Good morning Bruce,
And many thanks again. Yes, bert inflated looks OK on the other computer. I will try to update the video card driver and see if this will fix the problem. In the mean time I have one more question: while running the recon-all on a new computer hhttps://kidmail.sickkids.ca/owa/?ae=PreFormAction&a=Reply&t=IPM.Note... installed the v.5.1 version of FS I am getting an error:
Checking for (invalid) multi-frame inputs... ERROR: input(s) cannot have multiple frames! /usr/local/freesurfer/subjects/june2011/_orig_/NPI001/mri/orig/001.mgz has frames
Do I need to unzip my NPI001.nii.gz file? But even if I do this I will get the same error. Do I need to convert the file in a .lta file? Can you please advise me?
Thank you very much and have a great day! Antonella
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Hi Antonella,
where did you get NPI001.nii.gz? Can you send us the output of running mri_info on it? Sounds like it has more than one frame in it. What are the multiple volumes?
cheers Bruce
On Fri, 8 Jul 2011, Antonella Kis wrote:
Good morning Bruce,
And many thanks again. Yes, bert inflated looks OK on the other computer. I will try to update the video card driver and see if this will fix the problem. In the mean time I have one more question: while running the recon-all on a new computer hhttps://kidmail.sickkids.ca/owa/?ae=PreFormAction&a=Reply&t=IPM.Note... installed the v.5.1 version of FS I am getting an error:
Checking for (invalid) multi-frame inputs... ERROR: input(s) cannot have multiple frames! /usr/local/freesurfer/subjects/june2011/_orig_/NPI001/mri/orig/001.mgz has frames
Do I need to unzip my NPI001.nii.gz file? But even if I do this I will get the same error. Do I need to convert the file in a .lta file? Can you please advise me?
Thank you very much and have a great day! Antonella
This e-mail may contain confidential, personal and/or health information(information which may be subject to legal restrictions on use, retention and/or disclosure) for the sole use of the intended recipient. Any review or distribution by anyone other than the person for whom it was originally intended is strictly prohibited. If you have received this e-mail in error, please contact the sender and delete all copies.
Here is my results after running mri_info on the file NPI001.nii.gz (I can run recon-all for the same file on a different computer without getting this multiple frames error):
niiRead(): NIFTI_UNITS_UNKNOWN, assuming mm Volume information for NPI001.nii.gz type: nii dimensions: 181 x 217 x 181 voxel sizes: 1.0000, 1.0000, 1.0000 type: FLOAT (3) fov: 181.000 dof: 0 xstart: -90.5, xend: 90.5 ystart: -108.5, yend: 108.5 zstart: -90.5, zend: 90.5 TR: 0.00 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 = 1.0000, y_r = 0.0000, z_r = 0.0000, c_r = 0.5000 : x_a = 0.0000, y_a = 1.0000, z_a = 0.0000, c_a = 0.5000 : x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = 0.5000 Orientation : RAS Primary Slice Direction: axial
voxel to ras transform: 1.0000 0.0000 0.0000 -90.0000 0.0000 1.0000 0.0000 -108.0000 0.0000 0.0000 1.0000 -90.0000 0.0000 0.0000 0.0000 1.0000
voxel-to-ras determinant 1
ras to voxel transform: 1.0000 -0.0000 -0.0000 90.0000 -0.0000 1.0000 -0.0000 108.0000 -0.0000 -0.0000 1.0000 90.0000 0.0000 0.0000 0.0000 1.0000
Thank you. Antonella
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now I'm confused. What computer are you running it on that does fail? On Fri, 8 Jul 2011, Antonella Kis wrote:
Here is my results after running mri_info on the file NPI001.nii.gz (I can run recon-all for the same file on a different computer without getting this multiple frames error):
niiRead(): NIFTI_UNITS_UNKNOWN, assuming mm Volume information for NPI001.nii.gz type: nii dimensions: 181 x 217 x 181 voxel sizes: 1.0000, 1.0000, 1.0000 type: FLOAT (3) fov: 181.000 dof: 0 xstart: -90.5, xend: 90.5 ystart: -108.5, yend: 108.5 zstart: -90.5, zend: 90.5 TR: 0.00 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 = 1.0000, y_r = 0.0000, z_r = 0.0000, c_r = 0.5000 : x_a = 0.0000, y_a = 1.0000, z_a = 0.0000, c_a = 0.5000 : x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = 0.5000 Orientation : RAS Primary Slice Direction: axial
voxel to ras transform: 1.0000 0.0000 0.0000 -90.0000 0.0000 1.0000 0.0000 -108.0000 0.0000 0.0000 1.0000 -90.0000 0.0000 0.0000 0.0000 1.0000
voxel-to-ras determinant 1
ras to voxel transform: 1.0000 -0.0000 -0.0000 90.0000 -0.0000 1.0000 -0.0000 108.0000 -0.0000 -0.0000 1.0000 90.0000 0.0000 0.0000 0.0000 1.0000
Thank you. Antonella
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freesurfer@nmr.mgh.harvard.edu
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Antonella Kis -
Bruce Fischl