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== About Cypress ==

The Tulane University High Performance Computing system, code named “Cypress,” is one of
the fastest computers in the world. In November 2014, the TOP500 ranked Cypress as the 271st
supercomputer site in the world. It is the 3rd fastest among private American universities and
10th fastest among across all American universities.

Cypress is located in the Tulane datacenter in Downtown New Orleans. It is composed of Dell
state-of-the-art technology, using Intel Ivy Bridge CPU, Intel Xeon Phi Coprocessor, and Lustre
file system running on Dell storage with Intel Enterprise Edition for Lustre (IEEL) technology. The components of Cypress were
carefully selected to provide consistent performance over a wide range of scientific applications.
Cypress delivers a peak general capability of 369Teraflops and incorporates 11.84TB of fast
main memory with 1.476 Petabyte of parallel-distributed file system Lustre high-performance
storage, 480TB of which is dedicated to Hadoop with IEEL high performance storage for use by the Hadoop data analytics queue.

|| Node Type || C8220X/E5-2680 v2 & Xeon Phi 7120P ||
|| # of Nodes || 124 ||
|| CPUs per node || 2 ||
|| Total E5 2680 v2 Cores || 2,480 ||
|| Total Xeon Phi cores || 15,128 ||
|| Tflops CPUs only (theoretical) || 69.44 ||
|| Tflops system peak w/ Phi (theoretical) || 369 ||
|| Memory per node || 12 nodes: 256GB each - 25 nodes: 128GB each - 87 nodes: 64GB each ||
|| Total Memory || 11.84TB ||
|| Storage || 1.476PB expandable to 4PB ||

== Getting an account ==

All accounts must be associated with a Tulane faculty member who is the Principal Investigator (PI) of his/her research group.  Please have your PI [[cypress/about#GettinghelpContactus|contact us]] to establish a group on Cypress.  (If some members of your group have Cypress accounts, your group is already established.)  After your group is established, visit Tulane Service Now at:

https://tulane.service-now.com/

to request an account.  After logging in with your Tulane credentials, you'll see the "Tulane IT Portal" where you'll select "Request Something". From the categories in the left sidebar select "Cypress HPC", then "Cypress HPC Request" and fill out the form. (See also https://it.tulane.edu/acceptable-use-policy.)

== Getting Started on Cypress ==

Follow the links below for information on obtaining an account, and instructions on using Cypress.

 * [[cypress/about|Introduction to Cypress]]
 * [[cypress/using|Using Cypress]]
 * [[cypress/software|Software]]


=== Working on a remote !Unix/Linux system ===
* [[cypress/SshUsage/|SSH, terminal software]]
* [[cypress/BasicLinuxComands|Unix/Linux commands]]
* [[cypress/FileEditingSoftware|File Editing Software]]
* [[cypress/FileTransfer|File transfer to/from your desktop/laptop/Box account]]
* [[cypress/WorkingOnClusters|Working on a remote Unix/Linux Cluster]]
* [[cypress/ModuleCommand|Module command]]
* [[cypress/using#SubmittingJobsonCypress|How to submit a job]]
* [[cypress/using#SubmittingInteractiveJobs|Running interactive jobs (idev)]]


== Scripting on Cypress == 
=== How to run a Matlab code on Cypress ===
* [[cypress/Matlab#RunningMATLABinteractively|Running Matlab interactively using idev]]
* [[cypress/Matlab#RunningMATLABinabatchmode|Running Matlab jobs using SLURM scripts]]
* [[cypress/Matlab#RunningMATLABinParallelwithMultithreads|Parallel Matlab]]
* [[Matlab-Slurm|How to Submit MATLAB jobs from MATLAB Command Window]]

=== How to run R code on Cypress ===
* [[cypress/R|Running R on Cypress]]

=== How to run Python Cypress===
* [[cypress/Python|Running Python on Cypress]]


== Coding on Cypress ==

=== Coding ===
* [[cypress/Programming|Programing in C/C++/Fortran]]
* [[cypress/Programming/SpeedupScaling|Parallel Computing Overview]]
* [[cypress/Programming/OpenMp|Shared Memory]] 
* [[cypress/Programming/Mpi|Distributed Memory]]


== Other Topics ==

=== Version control ===
* [[cypress/svn|svn]]
* [[cypress/git|git]]


=== Compilation, debugging, and optimization ===
* [[cypress/CompilerUsage|C/C++ Fortran compilers]]
* [[cypress/Programming/MakeFile|Makefiles]]
* [[cypress/Programming/CodeDebugging|Code Debugging]]
* [[cypress/Programming/CodeProfiling|Code Profiling]]
* [[cypress/Programming/CodeDebugging#GDB|gdb]]
* [[cypress/Programming/CodeDebugging#Valgrind|valgrind]]
* [[cypress/Programming/CodeDebugging#IntelInspectorXE|Intel Parallel Studio XE (Inspector, Advisor, and Vtune)]]

=== Math Libraries ===
* [[BLAS]]
* [[cypress/LAPACK|LAPACK]]
* [[cypress/MKL|MKL]]

=== Intel’s Xeon Phi Coprocessor ===
* [[cypress/XeonPhi|Review of Hardware from previous day]]
* [[cypress/XeonPhi#XeonPhiUsageModels|Three usage paradigms]]
* [[cypress/XeonPhi|Programming considerations]]

=== Data Visualization ===
* [[cypress/VisIt|VisIt]]
* [[cypress/Visualization Toolkit (VTK)|Visualization Toolkit (VTK)]]