cleanup, fixed paths
This commit is contained in:
parent
e00fd27820
commit
faf99ebc92
235
install-env.sh
235
install-env.sh
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@ -1,14 +1,9 @@
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#!/bin/bash
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#!/bin/bash
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# TODO: move from /root to /opt
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WGET_OPTIONS="--no-check-certificate"
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WGET_OPTIONS="--no-check-certificate"
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MRO_VERSION="3.2.4"
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MRO_VERSION="3.2.4"
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# update debian repos & upgrade packages
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# update debian repos & upgrade packages
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sed -i -e 's/ftp.debian.org/ftp.pl.debian.org/ig' /etc/apt/sources.list
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sed -i -e 's/wheezy/jessie/ig' /etc/apt/sources.list
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apt-get update
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apt-get update
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DEBIAN_FRONTEND=noninteractive apt-get -y -o Dpkg::Options::="--force-confdef" -o Dpkg::Options::="--force-confnew" upgrade
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DEBIAN_FRONTEND=noninteractive apt-get -y -o Dpkg::Options::="--force-confdef" -o Dpkg::Options::="--force-confnew" upgrade
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@ -26,69 +21,87 @@ gdebi -n MRO-${MRO_VERSION}-Ubuntu-15.4.x86_64.deb
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rm MRO-${MRO_VERSION}-Ubuntu-15.4.x86_64.deb
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rm MRO-${MRO_VERSION}-Ubuntu-15.4.x86_64.deb
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# make symbolic link to R libraries dir
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# make symbolic link to R libraries dir
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ln -s /usr/lib64/MRO-${MRO_VERSION}/R-${MRO_VERSION}/lib/R/lib/ /opt/MRO-lib
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ln -s /usr/lib64/MRO-${MRO_VERSION}/R-${MRO_VERSION}/lib/R/lib/ /opt/MRO-lib
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############################################################
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# make directory for BLAS and LAPACK libraries
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# BLAS CPU #
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mkdir -p /opt/blap-lib/
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############################################################
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########################
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# Generic BLAS & LAPACK install/uninstall in R:
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# netlib - http://www.netlib.org/blas/ - reference singlethread
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#
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########################
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# install: mv /opt/MRO-lib/libRblas.so /opt/MRO-lib/libRblas.so.orig
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# already in R
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########################
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# ATLAS - http://math-atlas.sourceforge.net/ - generic singlethread
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########################
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# install: apt-get -y install libatlas3-base
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# mv /opt/MRO-lib/libRblas.so /opt/MRO-lib/libRblas.so.orig
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# mv /opt/MRO-lib/libRlapack.so /opt/MRO-lib/libRlapack.so.orig
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# mv /opt/MRO-lib/libRlapack.so /opt/MRO-lib/libRlapack.so.orig
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# ln -s /usr/lib/atlas-base/atlas/libblas.so.3 /opt/MRO-lib/libRblas.so
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# ln -s /opt/blap-lib/xxx/libblas.so /opt/MRO-lib/libRblas.so
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# ln -s /usr/lib/atlas-base/atlas/liblapack.so.3 /opt/MRO-lib/libRlapack.so
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# ln -s /opt/blap-lib/xxx/liblapack.so /opt/MRO-lib/libRlapack.so
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#
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# uninstall: rm /opt/MRO-lib/libRblas.so
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# uninstall: rm /opt/MRO-lib/libRblas.so
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# rm /opt/MRO-lib/libRlapack.so
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# rm /opt/MRO-lib/libRlapack.so
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# mv /opt/MRO-lib/libRblas.so.orig /opt/MRO-lib/libRblas.so
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# mv /opt/MRO-lib/libRblas.so.orig /opt/MRO-lib/libRblas.so
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# mv /opt/MRO-lib/libRlapack.so.orig /opt/MRO-lib/libRlapack.so
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# mv /opt/MRO-lib/libRlapack.so.orig /opt/MRO-lib/libRlapack.so
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# apt-get -y purge libatlas3-base
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########################
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##############################################################
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# OpenBLAS - libopenblas-base - http://www.openblas.net/ - multithread
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##############################################################
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########################
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## CPU ##
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##############################################################
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##############################################################
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# install: apt-get -y install libopenblas-base
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##############################################################
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# mv /opt/MRO-lib/libRblas.so /opt/MRO-lib/libRblas.so.orig
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# netlib #
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# mv /opt/MRO-lib/libRlapack.so /opt/MRO-lib/libRlapack.so.orig
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# - http://www.netlib.org/ #
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# ln -s /usr/lib/openblas-base/libblas.so.3 /opt/MRO-lib/libRblas.so
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# - BLAS + LAPACK #
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# ln -s /usr/lib/openblas-base/liblapack.so.3 /opt/MRO-lib/libRlapack.so
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# - single-threaded (reference) #
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##############################################################
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# uninstall: rm /opt/MRO-lib/libRblas.so
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mkdir /opt/blap-lib/netlib/
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# rm /opt/MRO-lib/libRlapack.so
