Source -I../../COLAMD/Include -I../Include -I../../SuiteSparse_config -DNPARTITION -DNPRINT -I/usr/local/include    -fpic  -g -O2  -DDLONG -c  ../Supernodal/cholmod_super_symbolic.c -o cholmod_l_super_symbolic.o
ar -rucs ../../CHOLMOD.a cholmod_aat.o cholmod_add.o cholmod_band.o cholmod_change_factor.o cholmod_common.o cholmod_complex.o cholmod_copy.o cholmod_dense.o cholmod_error.o cholmod_factor.o cholmod_memory.o cholmod_sparse.o cholmod_transpose.o cholmod_triplet.o cholmod_version.o cholmod_check.o cholmod_read.o cholmod_write.o cholmod_amd.o cholmod_analyze.o cholmod_colamd.o cholmod_etree.o cholmod_factorize.o cholmod_postorder.o cholmod_rcond.o cholmod_resymbol.o cholmod_rowcolcounts.o cholmod_rowfac.o cholmod_solve.o cholmod_spsolve.o cholmod_drop.o cholmod_horzcat.o cholmod_norm.o cholmod_scale.o cholmod_sdmult.o cholmod_ssmult.o cholmod_submatrix.o cholmod_vertcat.o cholmod_symmetry.o cholmod_rowadd.o cholmod_rowdel.o cholmod_updown.o cholmod_super_numeric.o cholmod_super_solve.o cholmod_super_symbolic.o  cholmod_l_aat.o cholmod_l_add.o cholmod_l_band.o cholmod_l_change_factor.o cholmod_l_common.o cholmod_l_complex.o cholmod_l_copy.o cholmod_l_dense.o cholmod_l_error.o cholmod_l_factor.o cholmod_l_memory.o cholmod_l_sparse.o cholmod_l_transpose.o cholmod_l_triplet.o cholmod_l_version.o cholmod_l_check.o cholmod_l_read.o cholmod_l_write.o cholmod_l_amd.o cholmod_l_analyze.o cholmod_l_colamd.o cholmod_l_etree.o cholmod_l_factorize.o cholmod_l_postorder.o cholmod_l_rcond.o cholmod_l_resymbol.o cholmod_l_rowcolcounts.o cholmod_l_rowfac.o cholmod_l_solve.o cholmod_l_spsolve.o cholmod_l_drop.o cholmod_l_horzcat.o cholmod_l_norm.o cholmod_l_scale.o cholmod_l_sdmult.o cholmod_l_ssmult.o cholmod_l_submatrix.o cholmod_l_vertcat.o cholmod_l_symmetry.o cholmod_l_rowadd.o cholmod_l_rowdel.o cholmod_l_updown.o cholmod_l_super_numeric.o cholmod_l_super_solve.o cholmod_l_super_symbolic.o 
ar: `u' modifier ignored since `D' is the default (see `U')
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD/Lib'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/CHOLMOD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD'
( cd Source ; make lib )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD/Source'
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c colamd_global.c -o colamd_global.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -c colamd.c -o colamd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c colamd.c -o colamd_l.o
ar -rucs ../../COLAMD.a colamd_global.o colamd.o colamd_l.o
ar: `u' modifier ignored since `D' is the default (see `U')
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD/Source'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/COLAMD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD'
( cd Source ; make lib )
make[2]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD/Source'
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_aat.c -o amd_i_aat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_aat.c -o amd_l_aat.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_1.c -o amd_i_1.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_1.c -o amd_l_1.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_2.c -o amd_i_2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_2.c -o amd_l_2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_postorder.c -o amd_i_postorder.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_postorder.c -o amd_l_postorder.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_post_tree.c -o amd_i_post_tree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_post_tree.c -o amd_l_post_tree.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_defaults.c -o amd_i_defaults.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_defaults.c -o amd_l_defaults.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_order.c -o amd_i_order.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_order.c -o amd_l_order.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_control.c -o amd_i_control.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_control.c -o amd_l_control.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_info.c -o amd_i_info.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_info.c -o amd_l_info.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_valid.c -o amd_i_valid.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_valid.c -o amd_l_valid.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_preprocess.c -o amd_i_preprocess.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_preprocess.c -o amd_l_preprocess.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_dump.c -o amd_i_dump.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_dump.c -o amd_l_dump.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDINT -c amd_global.c -o amd_i_global.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I../Include -I../../SuiteSparse_config -I/usr/local/include    -fpic  -g -O2  -I../Include -DDLONG -c amd_global.c -o amd_l_global.o
