When you define a VMSS with an Azure template, the Microsoft.Compute/virtualMachineScaleSets resource provider can include a section on extensions. The extensionsProfile details what is appiled to the VM. instances in a scale set. To use the Custom Script Extension, you specify a publisher of Microsoft.Azure.Extensions and a type of CustomScript.
The fileUris property is used to define the source install scripts or packages. To start the install process, the required scripts are defined in commandToExecute.
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