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Getting started with CIMENT
Click on the links to download the tutorials for each part
You can also directly download the complete PACK of tutorials by clicking below :
You can also check the video below
(presentation of the use of the cluster and OAR with R, starting at 19 minutes) :
VIDEO
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Description
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Details
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Presentation |
INTRODUCTION
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Introduction on HPC (High Performance Computing) centers,
GRICAD and parallel programming through computer resources
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- Different structures of HPC, and position of GRICAD among them.
- Presentation of GRICAD : historical context, missions and organisation
- Introduction on parallel programming through description of computer resources :
- scheme of a node (core, CPU, RAM...)
- use of computer resources
- adapt jobs to required resources, and computer structure
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TUTORIAL 1
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Introduction on documentation about GRICAD and CIMENT,
how to make a connection to the clusters and how to configure it
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- Links to website related to CIMENT :
- PERSEUS (create account)
- wiki (tutorials, informations...)
- grid server (access to Irods storage online)
- Memberships conditions : PERSEUS account, user charter
- Scheme of CIMENT structure
- Connection to the cluster : for unix/mac (SSH) and windows (PuTTY/WinSCP) users
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TUTORIAL 2
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Introduction on CIMENT environment,
and how to install and load modules or softwares
(with the special case of R packages)
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- How folders on CIMENT clusters are organized
- How to install and load softwares and modules :
- with MODULE environment
- with NIX environment
- with GUIX environment
- How to install (a) or compile (b) R packages
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TUTORIAL 3
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Introduction to OAR,
and how to run a job (interactive or passive)
with OAR on cluster like froggy or luke, and manage it
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- What is a batch scheduler like OAR
- How to launch a job on luke or froggy :
- interactive way
- passive way
- how to manage the job
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TUTORIAL 4
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Introduction to the concept of parallelized job and its interest,
to CiGRI and how to run a campaign of small parallelized jobs
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- Why parallelize a script, and how to do it
- Presentation of CiGRI : general procedure
- How to launch a campaign on several clusters :
- the different files
- iRods or Bettik ?
- how to manage the campaign
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AND ALSO :
- Link to reminder of CiGRI and OAR commands :
- Link to LECA Bash library :
Set of bash scripts provided to help the development of bash scripts used to submit jobs on CIMENT.
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