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# mv /opt/MRO-lib/libRblas.so.orig /opt/MRO-lib/libRblas.so
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# mv /opt/MRO-lib/libRlapack.so.orig /opt/MRO-lib/libRlapack.so
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# apt-get -y purge libopenblas-base
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########################
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apt-get -y install libblas3 liblapack3
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# ATLAS multithread - http://math-atlas.sourceforge.net/ - multithread
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########################
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cp /usr/lib/libblas/libblas.so.3.0 /opt/blap-lib/netlib/
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cp /usr/lib/lapack/liblapack.so.3.0 /opt/blap-lib/netlib/
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apt-get -y purge libblas3 liblapack3
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##############################################################
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# ATLAS (st) #
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# - http://math-atlas.sourceforge.net/ #
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# - BLAS + LAPACK #
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# - single-threaded #
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##############################################################
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mkdir /opt/blap-lib/atlas-st/
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apt-get -y install libatlas3-base
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cp /usr/lib/atlas-base/atlas/libblas.so.3 /opt/blap-lib/atlas-st/
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cp /usr/lib/atlas-base/atlas/liblapack.so.3 /opt/blap-lib/atlas-st/
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apt-get -y purge libatlas3-base
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##############################################################
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# OpenBLAS #
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# - http://www.openblas.net/ #
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# - BLAS + LAPACK #
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# - multi-threaded #
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##############################################################
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mkdir /opt/blap-lib/openblas/
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apt-get -y install libopenblas-base
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cp /usr/lib/openblas-base/libblas.so.3 /opt/blap-lib/openblas/
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cp /usr/lib/openblas-base/liblapack.so.3 /opt/blap-lib/openblas/
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apt-get -y purge libopenblas-base
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##############################################################
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# ATLAS (mt) #
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# - http://math-atlas.sourceforge.net/ #
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# - BLAS + LAPACK #
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# - multi-threaded #
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##############################################################
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# disable CPU throttling!
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# disable CPU throttling!
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# netlib lapack
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mkdir /opt/blap-lib/atlas-mt/
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#
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#wget ${WGET_OPTIONS} http://www.netlib.org/lapack/lapack-3.6.0.tgz
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#tar -xvf lapack-3.6.0.tgz
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#rm lapack-3.6.0.tgz
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#
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#cd lapack-3.6.0
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#cp make.inc.example make.inc
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#make lapacklib -j `nproc`
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#cd ..
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# atlas
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curl -L https://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.38/atlas3.11.38.tar.bz2/download > atlas3.11.38.tar.bz2
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curl -L https://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.38/atlas3.11.38.tar.bz2/download > atlas3.11.38.tar.bz2
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tar -xvf atlas3.11.38.tar.bz2
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tar -xvf atlas3.11.38.tar.bz2
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wget ${WGET_OPTIONS} http://www.netlib.org/lapack/lapack-3.6.0.tgz
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wget ${WGET_OPTIONS} http://www.netlib.org/lapack/lapack-3.6.0.tgz
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../configure --shared --with-netlib-lapack-tarfile=/root/blas-benchmark/ATLAS/build/lapack-3.6.0.tgz
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../configure --shared --with-netlib-lapack-tarfile=`pwd`/lapack-3.6.0.tgz
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make
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make
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rm lapack-3.6.0.tgz
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cp lib/libtatlas.so /opt/blap-lib/atlas-mt/
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########################
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cd ../../
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# GotoBLAS2 - https://prs.ism.ac.jp/~nakama/SurviveGotoBLAS2/ - multithread
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rm -r ATLAS
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########################
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##############################################################
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# GotoBLAS2 #
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# - https://prs.ism.ac.jp/~nakama/SurviveGotoBLAS2/ #
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# - BLAS + LAPACK #
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# - multi-threaded #
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##############################################################
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mkdir /opt/blap-lib/gotoblas2/
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wget ${WGET_OPTIONS} https://prs.ism.ac.jp/~nakama/SurviveGotoBLAS2/SurviveGotoBLAS2_3.141.tar.gz
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wget ${WGET_OPTIONS} https://prs.ism.ac.jp/~nakama/SurviveGotoBLAS2/SurviveGotoBLAS2_3.141.tar.gz
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tar -xvf SurviveGotoBLAS2_3.141.tar.gz
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tar -xvf SurviveGotoBLAS2_3.141.tar.gz
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make -j `nproc`
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make -j `nproc`
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cd ..
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cd ..
