Dear all,

When I was using DTIPrep to import data to create the protocol, a small window popped up, with this message:

The following programs have not been found.
Please enter the path manually if necessary:
> DiffusionWeightedVolumeMasking

Is the Diffusion Weighted Volume Masking setting compulsory or we can ignore it?

Thanks.

Jian

It is not necessary, unless you want to use that tool to do the brain masking (it is a 3D Slicer module). You can also turn off the brain masking, or do the brain masking with alternative options such as BET in FSL.

Martin

Thanks for the explanation.

Jian

Hi,

I have the same question regarding the Diffusion Weighted Volume masking window.

I also get this window pop up(on my linux server but not on mac) which says 

The following programs have not been found.
Please enter the path manually if necessary:
> DiffusionWeightedVolumeMasking

I am trying to correct the dominant direction/vibration noise, and even if i select the brain mask(i chose option slicer), the step for dominant direction/vibration fails and it gives me this output.

Brain Mask
protocol -> GetBrainMaskProtocol().reportFileMode 1
Brain mask check NOT set
Brain Mask DONE


Any idea how to make it run? Also, what mask are we supposed to input? Please find attached the screen shot of my protocol.

Thanks

Hi Tanmay
DiffusionWeightedVolumeMasking is a 3D Slicer based brain masking tool. If you choose FSL for your masking, then you can safely disregard this warning (which just tells you that it could not find this particular brain masking tool).

If you look at your masking protocol, it says BRAINMASK_method 1 . By double clicking on that, a window pops up that lets you select the method (We should change the information displayed to a description, not a simple number).

Also, DTIPrep is pretty strict regarding the exact naming. Your BRAINMASK_bcheck is set to "yes", but it should be "Yes" (upper case Y). In your case, this meant that the masking was not run (Brain mask check NOT set)

Martin