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Platform Hardware And Software Resources

Hardware Resources​

Node Configuration​

Node categoryNumber of nodes (units)Main specifications
CPUMemoryGPU
Management node22*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz512G/
Login node22*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz512G/
CPU11102*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz512G/
CPU2302*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz512G/
CPU3202* AMD EPYC 7763 64-Core Processor 2450512G/
GPU1502*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz1024G8*NVIDIA A800-SXM4-80GB
GPU2152*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz2048G8*NVIDIA A800-SXM4-80GB
GPU3152*Intel(R) Xeon(R) Platinum 8358P CPU @ 2.60GHz1024G8*NVIDIA A40-48GB
BIG MEM64*Intel(R) Xeon(R) Gold 6348H CPU @ 2.30GHz3072G/

Node Performance​

CPU Node​

Node CategoryFrequency per coreNumber of Cores per NodeMemoryNodesTotal CoresTheoretical Peak/Gflops
CPU12.60GHz64512G1107040
CPU22.60GHz64512G301920
CPU32.45GHz 128512G202560
BIGMEM2.30GHz963072G61152

GPU Node​

GPU server Overall configuration using NVLINK 400GB/S

Node CategoryFrequency per coreNumber of cores per nodeMemoryNodesTotal coresGraphics memory per GPUTotal Graphics MemoryTheoretical peak/Gflops
GPU12.60GHz641024G503200A800-SXM4-80GB640GB
GPU22.60GHz642048G15960A800-SXM4-80GB640GB
GPU32.60GHz641024G15960NVIDIA A40 48GB384GB

Storage Configuration​

Storage TypeMount PointStorage SpaceFile SystemRemarks
SSD/hpc2ssd309TGPFS ECUsed to improve the HPC task storage IO read and write performance, such as long time not used data please migrate to HHD Avoid.
HDD/hpc2hdd3.9PGPFS ECFor HPC general user storage read/write performance and data storage

Software Resources​

Operating System Resources​

Node TypeOperating System
Management nodeRed Hat Enterprise Linux release 8.4 (Ootpa)
Login NodeUbuntu 20.04 LTS
CPU1Ubuntu 20.04 LTS
CPU2Red Hat Enterprise Linux release 8.4 (Ootpa)
CPU3Ubuntu 20.04 LTS
GPU1Ubuntu 20.04 LTS
GPU2Red Hat Enterprise Linux release 8.4 (Ootpa)
GPU3Ubuntu 20.04 LTS
BIGMEMUbuntu 20.04 LTS

Compilation Environment Resources​

CPU1、CPU3、Big Memory Nodes

Compile ToolsVersionLoad Method
GCC9.4.0(system default)Use directly
13.1module load compilers/gcc-13.1.0
python3.8.4(system default)Use directly
icc2023.1.0module load compilers/icc-2023.1.0
cmake3.27.0module load cmake/3.27.0
java1.8.11Use directly

CPU2 Node

Compile ToolsVersionLoad Method
GCC8.4.1(system default)Use directly
13.1module load compilers/gcc-13.1.0
python3.6.8(system default)Use directly
icc2023.1.0module load compilers/icc-2023.1.0
cmake3.27.0module load cmake/3.27.0
java1.8.11Use directly

GPU1节点

Compile ToolsVersionLoad Method
GCC9.4.0(system default)Use directly
gcc13.1module load compilers/gcc-13.1.0
python3.8.4(system default)Use directly
icc2023.1.0module load compilers/icc-2023.1.0
cmake3.27.0module load cmake/3.27.0
cuda11.3 (cudnn 8.9.3 for cuda11.x )module load cuda/11.3
11.7 (cudnn 8.9.3 for cuda11.x )module load cuda/11.7
11.8 (cudnn 8.9.3 for cuda11.x )module load cuda/11.8
12.0 (cudnn 8.9.3 for cuda12.x )module load cuda/12.0
12.2 (cudnn 8.9.3 for cuda12.x )module load cuda/12.2
nvidia-sdk23.7module load nvhpc/23.7

Maths Libraries​

Software NameVersionLoad Method
fftw3.3.10
intel MKL2023module load compilers/mkl-2023.1.0
nvidia-sdk23.7module load nvhpc/23.7
blas/scalapack/lapack/

