topic Thanks Prashanth for the in Intel® MPI Library

ntel_Parallel_Studio_XE_Cluster_Edition_2019_Update4_Linux_ubuntu18.04

ab1 — Sun, 23 Feb 2020 10:46:11 GMT

Sir

the installed version of ifort is 19.0.4.243 on ubuntu 18.04. the intel parallel studio xe (clusters) 2019 is the version

i am getting difficulty while compiling ARPACk-NG. It was downloaded from https://github.com/opencollab/arpack-ng/releases

i am following commands mentioned in read.md file to compile ARPACK-NG using CMake functionality:

    $ mkdir build
    $ cd build
    $ cmake -D EXAMPLES=ON -D MPI=ON -D BUILD_SHARED_LIBS=ON ..
    $ make
    $ make install

it is expected to build everything including examples and parallel support (with MPI).

-- Detecting Fortran/C Interface - Failed to compile
CMake Warning (dev) at /usr/share/cmake-3.10/Modules/FortranCInterface.cmake:309 (message):
No FortranCInterface mangling known for sgemm

The Fortran compiler:

/opt/intel/compilers_and_libraries_2019.4.243/linux/mpi/intel64/bin/mpiifort

and the C compiler:

/opt/intel/compilers_and_libraries_2019.4.243/linux/bin/intel64/icc

failed to compile a simple test project using both languages.

my bashfile has

source /opt/intel/compilers_and_libraries_2019/linux/bin/compilervars.sh intel64
source /opt/intel/compilers_and_libraries_2019.4.243/linux/mkl/bin/mklvars.sh intel64 ilp64 mod

export CMAKE_INCLUDE_PATH=/opt/intel/compilers_and_libraries_2019.4.243/linux/mkl/include
export CMAKE_LIBRARY_PATH=/opt/intel/compilers_and_libraries_2019.4.243/linux/mkl/lib/intel64:/opt/intel/compilers_and_libraries_2019.4.243/linux/compiler/lib/intel64
export LD_LIBRARY_PATH=$CMAKE_LIBRARY_PATH:$LD_LIBRARY_PATH

    export MKLROOT=/opt/intel/mkl
       export FCFLAGS=-i8
     export FFLAGS="-i8"

   export CC=$(which icc)
    export CXX=$(which icpc)
    export FC=$(which mpiifort)

kindly let me know where i am making a mistake.

thanks

Hi,

PrasanthD_intel — Mon, 24 Feb 2020 12:13:00 GMT

Hi,

We have tried to reproduce the issue and the cmake ran successfully.

The issue you might be facing is the required impi and fortan compilers are not properly loaded.

Try sourcing the latest version of impi and fortran again and run the cmake.

source /opt/intel/compilers_and_libraries_<version>/linux/bin/compilervars.sh intel64

source <installdir>/intel64/bin/mpivars.sh

Could you please tell me the output of which mpiifort.

Thanks
Prasanth

Hi,

PrasanthD_intel — Fri, 28 Feb 2020 05:42:27 GMT

Hi,

Has the given solution worked for you, are you able to run cmake successfully.

Do let us know.

Reach out to us if you need any further help.

Thanks

Prasanth

Thanks prashanth

sahgal__vardaan — Fri, 28 Feb 2020 14:05:25 GMT

Thanks prashanth

I tried to compile cmake -D EXAMPLES=ON -D INTERFACE64=ON -D MPI=ON -D BUILD_SHARED_LIBS=ON ..

however i am not sure if it has correctly compiled . I am not able to find detailed like integer size / 64 bit interface in build output

2 how can i get arpack.a files. i know ar q libarpack.a *.o will create archives but the issue is .f files are scattered in several directories like src/ util/ parpack.....\ which one should i consider if its sequentially compiled or using MPI

thanks

Hi Vardaan,

PrasanthD_intel — Tue, 03 Mar 2020 08:02:21 GMT

Hi Vardaan,

1)I am attaching my cmake output ,here you can see from the highlighted line

INTERFACE64 :1

The 64-bit integer interface (ILP64) for ARPACK, BLAS and LAPACK is set to 1. Are you looking for this?

2)Regarding the second point , could you please rephrase the question with more information of what you want.

Thanks

Prasanth

Thanks Prashanth for all the

sahgal__vardaan — Tue, 03 Mar 2020 17:24:00 GMT

Thanks Prashanth for all the pains taken and presenting in a more simple form. I loved the pics attached.

my output differs from yours in several ways

-- MPIFC: blank wheras it mentions in your output

-- BLAS:

-- link: /usr/lib/x86_64-linux-gnu/libopenblas.so

-- LAPACK:

-- link: /usr/lib/x86_64-linux-gnu/libopenblas.so

-- link: /usr/lib/x86_64-linux-gnu/libopenblas.so

why is it so ? i understand we are using different compilers. Though I am using intel but i am not getting same files (.so) as yours. there is no intel file ? is it because of environment settings ? how can get same as that yours. I strongly feel mixing is taking place which is affecting me later. It appears I am not using intel mkl libraries .....

My 2nd question is I require archive file of arpack ie libarpack.a.a files

The Cmake command does not produce libarpack.a file (if i am not mistaken). it needs to be created manually using ar q libarpack.a *.o

my concern is the .o files are in SRC, UTIL and Parpack directories and may also be elsewhere ARPACK-NG folder. which folder should i consider if i am working with MPI/64 bit interface with MPI=ON

2b what is parapck

3 If I am compiling using simple ifort (without mpi) shoud i keep MPI=0 or OFF and subsquently do i need parpack files

deepest regards

Hi Vardaan,

PrasanthD_intel — Thu, 05 Mar 2020 10:26:53 GMT

Hi Vardaan,

1) The BLAS and LAPACk comes with intel mkl. As you have parallel studio installed mkl is included in that.

