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HDPenReg

Package: HDPenReg
Version: 0.93.1
Date: 2016-01-26
Title: High-Dimensional Penalized Regression
Authors@R: c(person("Quentin", "Grimonprez", role = c("aut","cre"), email =
"quentin.grimonprez@inria.fr"), person("Serge", "Iovleff", role = "aut"))
Copyright: inria 2013-2015
Depends: R (>= 3.0.2), rtkore (>= 0.9.2)
Imports: methods, Matrix
Description: Algorithms for lasso and fused-lasso problems: implementation of
the lars algorithm for lasso and fusion penalization and EM-based
algorithms for (logistic) lasso and fused-lasso penalization.
License: GPL (>= 2)
LinkingTo: rtkore, Rcpp
SystemRequirements: GNU make
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-01-26 10:15:09 UTC; grimonprez
Author: Quentin Grimonprez [aut, cre],
Serge Iovleff [aut]
Maintainer: Quentin Grimonprez <quentin.grimonprez@inria.fr>
Repository: CRAN
Date/Publication: 2016-01-26 23:06:38
● 2 images, 18 functions, 0 datasets
● Reverse Depends: 0
Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'HDPenReg' ...
** package 'HDPenReg' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  -c EMPenModels.cpp -o EMPenModels.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  -c larsR.cpp -o larsR.o
(cd ./HDPenReg && make all)
make[1]: Entering directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
(make -f lassoModels.mk)
make[2]: Entering directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/LassoSolver.cpp -c -o lassoModels/LassoSolver.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/FusedLassoPenalty.cpp -c -o lassoModels/FusedLassoPenalty.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/FusedLassoSolver.cpp -c -o lassoModels/FusedLassoSolver.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/LogisticLassoSolver.cpp -c -o lassoModels/LogisticLassoSolver.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/LogisticFusedLassoSolver.cpp -c -o lassoModels/LogisticFusedLassoSolver.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  lassoModels/CV.cpp -c -o lassoModels/CV.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  EMmain.cpp -c -o EMmain.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2  EMCVmain.cpp -c -o EMCVmain.o
ar -r lib/libHDPenReg.a lassoModels/LassoSolver.o lassoModels/FusedLassoPenalty.o lassoModels/FusedLassoSolver.o lassoModels/LogisticLassoSolver.o lassoModels/LogisticFusedLassoSolver.o lassoModels/CV.o EMmain.o EMCVmain.o
ar: creating lib/libHDPenReg.a
make[2]: Leaving directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
(make -f lars.mk)
make[2]: Entering directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/Lars.cpp -c -o lars/Lars.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/Path.cpp -c -o lars/Path.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/PathState.cpp -c -o lars/PathState.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/functions.cpp -c -o lars/functions.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/Fusion.cpp -c -o lars/Fusion.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   lars/Cvlars.cpp -c -o lars/Cvlars.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CppFlags()"` -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/rtkore/include" -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -DSTKBASEARRAYS=1  `/home/ddbj/local/lib64/R/bin/Rscript -e "rtkore:::CxxFlags()"` -fpic  -g -O2   larsRmain.cpp -c -o larsRmain.o
ar -r lib/libHDPenReg.a lars/Lars.o lars/Path.o lars/PathState.o lars/functions.o lars/Fusion.o lars/Cvlars.o larsRmain.o
make[2]: Leaving directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
make[1]: Leaving directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
(cd ./HDPenReg && make clean)
make[1]: Entering directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
(rm -f lassoModels/*.o)
(rm -f ./*.o)
(rm -f lars/*.o)
make[1]: Leaving directory '/tmp/RtmpXfvYgE/R.INSTALL243a60c25854/HDPenReg/src/HDPenReg'
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o HDPenReg.so EMPenModels.o larsR.o ./HDPenReg/lib/libHDPenReg.a -fopenmp -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/HDPenReg/libs
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'HDPenReg'
** help
*** installing help indices
  converting help for package 'HDPenReg'
    finding HTML links ... done
    EMcvfusedlasso                          html  
    EMcvlasso                               html  
    EMfusedlasso                            html  
    EMlasso                                 html  
    HDPenReg-package                        html  
    HDcvlars                                html  
    HDfusion                                html  
    HDlars                                  html  
    LarsPath-class                          html  
    coef.LarsPath                           html  
    coeff                                   html  
    computeCoefficients                     html  
    listToMatrix                            html  
    plot-methods                            html  
    plot.HDcvlars                           html  
    plotCoefficient                         html  
    predict.LarsPath                        html  
    simul                                   html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (HDPenReg)
Making 'packages.html' ... done