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changes.mady.by.user Scientific Consultant01

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changes.mady.by.user Christian Tuma

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Preface

The operating system “CentOS 7” has reached its end of life. For this reason Lise’s CPU partition will be updated to “Rocky Linux 9”. This affects all login and compute nodes equipped with Intel Xeon Cascade Lake processors ("clx" for short). Lise's GPU-A100 partition and GPU-PVC partition are not affected.

...

CentOS 7

Rocky Linux 9

old partition name

new partition name

current job limits

● standard96

● cpu-clx

● standard96:test

● cpu-clx:test

16 nodes, 1 h wall time

● standard96:ssd

● cpu-clx:ssd

● large96

● cpu-clx:large

● large96:test

● large96:shared

● huge96

● cpu-clx:huge

( ● available ● closed/not available yet )

...

CentOS 7

Rocky Linux 9

OS components

glibc 2.17

glibc 2.34

Python 3.6

Python 3.9

GCC 4.8

GCC 11.4

bash 4.2

bash 5.1

check disk quota

hlrnquota

show-quota

Environment modules version

4.8 (Tmod)

5.4 (Tmod)

Modules loaded initially

HLRNenv

NHRZIBenv

slurm

slurm

sw.skl

sw.clx.el9

compiler modules

intel ≤ 2022.2.1

intel ≥ 2024.2.0

gcc ≤ 13.2.0

gcc ≥ 13.3.0

MPI modules

impi ≤ 2021.7.1

impi ≥ 2021.13

openmpi ≤ 4.1.4

openmpi ≥ 5.0.3

...

Erweitern
titleWhy do I receive "MPI startup(): Warning: I_MPI_PMI_LIBRARY will be ignored since the hydra process manager was found"?

This is because we need to define I_MPI_PMI_LIBRARY to ensure that the PMIx interface of srun works also for Intel-MPI. Obviously, you prefer mpirun over srun, and in this case you can manually unset I_MPI_PMI_LIBRARY to avoid this (harmless) warning message.

Erweitern
titleI have loaded the "intel/2024.2" environment module, but still neither the icc nor the icpc compiler is found. Why that?

Starting with the 2022.2 release of Intel’s oneapi toolkits, the icc and icpc “classic” compilers (C/C++) have been marked as “deprecated”, see here. Corresponding user warnings

icc: remark #10441: The Intel(R) C++ Compiler Classic (ICC) is deprecated and will be removed from product release in the second half of 2023. The Intel(R) oneAPI DPC++/C++ Compiler (ICX) is the recommended compiler moving forward. Please transition to use this compiler. Use '-diag-disable=10441' to disable this message.

were generated when using icc or icpc. Intel’s oneapi toolkits version 2024.x do not contain icc and icpc any longer. Users need to switch to Intel’s “next generation” icx and icpx compilers, respectively. They accept almost all of the “classic compiler” switches. More information is available from Intel’s porting guide.