Additionally, always make sure you have write permissions for your working directory. Otherwise "output.txt" will not get written.
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From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Chou Paul [[log in to unmask]]
Sent: Sunday, February 17, 2013 10:30 PM
To: [log in to unmask]
Subject: Re: [FSL] Reporting p-value, cluster size and percentage of tract involved all in one
Dear Bonnie
Try to put autoaq.sh in your fsl->bin directory or direct use sh ./autoaq.sh in the directory which you place autoaq.sh.
Best
Paul
> Date: Mon, 18 Feb 2013 02:53:20 +0000
> From: [log in to unmask]
> Subject: Re: [FSL] Reporting p-value, cluster size and percentage of tract involved all in one
> To: [log in to unmask]
>
> Dear Christopher and all,
>
> Same as Sandra, I also experienced error messages when trying to use autoaq.
>
> I have made the file executable but when I did:
>
> autoaq -i tbss_tfce_corrp_tstat2 -a "JHU White-Matter Tractography Atlas" -t 0.95 -o output.txt
>
> I got:
>
> bash: autoaq: command not found
>
>
> I would be very grateful if anyone could shed some light on this.
>
>
> Thank you,
> Bonnie
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