Difference between revisions of "Welcome to the HPC User Wiki of the University of Oldenburg"

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| ''This is the HPC-Wiki of the University of Oldenburg''<br>
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'''Note''': This is a first, '''preliminary''' version (v0.01) of the HPC User Wiki. Its primary purpose is to get you started with our new clusters (FLOW and HERO), enabling you to familiarize with these systems and gather some experience. More elaborate, improved versions will follow, so you may want to check these pages regularly.
= Basic Information =
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{| style="background-color:#eeeeff;" cellpadding="10" border="1" cellspacing="0"
|- style="background-color:#ddddff;"
! HPC Facilities
! Login
! User environment
! Compiling and linking
! Job Management (Queueing) System
! Altix UV 100 system
! Examples
|- valign="top"
|
* [[HPC Facilities of the University of Oldenburg| Overview]]
* [[HPC Facilities of the University of Oldenburg#FLOW| FLOW]]
* [[HPC Facilities of the University of Oldenburg#HERO| HERO]]
* [[HPC Policies| HPC Policies]]
* [[Unix groups| Groups ]]
* [[Acknowledging_the_HPC_facilities| Acknowledging FLOW/HERO]]
* [[User Meetings]]
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* [[Logging in to the system#From within the University (intranet) | From University]]
* [[Logging in to the system#From outside the University (internet) | From Home]]
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* [[User environment - The usage of module| Usage of module]]
* [[File system| File System / Quotas]]
* [[Mounting Directories of FLOW and HERO#Windows | Shares under Windows]]
* [[Mounting Directories of FLOW and HERO#Linux | Shares under Linux]]
* [[License servers]]
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* [[Compiling and linking|Basics]]
* [[GNU Compiler]]
* [[Intel Compiler]]
* [[PGI Compiler]]
* [[Open64 Compiler]]
* [[Using the Altix UV 100 system#Compiling and linking applications| Altix UV 100]]


'''The Wiki pages will be restructured within the next days!!! Contents of the main page will be shifted to subpages to make the Wiki more readable!'''
|
* [[SGE Job Management (Queueing) System| Overview]]
* [[SGE Job Management (Queueing) System#Submitting jobs| Submitting ]]
* [[SGE Job Management (Queueing) System#Specifying job requirements| Job requirements ]]
* [[SGE Job Management (Queueing) System#Parallel environments (PEs) | Parallel jobs ]]
* [[SGE Job Management (Queueing) System#Interactive jobs | Interactive jobs ]]
* [[SGE Job Management (Queueing) System#Monitoring and managing your jobs | Commands ]]
* [[SGE Job Management (Queueing) System#Array jobs| Job arrays  ]]
* [[SGE Job Management (Queueing) System#Environment variables | Environment variables]]
* [[Brief_Introduction_to_HPC_Computing#Checking_the_status_of_the_job | Checking the job status]] [[Brief_Introduction_to_HPC_Computing#Checking_the_status_of_the_job_2| (par. jobs)]]
* [[Brief_Introduction_to_HPC_Computing#Details_for_finished_jobs| Obtaining details for finished jobs]]
* [[SGE Job Management (Queueing) System#Documentation | Documentation]]
* [[Queues_and_resource_allocation| On Queues and resource allocation]]
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* [[Using the Altix UV 100 system#Compiling and linking applications| Compiling]]
* [[Using the Altix UV 100 system#Submitting SGE jobs| Submitting]]
* [[Using the Altix UV 100 system#Documentation| Documentation]]
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* [[Brief Introduction to HPC Computing| Brief Introduction to HPC Computing]]
* [[Matlab Examples using MDCS| Matlab examples using MDCS]]
* [[MDCS Basic Example]] (for R2014b and later)
* [[HPC Tutorial No1| HPC Tutorial 2013]]
* [[HPC Introduction October 6-8, 2014| HPC Tutorial 2014]]
* [[HPC Introduction October 7-9, 2015| HPC Tutorial 2015]]
|-


= Basic Informations =
* [[HPC Facilities of the University of Oldenburg]]
* [[Logging in to the system]]
* [[User environment - The usage of module]]
* [[Compiling and linking]]
* [[SGE Job Management (Queueing) System]]
* [[Using the Altix UV 100 system]]


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= Application Software and Libraries =
= Application Software and Libraries =


