Remote and Local Usage
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In a local environment, FASTQ.ORA files are accessible on the compute node via the file system. Cloud instances with local data, or data available via a network file system, are also considered local environments. Local environment examples include the following:
The compute node is a laptop and files are stored on the local hard disk.
The compute node is a cloud instance and files are copied to its local storage.
In a remote environment, FASTQ.ORA files are stored in the cloud on either AWS S3 or Azure blob.
The DRAGEN ORA Helper Suite Software reuses the AWS Command Line Interface (AWS CLI) configuration. The location of a file is passed by specifying the file name as follows:
s3://bucket/<file name>
To make sure that the AWS CLI is configured to access your file, use the following command:
$ aws s3 ls s3://bucket/<remote file name>.fastq.ora
The DRAGEN ORA Helper Suite Software reuses the URI set up for your Azure Blob Storage. The location of a file is passed by specifying the file name as follows:
https://StorageAccountName.blob.core.windows.net/<my container>/<my blob>.fastq.ora
To make sure that the Azure CLI is configured to access your blob file, use the following command:
export AZURE_STORAGE_CONNECTION_STRING=<yourURI> az storage blob list – container-name <myContainer>