Hi Jerome, Yes, I correctly specified the pixel type to unsigned char.
On Sun, Nov 23, 2014 at 5:15 PM, Jerome Plumat <j.plu...@auckland.ac.nz> wrote: > Hi, > Have you correctly specified the pixel type? I had similar problem and > mine was due to pixels specifications. > Hope it helps. > > Jerome Plumat > ------- > School of Medical Sciences > University of Auckland > > If I am not for myself, who will be for me? And if I am only for myself, then > what an I? And if not now when? – Hillel HaZaken > > On 24/11/14 10:51, Fotis Drakopoulos wrote: > > Hi all, > > For the last couple of days I have been trying reading (unsuccessfully) > a big nifti volume labeled image from my disk. > > The pixel type is unsigned char and the rest specs of the image are: > Size : [1001, 1001, 8345] (in voxels) > Spacing : [0.012, 0.012, 0.012] (in mm) > Origin : [0, 0, 0] > Direction : > 1 0 0 > 0 1 0 > 0 0 1 > > First I loaded the volume on Slicer-4.4.0 (64 bit-linux) to get an idea > how it looks like. Indeed the object in the volume looks as it was > expected. So far no problems. The specs of the image on Slicer are the same > as above (except the direction which has flipped signs for the first two > diagonal entries, as we know ). > > Then I tried to load the image in the memory using the > itk::ImageFileReader from ITK4.6.0 (64 bit-linux) version. After loading > the image I noticed that there are pixels with zero values instead of > non-zero by comparing the same indexes with the loaded image on Slicer. > > Then I decided to write the loaded image on the disk using the > itk::ImageFileWriter. > > After opening the (written from ITK) image on Slicer I checked the > specks and were the same with the original image as above. However I > noticed that a big portion of the image is completely empty (black)! > > My workstation has enough memory to load the image (768 GB 1600MHz DDR3L) > and is using Red Hat Enterprise Linux Server 6.5. > The size of the original nifti volume is : > > - 25.7 MB (.nii.gz) > - 8.36 GB (.nii) > > Has anybody experienced similar difficulties trying to load so big > volume data? > > Best, > Fotis Drakopoulos > CRTC > > > > _____________________________________ > Powered by www.kitware.com > > Visit other Kitware open-source projects > athttp://www.kitware.com/opensource/opensource.html > > Kitware offers ITK Training Courses, for more information > visit:http://www.kitware.com/products/protraining.php > > Please keep messages on-topic and check the ITK FAQ > at:http://www.itk.org/Wiki/ITK_FAQ > > Follow this link to > subscribe/unsubscribe:http://public.kitware.com/mailman/listinfo/insight-users > > > ------------------------------ > > Spam > <https://www.spamtrap.odu.edu/canit/b.php?i=01Njag6QE&m=e24f9d3be5a0&t=20141123&c=s> > Not spam > <https://www.spamtrap.odu.edu/canit/b.php?i=01Njag6QE&m=e24f9d3be5a0&t=20141123&c=n> > Forget previous vote > <https://www.spamtrap.odu.edu/canit/b.php?i=01Njag6QE&m=e24f9d3be5a0&t=20141123&c=f> > > _____________________________________ > Powered by www.kitware.com > > Visit other Kitware open-source projects at > http://www.kitware.com/opensource/opensource.html > > Kitware offers ITK Training Courses, for more information visit: > http://www.kitware.com/products/protraining.php > > Please keep messages on-topic and check the ITK FAQ at: > http://www.itk.org/Wiki/ITK_FAQ > > Follow this link to subscribe/unsubscribe: > http://public.kitware.com/mailman/listinfo/insight-users > >
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