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RedHatEnterprise 6 years 1 week ago #31943

  • iknponza
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Hi all!
I tried to install telemac in parallel in a cluster
LSB Version: :base-4.0-amd64:base-4.0-noarch:core-4.0-amd64:core-4.0-noarch:graphics-4.0-amd64:graphics-4.0-noarch:printing-4.0-amd64:printing-4.0-noarch
Distributor ID: RedHatEnterpriseComputeNode
Description: Red Hat Enterprise Linux ComputeNode release 6.5 (Santiago)
Release: 6.5
Codename: Santiago
The available modules are:
/usr/share/Modules/modulefiles
dot module-git module-info modules null use.own

/opt/SC/modulefiles/aplicaciones
adf/2013.01(default) orca/4.0.1
admixture/1.3.0 PARI
amber/14 partitionfinder/2.1.1
amber/16 phylonet/2.4
beast/1.8.4 qchem/4.4-parallel-MPICH
beast2/2.4.6 qchem/4.4-serial-multicore
bpp/3.3 qchem/5.0-parallel-MPICH
cp2k/4.1 qchem/5.0-serial-multicore
csds/2018 quantum/5.0.2-d-mpi
desmond/2013.1 quantum/5.2.1-d-mpi
desmond/2015.1 quantum/5.4.0-d-gpu
desmond/2015.4 quantum/5.4.0-d-mpi
eman2/12.1(default) quantum/6.1
epw/3.0.0-d-mpi(default) quantum/6.2.1
epw/4.0.0-d-mpi RASPA/2.0-intel-15.0.1
exabayes/1.5(default) RAxML/8.2.10
gamess/R1_dic14-d-mpi rosetta/3.9
gaussian/2016.03 samtools/1.0-gcc-4.4.6-s-serial
gaussian/G09-C.01 siesta/3.2-d-mpi(default)
gaussian/G09-D.01 siesta/4.0.1
gaussian/G09-E.01(default) stacks/1.45
gromacs/4.6.7 stacks/2.2
gromacs/5.0.4 stacks2/2.0-b8c
gromacs51/5.1.4 thermo_pw/0.5.0
julia/0.5.1 transiesta/3.2
lammps/30Jul16 treePL/1
namd/2.10 velvet/1.2.10
ncbi-blast/2.2.31-intel-15.0.1 VinaLC/1.1.2
nco/4.5.0-intel-15.0.1 west/2.0.0
nwchem/6.5.26243(default) wien2k/14.2(default)
octopus/6.0 yaehmop/3.0.3-s-serial(default)
orca/3.0.2

/opt/SC/modulefiles/bibliotecas
bdw-gc/7.6.0
beagle/2.1.2
blitz++/0.10-intel-15.0.1
boost/1.6.0
cfitsio/3.370-intel-15.0.1
eigen/3.3.4
eispack/1.0.0-intel-15.0.1-q-serial(default)
fftw3/3.3.4-intel-15.0.1
glibc/2.14(default)
hdf5/1.8.15-intel-15.0.1
libatomic_ops/7.4.4
libint/1.1.5
libmatheval/1.1.11
libxc/2.2.3
magma/1.6.2-intel-15.0.1
mkl/11.2_update1(default)
mkl/2017_update3
mpi/intel-2017_update3
mpi/intel-5.0.2p-044(default)
mpi/opemmi-3.0.0-intel
mpi/openmpi-1.8.3
mpi/openmpi-2.1.5
ncv/2.1.7
netcdf/4.3.3.1-intel-15.0.1
netcdf-fortran/4.4.2-intel-15.0.1
parallel-netcdf/1.5.0-intel-2015.1.133-d-paralelo
szip/2.1-gcc-4.4.7
xdrfile/1.1.4

/opt/SC/modulefiles/compiladores
gcc/5.2.1 intel/2015.1.133(default) intel/2017_update4

/opt/SC/modulefiles/herramientas
advisor/2015.1.10.380555 miniconda/4.3.18(default)
advisor/2017_update3 python/2.7.13
cuda/6.0 python/3.4.2
cuda/6.5(default) python27/2.7.8
cuda/7.5 python34/3.4.2
expat2.1/2.1.0 tbb/2017_update3
inspector/2015.1.2.379161 trace-analyzer/2017_update3
inspector/2017_update3 trace-analyzer/9.0.2.045
intel/tools/13.0.1 vtune-amplifier/2015.1.1.380310
ipp/2017_update3 vtune-amplifier/2017_update3
libdb/5.3.28

in the bashrc, I have:

# .bashrc

# Source global definitions
if [ -f /etc/bashrc ]; then
. /etc/bashrc
fi

#

module load gcc/5.2.1
module load mpi/openmpi-2.1.5
module load python/2.7.13

alias python="/opt/rh/python27/root/usr/bin/python"
alias gfortran="/opt/rh/devtoolset-4/root/usr/bin/gfortran"
export PATH=/home/mbv_g/cacc_a/telemac/v7p2r2/scripts/python27/:$PATH
export SYSTELCFG=/home/mbv_g/cacc_a/telemac/v7p2r2/configs/systel.cfg
when carrying out the process:
source ~/.bashrc
ERROR: actualmente tienes cargada otra suite de compilacion.
ERROR: actualmente tienes cargada otra suite de python.
Currently Loaded Modulefiles:
1) gcc/5.2.1 2) mpi/openmpi-2.1.5 3) python/2.7.13

Attached file pysource.sh and systel.cfg
The output is in the out.txt file
I hope you can help me, regards!
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RedHatEnterprise 6 years 1 week ago #31956

  • yugi
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I think the error message is missing from your output file.
Without it i cannot help you.
There are 10 types of people in the world: those who understand binary, and those who don't.
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RedHatEnterprise 6 years 1 week ago #31965

  • iknponza
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an apology!
 
I enclose the error file, it seems that it is the compiler gfortran!
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RedHatEnterprise 6 years 1 week ago #31966

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Maybe you can try using mpif90 instead of gfortran and remove from inlcude and lib the mpi include and lib.
To be sure that it is the gfortran used to compile mpi that is used.
There are 10 types of people in the world: those who understand binary, and those who don't.
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RedHatEnterprise 6 years 1 week ago #31968

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in all compilations it tells me that:

Unable to call the compiler (/opt/rh/devtoolset-4/root/usr/bin/gfortran). The failure return the error
Unknown error 15115696.
The failed command was [/opt/rh/devtoolset-4/root/usr/bin/gfortran -c -O3 -DHAVE_MPI -fconvert=big-endian -frecord-marker=4 -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/special -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/damocles -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/parallel -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/hermes -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/bief -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/nestor -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/utils/ad -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/stbtel -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/sisyphe -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/tomawac -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/waqtel -I /home/mbv_g/cacc_a/telemac/v7p2r2/builds/lredhatc/lib/telemac2d -I /opt/SC/bibliotecas/openmpi/2.1.5/include/ /home/mbv_g/cacc_a/telemac/v7p2r2/sources/utils/special/extens.f -I/opt/SC/bibliotecas/openmpi/2.1.5/include -pthread -I/opt/SC/bibliotecas/openmpi/2.1.5/lib].

It seems that it is a problem in the cluster, I will review it with support!!

thank you!
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