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Introducing workflows #695

Merged
merged 38 commits into from Jan 13, 2016
Merged

Introducing workflows #695

merged 38 commits into from Jan 13, 2016

Commits on Jan 11, 2016

  1. NF: added new module for workflows and command line interfaces

    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  2. Add first workflows.

    @matthieudumont
    unknown authored and matthieudumont committed Jan 11, 2016
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  3. Brain extraction workflow and call script

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  4. outdirs correction, removed prints.

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  5. Applied review comments

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  6. Change output file name

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    matthieudumont committed Jan 11, 2016
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  7. Renamed workflow to workflows

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  8. Renamed dipybet to dipy_meaidn_otsu

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  9. Multipe fixes from review. 

    Docstrings
All params as string
Fix file name of dipy_median_otsu
Add missing parameters
    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  10. Made dipy_median_otsu executable

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  11. Trying inspection. Looks promising

    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  12. RF: bringing non string arguments back to their original type

    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  13. NF: the AugmentedParser can now introspect workflows and update argum… 

    …ents
    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  14. Starting using numpydoc for parsing the docstrings

    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  15. Receiving parameters type and documentations directly from docstring … 

    …seems working
    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  16. On the way to remove dipy_base which was just a dummy file

    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  17. NF: IntrospectiveArgParser can now directly use specific information … 

    …from the docstrings
    @Garyfallidis @matthieudumont
    Garyfallidis authored and matthieudumont committed Jan 11, 2016
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  18. Fixed a few small things with IAP.

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  19. Used optionnal package

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    matthieudumont committed Jan 11, 2016
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  20. refacts after review.

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    matthieudumont committed Jan 11, 2016
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  21. Fixed boolean parameter bug

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    matthieudumont committed Jan 11, 2016
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  22. Moved numpydoc's for param retreival in documentation.py

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    matthieudumont committed Jan 11, 2016
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  23. Used full package path, remove ref to optional_package

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    matthieudumont committed Jan 11, 2016
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  24. Added tests for the iap

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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  25. Fix review comments

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    matthieudumont committed Jan 11, 2016
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  26. Remove leftover print in workflow test

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    matthieudumont committed Jan 11, 2016
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  27. Added nargs support and tests

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    matthieudumont committed Jan 11, 2016
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  28. Added epilog

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    matthieudumont committed Jan 11, 2016
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  29. Changed documentation for docstring_parser

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    matthieudumont committed Jan 11, 2016
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  30. Fix help display bug caused by recent refactor.

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    matthieudumont committed Jan 11, 2016
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  31. Added get_outputs

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    matthieudumont committed Jan 11, 2016
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  32. Fix typos

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    matthieudumont committed Jan 11, 2016
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  33. Fixed output sections

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    matthieudumont committed Jan 11, 2016
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  34. cleaned workflow utils.py

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    matthieudumont committed Jan 11, 2016
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  35. Forgot to modify param name in test

    @matthieudumont
    matthieudumont committed Jan 11, 2016
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Commits on Jan 12, 2016

  1. Add tests for docstring parser

    @matthieudumont
    matthieudumont committed Jan 12, 2016
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Commits on Jan 13, 2016

  1. Added tests for workflows.utils

    @matthieudumont
    matthieudumont committed Jan 13, 2016
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  2. Tests for segment

    @matthieudumont
    matthieudumont committed Jan 13, 2016
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