/OSG-GEM

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Commits on Dec 16, 2016

  1. Improved file system layout when running on Jetstream

    mats@rynge.net committed Dec 16, 2016
    caad1fe
Commits on Dec 13, 2016
  1. @rynge

    Enabled the workflow to be executed on Jetstream

    rynge committed Dec 13, 2016
    37fd8b7
Commits on Dec 5, 2016
  1. @wpoehlm

    fixed errors in tophat job wrapper

    wpoehlm committed Dec 5, 2016
    9045fb0
Commits on Oct 31, 2016
  1. @rynge

    Added option to control memory allocation

    rynge committed Oct 31, 2016
    5dbd6c7
Commits on Oct 29, 2016
  1. @wpoehlm

    updated Hisat2 Software

    wpoehlm committed Oct 29, 2016
    3b27802
Commits on Oct 25, 2016
  1. @wpoehlm

    Update osg-gem.conf.example

    wpoehlm committed on GitHub Oct 25, 2016
    ce21ee5
  2. @rynge

    Added check for pigz

    rynge committed Oct 25, 2016
    1c47bbf
  3. @rynge

    Switched to wget

    rynge committed Oct 25, 2016
    8eae8c3
  4. @wpoehlm

    Update sra-download

    wpoehlm committed on GitHub Oct 25, 2016
    627aba4
  5. @wpoehlm

    New Branch "Single". Initial support for Single end Sequencing Reads

    wpoehlm committed Oct 25, 2016
    e3e3d2e
Commits on Oct 24, 2016
  1. @wpoehlm

    initial support for single end reads

    wpoehlm committed Oct 24, 2016
    094bf99
Commits on Oct 11, 2016
  1. @rynge

    Request 2 GB RAM

    rynge committed Oct 11, 2016
    71a7dc7
  2. @rynge

    Improved output dir message

    rynge committed Oct 11, 2016
    1543fb1
  3. @rynge

    Ignore old sites.xml

    rynge committed Oct 11, 2016
    e202d99
  4. @rynge

    Make sure sites.xml is generated once and only once with the correct … 

    …values
    rynge committed Oct 11, 2016
    ef70e8a
Commits on Oct 10, 2016
  1. @rynge

    Switching back to wget

    rynge committed Oct 10, 2016
    cd80a6c
Commits on Oct 3, 2016
  1. @rynge

    Moved SRA download jobs to vanilla universe

    rynge committed Oct 3, 2016
    26af7b4
Commits on Sep 30, 2016
  1. @rynge

    Merge pull request #7 from feltus/spficklin-patch-1 

    Update README.md. Thanks Stephen!
    rynge committed on GitHub Sep 30, 2016
    c584841
  2. @spficklin

    Update README.md 

    just a slight change to add a new line
    spficklin committed on GitHub Sep 30, 2016
    dcc1a62
  3. @rynge

    Improved documentation regarding ssh key setup

    rynge committed Sep 30, 2016
    be3021b
  4. @rynge

    Switched back to stashcp for data staging

    rynge committed Sep 30, 2016
    9296d24
Commits on Sep 29, 2016
  1. @rynge

    Moved workflow to use /local-scratch filesystem

    rynge committed Sep 29, 2016
    6347e2f
Commits on Aug 18, 2016
  1. @rynge

    Fix for missing dataset problem

    rynge committed Aug 18, 2016
    aa2efc2
Commits on Aug 16, 2016
  1. @rynge

    fixed hisat2 output naming

    rynge committed Aug 16, 2016
    2c7db87
Commits on Aug 11, 2016
  1. @rynge

    Fixed dep problem with subwf

    rynge committed Aug 11, 2016
    ef32ade
  2. @rynge

    Removed the need for LD_LIBRARY_PATH

    rynge committed Aug 11, 2016
    e5caa4d
Commits on Aug 9, 2016
  1. @rynge

    Fixed SRA download (removed debug subsetting)

    rynge committed Aug 9, 2016
    5e6e815
  2. @wpoehlm

    OSG-GEM Update 

    Support added for:

-Processing multiple input datasets in a single workflow
-Downloading input data directly from NCBI SRA database
    wpoehlm committed on GitHub Aug 9, 2016
    529fc77
  3. @wpoehlm

    Update README.md

    wpoehlm committed on GitHub Aug 9, 2016
    db980a6
  4. @wpoehlm

    Update README.md

    wpoehlm committed on GitHub Aug 9, 2016
    c458de3
  5. @wpoehlm

    Update submit 

    Added LD library path for Pegasus 4.7.0dev
    wpoehlm committed on GitHub Aug 9, 2016
    4bf6c48
Commits on Aug 8, 2016
  1. @rynge

    Added support for multiple inputs and a GEM merge at the end. Simplie… 

    …d workflow by removing 3rd dax level (requires Pegasus 4.7)
    rynge committed Aug 8, 2016
    a2194cf
Commits on Jun 6, 2016

  1. Update README.md

    committed Jun 6, 2016
    0bf20ee

  2. Update README.md

    committed Jun 6, 2016
    47d06cd

  3. Update README.md

    committed Jun 6, 2016
    555f928