Hi Bruce,I have uploaded the baseline K_EL03_1.nii.gz and followup K_EL03_2.nii.gz via FTP File Exchange.
Thanks, Yawu On Thu, Jan 29, 2015 at 3:28 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Yawu > > Can you upload those two volumes so we can take a look? > Cheers > Bruce > > > > On Jan 28, 2015, at 4:33 PM, Liu Y <liuy8...@gmail.com> wrote: > > Dear experts, > Recently I run freesurfer longitudinal analysis > (freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0), during the creation of > the BASE, I get the following error "Volumes differ in geometry row=1 col=4 > diff=4.745766(4.74577)". We did not change the protocol during the study > period. I check the baseline and follow-up images with mri_info, it shows > like this for baseline images . > Volume information for K_EL03_1.nii.gz > type: nii > dimensions: 208 x 256 x 160 > voxel sizes: 1.1719, 1.1719, 1.2000 > type: FLOAT (3) > fov: 243.750 > dof: 0 > xstart: -121.9, xend: 121.9 > ystart: -150.0, yend: 150.0 > zstart: -96.0, zend: 96.0 > TR: 2400.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees > nframes: 1 > PhEncDir: UNKNOWN > ras xform present > xform info: x_r = 0.0000, y_r = 0.0000, z_r = 1.0000, c_r = > 1.9559 > : x_a = -1.0000, y_a = 0.0000, z_a = 0.0000, c_a = 24.3864 > : x_s = 0.0000, y_s = 1.0000, z_s = 0.0000, c_s = -21.0540 > Orientation : PSR > Primary Slice Direction: sagittal > > voxel to ras transform: > 0.0000 0.0000 1.2000 -94.0441 > -1.1719 0.0000 0.0000 146.2614 > 0.0000 1.1719 0.0000 -171.0540 > 0.0000 0.0000 0.0000 1.0000 > > voxel-to-ras determinant -1.64795 > ras to voxel transform: > -0.0000 -0.8533 -0.0000 124.809 <124.8097> -0.0000 -0.0000 > 0.8533 145.9661 > 0.8333 0.0000 0.0000 78.3701 > 0.0000 0.0000 0.0000 1.0000 > > > and for followup images:Volume information for K_EL03_2.nii.gz > type: nii > dimensions: 208 x 256 x 160 > voxel sizes: 1.1719, 1.1719, 1.2000 > type: FLOAT (3) > fov: 243.750 > dof: 0 > xstart: -121.9, xend: 121.9 > ystart: -150.0, yend: 150.0 > zstart: -96.0, zend: 96.0 > TR: 2400.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees > nframes: 1 > PhEncDir: UNKNOWN > ras xform present > xform info: x_r = 0.0000, y_r = 0.0000, z_r = 1.0000, c_r = > -2.7898 > : x_a = -1.0000, y_a = 0.0000, z_a = 0.0000, c_a = 17.2881 > : x_s = 0.0000, y_s = 1.0000, z_s = 0.0000, c_s = -34.7603 > Orientation : PSR > Primary Slice Direction: sagittal > > voxel to ras transform: > 0.0000 0.0000 1.2000 -98.7898 > -1.1719 0.0000 0.0000 139.1631 > 0.0000 1.1719 0.0000 -184.7603 > 0.0000 0.0000 0.0000 1.0000 > > voxel-to-ras determinant -1.64795 > > ras to voxel transform: > -0.0000 -0.8533 -0.0000 118.7526 > -0.0000 -0.0000 0.8533 157.6622 > 0.8333 0.0000 0.0000 82.3249 > 0.0000 0.0000 0.0000 1.0000 > > I have no ideal what is going wrong. Please help. > By the way I used dcm2nii Gui (compressed FSL 4DNIfTInii) convert dcm to > nii.gz. > Thanks, > > Yawu > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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