SC_20111122

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Last updated: Nov 22, 2011Version comment

iPG2P Steering Committee

November 22, 2011

Participants

Tom Brutnell

Ed Buckler

Steve Goff

Ruth Grene

Chris Jordan

Dan Kliebenstein

Eric Lyons

Chris Myers

Martha Narro

Shiran Pasternak

Dan Stanzione

Josh Stein

Matt Vaughn

Lin Wang

Doreen Ware

Fusheng Wei

Steve Welch

Jeff White

 

 

Agenda

  • General Business
  • Discovery Environment 0.6 (Matt V)
  • Data in iPlant (Matt V)
  • iPlant's plans for PAG (Matt V)

Notes

General Business

  • There is an iPlant workshop at CSHL next week.

Demo of DE 0.6

  • https://gucumatz.iplantcollaborative.org/
  • Improvements in user interface and tool integration
  • Improvements in stability, performance, authentication. Solid back end now.
  • Integration of TACC resources
  • Walked through “Apps”
    • Launched a job in Peak Ranger
    • Showed how to customize an existing application, publish it to “Beta”
    • Walked through “Data”
  • Examples of integration with TACC
    • Abyss assembler
    • Trinity assembler
      • Can be run on Lonestar or Blacklight simply by user indicating size of job.
  • This transparent scalabiliy differentiates iPlant from Galaxy.
  • An analysis is something that has been done. An app is the software that does it.

Future development of DE

  • Pretty high degree of certainty about which features will be developed and when.
  • iPlant’s Cloud Storage Data Store will be highlighted at PAG
  • By 1.0, shared files will be visible and accessible in DE.
    • Users control them.
    • Wanted to expand the iRODs model
      • iPlant community spaces are directories in iRODS that live in a different space, the iPlant “shared” space. (e.g., genome data, perpetual tree, maybe 1KP data) 
      • Can have multiple administrators. 
      • Eventually community administration will be handled automatically. 
      • In one respect is like an FTP site, but will have fine-grained permissions management with high security. 
      • Geo-replication between UA and TACC. Tape back-ups so files can be recovered.
      • Takes many data management tasks off backs of informatics managers.
  • Next Major feature in DE is Pipelines.
    • For 1.0 will be linear pipelines.
    • Branching and looping will come later.
    • Demo’d “Automate workflow” (in the dev environment)
    • Can have private and public workflows.
  • RG: Do references already have to be in DE?
    • MV: Not any more. Soon users will be able to add their own reference genomes
    • 40 species currently supported in DE.
  • Advanced data management will be in 1.0.
  • We’re discussing how to do visualization. Some pieces are in place.

iPlant at PAG

Action Items

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