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Hi Mike, Thanks for sending the data. DO NOT use it as it is or with any scaling. It is definitely byte swapped, and most intensities are around 1e32, which is why you see a blank screen in FSLView. If you change the display range to this then you see an inverted outline, but essentially everything there is unusable in its present form. This problem is due to both the header and the data having different conventions for the byte ordering (or endianness) as well as the ridiculous value of the intensity offset (-72534755819308628381974659072.000000). It is probably possible to fix the files but I'll have to get back to you on that soon. Just don't use the data in the meantime as it is not usable as it is or in a scaled form. All the best, Mark On 9 Nov 2010, at 16:21, Mark Jenkinson wrote: > Hi, > > I would be very wary of this as I suspect that there is a byte > swapping issue happening and this can corrupt data in both > a very obvious way and also in very subtle ways. The division > trick just doesn't work in this case. > > Probably best if you can upload an example to our site at: > http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi > and send us the reference number. I've seen this kind of > thing before so should be able to figure out what needs to > be done. > > All the best, > Mark > > > On 9 Nov 2010, at 16:08, Matt Glasser wrote: > >> You could divide the images by some number to get them to more reasonable >> values. If the relative intensities in the image make sense then the data >> is probably ok. If the image is all the same intensity or doesn't make >> sense after lowering the values, then you are probably stuck. >> >> Peace, >> >> Matt. >> >> -----Original Message----- >> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf >> Of Mike Sugarman >> Sent: Tuesday, November 09, 2010 9:03 AM >> To: [log in to unmask] >> Subject: Re: [FSL] High Intensity Values >> >> Are you sure there's no way to salvage the scan? My original scan is in .img >> format, and although the intensity values are very high, I can still view >> the scan; the surrounding space outside the head just also has very high >> values (and displays as white in the viewer) and I am unable to perform BET >> on it. >> >> Thanks, >> -Mike >> >