Displaying 16 results from an estimated 16 matches for "mklroot".
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2017 Apr 20
2
Intel MKL compiling issue
...el MKL -- I have been successful until R 3.3.3 but now it stops complaining about pcre though it worked without Intel MKL as follows,
./configure LDFLAGS=-L/genetics/data/software/lib CFLAGS=-fPIC -I/genetics/data/software/include --enable-R-shlib
I have used,
export MKL_NUM_THREADS=15
export MKLROOT=/genetics/data/software/intel/composer_xe_2013.4.183/mkl
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$MKLROOT/lib/intel64
/genetics/data/software/intel/composer_xe_2013.4.183/mkl/bin/mklvars.sh intel64
CPPFLAGS="-I/genetics/data/software/include -L/genetics/data/software/lib" \
./configure --...
2020 Jul 10
3
Compilation error for R 4.0.2
...DIR "/uufs/chpc.utah.edu/sys/installdir/pcre2/10.35"
setenv PATH ${PCRE2DIR}/bin:$PATH
Setting Compiler & linker flags:
setenv CC icc
setenv CXX icpc
setenv F77 ifort
setenv FC ifort
setenv CFLAGS " -axCORE-AVX512,CORE-AVX2,AVX,SSE4.2 -O3 -qopenmp
-fp-model precise -fPIC -I${MKLROOT}/include -I${CURLDIR}/include
-I${PCRE2DIR}/include "
setenv CXXFLAGS " ${CFLAGS} "
setenv FFLAGS " ${CFLAGS} "
setenv FCFLAGS " ${CFLAGS} "
setenv LDFLAGS " -Wl,-rpath=${MKLROOT}/lib/intel64_lin
-L${MKLROOT}/lib/intel64_lin -lmkl_intel_...
2015 Sep 04
2
Build R with MKL and ICC
....2
> >
> > Here is my build configuration:
> >
> > -------------------------------------------------------
> > source /opt/intel/compilers_and_libraries_2016/linux/mkl/bin/mklvars.sh intel64
> > source /opt/intel/bin/compilervars.sh intel64
> > _mkllibpath=$MKLROOT/lib/intel64
> > _icclibpath=$MKLROOT/linux/compiler/lib
> > export LD_LIBRARY_PATH=${_mkllibpath}:${_icclibpath}
> > export MKL="-L${_mkllibpath} -L${_icclibpath} -lmkl_intel_lp64
> > -lmkl_intel_thread -lmkl_core -liomp5 -lpthread"
> > export CC="icc&q...
2015 Sep 30
1
Build R with MKL and ICC
...-------------------------------------------------------
#! /bin/sh
source /opt/intel/compilers_and_libraries_2016.0.109/linux/mkl/bin/mklvars.sh
intel64
source /opt/intel/bin/compilervars.sh intel64
_icclibpath=/opt/intel/compilers_and_lbraries_2016.0.109/linux/compiler/lib/intel64/
_mkllibpath=${MKLROOT}/lib/intel64/
_omp_lib=/opt/intel/lib/intel64/
MKL=" -L${_mkllibpath} -lmkl_rt -lpthread"
export CC="icc"
export CXX="icpc"
export AR="xiar"
export LD="xild"
export F77="ifort"
export CFLAGS="-g -O3 -xHost -I${MKLROOT}/include"...
2015 Sep 02
4
Build R with MKL and ICC
...l name:
Intel(R) Core(TM) i7-2600K CPU @ 3.40GHz - Sandybridge
R-3.2.2
Here is my build configuration:
-------------------------------------------------------
source /opt/intel/compilers_and_libraries_2016/linux/mkl/bin/mklvars.sh intel64
source /opt/intel/bin/compilervars.sh intel64
_mkllibpath=$MKLROOT/lib/intel64
_icclibpath=$MKLROOT/linux/compiler/lib
export LD_LIBRARY_PATH=${_mkllibpath}:${_icclibpath}
export MKL="-L${_mkllibpath} -L${_icclibpath} -lmkl_intel_lp64
-lmkl_intel_thread -lmkl_core -liomp5 -lpthread"
export CC="icc"
export F77="ifort"
export CXX="...
