Do you have spin echo images for computing the field map with topup?
Peace,
Matt.
On 8/22/18, 11:32 AM, "FSL - FMRIB's Software Library on behalf of Omar
Maximo" <[log in to unmask] on behalf of [log in to unmask]> wrote:
>Hi,
>
>We are trying to use topup to correct for image distortions. We have
>acquired 2 runs of resting state fMRI data with different phase
>encondings (AP and PA). I use fslmerge to combine both images and when I
>run topup, I get a message saying "mismatch between imain and datain"
>
>My datain file looks like this
>0 -1 0 .06136
>0 1 0 .06136
>
>I calculated the total redout time as 1/BandwidthPerPixelPhaseEncode:
>16.29700089. I have seen some threads where they multiple the readout
>time by 1000, but I still get the same message. I also saw some threads
>where they mentioned that the # of slices can affect topup. We have 72
>slices so tried to remove one slice and still did not work.
>
>This is our data parameters
>effective echo spacing: 0.59ms
>matrix size: 104 104 72
>TR: 1550
>TE: 37.8
>voxel size 2*2*2mm
>
>Our scanner is a Siemens PRISMA.
>
>Thank you,
>Omar
>
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