ar -rucs ../../AMD.a amd_i_aat.o amd_l_aat.o amd_i_1.o amd_l_1.o amd_i_2.o amd_l_2.o amd_i_postorder.o amd_l_postorder.o amd_i_post_tree.o amd_l_post_tree.o amd_i_defaults.o amd_l_defaults.o amd_i_order.o amd_l_order.o amd_i_control.o amd_l_control.o amd_i_info.o amd_l_info.o amd_i_valid.o amd_l_valid.o amd_i_preprocess.o amd_l_preprocess.o amd_i_dump.o amd_l_dump.o amd_i_global.o amd_l_global.o 
ar: `u' modifier ignored since `D' is the default (see `U')
make[2]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD/Source'
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/AMD'
make[1]: Entering directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/SuiteSparse_config'
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -DNTIMER -I/usr/local/include    -fpic  -g -O2  -c SuiteSparse_config.c -o SuiteSparse_config.o
ar -rucs ../SuiteSparse_config.a SuiteSparse_config.o
ar: `u' modifier ignored since `D' is the default (see `U')
make[1]: Leaving directory '/tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/src/SuiteSparse_config'
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o Matrix.so CHMfactor.o Csparse.o TMatrix_as.o Tsparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgTMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtTMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o ldense.o lgCMatrix.o sparseQR.o abIndex.o CHOLMOD.a COLAMD.a AMD.a SuiteSparse_config.a -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/Matrix/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'image' from package 'graphics' in package 'Matrix'
Creating a generic function for 'solve' from package 'base' in package 'Matrix'
Creating a generic function for 'chol2inv' from 'base' in package 'Matrix'
    (from the saved implicit definition)
Creating a generic function for 'chol2inv' from package 'base' in package 'Matrix'
Creating a generic function for 'determinant' from package 'base' in package 'Matrix'
Creating a generic function for 'update' from package 'stats' in package 'Matrix'
Creating a generic function for 't' from package 'base' in package 'Matrix'
Creating a generic function for 'diag' from package 'base' in package 'Matrix'
Creating a generic function for 'as.matrix' from package 'base' in package 'Matrix'
Creating a generic function for 'as.array' from package 'base' in package 'Matrix'
Creating a generic function for 'head' from package 'utils' in package 'Matrix'
Creating a generic function for 'tail' from package 'utils' in package 'Matrix'
Creating a generic function for 'drop' from package 'base' in package 'Matrix'
Creating a generic function for 'mean' from package 'base' in package 'Matrix'
Creating a generic function for 'cov2cor' from package 'stats' in package 'Matrix'
Creating a generic function for 'isSymmetric' from package 'base' in package 'Matrix'
Creating a generic function for 'unname' from package 'base' in package 'Matrix'
Creating a generic function for 'chol' from package 'base' in package 'Matrix'
Creating a generic function for 'norm' from package 'base' in package 'Matrix'
Creating a generic function for 'rcond' from 'base' in package 'Matrix'
    (from the saved implicit definition)
Creating a generic function for 'rcond' from package 'base' in package 'Matrix'
Creating a generic function for 'all.equal' from package 'base' in package 'Matrix'
Creating a generic function for 'diff' from package 'base' in package 'Matrix'
in method for 'coerce' with signature '"matrix.csr","dgRMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"dgRMatrix","matrix.csr"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.csc","dgCMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"dgCMatrix","matrix.csc"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.coo","dgTMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"dgTMatrix","matrix.coo"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"dsparseMatrix","matrix.csr"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.csr","dgCMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","dgCMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csr","RsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.csc","CsparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.coo","TsparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csr","CsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","CsparseMatrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csc","TsparseMatrix"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","TsparseMatrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"CsparseMatrix","matrix.csr"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"CsparseMatrix","matrix.coo"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"CsparseMatrix","matrix.csc"': no definition for class "matrix.csc"
in method for 'coerce' with signature '"matrix.csr","Matrix"': no definition for class "matrix.csr"
