django-mogi

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 galaxy and gfiles):

   INSTALLED_APPS = [
       ...
       'mogi',
       '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/