The gradient echo header is the exact same as the spin echo header, except
for a difference in pixdim7, but that differs between some of the gradient
echo scans and they work, so I don't think that's the problem. I opened up
the images in fslview and the image is clearly visible, though I would say
that the spin-echo images do have a slighlty lower mean intensity than the
gradient-echo images.
I managed to get the spin-echo images to load, but I have to delete 25 (of
100) volumes, though it didn't work when I deleted 0,2,3,4,6,8 or 10
volumes. Even with the gradient-echo images I couldn't get the program to
run to completion if I deleted 0, or 8 volumes, but it would work if I
deleted 3 or 10 volumes. I thought it might have something to do with the
intensity of the first volume used, but I checked the intensity of all the
volumes and they're consistent enough that that shouldn't be the issue.
Why would there be problems depending on the number of volumes deleted?
As always, any help is greatly appreciated. Thanks!
Barry
> Hi - I'm guessing that there's something weird/wrong with your input data.
> What does fslhd report on the spin echo input data? Have you looked at
> it in FSLview? Does it have a sensible (not too close to zero) mean
> intensity level in the brain?
>
> cheers.
>
>
> On 6 Dec 2012, at 22:36, Barry Bohnet wrote:
>
>> Hi there,
>>
>> I'm trying to run Melodic ICA on some EPI data-sets but I seem to keep
>> running into some problems. The scans are 4-shot EPI, TR=0.5s, and I've
>> set the High Pass Filter cutoff to 4 seconds and deleted 4 volumes.
>> These
>> settings seem to work for the gradient echo scans, but not the spin echo
>> scans for some reason.
>>
>> In the log there's an issue under 'Pre-Stats' that says:
>>
>> "Cannot open volume prefiltered_func_data_smooth -mas mask
>> prefiltered_func_data_smooth for reading!
>> ...
>> (file "usr/local/fsl/bin/feat" line 119)"
>>
>> This seems to be the same error if I delete 8 volumes. I've attatched
>> the
>> fslerrorreport from the described scan.
>>
>> Any help would be appreciated. Thanks!
>>
>>
>> Barry
>> <fsl_fCjSgi.gz>
>
>
> ---------------------------------------------------------------------------
> Stephen M. Smith, Professor of Biomedical Engineering
> Associate Director, Oxford University FMRIB Centre
>
> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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>
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>
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