[[TOC()]]

= Clusters and accounts =
=== Get account and sharing data ===
 * [wiki:RequestAccount] - How to request an account for access to GCC maintained infrastructure (Cloud & HPC clusters)
 * [wiki:DataSharing] - How to up-/download data via SFTP
 * [wiki:TransparentMultiHopSSH] - How to connect via the proxy
 * [wiki:PortForwarding] - How to use port forwarding on Mac to use Filezilla and Komodo Edit

=== High Performance Computing (HPC) infra ===

==== For Users ====
How to compute on the HPC generation 2.x clusters ''Calculon'', ''Zinc-Finger'' and ''Leucine-Zipper'' Clusters.
 * [wiki:HPC_versions Overview] - Description of the different HPC environments
 * [wiki:HPC_login Login] - How to start a session.
 * [wiki:HPC_analysis Analyses SOP] - How to manage your jobs on the cluster. 
 * [wiki:HPC_resources Available resources] - What is available and where.
 * [wiki:HPC_storage Storage SOP] - What is stored where.
 * [wiki:HPC_support Support] - FAQs, mailinglists, courses and contact info to get in touch with an admin.
 * [wiki:HPC_maintenance Scheduled Maintenance] - Policy and dates for scheduled maintenance.
How to compute on the HPC generation 3.x clusters
 * [wiki:HPC_analysisPublicBeta New documentation for gen. 3 clusters] - New Gearshift cluster online!
==== For Admins ====
 * [wiki:HPC_admin_accounts SOP Accounts] - Managing users and groups for the HPC infrastructure.
 * [wiki:HPC_deploy Deploy Apps & Data] - SOP for central deployment of software and reference data sets.
 * [wiki:HPC_admin_storage Shared Storage Config] - How are logical file systems related to physical ones.
 * [wiki:HPC_admin_compute Compute Config] - SLURM schedulers, partitions and nodes.

= Molgenis and VMs =
=== Cloud VMs / Jenkins / !WordPress ===
 * [serverlist.gcc.rug.nl] - List of all VMs in our cloud.
 * [https://github.com/molgenis/molgenis-ops-ansible Create a new MOLGENIS instance] - You can create a new MOLGENIS VM based on CentOS running this Ansible script
 * [wiki:GccSopInstallationDeployServerInJenkins Install SOP / Deploy MOLGENIS via Jenkins] - How to deploy MOLGENIS on a VM using Jenkins.
 * [wiki:GccSopWordPress SOP WordPress] - How to manage !WordPress websites

=== Deploy MOLGENIS v2.x server based on PostGreSQL Golden VM ===
* [wiki:PostGreSQLBasedServerDeploy Deploy a PostGreSQL based MOLGENIS server] - How to deploy a MOLGENIS server compatible with MOLGENIS v2.0 and higher

= Internal GCC SOPs =
 * [wiki:GCCSopUMCGNetwork SOP UMCG network] - How to connect to UMCG network
 * [wiki:GCCSopNewEmployee SOP new Employee (employee)] - Manual for employee
 * [wiki:GCCSopNewEmployeeGCC SOP New Employee (team)] - Manual for team
 * GccSopMolgenisRelease - How to create a MOLGENIS release
 * GccSopMolgenisBugfixRelease - How to create a MOLGENIS Bugfix-release
 * GccSopSystemsGeneticsRelease - How to create a Systems Genetics release
 * GccSopMolgenisComputeRelease - How to create a MOLGENIS Compute release