On 1/3/19 5:07 AM, xi star wrote:
>
>         External Email - Use Caution
>
> dear experts,
> I try to run FSFAST with a block design paradigm. there a few question
> i can figure out on my own.
> the 1st question:
> the directory structure was set as:
> -meridian
>      --sess01
>            --bold
>                  -001
>                  -002
>            --lpx (subjectname folder contian anatomical data run by
> "recon-all" previously)
>            --subjectname (a file)
> Since there was only one subject, i didn't create sessid.
> then i run:
> preproc-sess -s sess01 -fsd bold -per-run -fwhm 5 -sliceorder odd
> -surface fsaverage lhrh -init-fsl
> but i got this warning (the full log is in the attachment):
>
> if: Expression Syntax.
>
> I wonder what's wrong with the command.
>
I'm not sure. What version of FS are you running? If version 6, then
don't use -init-fsl. If the error persists, then run it with -debug as
the first option and send the terminal output.
>
> --------------------------------------------------
>
> the 2nd question:
>
> following the website
> http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastLinkAnatData
>
> I create a subjectname file which contains:
>
> cd $SUBJECTS_DIR/$SUBJECT
>
> echo "$SUBJECT">>lpx
>
> is it work? How to link the functional data to anatomical data?
>
I actually don't know what that refers to. That page is way out of date
(I just deleted it). An "lpx" file is not needed.
>
> --------------------------------------------------
>
> the 3rd question:
>
> i use a stationary wedge stimuli to activate the horizontal and
> vertical meridian representations in visual cortex. the design
> parameters: TR=2, 8hz flickering checkerbords, 16s fixation followed
> by 4 conditions（20s each）, each condition show a wedge in up, down,
> left and right meridian, 3 repetitions
>
> the meridian.par was set as:
>
> 0.0 016.01.0fix
>
> 17.0120.01.0up
>
> 37.0220.01.0down
>
> 57.0320.01.0left
>
> 77.0420.01.0right
>
> 97.0120.01.0up
>
> 117.0220.01.0down
>
> 137.0320.01.0left
>
> 157.0420.01.0right
>
> 177.0120.01.0up
>
> 197.0220.01.0down
>
> 217.0320.01.0left
>
> 237.0420.01.0right
>
> my question is, in the first-level analysis, is right to write the
> command:
>
> mkanalysis-sess \
> -analysis meridian \
> -event-related -paradigm meridian.par \
> -TR 2 -nconditions 4 \
> -mcextreg
Yes, that looks correct
>
> best,
>
> star
>
>
>
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