CLI Commands

Setup

ov system setup

Run an analysis job

ov run

Create annotation reports

ov report

Launch a GUI server

ov gui

Manage modules

List modules

ov module ls

Install modules

ov module install

Uninstall modules

ov module uninstall

Install system modules

ov module installbase

Update modules

ov module update

Get information on modules

ov module info

Manage store accounts

Create a store account

ov store account create

Delete a store account

ov store account delete

Change a store account password

ov store account change

Check if logged in on the OakVar store

ov store account check

Log in on the OakVar store

ov store account login

Log out from the OakVar store

ov store account logout

Reset the password of a store account

ov store account reset

Publish modules

Pack a module for registering at the OakVar store

ov module pack

Register a module at the OakVar store

ov store register

Manage configuration

Manage modules directory

ov system md

Show system configuration

ov config system

Show user configuration

ov config user

Test modules

ov util test

Utilities

Create an example input file

ov new exampleinput

Create an annotation module template

ov new annotator

Merge analysis result database files

ov util mergesqlite

Filter analysis result database files

ov util filtersqlite

Show analysis result database file information

ov util sqliteinfo --fmt [json(default)|yaml|text]