Hi Nick, This might be occuring because you have a newer version of mri_convert that does not support the -raw flag. You could use an older version with register.csh or try using mri_motion_correct2 (i think that is the name). The latter works really well, but you will need to install all of the MNI tools.
check the archive for hints on mni installation. good luck. brian ----- Original Message ----- From: "Nicholas Knouf <[EMAIL PROTECTED]>" <[EMAIL PROTECTED]> To: <[EMAIL PROTECTED]> Sent: Wednesday, October 16, 2002 1:00 PM Subject: problems with register.csh > Hi, > > I am trying to run register.csh (as per the FreeSurfer manual) to > motion correct my anatomical scans before averaging them together. > However, I get an error saying 'mri_convert: unknown flag "-raw"' > (actual output below). Unfortunately, I can't make out from the > information what options to mri_convert should actually be used. > > Thanks, > > Nick Knouf > Lab Manager, Kanwisher Lab > > ------------------- uninteresting data snipped ---------------------- > ++ CPU time for realignment=279 s > ++ Min : roll=-0.285 pitch=-0.072 yaw=-0.997 dS=+6.359 dL=+2.301 dP=+9.563 > ++ Mean: roll=-0.285 pitch=-0.072 yaw=-0.997 dS=+6.359 dL=+2.301 dP=+9.563 > ++ Max : roll=-0.285 pitch=-0.072 yaw=-0.997 dS=+6.359 dL=+2.301 dP=+9.563 > ++ Writing dataset to disk in ./dset+orig.HEAD. > ** Warning: will overwrite file regist.afni > done registering > rotating -0.285 -0.072 -0.997 6.359 2.301 9.563 > atr_int == NULL > atr_flo == NULL > /pasque/nfs_data2/data/subjects/021015nk/mri/orig > mri_convert -raw 256 256 256 uchar /tmp/reg.res+orig.BRIK motion_corrected_cor > > mri_convert: unknown flag "-raw" > > type mri_convert -u for usage > > pasque% >
