Hmm.. looking at the code for featregapply, you get that error msg if featregapply cannot locate example_func2standard.mat in the reg folder.
--- line 162 ---
if { ! [ file exists reg/example_func2standard.mat ] } {
puts "Error - registration has not been run for [ pwd ]"
exit 1
}
-------------------
See if example_func2standard.mat exists for each feat/reg folder. If they do exist, check permission settings so that you are able to read those .mat files.
Best,
Danny Kim
On 2015-04-15, at 3:44 PM, Matt Sutterer wrote:
> Hi Danny,
>
> The FEAT GUI will not allow me to run the higher-level analysis, I get a pop-up with the error about registration not being run. If I run my .fsf through the feat command line, the feat log shows errors at the "Higher-level input files preparation" stage:
>
> Higher-level input files preparation
>
> /usr/fsl/bin/featregapply /ppg/resting_state/NSG_acute/284_chronic/rsOut1/reproc/nuisancereg.feat
> Error - registration has not been run for /ppg/resting_state/NSG_acute/284_chronic/rsOut1/reproc/nuisancereg.feat
>
> /usr/fsl/bin/featregapply /ppg/resting_state/NSG_acute/284_chronic/rsOut2/reproc/nuisancereg.feat
> Error - registration has not been run for /ppg/resting_state/NSG_acute/284_chronic/rsOut2/reproc/nuisancereg.feat
>
> ...and so on...
>
> things continue to fail from there, presumably because of the initial failure of featregapply.
>
> highres2standard.mat is present in the session.feat/reg folder for each session.
>
> Thanks much,
>
> Matt Sutterer
>
>> Hi Matt
>>
>> It might be worthwhile to check the error log and see where it fails.
>> My suspicion is that in one of the subj.feat/reg folder, highres2standard.mat file might be missing (or named differently).
>>
>> Best,
>>
>> Danny Kim
>>> On 2015-04-15, at 2:54 PM, Matt Sutterer wrote:
>>>
>>> Hi Danny,
>>>
>>> I don't have reg_standard folders in my lower-level feat directories. My understanding was that reg_standard was created when you run the second-level fixed-effects analysis, which I can't run because of the error about registration not being run for all of the FEAT directories.
>>>
>>> Thanks,
>>>
>>> Matt
>>>
>>> On Wed, 15 Apr 2015 13:43:45 -0700, Daniel Kim <[log in to unmask]> wrote:
>>>
>>>> Hi Matt
>>>>
>>>> Just taking a wild guess here, but have you checked to see if you have both reg and reg_standard folders in your FEAT directories?
>>>>
>>>> Danny Kim
>>>> On 2015-04-15, at 1:12 PM, Matt Sutterer wrote:
>>>>
>>>> Hello,
>>>>
>>>> I am trying to average across multiple sessions using a fixed-effects analysis, where my inputs are lower-level FEAT directories from each session.
>>>>
>>>> Each session was registered from functional to standard space using FNIRT, and the nonlinear registration files were overwritten to the <session>.feat/reg directory, followed by running updatefeatreg for each session�s feat directory (as outlined in: http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FEAT/FAQ#How_can_I_insert_a_custom_registration_into_a_FEAT_analysis.3F).
>>>>
>>>> When I try to run my fixed-level analysis to obtain the session mean, I keep getting an error that �Registration has not been run for all of the FEAT directories that you have selected for group analysis�, despite the fact the registration directory is clearly present for each run. Are there particular registration files the higher-level analysis is looking for?
>>>>
>>>> Thank you,
>>>>
>>>> Matt Sutterer
>>>>
>>>> Tranel Lab (Dept. of Neurology)
>>>> Human Brain Research Laboratory (Dept. of Neurosurgery)
>>>> The University of Iowa
>>>>
>>>>
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