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Hi Duncan,
DSS will read CR2 files directly. Best thing as CR2 files are 3 times the size of JPGs for your 1000d, is to download them direct to your computer after taking them with EOS Uitility, dont store them on the camera.
Remember you will have to redo darks and flats as DSS doesnt like it when you have different formats for each component.
Also save out of DSS as 32bit rational tiff then convert down in photoshop to 16bit, dont save in DSS 16bit, it does a 5h1t job.
Trev
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