in method for 'coerce' with signature '"matrix.coo","Matrix"': no definition for class "matrix.coo"
in method for 'coerce' with signature '"matrix.csc","Matrix"': no definition for class "matrix.csc"
Creating a generic function for 'colSums' from package 'base' in package 'Matrix'
Creating a generic function for 'colMeans' from package 'base' in package 'Matrix'
Creating a generic function for 'rowSums' from package 'base' in package 'Matrix'
Creating a generic function for 'rowMeans' from package 'base' in package 'Matrix'
in method for 'colSums' with signature 'x="igCMatrix"': no definition for class "igCMatrix"
in method for 'rowSums' with signature 'x="igCMatrix"': no definition for class "igCMatrix"
in method for 'colMeans' with signature 'x="igCMatrix"': no definition for class "igCMatrix"
in method for 'rowMeans' with signature 'x="igCMatrix"': no definition for class "igCMatrix"
Creating a generic function for 'zapsmall' from package 'base' in package 'Matrix'
Creating a generic function for 'qr' from package 'base' in package 'Matrix'
Creating a generic function for 'diag<-' from package 'base' in package 'Matrix'
Creating a generic function for 'crossprod' from package 'base' in package 'Matrix'
Creating a generic function for 'tcrossprod' from package 'base' in package 'Matrix'
Creating a generic function for 'print' from package 'base' in package 'Matrix'
Creating a generic function for 'summary' from package 'base' in package 'Matrix'
Creating a generic function for 'which' from package 'base' in package 'Matrix'
in method for 'coerce' with signature '"graphAM","sparseMatrix"': no definition for class "graphAM"
in method for 'coerce' with signature '"graph","CsparseMatrix"': no definition for class "graph"
in method for 'coerce' with signature '"graph","Matrix"': no definition for class "graph"
in method for 'coerce' with signature '"graphNEL","CsparseMatrix"': no definition for class "graphNEL"
in method for 'coerce' with signature '"graphNEL","TsparseMatrix"': no definition for class "graphNEL"
in method for 'coerce' with signature '"sparseMatrix","graph"': no definition for class "graph"
in method for 'coerce' with signature '"sparseMatrix","graphNEL"': no definition for class "graphNEL"
in method for 'coerce' with signature '"TsparseMatrix","graphNEL"': no definition for class "graphNEL"
Creating a generic function for 'format' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.R' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.Q' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.qy' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.qty' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.coef' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.resid' from package 'base' in package 'Matrix'
Creating a generic function for 'qr.fitted' from package 'base' in package 'Matrix'
Creating a generic function for 'toeplitz' from package 'stats' in package 'Matrix'
** help
*** installing help indices
  converting help for package 'Matrix'
    finding HTML links ... done
    BunchKaufman-methods                    html  
    CAex                                    html  
    CHMfactor-class                         html  
    Cholesky-class                          html  
    Cholesky                                html  
    CsparseMatrix-class                     html  
    Diagonal                                html  
    Hilbert                                 html  
    KNex                                    html  
    KhatriRao                               html  
    LU-class                                html  
    Matrix-class                            html  
    Matrix                                  html  
    MatrixClass                             html  
    MatrixFactorization-class               html  
    RsparseMatrix-class                     html  
    Schur-class                             html  
    Schur                                   html  
    SparseM-conv                            html  
    Subassign-methods                       html  
    TsparseMatrix-class                     html  
    USCounties                              html  
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/USCounties.Rd:22: missing file link 'as_dsTMatrix_listw'
    Xtrct-methods                           html  
    abIndex-class                           html  
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/abIndex-class.Rd:80: missing file link 'Ops'
    abIseq                                  html  
    all-methods                             html  
    all.equal-methods                       html  
    atomicVector-class                      html  
    band                                    html  
    bandSparse                              html  
    bdiag                                   html  
    boolean-matprod                         html  
    cBind                                   html  
