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Metabolomics Organisation with Galaxy and ISA

Project description

Build Status (Travis) Py versions

Metabolomics organisation with Galaxy and ISA

Further documentation available on ReadTheDocs

Quick start

  1. Add “mogi” and django application dependencies to your INSTALLED_APPS setting like this (mogi should come before gfiles, galaxy, mbrowse and misa):

    INSTALLED_APPS = [
        ...
        'mogi',
        'misa',
        'mbrowse',
        'galaxy',
        'gfiles',
    
        'django_tables2',
        'django_tables2_column_shifter',
        'django_filters',
        'bootstrap3',
        'django_sb_admin',
        'dal',
        'dal_select2',
    ]
    
  2. Include the URLconf in your project urls.py like this:

    url(r'^', include('gfiles.urls')),
    url('mogi/', include('mogi.urls')),
    url('mbrowse/', include('mbrowse.urls')),
    url('misa/', include('misa.urls')),
    url('galaxy/', include('galaxy.urls')),
    
  3. Run python manage.py migrate to create the mogi models.

  4. Start the development server and visit http://127.0.0.1:8000/

  5. Register http://127.0.0.1:8000/register/ and login http://127.0.0.1:8000/login/

  6. General overview http://127.0.0.1:8000

  7. Create, edit, view and export ISA projects http://127.0.0.1:8000/misa/ilist/

  8. Upload to Galaxy, run Galaxy workflows and view Galaxy histories http://127.0.0.1:8000/misa/ilist/

  9. Browse, view and search metabolomic datasets http://127.0.0.1:8000/mbrowse/general_summary/

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