Not as far as I'm aware. The reason I say all the subjects run
simultaneously is that featwatcher pops up for each of the subjects in SUBS
shortly after excuting the script. Is that normal?
On 26/05/2009 13:04, "Steve Smith" <[log in to unmask]> wrote:
> Hi - the latest version should run in the foreground - unless you are
> using a cluster setup like SGE?
> Cheers.
>
> On 26 May 2009, at 12:52, Alex Fornito wrote:
>
>> I see. Thanks.
>>
>> This may seem a stupid question, but I have now generated separate
>> design.fsf files for each subject and tried to run feat on each .fsf
>> using a simple loop; e.g.,
>>
>> SUBS=`cat SubjectList.txt`
>> for S in $SUBS
>> do
>> feat ${S}_design.fsf;
>> done
>>
>> However, the feat binary seems to set ALL the analyses running in
>> the background, instead of running them in sequential order. That
>> is, if SUBS contains 10 subjects, all 10 subjects¹ are set running
>> near-simultaneously, which really slows the system down.
>>
>> Is there anyway to get feat to run sequentially, one subject at a
>> time, using a loop for the command line?
>>
>> Thanks again,
>> Alex
>>
>>
>>
>> On 25/05/2009 16:55, "Eugene Duff" <[log in to unmask]> wrote:
>>
>>> Hi Alex
>>>
>>> 2009/5/25 Alex Fornito <[log in to unmask]>
>>>> Hi all,
>>>> I am trying to perform a seed-based corrrelation analysis of
>>>> resting-state
>>>> fMRI data. I have been trying to set-up the first level analysis
>>>> in a pilot
>>>> sample using the gui. I'm assuming that the timecourse of my seed
>>>> region
>>>> should be entered as the EV, with convolution turned off.
>>>> However, the gui only allows me to enter 1 text file even though I
>>>> have 10
>>>> subjects' data loaded in. As I have one unique regressor per
>>>> subject (i.e.,
>>>> each individual's seed timecourse), I need to enter one text file
>>>> per
>>>> subject. Is there any way to do this through the gui, or should I
>>>> just run
>>>> the analysis for one person and use the resulting script?
>>> Yes, you'll need to run them separately (using the same template
>>> design file adjusted for each ).
>>>
>>>>
>>>>
>>>> In addition, do you have any recommendations re: how the regressor
>>>> values
>>>> should be scaled, given that I also have a number of confound EV's
>>>> in the
>>>> model (e.g., motion parameters, white matter, csf, global signal
>>>> timeseries,
>>>> etc.)?
>>>>
>>> The scaling of your regressors has no influence on the modelling.
>>> It is only important that EVs that are being contrasted against
>>> each other are scaled consistently.
>>> Cheers,
>>> Eugene
>>>> Thanks for your help,
>>>> Alex
>>>
>>>
>>
>> --
>>
>> Alex Fornito
>> CJ Martin Post-Doctoral Fellow
>> Brain Mapping Unit
>> Department of Psychiatry
>> University of Cambridge
>> Downing Site
>> Downing St, Cambridge
>> UK CB2 3EB
>>
>> Email: [log in to unmask]
>> Phone: +44 (0) 1223 764670
>> Fax: +44 (0) 1223 336581
>>
>> Australian Details:
>>
>> Melbourne Neuropsychiatry Centre
>> National Neuroscience Facility
>> Levels 1 & 2, Alan Gilbert Building
>> 161 Barry St
>> Carlton South 3053
>> Victoria, Australia
>>
>> Email: [log in to unmask]
>> Phone: +61 3 8344 1861
>> Fax: +61 3 9348 0469
>>
>
>
> ---------------------------------------------------------------------------
> 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
> ---------------------------------------------------------------------------
--
Alex Fornito
CJ Martin Post-Doctoral Fellow
Brain Mapping Unit
Department of Psychiatry
University of Cambridge
Downing Site
Downing St, Cambridge
UK CB2 3EB
Email: [log in to unmask]
Phone: +44 (0) 1223 764670
Fax: +44 (0) 1223 336581
Australian Details:
Melbourne Neuropsychiatry Centre
National Neuroscience Facility
Levels 1 & 2, Alan Gilbert Building
161 Barry St
Carlton South 3053
Victoria, Australia
Email: [log in to unmask]
Phone: +61 3 8344 1861
Fax: +61 3 9348 0469
|