https://github.com/timeu/docker-gwaportal-pipeline
Docker image for GWAPortal pipeline
https://github.com/timeu/docker-gwaportal-pipeline
Last synced: 24 days ago
JSON representation
Docker image for GWAPortal pipeline
- Host: GitHub
- URL: https://github.com/timeu/docker-gwaportal-pipeline
- Owner: timeu
- Created: 2016-04-26T13:20:16.000Z (about 10 years ago)
- Default Branch: master
- Last Pushed: 2018-12-10T10:47:22.000Z (over 7 years ago)
- Last Synced: 2025-05-15T21:47:47.961Z (about 1 year ago)
- Language: Python
- Size: 1.95 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
# timeu/pygwas_celery
[`timeu/pygwas_celery`](https://index.docker.io/u/timeu/pygwas_celery) is a [docker](https://docker.io) image that is based on [`timeu/pygwas`](https://registry.hub.docker.com/u/timeu/gwas_base/) docker image and has [celery](http://www.celeryproject.org/) setup in order to run [PyGWAS](https://github.com/timeu/PyGWAS) as a distributed task.
## Usage
- RUN with default configuration. Listens to all Queues
docker run -e "BROKER_URL=amqp://username:pw@BROKER_HOST:5672/VHOST" -e "REST_HOST=http://REST_HOST" -e "REST_USERNAME=USERNAME" -e "REST_PASSWORD=PW" timeu/pygwas_celery
- Pass specific options to celery executable (i.e Queue, concurrency, etc)
docker run -e "BROKER_URL=amqp://username:pw@BROKER_HOST:5672/VHOST" -e "REST_HOST=http://REST_HOST" -e "REST_USERNAME=USERNAME" -e "REST_PASSWORD=PW" timeu/pygwas_celery -Q gwas.portal.fast
## Notes
Following volumes are defined:
- /conf .. contains the celeryconfig.py file
- /GWASDATA .. folder where celery will the input & output files
- /GENOTYPE .. folder that contains the genotype data