Hi, I signed up for the ITK community on midas. Thanks, Fotis Drakopoulos
On Tue, Nov 25, 2014 at 10:44 PM, Matt McCormick <matt.mccorm...@kitware.com > wrote: > Hi Fotis, > > Thanks for helping to improve large nifti file support. > > The file can be uploaded on midas3.kitware.com. Sign up for the ITK > community [1], let the list know the name of your account, and myself > or one of the other administrators will add upload priviledges to the > account. > > The file could then be added to ITK/Public/ITK/Modules/IO/NIFTI/test/Input. > > Thanks, > Matt > > [1] http://midas3.kitware.com/midas/community/12 > > On Tue, Nov 25, 2014 at 3:14 PM, Fotis Drakopoulos <fdrak...@gmail.com> > wrote: > > Hi all, > > > > I created a test nifti image that reproduces the problem I mentioned > before. > > How can I share this image with the ITK community? > > > > Best, > > Fotis Drakopoulos > > > > > > On Mon, Nov 24, 2014 at 10:13 AM, Bradley Lowekamp < > blowek...@mail.nih.gov> > > wrote: > >> > >> Shareable test data greatly helps determine the cause and fix these > types > >> of issues. > >> > >> Got data? > >> > >> Brad > >> On Nov 23, 2014, at 5:40 PM, Gib Bogle <g.bo...@auckland.ac.nz> wrote: > >> > >> This is reminiscent of the previous problem with big TIFF images, now > >> fixed. > >> > >> Gib > >> ________________________________ > >> From: Insight-users [insight-users-boun...@itk.org] on behalf of Fotis > >> Drakopoulos [fdrak...@gmail.com] > >> Sent: Monday, 24 November 2014 10:51 a.m. > >> To: insight-us...@itk.org; insight-developers@itk.org > >> Subject: [ITK-users] Problem reading a big nifti volume. > >> > >> 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 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 > >> > >> > >> ________________________________ > >> > >> Spam > >> Not spam > >> Forget previous vote > > > > > > > > _______________________________________________ > > 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://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-developers > > > > > -- > BEGIN-ANTISPAM-VOTING-LINKS > ------------------------------------------------------ > > Teach CanIt if this mail (ID 03Nk3J6v4) is spam: > Spam: > https://www.spamtrap.odu.edu/canit/b.php?i=03Nk3J6v4&m=9e79d1b816aa&t=20141125&c=s > Not spam: > https://www.spamtrap.odu.edu/canit/b.php?i=03Nk3J6v4&m=9e79d1b816aa&t=20141125&c=n > Forget vote: > https://www.spamtrap.odu.edu/canit/b.php?i=03Nk3J6v4&m=9e79d1b816aa&t=20141125&c=f > ------------------------------------------------------ > END-ANTISPAM-VOTING-LINKS > >
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