azure
The azure scope controls the interactions with Azure, including Azure Batch and Azure Blob Storage.
azure.activeDirectory.servicePrincipalId
The service principal client ID. Defaults to environment variable AZURE_CLIENT_ID.
azure.activeDirectory.servicePrincipalSecret
The service principal client secret. Defaults to environment variable AZURE_CLIENT_SECRET.
azure.activeDirectory.tenantId
The Azure tenant ID. Defaults to environment variable AZURE_TENANT_ID.
azure.azcopy.blobTier
The blob access tier used by azcopy to upload files to Azure Blob Storage. Valid options are None, Hot, or Cool (default: None).
azure.azcopy.blockSize
The block size (in MB) used by azcopy to transfer files between Azure Blob Storage and compute nodes (default: 4).
azure.batch.accountKey
The batch service account key. Defaults to environment variable AZURE_BATCH_ACCOUNT_KEY.
azure.batch.accountName
The batch service account name. Defaults to environment variable AZURE_BATCH_ACCOUNT_NAME.
azure.batch.allowPoolCreation
Enable the automatic creation of batch pools specified in the Nextflow configuration file (default: false).
azure.batch.autoPoolMode
Enable the automatic creation of batch pools depending on the pipeline resources demand (default: true).
azure.batch.copyToolInstallMode
The mode in which the azcopy tool is installed by Nextflow (default: 'node').
Available options: The The The 'node'azcopy tool is installed once during the pool creation.'task'azcopy tool is installed for each task execution.'off'azcopy tool is not installed.
azure.batch.deleteJobsOnCompletion
Default value was changed from true to false.
Delete all jobs when the workflow completes (default: false).
azure.batch.deletePoolsOnCompletion
Delete all compute node pools when the workflow completes (default: false).
azure.batch.deleteTasksOnCompletion
Delete each task when it completes (default: true).
Although this setting is enabled by default, failed tasks will not be deleted unless it is explicitly enabled. This way, the default behavior is that successful tasks are deleted while failed tasks are preserved for debugging purposes.
azure.batch.endpoint
The batch service endpoint e.g. https://nfbatch1.westeurope.batch.azure.com.
azure.batch.jobMaxWallClockTime
The maximum elapsed time that jobs may run, measured from the time they are created (default: 30d).
If jobs do not complete within this time limit, the Batch service terminates them and any tasks still running.
azure.batch.location
The name of the batch service region, e.g. westeurope or eastus2. Not needed when the endpoint is specified.
azure.batch.poolIdentityClientId
The client ID for an Azure managed identity that is available on all Azure Batch node pools. This identity is used by Fusion to authenticate to Azure storage. If set to 'auto', Fusion will use the first available managed identity.
azure.batch.pools.<name>.autoScale
Enable autoscaling feature for the pool identified with <name>.
azure.batch.pools.<name>.fileShareRootPath
The internal root mount point when mounting File Shares. Must be /mnt/resource/batch/tasks/fsmounts for CentOS nodes or /mnt/batch/tasks/fsmounts for Ubuntu nodes (default: CentOS).
azure.batch.pools.<name>.lowPriority
Enable the use of low-priority VMs (default: false).
As of September 30, 2025, Low Priority VMs will no longer be supported in Azure Batch accounts that use Batch Managed mode for pool allocation. You may continue to use this setting to configure Spot VMs in Batch accounts configured with User Subscription mode.
azure.batch.pools.<name>.maxVmCount
The max number of virtual machines when using auto scaling.
azure.batch.pools.<name>.mountOptions
The mount options for mounting the file shares (default: -o vers=3.0,dir_mode=0777,file_mode=0777,sec=ntlmssp).
azure.batch.pools.<name>.offer
The offer type of the virtual machine type used by the pool identified with <name> (default: centos-container).
azure.batch.pools.<name>.privileged
Enable the task to run with elevated access. Ignored if runAs is set (default: false).
azure.batch.pools.<name>.publisher
The publisher of virtual machine type used by the pool identified with <name> (default: microsoft-azure-batch).
azure.batch.pools.<name>.runAs
The username under which the task is run. The user must already exist on each node of the pool.
azure.batch.pools.<name>.scaleFormula
The scale formula for the pool identified with <name>.
azure.batch.pools.<name>.scaleInterval
The interval at which to automatically adjust the Pool size according to the autoscale formula. Must be at least 5 minutes and at most 168 hours (default: 10 mins).
azure.batch.pools.<name>.schedulePolicy
The scheduling policy for the pool identified with <name>. Can be either spread or pack (default: spread).
azure.batch.pools.<name>.sku
The ID of the Compute Node agent SKU which the pool identified with <name> supports (default: batch.node.centos 8).
azure.batch.pools.<name>.startTask.privileged
Enable the startTask to run with elevated access (default: false).
azure.batch.pools.<name>.startTask.script
The startTask that is executed as the node joins the Azure Batch node pool.
azure.batch.pools.<name>.virtualNetwork
The subnet ID of a virtual network in which to create the pool.
azure.batch.pools.<name>.vmCount
The number of virtual machines provisioned by the pool identified with <name>.
azure.batch.pools.<name>.vmType
The virtual machine type used by the pool identified with <name>.
azure.batch.terminateJobsOnCompletion
When the workflow completes, set all jobs to terminate on task completion (default: true).
azure.managedIdentity.clientId
The client ID for an Azure managed identity. Defaults to environment variable AZURE_MANAGED_IDENTITY_USER.
azure.managedIdentity.system
When true, use the system-assigned managed identity to authenticate Azure resources. Defaults to environment variable AZURE_MANAGED_IDENTITY_SYSTEM.
azure.registry.password
The password to connect to a private container registry.
azure.registry.server
The container registry from which to pull the Docker images (default: docker.io).
azure.registry.userName
The username to connect to a private container registry.
azure.retryPolicy.delay
Delay when retrying failed API requests (default: 250ms).
azure.retryPolicy.jitter
Jitter value when retrying failed API requests (default: 0.25).
azure.retryPolicy.maxAttempts
Max attempts when retrying failed API requests (default: 10).
azure.retryPolicy.maxDelay
Max delay when retrying failed API requests (default: 90s).
azure.storage.accountKey
The blob storage account key. Defaults to environment variable AZURE_STORAGE_ACCOUNT_KEY.
azure.storage.accountName
The blob storage account name. Defaults to environment variable AZURE_STORAGE_ACCOUNT_NAME.
azure.storage.fileShares.<name>.mountOptions
The file share mount options.
azure.storage.fileShares.<name>.mountPath
The file share mount path.
azure.storage.sasToken
The blob storage shared access signature (SAS) token, which can be provided instead of an account key. Defaults to environment variable AZURE_STORAGE_SAS_TOKEN.
azure.storage.tokenDuration
The duration of the SAS token generated by Nextflow when the sasToken option is not specified (default: 48h).