Lightweight virtualization technologies gained attention by offering performance and effective scalability across cloud and physical architecture. GO-Docker is a new open source batch scheduling tool that provides container support (Docker). It is based on proven technologies and tools to provide job isolation and custom images for user jobs. Its architecture scales to handle large configurations and provides end-user easy access with a Web UI, CLI tools and API access for external programs integration. Containers provide job isolation, preventing resources overlap, and easier management for the cluster administrators. For the end-user, it provides a choice of operating systems, pre-built configurations and possible root access to the container. Its plugin architecture eases the integration of new scheduling algorithms or other execution/control mechanisms. The software targets multi-user systems with a central authentication (ldap, ...) and shared storage (home directory, shared data, etc.) and manages Docker access for users, leveraging security concerns with container access.