Documentation

Displaying 1 - 90 of 90

Abaqus

Add teaser.

ACCESS allocations

Allinea DDT MPI debugger

Ansys

Basic Knot Usage

Benchmarks for VASP (version 4.6.31 serial)

Bioinformatics Tools

Compiling with MPI and OpenMP

Computing Environment

Containers

Copying files to Google (Google Drive)

Creating new SSH keys

Disk Information

Documentation

Example Scripts for Running Jobs

Gaussian

Gaussian 09

Gaussian 16

GaussView

Getting Started

Gromacs on the Clusters

You can run Gromacs on the cluster by using a 'container', i.e. through 'singularity'.

Instructions on Using Matlab on the UCSB CSC Cluster from Windows

Intel Compilers and Intel Math Kernel Library (MKL)

Intro to Amazon Web Services (AWS) Slides - Nov 19, 2018

Intro to Linux/HPC Slides - 2018

Intro to MATLAB Nov 6 Slides

Intro to Python Slides - Oct 23, 2018

Intro to Python Slides - Oct 24, 2018

Intro to R (CBSR) - Jan 16, 2019 Slides

Intro to R (Sponsored by Women in Technology) Slides - Nov 8

Intro to R Slides - Oct 16, 2018

Jupyter Notebooks

Jupyter Notebooks (on knot) - this is just for reference, you probably really want to run on knot7 or pod.

Keras

lammps

Lumerical FDTD

Lumerical MODE, DEVICE, and Interconnect

Lumerical Script files in the queue

Machine Learning with Amazon Sagemaker

Mathematica

modules

Nautilus additional info

Nautilus for TensorFlow example

NX Server (alternate GUI login)

PGI compilers

Pod Cluster

Documentation for the Pod cluster.

Pod's NSF Requirements

Programming Resources

Python

Quick Start Guide

Running Jobs in Torque

Scientific Software

Seminars & Workshops

Singularity (Bioperl Example)

Slurm Job Scheduler

Slurm Job Scheduler

Social Sciences - Resources and Ideas

Software Containers with Singularity Workshop - Nov 1

Some Problems with MatLab and Solutions

Step-by-step guide to compiling matlab projects into executables and running them on the queue

TensorFlow

Tensorflow on Pod

Tesseract on Knot

To use MatLab via the Grid Portal (i.e. through a web browser)

Transferring Data to Your UCSB Box Account using lftp

Using Graphics on the Clusters

Using Kubernetes on Nautilus

Using Matlab

Using MatLab (compiled - for many concurrent MatLab jobs)

Using MPICH2

Using R on Knot, Braid, and Pod

Using the Gnu 4.8 compilers

Using the Google Connector in Globus

Using the Xeon Phi coprocessor

Using X2GO for GUI login (Knot or Pod)

VASP compilation

Wiki Documentaion

Windows PuTTY / XMing

Currently (2020) we're finding for Windows users that using putty is the best option for Windows users.

Working remotely during the partial shutdown

Debugging / Profiling

Allinea DDT CUDA debugger

Softare

Apptainer / Singularity Containers on the HPC - 2023 Winter

Lumerical Software Site License

UCSB has a site license for the Lumerical suite of software, paid for by a combination of a number of research groups who use the software and the CSC.

Compiling

Comsol

Comsol is only available to licensed groups through the shared research license pool.

Getting Started, Logging In

Connect to the POD cluster

Softare, Storage

Globus (v5- New!!)

How to configure and use Globus (the new version, as of Fall 2022)

Getting Started

Intro to Linux/HPC Slides - 2022 Fall

Parallel Python Programming - 2023 Winter

Getting Started, Logging In, Running Jobs

Intro to Linux/HPC Slides - 2023 Fall

Intro to Linux/HPC Slides - 2023 Winter

Scientific Software

QuantumATK

How to use QuantumATK software on the clusters

Getting Started, Running Jobs

Running GPU jobs on Pod