I benefit a lot from your careful response. However,I still wonder Why the Jacobian is not within the prescribed range,

it is for very technical reasons. The adjustment of the warps to keep the Jacobian within bounds operate on the field, and will adjust it to the prescribed range. The field is then transformed back to its spline representation. This will not be an exact representation, so the field can then sometimes go back to being slightly outside range.

and how could I avoid it?

If you wanted to be 100% certain to avoid it you would need to modify the config file to use more regularisation for the final steps. However, what you have described isn’t really a problem.

Jesper

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在2017年09月22日 16:29，Jesper Andersson 写道：

Dear xufei,

the warning means that the warp-field is getting close to being non-invertable. A value of 0.005 means you are still fine, but it would be worth looking at the registered images to ensure that you don’t see some non-sensical looking warping.

Jesoer

On 21 Sep 2017, at 09:14, xufei Tan <[log in to unmask]> wrote:

Dear Professor,
When I change the T1 structual images into the standard MNI space, a warning rised with the following code: fsl_reg /Users/Jallyson/Desktop/s1_11_t1/s1/s1_t1_brain.nii /Downloads/fsl/data/standard/MNI152_T1_2mm_brain.nii.gz /Users/Jallyson/Desktop/s1_11_t1/s1/s1_T1_2MNI152
Warning, Jacobian not within prescribed range. Prescription is 0.01 -- 100 and obtained range is 0.00502756 -- 4.17618，But this process producted several files including "s1_T1_2MNI152.nii.gz" and "s1_T1_2MNI152_warp.nii.gz". What does the warning mean? Does it matter?，

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