Dear Martin,
I think it will still have problems generating a proper mask if you
add a constant
everywhere.
I suggest you add a scaled mask image and see if that works.
Otherwise it is probably trying to analyse voxels where there is zero
variance in
the res4d (because it is outside the mask) and failing because of that.
All the best,
Mark
On 10 Apr 2008, at 17:16, Martin M Monti wrote:
> Mark,
>
> thank you, I did add a constant to the whole image, but it still is
> not completing. The error however is now a little further down, in
> the stats:
>
> An exception has been thrown
> Logic error: detected by Newmat: Minimum or maximum of null matrix
>
> Error: FILM did not complete - it probably ran out of memor
>
> I tried running the same script with/without FILM (in fact, this
> analysis is on residuals which should already have been pre-
> whitened..), but i get exactly the same error. Is there any other
> feature of the residuals that may be causing this?
>
> thanks
>
> martin
>
> Mark Jenkinson wrote:
>> Hi,
>>
>> The problem is most likely due to the fact that res4d has a zero
>> mean.
>> This causes problems for mask generation and intensity normalisation,
>> which is where this crashes.
>>
>> Add on a scaled mask image to your res4d (to give it a non-zero mean)
>> before running FEAT and you'll probably be fine.
>>
>> All the best,
>> Mark
>>
>>
>>
>>
>>
>> Martin M Monti wrote:
>>> Dear All,
>>>
>>> I'm running a 2-step regression by taking the residulas of a a
>>> first-level and using them into another first level.
>>> However, as I run the "second" first-level I consistently get the
>>> following error:
>>>
>>> Prestats
>>>
>>> Total original volumes = 150
>>>
>>> /imaging/local/linux/bin/fsl-4.0.1/bin/fslroi /imaging/mm03/
>>> STMemory/FSL2/sub203/sub203_Flobs_Res example_func 75 1
>>> /imaging/local/linux/bin/fsl-4.0.1/bin/fslmaths /imaging/mm03/
>>> STMemory/FSL2/sub203/sub203_Flobs_Res -thrp 10 -Tmin -bin mask -
>>> odt char
>>> /imaging/local/linux/bin/fsl-4.0.1/bin/fslmaths /imaging/mm03/
>>> STMemory/FSL2/sub203/sub203_Flobs_Res -mask mask /imaging/mm03/
>>> STMemory/FSL2/sub203/sub203_Flobs_Res
>>> /imaging/local/linux/bin/fsl-4.0.1/bin/fslmaths /imaging/mm03/
>>> STMemory/FSL2/sub203/sub203_Flobs_Res -ing 10000
>>> filtered_func_data -odt float
>>> ERROR:: Empty mask image
>>> ERROR:: Empty mask image
>>> ERROR:: Empty mask image
>>> ERROR:: Empty mask image
>>>
>>> etc ..
>>>
>>> As I inspected the input data file ("sub203_Flobs_Res.nii.gz"
>>> above -- which is simply a copy of the res4d.nii.gz file in the
>>> stats folder of the "first" first-level analysis) I noticed that
>>> by when the process has finished (and given the error above) it is
>>> empty, yet I am sure that it was not empty before launching the
>>> feat script.
>>>
>>> Ideas what I'm doing wrong?
>>>
>>> all the best
>>>
>>> martin
>>>
>
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