Please check your mkl installation by following below link:

https://software.intel.com/en-us/onemkl-linux-developer-guide-checking-your-installation

Set the environment variables by running the scripts as mentioned in the below link:

https://software.intel.com/en-us/onemkl-linux-developer-guide-setting-environment-variables

2) The PARPACK as mentioned in the readme.md file means Parallel ARPACK routines. The subroutines invloving MPI are considered as parallel and placed under PARPACK . If you want to use MPI subroutines you have to include the *.o files in PARPACK in the static library you are creating.

3) If you do not want the MPI subroutines you can exclude them by setting a flag in CMAKE -D MPI=OFF which will disable the parallel support and PARPACK will not be created.

If your initial query is resolved please raise a new thread for any further questions.

Thanks

Prasanth

hi Prashanth

sahgal__vardaan — Thu, 05 Mar 2020 15:57:37 GMT

hi Prashanth

My simple query is what commands do i need to compile ARPACk using interl compiler and MKL libraries...

by defaults it is taking GNU libraries. example: to test arpack with sequential ILP64 MKL assuming you use gnu compilers
    ```$ ./bootstrap
    $ export FFLAGS='-I/usr/include/mkl'
    $ export FCFLAGS='-I/usr/include/mkl'
    $ export LIBS='-Wl,--no-as-needed -lmkl_sequential -lmkl_core -lpthread -lm -ldl'
    $ export INTERFACE64=1
    $ ./configure --with-blas=mkl_gf_ilp64 --with-lapack=mkl_gf_ilp64
    $ make all check```

How to use INTEL MLL LIb

The sceenshot that you sent, seems the RPACK was compiled using MKL libraries.

thanks

Hi Vardaan,

PrasanthD_intel — Mon, 09 Mar 2020 13:17:36 GMT

Hi Vardaan,

I have provided you links for steps on how to load intel libraries and compilers you want use.

Here i am again providing the steps to load compilers(icc,mkl,mpi) you need to build your project. Please follow the below steps and confirm:

By default, <install_dir> is:

For root users: /opt/intel/

For non-root users: $HOME/intel/

1)Intel C Compiler/Fortran compiler

source <install_dir>/compilers_and_libraries_2020.<update number>.<package number>/linux/bin/compilervars.sh <ia32|intel64>

2)Intel MPI

source <install_dir>/compilers_and_libraries_<version>/linux/mpi/mpivars.sh

https://software.intel.com/en-us/get-started-with-mpi-for-linux

3) Intel MKL

source <install_dir>/compilers_and_libraries_<version>/linux/mkl/bin/mklvars.sh <intel64 mod ilp64>

https://software.intel.com/en-us/onemkl-linux-developer-guide-scripts-to-set-environment-variables

https://software.intel.com/en-us/mkl-macos-developer-guide-using-the-ilp64-interface-vs-lp64-interface

After loading these scripts set these environment variables to use intel compilers instead of GNU compilers

export CC=$(which icc)
export CXX=$(which icpc)
export FC=$(which mpiifort)

These scripts sets all the required environment variables required for intel compilers.

Let me know if you face any errors

Thanks

Prasanth

[quote=Dwadasi, Prasanth

ab1 — Mon, 09 Mar 2020 17:22:14 GMT

Dwadasi, Prasanth (Intel) wrote:
Hi Vardaan,
1)I am attaching my cmake output ,here you can see from the highlighted line
INTERFACE64 :1
The 64-bit integer interface (ILP64) for ARPACK, BLAS and LAPACK is set to 1. Are you looking for this?
2)Regarding the second point , could you please rephrase the question with more information of what you want.

Thanks
Prasanth
can you pl expalin how do you get link mentioned in MPIFC ?I coud not get it

thanks

Thanks Prashanth for the

ab1 — Mon, 09 Mar 2020 17:23:28 GMT

Thanks Prashanth for the reply which i was looking for. It is very useful for a fresher like me.

Pl dont mind, if have 2 simple clarifications

1 Interface Libraries and Modules page 53 of the link

https://software.intel.com/sites/default/files/mkl-2020-developer-guide-mac.pdf

libmkl_blas95_ilp64.a Fortran 95 wrappers for BLAS (BLAS95) supporting LP64interface.

libmkl_lapack95_ilp64.a Fortran 95 wrappers for LAPACK (LAPACK95) supporting ILP64interface.

is it correct description given in above link blas95_ilp is for LP64 interface ! though it has ilp

2 Defaults MKLROOT refers to link =/opt/intel/mkl or /opt/intel/compilers_and_libraries_2019.40.243/linux/mkl in my case ?

thanks for being so patient and helping me

Hi Vardaan,

PrasanthD_intel — Thu, 12 Mar 2020 08:25:55 GMT

Hi Vardaan,

1)I don't have a cluster edition of Parallel Studio so the MPI that comes with it does not include Fortran support. I have installed IMPI separately that's why the MPIFC is different from yours.

2)Looks like there is a mistake in the documentation the descriptions got reversed it seems.

3)The default MKLROOT for Parallel Studio is /opt/intel/compilers_and_libraries_2019.40.243/linux/mkl which was set while you source the mkl scripts.

Are you able to build your project now, if so can we close this thread?

Please raise a new thread if your initial query is resolved,

Thanks

Prasanth

Hi,

PrasanthD_intel — Tue, 17 Mar 2020 05:19:01 GMT

Hi,

Is the build successful? Are you facing any errors?

Let us know if you need any help.

Thanks

Prasanth

Hi,

PrasanthD_intel — Tue, 24 Mar 2020 06:25:06 GMT

Hi,

We are closing this assuming your problem is resolved.

Please raise a new thread for any further queries.

Thanks

Prasanth