BinWang0213

mysql + flask

• Follow the guide @ https://github.com/mcovalt/FEniCS-MKL/blob/master/Dockerfile
• HPC command https://info.hpc.sussex.ac.uk/hpc-guide/resource.html
• guide2 https://wiki.math.uwaterloo.ca/fluidswiki/index.php?title=FEniCS
• systemctl https://bobcares.com/blog/docker-failed-to-get-d-bus-connection-operation-not-permitted/

Login:

#web platform

BinWang0213

OpenFoam 2.4 install on SuperMike III with gcc8.5 and REHL8

#http://www.tfd.chalmers.se/~hani/wikis/haniWiki/index.php?title=Tips_and_tricks_/_FOAM_/_Installation

qsub -I -A hpc_hpc_cdss08 -V -l walltime=05:00:00,nodes=1:ppn=20

cd /project/cs16/tma5/RHEL8/
#Download and unpack
git clone https://github.com/OpenFOAM/OpenFOAM-2.4.x.git

BinWang0213

Waterjet HPC usage

#Install the necessary packages:
yum groupinstall 'Development Tools' 
yum install zlib-devel texinfo gstreamer-plugins-base-devel \
libXext-devel libGLU-devel libXt-devel libXrender-devel libXinerama-devel libpng-devel \
libXrandr-devel libXi-devel libXft-devel libjpeg-turbo-devel libXcursor-devel \
readline-devel ncurses-devel mpfr-devel gmp-devel bzip2-devel openssl-devel \
sqlite-devel tk-devel gdbm-devel db4-devel libpcap-devel xz-devel expat-devel

BinWang0213

import numpy as np
import pyvista  as pv

model = pv.read('test.vtp')
model.triangulate(inplace=True)

#Geomtry info
bounds = np.reshape(model.bounds,[3,2])
middle_loc = np.mean(bounds,axis=1)
model.compute_normals(inplace=True)

BinWang0213

import netgen.meshing
from netgen.geom2d import SplineGeometry


from ngsolve import *

comm = mpi_world
rank = comm.rank
np = comm.size

BinWang0213

Fenics 2019.1.0 install on QueenBee-3 with MKL

• Follow the guide @ https://github.com/mcovalt/FEniCS-MKL/blob/master/Dockerfile
• HPC command https://info.hpc.sussex.ac.uk/hpc-guide/resource.html
• guide2 https://wiki.math.uwaterloo.ca/fluidswiki/index.php?title=FEniCS

Enter a node ssh mike012

Login:

ssh -X bwang31@qbc.loni.org

BinWang0213

import numpy as np

from ngsolve import *
from netgen.geom2d import SplineGeometry
from netgen.read_gmsh import ReadGmsh

from ngsolve.webgui import Draw

#Gmsh read support
#gmesh = ReadGmsh('gmsh_msh.msh')

BinWang0213

Install moose in Docker

Install moose and setup linux environment

#develop version
docker run -ti --name moose_develop -v F:/moose/:/home herter4171/ubuntu-moose:a9839b6ed6bef96c7aa5de5637f6edc622cef3fb

#Build porous media flow module

BinWang0213

Fenics 2019.1.0 install on QueenBee-3

• Follow the guide @ https://github.com/mcovalt/FEniCS-MKL/blob/master/Dockerfile
• HPC command https://info.hpc.sussex.ac.uk/hpc-guide/resource.html
• guide2 https://wiki.math.uwaterloo.ca/fluidswiki/index.php?title=FEniCS

Enter a node ssh mike012

MPI and compiling env setup

#Using node for faster compile

BinWang0213

Install moose in Docker

Install moose and setup linux environment

#Download build moose (deprecated)
docker run -ti --name moose -v F:/moose/:/home herter4171/ubuntu-moose:e5cb79c9e9f137155d8e5b4a0d62f1d216c016a0

#develop version