Hi Af.
it's hard to diagnose from just the images, but it looks like the intensity normalization is eroding the gray/white boundary. I don't think the brightness is an issue per se, as that's just a display artifact. If you send us the orig.mgz and the 00?.mgz volumes we'll take a look.
cheers, Bruce
On Thu, 12 Nov 2009, africa millan wrote:
Hello everybody,
Yesterday I sent a message about a brightness problem. If anybody has an answer or any idea about it, It would be very helpful for me.
Thank you for your help.
Af.
From: africa_millan@hotmail.es To: freesurfer@nmr.mgh.harvard.edu Subject: brightness problem Date: Wed, 11 Nov 2009 11:37:19 +0100
Hello everybody,
When I open the wm.mgz file of a subject to check the result of the first automatic segmentation that freesurfer runs, I get the image that I've attached in this message ( the image is named "1st recon"). As you can see,there are problems with the differentation between the grey and the white matter maybe because of the high brigthness of the image. But when I check the original image of the subject, the brightness is ok. The thing is that if I compare the original image (orig.mgz) with the file rawavg.mgz of the same subject that Freesurfer generates,I realize that the second one (rawavg.mgz) has an increased brightness. I've also attached a file that corresponds to the comparation between the brightness of the original image and the brightness of the rawavg.mgz file of the same subject (the file is named "comparation1"), the recon-all.log and the recon-all-status.log files where you can check that the recon-all finished without any problem or without any error message. There is any way to avoid the increased brightness of the rawavg.mgz?
Thank you for your help.
Af.
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