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I am using Disc2Vhd to make a vhd of my drive. Does the tool support partitions? My partitions of C:\ are listed as both drives and volumes. In short, is there any issue when I select both partitions that make one physical drive?

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According to Windows Sysinternals, it does support multiple partitions.

It will create one VHD for each disk on which selected volumes reside. It preserves the partitioning information of the disk, but only copies the data contents for volumes on the disk that are selected. This enables you to capture just system volumes and exclude data volumes, for example.

Here is a screenshot from the website showing the program in action:

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