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TWiki's HPC web https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC The HPC web of TWiki. TWiki is a Web-Based Collaboration Platform for the Enterprise. en-us Copyright 2021 by contributing authors TWiki Administrator [bioinf-holstege@lists.umcutrecht.nl] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).HPC https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC https://wiki.bioinformatics.umcutrecht.nl/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif WebHome https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/WebHome Welcome to the High Performance Computing (HPC) Facility wiki The High performance Computing (HPC) facility is setup to provide high performance computing power to... (last changed by ReneJanssen) 2021-11-18T08:09:21Z rjanssen ContactDetails https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/ContactDetails ContactDetails Initial contact Initial intakes for new research groups and general information about the HPC facility are handled by Jeroen de Ridder. Please contact... (last changed by MartinMarinus) 2021-07-06T09:06:33Z mmarinus SshCommandLine https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/SshCommandLine SSH configuration for Mac and Linux # goto your homedirectory cd # create a .ssh directory mkdir .ssh # goto .ssh directory cd ~/.ssh # create a ssh keypair ssh keygen... (last changed by ReneJanssen) 2021-04-09T08:12:00Z rjanssen SlurmLimits https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/SlurmLimits Resource Limits in Slurm Very short summary The resources that we put limits on are: CPU, memory, GPU. And runtime, sort of. Whom do we limit this to? Not to you... (last changed by MartinMarinus) 2020-05-26T09:54:21Z mmarinus HPCInTimesOfCovid19 https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/HPCInTimesOfCovid19 HPC In Times Of Covid 19 (Un)limited Service Like most of you, we`re working from home at the moment. We try to provide the same service as always, so feel free... (last changed by MartinMarinus) 2020-03-17T14:52:08Z mmarinus CromWellService https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/CromWellService Cromwell workflow management system Cromwell is a workflow management system geared towards scientific workflows. More information can be found online. It can function... (last changed by ReneJanssen) 2019-05-13T13:08:44Z rjanssen MyTest https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/MyTest Title Article text. Comments (last changed by ReneJanssen) 2019-05-13T09:47:23Z rjanssen ConditionsAndSupport https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/ConditionsAndSupport Conditions and Support Conditions In order to be able to use the HPC facility, you need to be affiliated with University Medical Center Utrecht, Utrecht University... (last changed by MartinMarinus) 2018-05-22T07:39:51Z mmarinus ParticipatingGroups https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/ParticipatingGroups ParticipatingGroups University Medical Center Utrecht Division Biomedical Genetics Edwin Cuppen, Medical Genetics David Egan, Cellbiology Wigard Kloosterman... (last changed by PatrickKemmeren) 2017-12-08T11:19:26Z patrick PuttyTerm https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/PuttyTerm change configuration Putty ssh client Load the current configuration for the gateway Change the configuration and save (last changed by ReneJanssen) 2017-08-25T11:11:39Z rjanssen MakingSoftwareAvailableUsingLMOD https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/MakingSoftwareAvailableUsingLMOD Howto create your own/group software modules Introduction Often a program requires particular environment variables in order to run. LMOD environment modules provide... (last changed by ReneJanssen) 2017-03-27T11:35:50Z rjanssen MobaXterm https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/MobaXterm MobaXterm change configuration edit configuration and change hostname (last changed by ReneJanssen) 2017-03-23T15:36:38Z rjanssen Irods https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/Irods Irods Information The irods(https://irods.org/) commandline client software is installed in the hpct01 and hpct02 servers of the HPC. On these transfer servers you... (last changed by ReneJanssen) 2017-03-01T15:00:56Z rjanssen TestClusterQueueSetup https://wiki.bioinformatics.umcutrecht.nl/bin/view/HPC/TestClusterQueueSetup Test cluster queue setup There are a few changes in the queuing setup: On the `old` cluster, there were five queues: veryshort, short, medium, long, verylong... (last changed by MartinMarinus) 2016-01-28T12:12:25Z mmarinus
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