kbase / genome_annotation

The genome annotation service provides automated gene annotation based on the RAST system. This deploys both client and service components.

Dependencies

• External Package

• Ports that need to be open Port 7050

Setup using the kbase VMs

======= 0. Start the VM and clone the git repo. nova boot .... (options will change over time) ssh ubuntu@

1. Following an updated version of the directions from: https://trac.kbase.us/projects/kbase/wiki/IntegrationTargets sudo bash cd /kb git clone [email protected]:/dev_container.git cd dev_container/modules git clone [email protected]:/genome_annotation.git cd .. ./bootstrap /kb/runtime . user-env.sh

2. The make target deploy will install the service, libraries and documentation cd modules/genome_annotation make deploy

3. Run the internal unit tests make test

4. The service is started/stopped by using the start_service and stop_service scripts in /kb/deployment/services/genome_annotation. cd /kb/deployment/services/genome_annotation ./start_service # or ./stop_service

genome_annotation's Issues

How to run (locally)

Hi,

I am looking at the kbase repositories in order to run an annotation on our local server. Where can I find instructions to deploy the kbase system, including running the rast-annotate-proteins-kmer-v1.pl command locally (without making connections to the rast servers)?

Thanks!