Under following links you'll find more detailed informations to applichtions and libraries which are used on the cluster FLOW and HERO.
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!Quantum Chemistry
!Quantum Chemistry
!Computational Fluid Dynamics
!Computational Fluid Dynamics
!Mathematics
!Mathematics/Scripting
!Visualisation
!Visualisation
!Libraries
!Libraries
|- valign="top"
|- valign="top"
|
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* [[debugging]]
* [[git]]
* [[GNU Compiler]]
* [[GNU Compiler]]
* [[Intel Compiler]]
* [[Intel Compiler]]
* [[Open64 Compiler]]
* [[PGI Compiler]]
* [[PGI Compiler]]
* [[Open64 Compiler]]
* [[Profiling_using_gprof| profiling]]
* [[scalasca]]
* [[scalasca]]
* [[subversion (svn)]]
* [[valgrind]]
|  
|  
* [[Gaussian 09]]
* [[Gaussian 09]]
* [[MOLCAS]]
* [[MOLCAS]]
* [[MOLPRO]]
* [[MOLPRO]]
* [[NBO]]
* [[ORCA]]
|  
|  
* [[Ansys]]
* [[FOAMpro]]
* [[Nektar++]]
* [[Nek 5000]]
* [[OpenFOAM]]
* [[PALM]]
* [[PALM]]
* [[STAR-CCM++]]
* [[STAR-CCM++]]
* [[THETA]]
* [[WRF/WPS]]
* [[WRF/WPS]]
* [[OpenFOAM]]
 
* [[NEK5]]
* [[COSMO]]
|  
|  
* [[MATLAB]]
* [[Configuration MDCS]] (2014b and later)
* [[MATLAB Distributing Computing Server]]
* [[Python]]
* [[R]]
* [[STATA| STATA]]
|  
|  
* [[iso99]]
* [[NCL]]
* [[ncview]]
* [[ncview]]
* [[ncarg]]
* [[paraview]]
* [[paraview]]
|  
|  
* [[OpenMPI]]
* [[BLAS and LAPACK]]
* [[BLAS and LAPACK]]
* [[EGSnrc]]
* [[FLUKA]]
* [[GEANT4]]
* [[Gurobi]]
* [[HDF5]]
* [[HDF5]]
* [[Intel MPI]]
* [[LEDA]]
* [[NetCDF]]
* [[NetCDF]]
* [[Jasper]]
* [[OpenMPI]]
* [[LEDA]]
 
|-
 
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= Courses and Tutorials =
 
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{| style="background-color:#eeeeff;" cellpadding="10" border="1" cellspacing="0"
|- style="background-color:#ddddff;"
!Introduction to HPC Courses
!Matlab Tutorials
!New OS
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* [[HPC Introduction October 6-8, 2014]]
* [[HPC Introduction October 7-9, 2015]]
|
* [[Audio Data Processing]]
* [[Using the MEX Compiler]]
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* [[media:New_OS_On_FLOW.pdf | New OS on FLOW ]]
|-
|-


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= Contact =
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!HPC Resource
!EMail
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FLOW and HERO<br>
Both (in case of vacation)<br>
|
Stefan.Harfst@uni-oldenburg.de<br>
hpcuniol@uni-oldenburg.de<br>
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'''''Note:''' This Wiki is under construction and a preliminary version! Contributions are welcome. Please ask Stefan Harfst (Stefan.Harfst(at)uni-oldenburg.de) for further informations.''
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''Only for editors: [[Formatting rules for this Wiki]]''
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[[HPC User Wiki 2016]]

Latest revision as of 15:08, 6 June 2017


Picture of nodes.jpg Picture of cluster closed.jpg This is the HPC-Wiki of the University of Oldenburg
 Picture of gpfs.jpg Picture of infinyband.jpg

Basic Information

HPC Facilities Login User environment Compiling and linking Job Management (Queueing) System Altix UV 100 system Examples

Application Software and Libraries

Compiler and Development Tools Quantum Chemistry Computational Fluid Dynamics Mathematics/Scripting Visualisation Libraries

Courses and Tutorials

Introduction to HPC Courses Matlab Tutorials New OS


Contact

HPC Resource EMail

FLOW and HERO
Both (in case of vacation)

Stefan.Harfst@uni-oldenburg.de
hpcuniol@uni-oldenburg.de


Note: This Wiki is under construction and a preliminary version! Contributions are welcome. Please ask Stefan Harfst (Stefan.Harfst(at)uni-oldenburg.de) for further informations.

Only for editors: Formatting rules for this Wiki

HPC User Wiki 2016

Retrieved from "https://wiki.hpcuser.uni-oldenburg.de/index.php?title=Welcome_to_the_HPC_User_Wiki_of_the_University_of_Oldenburg&oldid=3748"