https://github.com/dd-decaf/process-engine

Tool for performing long-running computations based on Resolwe
https://github.com/dd-decaf/process-engine

Last synced: 6 days ago
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Tool for performing long-running computations based on Resolwe

• Host: GitHub
• URL: https://github.com/dd-decaf/process-engine
• Owner: DD-DeCaF
• Created: 2017-12-13T16:14:46.000Z (about 7 years ago)
• Default Branch: master
• Last Pushed: 2018-03-12T11:58:57.000Z (almost 7 years ago)
• Last Synced: 2024-11-09T14:25:54.118Z (2 months ago)
• Language: Python
• Homepage:
• Size: 24.4 KB
• Stars: 0
• Watchers: 2
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
Tool for performing long-running computations

TODO: dockerize everything so it can be deployed on Docker Cloud

## Current local setup

Install the dependencies in virtualenv, remember to activate it in all the terminal windows

```

$ docker-compose up

```

In another terminal window

```

$ ./manage.py migrate

$ ./manage.py createsuperuser --username admin --email [email protected]

$ ./manage.py register

$ ./manage.py runserver

```

In another terminal window

```

$ ./manage.py runobservers

```

In another terminal window

```

$ ./manage.py runlistener

```

In another terminal window

```

$ celery -A modeling worker --queues=ordinary,hipri --loglevel=info

```

To run the process with `reSDK`

```

pip install resdk

```

In Python shell

```python

In [1]: import res

In [2]: res = resdk.Resolwe(url='http://localhost:8000', username='admin', password='...')

In [3]: paths1 = res.run('pathways-predictor', input={'model': 'e_coli_core', 'product': 'ethanol', 'n_pathways': 1})

In [4]: paths1.update()

In [5]: paths1.status

Out[5]: 'PR'

In [6]: paths1.update()

In [7]: paths1.status

Out[7]: 'OK'

```

You can see the results of the local runs in `data/data` directories