2017 Apr 20
1
Intel MKL compiling issue
On our Scientific Linux 6, there is
gcc --version
gcc (GCC) 4.4.7 20120313 (Red Hat 4.4.7-17)
and later version (a symbolic at HOME to the system directory),
export MKL=/home/jhz22/11.3.3.210/mkl
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$MKLROOT/lib/intel64
./configure --prefix=/home/jhz22 LDFLAGS=-L/home/jhz22/lib CPPFLAGS=-I/home/jhz22/include \
--enable-R-shlib --with-lapack \
--with-blas="-fopenmp -m64 -I$MKL/include -L$MKL/lib/intel64 -lmkl_gf_lp64 -lmkl_gnu_thread -lmkl_core -lpthread -lm"
The errors are as follows,
/u...
2017 Apr 20
0
Intel MKL compiling issue
....3 but now it stops complaining about pcre though it worked without Intel MKL as follows,
>
>
> ./configure LDFLAGS=-L/genetics/data/software/lib CFLAGS=-fPIC -I/genetics/data/software/include --enable-R-shlib
>
>
> I have used,
>
>
> export MKL_NUM_THREADS=15
> export MKLROOT=/genetics/data/software/intel/composer_xe_2013.4.183/mkl
> export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$MKLROOT/lib/intel64
> /genetics/data/software/intel/composer_xe_2013.4.183/mkl/bin/mklvars.sh intel64
> CPPFLAGS="-I/genetics/data/software/include -L/genetics/data/software/lib" \...
2015 Sep 02
0
Build R with MKL and ICC
...@ 3.40GHz - Sandybridge
> R-3.2.2
>
> Here is my build configuration:
>
> -------------------------------------------------------
> source /opt/intel/compilers_and_libraries_2016/linux/mkl/bin/mklvars.sh intel64
> source /opt/intel/bin/compilervars.sh intel64
> _mkllibpath=$MKLROOT/lib/intel64
> _icclibpath=$MKLROOT/linux/compiler/lib
> export LD_LIBRARY_PATH=${_mkllibpath}:${_icclibpath}
> export MKL="-L${_mkllibpath} -L${_icclibpath} -lmkl_intel_lp64
> -lmkl_intel_thread -lmkl_core -liomp5 -lpthread"
> export CC="icc"
> export F77=&quo...
2015 Sep 05
0
Build R with MKL and ICC
...t; Here is my build configuration:
>> >
>> > -------------------------------------------------------
>> > source /opt/intel/compilers_and_libraries_2016/linux/mkl/bin/mklvars.sh intel64
>> > source /opt/intel/bin/compilervars.sh intel64
>> > _mkllibpath=$MKLROOT/lib/intel64
>> > _icclibpath=$MKLROOT/linux/compiler/lib
>> > export LD_LIBRARY_PATH=${_mkllibpath}:${_icclibpath}
>> > export MKL="-L${_mkllibpath} -L${_icclibpath} -lmkl_intel_lp64
>> > -lmkl_intel_thread -lmkl_core -liomp5 -lpthread"
>> > e...
2015 Sep 29
2
Build R with MKL and ICC
On Wed, Sep 9, 2015 at 11:26 PM, Nathan Kurz <nate at verse.com> wrote:
>
> As a short and simple approach, I just compiled the current R release
> on Ubuntu with ICC and MKL using just this:
>
> $ tar -xzf R-3.2.2.tar.gz
> $ cd R-3.2.2
> $ CC=icc CXX=icpc AR=xiar LD=xild CFLAGS="-g -O3 -xHost" CXXFLAGS="-g
> -O3 -xHost" ./configure
2020 Jul 11
0
Compilation error for R 4.0.2
...ldir/pcre2/10.35"
> setenv PATH ${PCRE2DIR}/bin:$PATH
> Setting Compiler & linker flags:
> setenv CC icc
> setenv CXX icpc
> setenv F77 ifort
> setenv FC ifort
> setenv CFLAGS " -axCORE-AVX512,CORE-AVX2,AVX,SSE4.2 -O3 -qopenmp
> -fp-model precise -fPIC -I${MKLROOT}/include -I${CURLDIR}/include
> -I${PCRE2DIR}/include "
What I guess you should do is
/path/to/configure CPPFLAGS="-I${PCRE2DIR}/include ......"
make
Hth
-k
> setenv CXXFLAGS " ${CFLAGS} "
> setenv FFLAGS " ${CFLAGS} "
> sete...
