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Scaling of Biological Data Work ows to Large HPC Systems - A Case Study in Marine Genomics -

Thomas Röblitz


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    "description": "<p>Sequencing projects, like the Aqua Genome project, generate vast amounts of data which is processed through dif-<br>\nferent work ows composed of several steps linked together. Currently, such workflows are often run manually on<br>\nlarge servers. With the increasing amount of raw data that approach is no longer feasible. The successful imple-<br>\nmentation of the project's goals requires 2-3 orders of magnitude scaling of computing, while achieving high reli-<br>\nability on and supporting ease-of-use of super computing resources at the same time. We describe two example<br>\nuse cases, the implementation challenges and constraints, the actual application enabling and report our ndings.</p>", 
    "contributors": [
      {
        "affiliation": "Department for Research Computing, University Center for Information Technology (USIT), University of Oslo, P.O. Box 1059, Blindern, 0316 Oslo, Norway", 
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        "name": "Ole W. Saastad"
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        "affiliation": "Department for Research Computing, University Center for Information Technology (USIT), University of Oslo, P.O. Box 1059, Blindern, 0316 Oslo, Norway", 
        "type": "Other", 
        "name": "Hans A. Eide"
      }, 
      {
        "affiliation": "Department for Research Computing, University Center for Information Technology (USIT), University of Oslo, P.O. Box 1059, Blindern, 0316 Oslo, Norway", 
        "type": "Other", 
        "name": "Katerina Michalickova"
      }, 
      {
        "affiliation": "Center for Ecological and Evolutionary Synthesis, Department of Biosciences (CEES), University of Oslo, P.O. Box 1066, Blindern, 0316 Oslo, Norway", 
        "type": "Other", 
        "name": "Alexander Johan Nederbragt"
      }, 
      {
        "affiliation": "Center for Ecological and Evolutionary Synthesis, Department of Biosciences (CEES), University of Oslo, P.O. Box 1066, Blindern, 0316 Oslo, Norway", 
        "type": "Other", 
        "name": "Bastiaan Star"
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    "title": "Scaling of Biological Data Work ows to Large HPC Systems - A Case Study in Marine Genomics -", 
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    "keywords": [
      "workflows, magnitude scaling"
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    "publication_date": "2014-06-04", 
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        "affiliation": "Department for Research Computing, University Center for Information Technology (USIT), University of Oslo, P.O. Box 1059, Blindern, 0316 Oslo, Norway", 
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