Skip to content

Source repository for docker image to download data for dictyBase data migration tasks

Notifications You must be signed in to change notification settings

dictybase-docker/migration-data-manager

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

33 Commits
 
 
 
 
 
 
 
 
 
 

Repository files navigation

Data manager

This is a source repository for docker image to download data for dictyBase data migration tasks. The docker container setup is based on radial topology.

Usage

Build

docker build --rm=true -t dictybase/data-manager .

Run

Command line

docker run --rm dictybase/data-manager app -h

NAME:
   downloader - Download obo ontology from bioportal and github

USAGE:
   downloader [global options] command [command options] [arguments...]

VERSION:
   1.0.0

COMMANDS:
   help, h	Shows a list of commands or help for one command
   
GLOBAL OPTIONS:
   --folder, -f '/data/ontology'				Download folder
   --bioportal, --bp '--bioportal option --bioportal option'	Name of bioportal ontologies
   --github, --gh '--github option --github option'		Name of github ontologies
   --api-key 							Bioportal api key
   --help, -h							show help
   --version, -v						print the version

By default, it expects an extra data container with a data volume set to /data folder. In that case, the ontologies will be saved in /data/ontology.

Example

docker run -v /data --name ontodata progrium/busybox
docker run --rm dictybase/data-manager --volumes from ontodata \
    --api-key d8535830jerekcei --bp so --bp eco 

About

Source repository for docker image to download data for dictyBase data migration tasks

Resources

Stars

Watchers

Forks

Releases

No releases published

Packages

No packages published