Ascend

OSC Classroom Support

CLASSROOM RESOURCES FOR DISTANCE LEARNING If your class has lost or limited access to computer labs, the Ohio Supercomputer Center might be able to help by providing no-cost access to cloud computing resources. Classes and workloads of any size can gain access. OSC's web-browser interface to its substantial Linux computer systems provides novice users with virtual desktops preloaded with applications, such as MATLAB, RStudio, or Jupyter Notebook. As an example, an OSU undergrad statistics class recently used iPads to remotely access RStudio on OSC systems.

Gaussian

Gaussian is a very popular general purpose electronic structure program. Recent versions can perform density functional theory, Hartree-Fock, Möller-Plesset, coupled-cluster, and configuration interaction calculations among others. Geometry optimizations, vibrational frequencies, magnetic properties, and solution modeling are available. It performs well as black-box software on closed-shell ground state systems. 

PyTorch

 PyTorch is an open source machine learning framework with GPU acceleration and deep neural networks that is based on the automatic differentiation in the Torch library of tensors.

ffmpeg

FFmpeg is a free software project, the product of which is a vast software suite of libraries and programs for handling video, audio, and other multimedia files and streams.

Availability and Restrictions

Versions

The following versions of FFmpeg are available on OSC clusters:

CMake

CMake is a family of compilation tools that can be used to build, test and package software.

Availability and Restrictions

Versions

The current versions of CMake available at OSC are:

Apptainer/Singularity

Apptainer/Singularity is a container system designed for use on High Performance Computing (HPC) systems. It allows users to run both Docker and Singularity containers.

From the Docker website: "A container image is a lightweight, stand-alone, executable package of a piece of software that includes everything needed to run it: code, runtime, system tools, system libraries, settings."

RELION

RELION (REgularised LIkelihood OptimisatioN) is a stand-alone computer program for the refinement of 3D reconstructions or 2D class averages in electron cryo-microscopy. 

We have identified some issues with the RELION installations. For more details, please refere the "Known Issues" section below.

To address the issues, we have decided to deprecate affected versions, including: relion/3.1, relion/3.1-gpu, relion/3.1.3, relion/4.0.0, and relion/4.0b on both Owens and Pitzer. Additionally, we will deprecate other versions that are rarely used to improve maintenance. These versions include relion2/2.0 and relion/3.0.4.

The deprecation action was done on January 23, 2024. To migrate your jobs, please refer to the "Versions" table below for available versions. If you require any assistance, please contact OSC help.

Overview of File Systems

OSC has several different file systems where you can create files and directories. The characteristics of those systems and the policies associated with them determine their suitability for any particular purpose. This section describes the characteristics and policies that you should take into consideration in selecting a file system to use.

The various file systems are described in subsequent sections.

R and Rstudio

R is a language and environment for statistical computing and graphics. It is an integrated suite of software facilities for data manipulation, calculation, and graphical display. It includes

  • an effective data handling and storage facility,
  • a suite of operators for calculations on arrays, in particular matrices,
  • a large, coherent, integrated collection of intermediate tools for data analysis,
  • graphical facilities for data analysis and display either on-screen or on hardcopy, and
  • a well-developed, simple and effective programming language which includes conditionals, loops, user-defined recursive functions and input, and output facilities

More information can be found here.

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