2015 Sep 07
2
Build R with MKL and ICC
...guration:
> >> >
> >> > -------------------------------------------------------
> >> > source /opt/intel/compilers_and_libraries_2016/linux/mkl/bin/mklvars.sh intel64
> >> > source /opt/intel/bin/compilervars.sh intel64
> >> > _mkllibpath=$MKLROOT/lib/intel64
> >> > _icclibpath=$MKLROOT/linux/compiler/lib
> >> > export LD_LIBRARY_PATH=${_mkllibpath}:${_icclibpath}
> >> > export MKL="-L${_mkllibpath} -L${_icclibpath} -lmkl_intel_lp64
> >> > -lmkl_intel_thread -lmkl_core -liomp5 -lpthread&q...
2017 Apr 19
2
Default R-3.4.0 RC CXXFLAGS without -O2 on x86_64-linux-gnu with g++-5.4.0 causes WARNING from stl_list.h
Hi r-devel,
a recent install of R-3.4.0 RC (2017-04-13 r72510)?
on Linux (Ubuntu 16.04.1 LTS) x86_64-linux-gnu?
with?g++ (Ubuntu 5.4.0-6ubuntu1~16.04.4) 5.4.0 20160609
(see?http://bioconductor.org/checkResults/devel/bioc-LATEST/malbec2-NodeInfo.html?for more)?
results in CXXFLAGS not containing "-O2" as optimisation flag,
there is only " -Wall", while?CFLAGS are happy with
2023 Jun 20
1
Installation of R-4.3.1 with intel 2022
...nfig.h
Using this workaroud I get R with:
BLAS/LAPACK: /opt/intel/oneapi_2022.2.0/mkl/2022.1.0/lib/intel64/libmkl_intel_lp64.so.2; LAPACK version 3.9.0
is correct?
Is these a way to avoid arithmetic issue?
My configure is:
module load intel-2021.6.0/2021.6.0 oneapi-2022.1.0/mkl
MKL="-L${MKLROOT}/lib/intel64 -lmkl_gf_lp64 -lmkl_core -lmkl_gnu_thread -dl -fopenmp"
export CC="icc -std=c99"
export CFLAGS="-g -O3 -wd188 -ip -mp"
export FC=ifort
export FLAGS="-g -O3 -mp"
export CXX=icpc
export CXXFLAGS="-g -O3 -mp"
SHLIB_CXXLD=icpc
export MKL_INTERFA...
2023 Jul 18
2
Installation of R-4.3.1 with intel 2022
...22.2.0/mkl/2022.1.0/lib/intel64/libmkl_intel_lp64.so.2;? LAPACK version 3.9.0
>>
>> is correct?
>>
>> Is these a way to avoid arithmetic issue?
>>
>> My configure is:
>>
>> module load intel-2021.6.0/2021.6.0 oneapi-2022.1.0/mkl
>> MKL="-L${MKLROOT}/lib/intel64 -lmkl_gf_lp64 -lmkl_core
>> -lmkl_gnu_thread -dl -fopenmp"
>> export CC="icc -std=c99"
>> export CFLAGS="-g -O3 -wd188 -ip -mp"
>> export FC=ifort
>> export FLAGS="-g -O3 -mp"
>> export CXX=icpc
>> export CXX...
2011 Jul 28
1
intermittent problems obtaining shell with gssapi-with-mic
...0: send open
debug1: Requesting no-more-sessions at openssh.com
debug1: Entering interactive session.
debug3: Wrote 128 bytes for a total of 2101
debug2: callback start
debug2: client_session2_setup: id 0
debug2: channel 0: request pty-req confirm 1
debug1: Sending environment.
debug3: Ignored env MKLROOT
debug3: Ignored env MANPATH
debug3: Ignored env ORBIT_SOCKETDIR
debug3: Ignored env HOSTNAME
debug3: Ignored env IMSETTINGS_INTEGRATE_DESKTOP
debug3: Ignored env INTEL_LICENSE_FILE
debug3: Ignored env GPG_AGENT_INFO
debug3: Ignored env SHELL
debug3: Ignored env TERM
debug3: Ignored env HISTSIZE
deb...