django-galaxy

Django interfacing with Galaxy. Backend using the bioblend API.

Galaxy is a web based workflow platform that can be used to perform bioinformatics in a reproducible and sharable environment.

Further documentation available on ReadTheDocs

Quick start

1. Add "galaxy" and django application dependencies to your INSTALLED_APPS setting like this (galaxy should come before gfiles):

   INSTALLED_APPS = [
       ...
       'galaxy',
       'gfiles',
   
   
       'django_tables2',
       'bootstrap3',
       'django_tables2_column_shifter',
       'django_sb_admin',
       'django_filter'
   ]
   

2. Include the polls URLconf in your project urls.py like this:

   url(r'^', include('gfiles.urls')),
   url('galaxy/', include('galaxy.urls')),
   

3. Run python manage.py migrate to create the 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. View summary of Galaxy instances and options http://127.0.0.1:8000/galaxy/galaxy_summary/

7. Register Galaxy instance http://127.0.0.1:8000/galaxy/addgi/

8. Register Galaxy user http://127.0.0.1:8000/galaxy/addguser/

9. Upload file(s) to Django (for bulk upload of files see django-misa and django-mogi) http://127.0.0.1:8000/upload_gfile/

10. Upload file(s) to Galaxy data library (for bulk upload of files see django-misa and django-mogi) http://127.0.0.1:8000/galaxy/files_to_galaxy_datalib/

11. Run workflow (for running workflows with ISA data see django-misa and django-mogi) http://127.0.0.1:8000/galaxy/workflow_summary/

12. View histories http://127.0.0.1:8000/galaxy/history_status/