speed-manual.tex

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%% Document
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\begin{document}

%% Front Matter
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% Regular title as in the article class.
%
\title{Speed: The GCS ENCS Cluster}

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% version for the running heads. Use {\sf} for highlighting your system
% name, application, or a tool.

\titlerunning{Speed: The GCS ENCS Cluster}

% Previously VI
%\date{Version 6.5}
%\date{\textbf{Version 6.6-dev-07}}
%\date{\textbf{Version 6.6} (final GE version)}
%\date{\textbf{Version 7.0-dev-01}}
%\date{\textbf{Version 7.0}}
%\date{\textbf{Version 7.1}}
%\date{\textbf{Version 7.2}}
\date{\textbf{Version 7.3}}

% Authors are joined by \and and their affiliations are on the
% subsequent lines separated by \\ just like the article class allows.
\author{
    Serguei A. Mokhov
\and
    Gillian A. Roper
\and
    Carlos Alarcón Meza
\and
    Farah Salhany
\and
    Network, Security and HPC Group\footnote{The group acknowledges the initial manual version VI produced by Dr.~Scott Bunnell while with us
		as well as Dr.~Tariq Daradkeh for his instructional support of the users and contribution of examples.}\\
    \affiliation{Gina Cody School of Engineering and Computer Science}\\
    \affiliation{Concordia University}\\
    \affiliation{Montreal, Quebec, Canada}\\
    \affiliation{\url{rt-ex-hpc~AT~encs.concordia.ca}}\\
}

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\authorrunning{Mokhov, Roper, Alarcón Meza, Salhany, NAG/HPC, GCS ENCS}
\indexedauthor{Mokhov, Serguei}
\indexedauthor{Roper, Gillian}
\indexedauthor{Alarcón Meza, Carlos}
\indexedauthor{Salhany, Farah}
\indexedauthor{NAG/HPC}

\maketitle
%%
% ------------------------------------------------------------------------------
%						Abstract
% ------------------------------------------------------------------------------
\begin{abstract}
This document serves as a quick start guide to using the Gina Cody School of 
Engineering and Computer Science (GCS ENCS) compute server farm, known as ``Speed.'' 
Managed by the HPC/NAG group of the Academic Information Technology Services (AITS) at GCS, 
Concordia University, Montreal, Canada.
\end{abstract}

% ------------------------------------------------------------------------------
%						Table of Contents
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\tableofcontents
\clearpage

% ------------------------------------------------------------------------------
%						1 Introduction
% ------------------------------------------------------------------------------
\input{introduction/introduction-main.tex}

% Includes:
% 1.1 Citing US
% 1.2 Resources
% 1.3 Team
% 1.4 What Speed Consists of
% 1.5 What Speed Is Ideal For
% 1.6 What Speed Is Not
% 1.7 Available Software
% 1.8 Requesting Access

% ------------------------------------------------------------------------------
%						2 Job Management
% ------------------------------------------------------------------------------
\input{job-management/job-management-main.tex}

% Includes:
% 2.1 Getting Started
%   2.1.1 SSH Connections
%   2.1.2 Environment Set Up
% 2.2 Job Submission Basics
%  	2.2.1 Directives
%   2.2.2 Working with Modules
%   2.2.3 User Scripting
% 2.3 Sample Job Script
% 2.4 Common Job Management Commands
% 2.5 Advanced sbatch Options
% 2.6 Array Jobs
% 2.7 Requesting Multiple Cores
% 2.8 Interactive Jobs
%  	2.8.1 Command Line
%  	2.8.2 Graphical Applications
%   2.8.3 Jupyter Notebooks
%      2.8.3.1 Jupyter Notebook in Singularity
%      2.8.3.2 Jupyter Notebook in Conda
%      2.8.3.3 Jupyter Notebook in Python Virtual Env
%   2.8.4 Visual Studio Code
% 2.9 Scheduler Environment Variables
% 2.10 SSH Keys for MPI
% 2.11 Creating Virtual Environments
%  	2.11.1 Anaconda
%  	2.11.2 Python
% 2.12 Sample Job Script: Fluent
% 2.13 Example Job Script: EfficientDet
% 2.14 Java Jobs
% 2.15 Scheduling on the GPU Node
%  	2.15.1 P6 on Multi-GPU, Multi-Node
% 	2.15.2 CUDA
%   2.15.3 Special Notes for Sending CUDA Jobs to the GPU Queue
%   2.15.4 OpenISS Examples
%      2.15.4.1 OpenISS and REID
%      2.15.4.2 OpenISS and YOLOv3
% 2.16 Singularity Containers

% ------------------------------------------------------------------------------
%						3 Conclusion
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\input{conclusion/conclusion-main.tex}

% Includes:
% 3.1 Important Limitations
% 3.2 Tips/Tricks
% 3.3 Use Cases

% ------------------------------------------------------------------------------
%						Appendix
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\appendix

% A History
% -------------------------------------------------------------
\input{appendix/history.tex}

% Includes:
% A.1 Acknowledgments
% A.2 Migration from UGE to SLURM
% A.3 Phases

% B Frequently Asked Questions
% -------------------------------------------------------------
\input{appendix/faq.tex}
% TO DELETE
%\input{scheduler-faq}

% Includes:
% B.1 Where do I learn about Linux?
% B.2 How to bash shell on Speed?
% B.3 How to resolve “Disk quota exceeded” errors?
% B.4 How do I check my job's status?
% B.5 Why is my job pending when nodes are empty?

% C Sister Facilities
% -------------------------------------------------------------
\input{appendix/sister-facilities.tex}

% D Software List
% -------------------------------------------------------------
\input{software-list.tex}

% Includes:
% D.1 EL7
% D.2 EL9

% ------------------------------------------------------------------------------
%						References
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\nocite{aosa-book-vol1}
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% Create a section for references otherwise it appears to be part of the "Sister Facilities" Appendix
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\addcontentsline{toc}{section}{Annotated Bibliography}
\bibliography{speed-manual}

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\end{document}