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# install: mv /opt/MRO-lib/libRblas.so /opt/MRO-lib/libRblas.so.orig
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cp survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_blas.so /opt/blap-lib/gotoblas2/
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# mv /opt/MRO-lib/libRlapack.so /opt/MRO-lib/libRlapack.so.orig
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cp survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_lapack.so /opt/blap-lib/gotoblas2/
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# ln -s /root/blas-benchmark/survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_blas.so /opt/MRO-lib/libRblas.so
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# ln -s /root/blas-benchmark/survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_lapack.so /opt/MRO-lib/libRlapack.so
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# ln -s /root/blas-benchmark/survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_blas.so /opt/MRO-lib/libgoto2_nehalemp-r3.141_blas.so
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# ln -s /root/blas-benchmark/survivegotoblas2-3.141/exports/libgoto2_nehalemp-r3.141_lapack.so /opt/MRO-lib/libgoto2_nehalemp-r3.141_lapack.so
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# uninstall: rm /opt/MRO-lib/libRblas.so
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rm -r survivegotoblas2-3.141
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# rm /opt/MRO-lib/libRlapack.so
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# rm /opt/MRO-lib/libgoto2_nehalemp-r3.141_blas.so
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# rm /opt/MRO-lib/libgoto2_nehalemp-r3.141_lapack.so
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# mv /opt/MRO-lib/libRblas.so.orig /opt/MRO-lib/libRblas.so
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# mv /opt/MRO-lib/libRlapack.so.orig /opt/MRO-lib/libRlapack.so
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########################
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##############################################################
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# MKL - https://mran.microsoft.com/documents/rro/multithread/ - multithread
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# MKL #
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########################
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# - https://mran.microsoft.com/documents/rro/multithread/ #
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# - BLAS + LAPACK #
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# - multi-threaded #
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##############################################################
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# install: cd ~/RevoMath ; echo 1 | ./RevoMath.sh
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mkdir /opt/blap-lib/mkl/
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# uninstall: cd ~/RevoMath ; echo 2 | ./RevoMath.sh
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wget ${WGET_OPTIONS} https://mran.microsoft.com/install/mro/${MRO_VERSION}/RevoMath-${MRO_VERSION}.tar.gz
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wget ${WGET_OPTIONS} https://mran.microsoft.com/install/mro/${MRO_VERSION}/RevoMath-${MRO_VERSION}.tar.gz
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tar -xvzf RevoMath-${MRO_VERSION}.tar.gz
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tar -xvzf RevoMath-${MRO_VERSION}.tar.gz
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rm RevoMath-${MRO_VERSION}.tar.gz
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rm RevoMath-${MRO_VERSION}.tar.gz
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sed -i '16,18d' RevoMath/RevoMath.sh
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sed -i '16,18d' RevoMath/RevoMath.sh
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########################
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mv RevoMath /opt/blap-lib/mkl/
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# BLIS - https://github.com/flame/blis - multithread
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########################
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# install: cd /opt/blap-lib/mkl/RevoMath ; echo 1 | ./RevoMath.sh
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# uninstall: cd /opt/blap-lib/mkl/RevoMath ; echo 2 | ./RevoMath.sh
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##############################################################
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# BLIS #
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# - https://github.com/flame/blis #
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# - BLAS #
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# - multi-threaded #
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##############################################################
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mkdir /opt/blap-lib/blis/
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git clone https://github.com/flame/blis.git
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git clone https://github.com/flame/blis.git
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cd blis
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cd blis
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make -j `nproc`
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make -j `nproc`
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cd ..
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cd ..
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# install: mv /opt/MRO-lib/libRblas.so /opt/MRO-lib/libRblas.so.orig
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cp `find ./blis/ -name "libblis.so"` /opt/blap-lib/blis/
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# ln -s `find /root/blas-benchmark/blis/ -name "libblis.so"` /opt/MRO-lib/libRblas.so
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# uninstall: rm /opt/MRO-lib/libRblas.so
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rm -r blis
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# mv /opt/MRO-lib/libRblas.so.orig /opt/MRO-lib/libRblas.so
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##############################################################
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##############################################################
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## GPU ##
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##############################################################
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##############################################################
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############################################################
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##############################################################
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# BLAS GPU #
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# clBLAS #
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############################################################
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# - https://github.com/clMathLibraries/clBLAS #
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# - BLAS #
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########################
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# - OpenCL #
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# clBLAS - https://github.com/clMathLibraries/clBLAS - OpenCL
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##############################################################
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########################
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git clone https://github.com/clMathLibraries/clBLAS.git
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git clone https://github.com/clMathLibraries/clBLAS.git
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########################
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##############################################################
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# cuBLAS/NVBLAS - https://developer.nvidia.com/cublas - CUDA
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# cuBLAS (NVBLAS) #
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########################
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# - https://developer.nvidia.com/cublas #
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# - BLAS #
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# - CUDA #
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##############################################################
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wget ${WGET_OPTIONS} http://developer.download.nvidia.com/compute/cuda/7.5/Prod/local_installers/cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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wget ${WGET_OPTIONS} http://developer.download.nvidia.com/compute/cuda/7.5/Prod/local_installers/cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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gdebi -n cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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gdebi -n cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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rm cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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rm cuda-repo-ubuntu1504-7-5-local_7.5-18_amd64.deb
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############################################################
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##############################################################
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# LAPACK GPU #
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# MAGMA #
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############################################################
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# - http://icl.cs.utk.edu/magma/software/ #
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# - LAPACK #
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# - OpenCL, CUDA #
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##############################################################
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########################
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##############################################################
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# MAGMA - http://icl.cs.utk.edu/magma/software/ - multithread GPU OpenCL/CUDA
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# CULA #
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########################
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# - http://www.culatools.com/ #
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# - LAPACK #
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########################
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# - CUDA #
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# CULA - http://www.culatools.com/ - multithread GPU CUDA
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##############################################################
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########################
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