timeu/pygwas_celery

timeu/pygwas_celery is a docker image that is based on timeu/pygwas docker image and has celery setup in order to run 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