Can migration assistant move data from multiple disks (Mac Pro) to a single disk (iMac)

I have recently purchased an iMac and need to migrate my apps, data and accounts from a Mac Pro running OSX 10.5.8.  Does Migration Assistant accommodate a multi disk set up (I have my OS and apps on one disk and data on another) or does it only recognise one 'target' disk at a time.

yes. I migrated a server frm lion to mavericks following these notes a while back:
OS X Server: Upgrade and migration from Mountain Lion
i do not recall having any problems with it.

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