[ARVADOS] updated: e4b1a745a97af1d65bb1e03f770b34457003eae2

[Git user]

Summary of changes:
 apps/workbench/Gemfile.lock                      |   3 -
 crunch_scripts/cwl-runner                        |   2 +-
 sdk/cwl/arvados_cwl/__init__.py                  | 792 ++++-------------------
 sdk/cwl/arvados_cwl/arvcontainer.py              | 207 ++++++
 sdk/cwl/arvados_cwl/arvdocker.py                 |  43 ++
 sdk/cwl/arvados_cwl/arvjob.py                    | 317 +++++++++
 sdk/cwl/arvados_cwl/arvtool.py                   |  30 +
 sdk/cwl/arvados_cwl/done.py                      |  40 ++
 sdk/cwl/arvados_cwl/fsaccess.py                  |  65 ++
 sdk/cwl/arvados_cwl/pathmapper.py                |  55 ++
 sdk/cwl/arvados_cwl/runner.py                    | 122 ++++
 sdk/cwl/setup.py                                 |   2 +-
 sdk/cwl/test_with_arvbox.sh                      |  29 +-
 sdk/cwl/tests/{test_job.py => test_container.py} | 121 ++--
 sdk/cwl/tests/test_job.py                        |   4 +-
 sdk/cwl/tests/test_submit.py                     |  87 ++-
 services/api/Gemfile.lock                        |   3 -
 17 files changed, 1185 insertions(+), 737 deletions(-)
 create mode 100644 sdk/cwl/arvados_cwl/arvcontainer.py
 create mode 100644 sdk/cwl/arvados_cwl/arvdocker.py
 create mode 100644 sdk/cwl/arvados_cwl/arvjob.py
 create mode 100644 sdk/cwl/arvados_cwl/arvtool.py
 create mode 100644 sdk/cwl/arvados_cwl/done.py
 create mode 100644 sdk/cwl/arvados_cwl/fsaccess.py
 create mode 100644 sdk/cwl/arvados_cwl/pathmapper.py
 create mode 100644 sdk/cwl/arvados_cwl/runner.py
 copy sdk/cwl/tests/{test_job.py => test_container.py} (63%)

       via  e4b1a745a97af1d65bb1e03f770b34457003eae2 (commit)
       via  6f1c0e1dd16f53ce4fb7e8785a130e5f588500e5 (commit)
       via  691a08fd486e53ce656ae20fea84c2b3ec1a1088 (commit)
       via  ffdc34b50c159573ffeeb836fb405890e4062d01 (commit)
       via  cd206dc9f38a5d6c1cd115b53cb77be071edd57c (commit)
       via  fbc5ee7656bb337f15b3b2b7c88473f29f40c8b0 (commit)
       via  c9b5db991553e3a6eb6ec1f268e94f4a7b2a64d0 (commit)
       via  7cd03709ba594237b9cf88afac76d39f28011b35 (commit)
       via  bb48c3155b90e4bf1994a66b8fab858f12a1f4f4 (commit)
       via  2435a72a0a0c0058d2825ea0840836e95ebe5f25 (commit)
       via  b507fa11a9acfd15217d0972b0d6b41fd41b9958 (commit)
       via  032239408242c641b08df74f6a91984cbab610cd (commit)
       via  a2bed2f92f8aab7f41fef7b6cbd5d377fc2a78d5 (commit)
       via  3a0ae61f658a7473219991bd3279b492b24ed875 (commit)
       via  49043f14cb72a6eb5825aea529e3477b73e297c7 (commit)
       via  6c43be47cb3756a0e6ffc924572259d1a1c8f2c3 (commit)
       via  92ce0b4ffb51c957ddc0a6e36f7dfba2c819b38f (commit)
       via  bea445d5d02adb035a126582e5c0358ec5db5c75 (commit)
       via  a82231ef8bdf251a5f243461a4fafaf3b3ad5579 (commit)
       via  ad8c74a419972e173bd5fd75595d9893b58fc154 (commit)
       via  01a3a3cd88f56635a0f5d7938c70a3884c6b85bb (commit)
       via  b70924ee743d537a0c2c31202b9a730dea555856 (commit)
       via  6cd1dd7a2a55a80dd207b70fbb10a72e68bc7ea4 (commit)
      from  4744bcbfe19d352daa915a4249aacd4ccabaa505 (commit)

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commit e4b1a745a97af1d65bb1e03f770b34457003eae2
Merge: 4744bcb 6f1c0e1
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date:   Wed Jun 22 11:44:03 2016 -0400

    Merge branch 'origin-8442-cwl-crunch2' closes #8442


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