Thanks for the help Doug! I will let you know how it goes.
Niels On 8/29/06, Doug Greve <[EMAIL PROTECTED]> wrote:
No, I don't have anything which allows you to specify them yourself. On the other hand, you can work-around this with something like: mri_probedicom --i slice1.dcm --o slice1.dat slice1.dat will be a binary file of the pixel data from the file slice1.dcm. You can do this for each slice, then assemble the data into a real format. Not fun, but possible. Other tools out there might not require the direction cosines. doug Niels Bergsland wrote: > Hi Doug, > Thanks for the quick response. These are for single images. These > older files are missing 0020,0032 (ImagePositionPatient) and 0020,0037 > (ImageOrientationPatient). It is my understanding that 20,37 is used > to establish the direction cosines. The scans were all acquired in > the axial plane. Is it possible to 'fake' the 20,37 field by > inserting the values: 1\0\0\0\1\0 ? We also know which way the > slices are supposed to be sorted, is it possible to insert values into > 20,32 in order to have freesurfer able to 'know' the proper sorting > order? > As I said in my first email, I am afraid not... But I figured it would > not hurt to ask. > Thanks! > Cheers, > Niels > > On 8/28/06, Doug Greve <[EMAIL PROTECTED]> wrote: > >> Which diom tags do you mean? I think we can get away with not having the >> Patient Orientation (tag 20,20) -- I'm not sure why I required it in the >> first place. ImagePositionPatient (tag 20,32) is considerably more >> important as this is one of the ways the slices are sorted and the >> direction cosines estabilished. Are these for mosaics? >> >> doug >> >> Niels Bergsland wrote: >> >> > Hi, >> > We have some old scans that were originally in ACR-NEMA format which >> > we have converted to DICOM. The problem is that they are missing both >> > the ImagePositionPatient and ImageOrientationPatient fields. Is >> > there anyway to use freesurfer without having these two fields? Based >> > on the post by Doug which I found at >> > >> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg03409.html >> > , I am afraid not... >> > >> > Thank you for any help. >> > Regards, >> > Niels Bergsland >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > >> > >> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> [EMAIL PROTECTED] >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> In order to help us help you, please follow the steps in: >> surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> >> >> > > -- Douglas N. Greve, Ph.D. MGH-NMR Center [EMAIL PROTECTED] Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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