MPI Environment Resources​

No.Software NameVersionInstallation PathLoad Method
1mpich4.1.2 gcc/opt/mpi/mpich-4.1.2module load  mpi/mpich-4.1.2
24.1.2 icc/opt/mpi/mpich-4.1.2_icc-2023.1.0module load mpi/mpich-4.1.2_icc-2023.1.0
3mvapich3.0b gcc/opt/mpi/mvapich-3.0bmodule load  mpi/mvapich-3.0b
43.0b icc/opt/mpi/mvapich-3.0b_icc-2023.1.0module load  mpi/mvapich-3.0b_icc-2023.1.0
5mvapich2-2.3.7-1 gcc/opt/mpi/mvapich2-2.3.7-1module load mpi/mvapich2-2.3.7-1
62-2.3.7-1 icc/opt/mpi/mvapich2-2.3.7-1_icc-2023.1.0module load  mpi/mvapich2-2.3.7-1_icc-2023.1.0
7openmpi4.1.5 gcc/opt/mpi/openmpi-4.1.5module load  mpi/openmpi-4.1.5
84.1.5 icc/opt/mpi/openmpi-4.1.5_icc-2023.1.0module load   mpi/openmpi-4.1.5_icc-2023.1.0
94.1.5 gpu/hpc2ssd/softwares/cuda/openmpi-4.1.5module load   mpi/openmpi-4.1.5_gpu
10Intel_mpi2021.9/opt/intel/oneapi/mpi/2021.9.0module load  intelmpi-2021.9.0
11nvidia sdk 23.7/hpc2ssd/softwares/nvidia/hpc_sdk/module load  nvhpc/23.7

Application Software Resources​

No.Software NameVersionInstallation PathLoad Method
1GAUSSg16/hpc2ssd/softwares/GAUSSmodule load
2HDF51.14.1-2/hpc2ssd/softwares/HDF5-1.14.1-2module load
3PnetCDF1.12.3/hpc2ssd/softwares/PnetCDF-1.12.3module load
4QE7.2/hpc2ssd/softwares/QE-7.2module load
5R4.3.1R-4.3.1module load R/4.3.1
6RASPA2 /hpc2ssd/softwares/RASPA2module load
7WPS4.2/hpc2ssd/softwares/WPS-4.2
8WRF4.2.1/hpc2ssd/softwares/WRF-4.2.1
9abacus3.3.0/hpc2ssd/softwares/abacus
10anaconda32023/hpc2ssd/softwares/anaconda3
11ccpem20221108/hpc2ssd/softwares/ccpem-20221108
12cistem1.0.0/hpc2ssd/softwares/cistem-1.0.0-beta
13cuda /hpc2ssd/softwares/cuda
14dushin /hpc2ssd/softwares/dushin
15dynamo /hpc2ssd/softwares/dynamo
16elk8.5.10/hpc2ssd/softwares/elk-8.5.10
17gams44.1/hpc2ssd/softwares/gams44.1_linux_x64_64_sfx
18gromacs2023.2/hpc2ssd/softwares/gromacs-2023.2module load gromacs/2023.2
19jasper1.9j/hpc2ssd/softwares/asper-1.9
20lammps_parallel3-Mar-20/hpc2ssd/softwares/lammps_parallelmodule load lammps/2022-parallel
21lammps_serial/hpc2ssd/softwares/lammps_serialmodule load lammps/2022-serial
22netcdf /hpc2ssd/softwares/netcdf
23pwtk-2.0 /hpc2ssd/softwares/pwtk-2.0
24pycharm2023.1.4/hpc2ssd/softwares/pycharm-community-2023.1.4
25pytorch2.0.1/hpc2ssd/softwares/pytorch-2.0.1
26relion /hpc2ssd/softwares/relion
27scipion /hpc2ssd/softwares/scipion
28tensorflow-gpu /hpc2ssd/softwares/tensorflow-gpu
29vasp6.3.2/hpc2ssd/softwares/vasp.6.3.2module load vasp/6.3.2
30docker24.0.5/usr/bin/docker
31openFoam 11/opt/openfoam11

Bioinformatics Software:

No.Software NameLoad MethodRemarks
1Asperasource /hpc2ssd/softwares/anaconda3/bin/activate biologicalprivate key file：/hpc2ssd/softwares/anaconda3/envs/biological/etc/asperaweb_id_dsa.openssh
2SRA tool kitmodule load biological/sratoolkit
3fastpsource /hpc2ssd/softwares/anaconda3/bin/activate biological
4fastQcsource /hpc2ssd/softwares/anaconda3/bin/activate biological
5multiqcsource /hpc2ssd/softwares/anaconda3/bin/activate biological
6Bbmapsource /hpc2ssd/softwares/anaconda3/bin/activate biological
7Megahitsource /hpc2ssd/softwares/anaconda3/bin/activate biological
8prodigalmodule load biological/prodigal
9hmmer3source /hpc2ssd/softwares/anaconda3/bin/activate biological
10CRISPRCasFindermodule load biological/crisprcasfinder
11MAFFTsource /hpc2ssd/softwares/anaconda3/bin/activate biological
12Blastsource /hpc2ssd/softwares/anaconda3/bin/activate biological
13musclesource /hpc2ssd/softwares/anaconda3/bin/activate biological
14Bowtie2source /hpc2ssd/softwares/anaconda3/bin/activate biological
15pseqsidused directly
16Mmseqmodule load biological/mmseqs