Beyound Compare : Ignore File Extension option
As an example, here's how to align .bmp files on the left with .jpg files on the right using BC3 Pro:
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Select Session > Session Settings.
Go to the Misc tab.
Click New.
For "Align left file (or folder)" enter "*.bmp".
For "with right file (or folder)" enter "*.jpg".
Click OK until you're back to the main window.
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