The list isn't liking donna's home email for some reason, forwarding her message at her request.
Tim Begin forwarded message: *From: *[email protected] *Subject: **Re: [caret-users] ima images* *Date: *March 12, 2012 6:14:03 PM CDT *To: *[email protected] You are not allowed to post to this mailing list, and your message has been automatically rejected. If you think that your messages are being rejected in error, contact the mailing list owner at [email protected]. *From: *Donna Dierker <[email protected]> *Subject: **Re: [caret-users] ima images* *Date: *March 12, 2012 6:08:37 PM CDT *To: *"Caret, SureFit, and SuMS software users" < [email protected]> And I think once perhaps I computed xdim*ydim*bytes-per-pixel and used the Linux tail command to strip the header off the ima files. Then I used cat to put them together to form a raw file. Or I dreamed it. What can be nightmarish about this is when the slice order differs from the Linux shell file sort order. Then you must come to grips with the fact that you need a software utility to import these for you. Freesurfer's mri_convert probably fits the bill, too. On Mar 12, 2012, at 3:59 PM, Timothy Coalson wrote: FSL is another software package for viewing and manipulating MRI images, etc, which is entirely separate from Caret: http://www.fmrib.ox.ac.uk/fsl/ to3d's help suggests that it should understand .ima, but it doesn't seem to give much detail on how to use it: "* Siemens .ima image files can now be read. The program will detect if byte-swapping is needed on these images, and can also set voxel grid sizes and orientations (correctly, I hope)." Did you try dinifti or dcm2nii? I know at least one of them understood .ima, but I can't remember which. http://cbi.nyu.edu/software/dinifti.php http://www.cabiatl.com/mricro/mricron/dcm2nii.html If all that fails, you may be able to run it through dcm_to_4dfp and nifti_4dfp from the 4dfp suite, but that will probably involve building it from source unless you already have it installed. Tim On Mon, Mar 12, 2012 at 2:01 PM, Maestri, Matthew < [email protected]> wrote: > Hi Tim, > > I was unable to use AFNI's to3d. Is there any way I can convert them in > Caret or compile them somehow? What is a FSL in Caret? > > Thank you, > Matthew > ________________________________________ > From: [email protected] [ > [email protected]] on behalf of Donna Dierker [ > [email protected]] > Sent: Friday, March 09, 2012 12:10 PM > To: Caret, SureFit, and SuMS software users > Subject: Re: [caret-users] ima images > > Try something like AFNI's to3d. > > > On Mar 9, 2012, at 11:04 AM, Timothy Coalson wrote: > > > I believe .ima is an extension used for dicom data, try a dicom to nifti > converter such as dinifti or dcm2nii (part of mricron). > > > > Tim > > > > On Fri, Mar 9, 2012 at 9:09 AM, Maestri, Matthew < > [email protected]> wrote: > > Hi Donna, > > > > Is it possible for me to open ima images in Caret? If not, is it > possible for me to convert the ima images into a Caret friendly image? If > so, how would I got about doing this? > > > > Thanks, > > Matthew > > > > _______________________________________________ > > caret-users mailing list > > [email protected] > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > > > > _______________________________________________ > > caret-users mailing list > > [email protected] > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > _______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > _______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users > _______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
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