One more thing, regarding this issue,
I'm currently running fsl 4.1 (build 419) and randomise v2.9. I installed my fsl package via Debian.
This is where I am getting the error message.
Just on a hunch, i ran the same command line on our old server that had FSL 4.1 (build 416) and randomise v2.6, and I received no error message. The analysis actually worked.
So,I'm not so sure what is going on. Is there a bug in v2.9, possibly?
My older version of randomise is installed on Redhat 2.6.9.
I've installed build 419 of FSL via the Debian package where we are running Ubuntu. Could that be an issue?
Michael
On Mon, 9 Jan 2012 14:13:29 +0000, Michael Keaser <[log in to unmask]> wrote:
>Hello,
>
>Yes, I double checked in FSLview (and also in AFNI viewer) that both sets of masks overlay the data.
>
>I tried gunzipping the nii files for both the masks and the all_skelentonized data see if that was the issue, and still the same error occurs.
>
>Michael
>
>
>On Mon, 9 Jan 2012 13:52:36 +0000, Matthew Webster <[log in to unmask]> wrote:
>
>>Hi,
>> Can you double check that the mask overlaps the data ( e.g. just quickly check them in FSLview? )
>>
>>Many Regards
>>
>>Matthew
>>
>>> Hello,
>>>
>>> Thanks for your response.
>>>
>>> Unfortunately, I've tried using both mask optoins mean_FA_mask and mean_FA_skeleton.nii.gz, and I still get the same error message.
>>>
>>> Anybody else having the same issue or is there another step that I am missing?
>>>
>>> Michael
>>> ________________________________________
>>> From: Haitao Ge
>>> Sent: Saturday, January 07, 2012 8:47 AM
>>> To: [log in to unmask]
>>> Subject: Re: [FSL] TBSS exception
>>>
>>> Hi Michael
>>>
>>> I think you have input the wrong mask. You have input the mean FA skeleton
>>> instead of mean FA mask.
>>>
>>> Haitao
>>>
>>> Center for Sectional and Imaging Anatomy
>>> Shandong University School of Medicine
>>> 44#, West Wenhua Rd.
>>> Jinan 250012, Shandong
>>> P.R.China
>>>
>>> -----原始邮件-----
>>> From: Michael Keaser
>>> Sent: Saturday, January 07, 2012 5:44 AM
>>> To: [log in to unmask]
>>> Subject: Re: [FSL] TBSS exception
>>>
>>> Hello,
>>>
>>> I too have had the same problem with the error mask is blank.
>>>
>>> Here is my command and the output from it:
>>>
>>> randomise -i all_FA_skeletonised.nii.gz -o pairedT -d design-glm.mat -t
>>> design-glm.con -f design-glm.fts -m mean_FA_skeleton.nii.gz -e
>>> design-glm.grp -T
>>> randomise options: -i all_FA_skeletonised.nii.gz -o pairedT -d
>>> design-glm.mat -t design-glm.con -f design-glm.fts -m
>>> mean_FA_skeleton.nii.gz -e design-glm.grp -T
>>> Loading Data: ERROR: Program failed
>>>
>>> An exception has been thrown
>>> Data mask is blank.
>>>
>>>
>>> I'm not sure what is going on. Anyone have any ideas? Your help would
>>> greatly be appreciated.
>>>
>>> Thanks,
>>>
>>> Michael
>>>
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