Jura

Jura is a cluster for the analysis of sensitive data and is primarily used by the CHUV.

The Jura cluster is replaced by Urblauna 

Computing ressources

• 10 compute nodes
  • cpt01: CPUs=40 Boards=1 SocketsPerBoard=4 CoresPerSocket=10 ThreadsPerCore=1 RealMemory=515712
  • cpt02: CPUs=32 Boards=1 SocketsPerBoard=4 CoresPerSocket=8 ThreadsPerCore=1 RealMemory=257754
  • cpt[03-04]: CPUs=48 Boards=1 SocketsPerBoard=2 CoresPerSocket=12 ThreadsPerCore=2 RealMemory=257680
  • cpt[05-06]: CPUs=48 Boards=1 SocketsPerBoard=2 CoresPerSocket=12 ThreadsPerCore=2 RealMemory=64156
  • cpt[07-08]: CPUs=160 Boards=1 SocketsPerBoard=4 CoresPerSocket=20 ThreadsPerCore=2 RealMemory=1031536
  • cpt09: NodeName=cpt09 CPUs=160 Boards=1 SocketsPerBoard=4 CoresPerSocket=20 ThreadsPerCore=2 RealMemory=3095999
  • cpt10: NodeName=cpt10 CPUs=160 Boards=1 SocketsPerBoard=4 CoresPerSocket=20 ThreadsPerCore=2 RealMemory=999282

• 4 nodes with Xeon PHI accelerators
  • cpt[03-04]: 82:00.0 Co-processor: Intel Corporation Xeon Phi coprocessor 31S1 (rev 11)
  • cpt[05-06]: 82:00.0 Co-processor: Intel Corporation Xeon Phi coprocessor 5100 series (rev 11)

• Login node
  • frt: CPUs=48 Boards=1 SocketsPerBoard=2 CoresPerSocket=12 ThreadsPerCore=2 RealMemory=65697804
  • 15 TB local disk space

Storage ressources

• Fast scratch based on SSD
  • /scratch/beegfs 112 TB
  • Not purged

• Data directory
  • /data 160 TB
  • For static datasets (including reference ones (TCGA, ADNI et al)
  • Not purged

ATTENTION /data directory is NOT BACKED UP

• Archive with encrypted tapes
  • /archive
  • 600 TB available
  • Data are copied transparently on two tape libraries located in two different datacenters for disaster recovery

Getting ressources on Jura

• For sensitive data only
• Organized by PI
• Use DCRS request form and specify Sensitive or Personal data
• https://requests.dcsr.unil.ch

Accessing the infrastructure from UNIL

• Any user is expected to take a short training to get familiar with the environment, the do’s and dont’s
• Once the demand is approved, you will receive a mail with a QR-Code like

• You need an app like Google Authenticator or FreeOTP on your smartphone to scan it

• Google Authenticator:

  https://play.google.com/store/apps/details?id=com.google.android.apps.authenticator2&hl=en

  https://apps.apple.com/us/app/google-authenticator/id388497605

  FreeOTP:

  https://play.google.com/store/apps/details?id=org.fedorahosted.freeotp&hl=en

  https://apps.apple.com/us/app/freeotp-authenticator/id872559395

• Go to https://jura.dcsr.unil.ch web site and log in with your UNIL credentials

• 

• Enter the code displayed by the application

• 

  
  

• Congratulations! you are now logged in

ATTENTION PROPER LOG OUT

• CTRL+ALT+SHIFT to display guacamole menu

• Or session logout

Transferring data in

• Transfer your data to the Jump Host

sib-1-24:~ someuser$ sftp someuser@jura.dcsr.unil.ch Password: Verification code: Connected to someuser@jura.dcsr.unil.ch. sftp> dir data  sftp> cd data sftp> dir sftp> put AVeryImportantFile.tgz Uploading AVeryImportantFile.tgz to /data/AVeryImportantFile.tgz AVeryImportantFile.tgz

• The verification code of the Google Authenticator or FreeOTP is required
• Transfer your data from the Jump Host

  [someuser@frt ~]$ sftp jura.dcsr.unil.ch

  Password:

  Verification code:

  Connected to jura.dcsr.unil.ch.

  sftp> cd data

  sftp> dir

  AVeryImportantFile.tgz 

  sftp> get AVeryImportantFile.tgz

  Fetching /data/AVeryImportantFile.tgz to AVeryImportantFile.tgz

  /data/AVeryImportantFile.tgz

• To repeatedly transfer large files from reputable external sources a direct access can be granted.

• The verification code of the Google Authenticator or FreeOTP is required but if you have many files to transfer we can set up an automated system

Transferring code in/out

There is a DCSR managed Git service accessible from Jura. More information can be found at

https://wiki.unil.ch/ci/books/service-de-calcul-haute-performance-%28hpc%29/page/why-is-there-a-dcsr-gitlab-service-and-what-is-it

Accessing the infrastructure from CHUV

ssh<unil-username>@stockage-horus.chuv.ch