[med-svn] [cwltool] branch upstream updated (d827d3c -> fc0ce1f)

[Andreas Tille]

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tille pushed a change to branch upstream
in repository cwltool.

      from  d827d3c   New upstream version 1.0.20171107133715
       new  fc0ce1f   New upstream version 1.0.20171221100033

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 MANIFEST.in                     |   1 +
 Makefile                        |   6 +-
 PKG-INFO                        |  93 +++++++++++++++++++++------
 README.rst                      |  91 ++++++++++++++++++++------
 cwltool.egg-info/PKG-INFO       |  93 +++++++++++++++++++++------
 cwltool.egg-info/SOURCES.txt    |  16 +++++
 cwltool/draft2tool.py           |  33 ++++++----
 cwltool/load_tool.py            | 110 +++++++++++++++++++++++--------
 cwltool/main.py                 | 139 ++++++++++++++++++++++++++++------------
 cwltool/pack.py                 |  37 +++++++++--
 cwltool/pathmapper.py           |   4 +-
 cwltool/process.py              |  13 +++-
 cwltool/workflow.py             |  14 ++--
 setup.cfg                       |   2 +-
 tests/override/echo-job-ov.yml  |   6 ++
 tests/override/echo-job-ov2.yml |   7 ++
 tests/override/echo-job.yml     |   1 +
 tests/override/echo-wf.cwl      |  14 ++++
 tests/override/echo.cwl         |  19 ++++++
 tests/override/ov.yml           |   5 ++
 tests/override/ov2.yml          |   5 ++
 tests/override/ov3.yml          |   5 ++
 tests/test_ext.py               |   1 -
 tests/test_fetch.py             |   8 ++-
 tests/test_override.py          |  66 +++++++++++++++++++
 tests/test_pack.py              | 101 ++++++++++++++++++++++++++---
 tests/wf/count-lines1-wf.cwl    |  25 ++++++++
 tests/wf/formattest-job.json    |   7 ++
 tests/wf/formattest.cwl         |  20 ++++++
 tests/wf/parseInt-tool.cwl      |  16 +++++
 tests/wf/wc-job.json            |   6 ++
 tests/wf/wc-tool.cwl            |  17 +++++
 tests/wf/whale.txt              |  16 +++++
 33 files changed, 829 insertions(+), 168 deletions(-)
 create mode 100644 tests/override/echo-job-ov.yml
 create mode 100644 tests/override/echo-job-ov2.yml
 create mode 100644 tests/override/echo-job.yml
 create mode 100644 tests/override/echo-wf.cwl
 create mode 100644 tests/override/echo.cwl
 create mode 100644 tests/override/ov.yml
 create mode 100644 tests/override/ov2.yml
 create mode 100644 tests/override/ov3.yml
 create mode 100644 tests/test_override.py
 create mode 100644 tests/wf/count-lines1-wf.cwl
 create mode 100644 tests/wf/formattest-job.json
 create mode 100644 tests/wf/formattest.cwl
 create mode 100644 tests/wf/parseInt-tool.cwl
 create mode 100644 tests/wf/wc-job.json
 create mode 100644 tests/wf/wc-tool.cwl
 create mode 100644 tests/wf/whale.txt

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