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Deploy a Nextflow genomics cluster

Sist oppdatert: 22.01.2018

This template deploys a scalable Nextflow cluster with a Jumpbox, n cluster nodes, docker support and shared storage.

Denne Azure Resource Manager (ARM)-malen ble opprettet av et medlem av fellesskapet og ikke av Microsoft. Hver ARM-mal er lisensiert til deg i henhold til en lisensavtale med eieren, ikke med Microsoft. Microsoft er ikke ansvarlig for ARM-maler som leveres og lisensieres av medlemmer og siler dem ikke ut med tanke på sikkerhet, kompatibilitet eller ytelse. Fellesskapets ARM-maler støttes ikke av noe Microsoft-støtteprogram eller -tjeneste, og er gjort tilgjengelig SOM DE ER, uten noen form for garanti.

Parametere

Parameternavn Beskrivelse
dnsNameForJumpBox Unique DNS Name for the Public IP used to access the Docker Virtual Machine (master node).
vmImageReference The image to use for VMs created. This can be marketplace or custom image
vmNodeSku Size of VMs in the VM Scale Set.
vmMasterSku Size of VMs in the VM Scale Set.
vmMasterDiskType Choose between a standard disk for and SSD disk for the master nodes NFS fileshare
vmMasterDiskSize The SSD Size to be used for the NFS file share. For pricing details see https://azure.microsoft.com/en-us/pricing/details/managed-disks/
vmAdditionalInstallScriptUrl An additional installs script (bash run as root) to be run after nodes/master are configured. Can be used to mount additional storage or do additional setup
vmAdditionalInstallScriptArgument An argument to be passed to the additional install script
nextflowInstallUrl The install url for nextflow, this can be used to pin nextflow versions
instanceCount Number of cluster VM instances (100 or less).
adminUsername Admin username on all VMs.
adminPassword Admin password on all VMs.
vnetName Name of the virtual network to deploy the scale set into.
subnetName Name of the subnet to deploy the scale set into.
shareName Azure file share name.
mountpointPath Path on VM to mount file shares. '/datadisks/disk1/' is a Premium Managed disk with high iops, this will suit most uses.
nodeMaxCpus Sets the cluster.maxCpus setting on all cluster nodes
_artifactsLocation *Advanced* This is best left as default unless you are an advanced user. The base URI where artifacts required by this template are located.
_artifactsLocationSasToken *Advanced* This should be left as default unless you are an advanced user. The sasToken required to access _artifactsLocation. When the template is deployed using the accompanying scripts, a sasToken will be automatically generated.
_artifactsSharedFolder *Advanced* This should be left as default unless you are an advanced user. The folder in the artifacts location were shared scripts are stored.
_artifactsNextflowFolder *Advanced* This should be left as default unless you are an advanced user. The folder in teh artifacts location were nextflow scripts are stored.

Bruke malen

PowerShell

New-AzureRmResourceGroupDeployment -Name <deployment-name> -ResourceGroupName <resource-group-name> -TemplateUri https://raw.githubusercontent.com/azure/azure-quickstart-templates/master/nextflow-genomics-cluster-ubuntu/azuredeploy.json
Installere og konfigurere Azure PowerShell

Kommandolinje

azure config mode arm
azure group deployment create <my-resource-group> <my-deployment-name> --template-uri https://raw.githubusercontent.com/azure/azure-quickstart-templates/master/nextflow-genomics-cluster-ubuntu/azuredeploy.json
Installer og konfigurer Azures kommandolinjegrensesnitt for alle plattformer