    chol                                    html  
    chol2inv-methods                        html  
    colSums                                 html  
    compMatrix-class                        html  
    condest                                 html  
    dMatrix-class                           html  
    ddenseMatrix-class                      html  
    ddiMatrix-class                         html  
    denseMatrix-class                       html  
    dgCMatrix-class                         html  
    dgRMatrix-class                         html  
    dgTMatrix-class                         html  
    dgeMatrix-class                         html  
    diagU2N                                 html  
    diagonalMatrix-class                    html  
    dpoMatrix-class                         html  
    drop0                                   html  
    dsCMatrix-class                         html  
    dsRMatrix-class                         html  
    dsparseMatrix-class                     html  
    dsyMatrix-class                         html  
    dtCMatrix-class                         html  
    dtRMatrix-class-def                     html  
    dtpMatrix-class                         html  
    dtrMatrix-class                         html  
    expand                                  html  
    expm                                    html  
    externalFormats                         html  
    facmul                                  html  
    forceSymmetric                          html  
    formatSparseM                           html  
    generalMatrix-class                     html  
    graph2T                                 html  
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/graph2T.Rd:60: missing file link 'graph.adjacency'
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/graph2T.Rd:61: missing file link 'get.adjacency'
    image-methods                           html  
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/image-methods.Rd:53: missing file link 'panel.levelplot.raster'
    indMatrix-class                         html  
    index-class                             html  
    invPerm                                 html  
    is.na-methods                           html  
    is.null.DN                              html  
    isSymmetric-methods                     html  
    isTriangular                            html  
    kronecker-methods                       html  
    ldenseMatrix-class                      html  
    ldiMatrix-class                         html  
    lgeMatrix-class                         html  
    lsparseMatrix-classes                   html  
    lsyMatrix-class                         html  
    ltrMatrix-class                         html  
    lu                                      html  
    matrix-products                         html  
Rd warning: /tmp/RtmpdPELYr/R.INSTALLf3a57f794ff/Matrix/man/matrix-products.Rd:405: missing file link 'tcrossprod'
    nMatrix-class                           html  
    ndenseMatrix-class                      html  
    nearPD                                  html  
    ngeMatrix-class                         html  
    nnzero                                  html  
    norm                                    html  
    nsparseMatrix-classes                   html  
    nsyMatrix-class                         html  
    ntrMatrix-class                         html  
    number-class                            html  
    pMatrix-class                           html  
    printSpMatrix                           html  
    qr-methods                              html  
    rankMatrix                              html  
    rcond                                   html  
    rep2abI                                 html  
    replValue-class                         html  
    rleDiff-class                           html  
    rsparsematrix                           html  
    solve-methods                           html  
    spMatrix                                html  
    sparse.model.matrix                     html  
    sparseLU-class                          html  
    sparseMatrix-class                      html  
    sparseMatrix                            html  
    sparseQR-class                          html  
    sparseVector-class                      html  
    sparseVector                            html  
    symmetricMatrix-class                   html  
    symmpart                                html  
    triangularMatrix-class                  html  
    uniqTsparse                             html  
    unpack                                  html  
    unused-classes                          html  
    updown                                  html  
** building package indices
Loading required package: Matrix
** installing vignettes
** testing if installed package can be loaded
* DONE (Matrix)
Making 'packages.html' ... done