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Table of Contents
Clusters, servers and accounts
Get account, how to connect and share data
- RequestAccount? - How to request an account for access to GCC maintained infrastructure (Cloud & HPC clusters)
- DataSharing? - How to up-/download data via SFTP
- TransparentMultiHopSSH? - How to connect via the proxy
- PortForwarding? - How to use port forwarding on Mac to use Filezilla and Komodo Edit
High Performance Computing (HPC) infra
How to compute on the Calculon, Boxy, Zinc-Finger and Leucine-Zipper Clusters.
- Overview? - Description of the different HPC environments
For Users
- Login? - How to start a session.
- Analyses SOP? - How to manage your jobs on the cluster.
- Available resources? - What is available and where.
- Storage SOP? - What is stored where.
- Support? - FAQs, mailinglists, courses and contact info to get in touch with an admin.
- Scheduled Maintenance? - Policy and dates for scheduled maintenance.
For Admins
- SOP Accounts? - Managing users and groups for the HPC infrastructure.
- Deploy Apps & Data - SOP for central deployment of software and reference data sets.
- Shared Storage Config? - How are logical file systems related to physical ones.
- Compute Config? - SLURM schedulers, partitions and nodes.
Molgenis and VMs
Cloud VMs / Jenkins / Tomcat / MySQL / WordPress
- Molgenis Servers? - List of all VMs in our cloud.
- Create Molgenis VM - How to request and configure a new Molgenis VM cloned from the 'molgenis gold' template.
- Install SOP / Tomcat7 - How to deploy Tomcat7 on a Molgenis VM.
- Install SOP / Tomcat Auth - How to add Tomcat 7 basic login authentication.
- Install SOP / Deploy MOLGENIS via Jenkins - How to deploy MOLGENIS on a VM using Jenkins.
- Molgenis VM multiple certificates - Use Molgenis VM with multiple certificates.
- MySQL setup?
- SOP Nightlies? - How to create a nightly build
- SOP WordPress - How to manage WordPress websites
Deploy MOLGENIS v2.x server based on PostGreSQL Golden VM
- Deploy a PostGreSQL based MOLGENIS server - How to deploy a MOLGENIS server compatible with MOLGENIS v2.0 and higher
Internal GCC SOPs
- SOP new Employee (employee) - Manual for employee
- SOP New Employee (team) - Manual for team
- GccSopMolgenisRelease - How to create a MOLGENIS release
- GccSopSystemsGeneticsRelease - How to create a Systems Genetics release
- GccSopMolgenisComputeRelease - How to create a MOLGENIS Compute release
