Hi,
     Many Thanks - can you confirm which version and architecture of FSL you are using?

Many Regards

Matthew

> Hi Matthew,
> 
> Done. The reference number is 429010.
> 
> Thanks again!
> 
> -Jeremy
> 
> Jeremy Reynolds, Ph.D.
> Assistant Professor
> Department of Psychology,
> University of Denver
> 2155 S. Race St
> Denver, CO 80208
> Phone:	303.871.4622
> Fax:		303.871.4747
> [log in to unmask]
> 
> On Apr 22, 2010, at 2:17 AM, Matthew Webster wrote:
> 
>> Hello,
>>          Thank you for the files - could you also upload the associated FEAT directory ( it would help enormously if we had access to the filtered_func data etc )
>> 
>> Many Regards
>> 
>> Matthew
>> 
>>> 
>>>> From: "Reynolds, Jeremy" <[log in to unmask]>
>>>> Date: 19 April 2010 18:22:15 BST
>>>> To: "[log in to unmask]" <[log in to unmask]>
>>>> Subject: Re: [FSL] zfstat, fstat, zflame1lowerfstat
>>>> Reply-To: FSL - FMRIB's Software Library <[log in to unmask]>
>>>> 
>>>> Thanks so much for the help tracking this down. The file is uploaded, and the reference number is 355348.
>>>> 
>>>> Please let me know if you need anything else -- logfiles, etc.
>>>> 
>>>> Thanks again!
>>>> 
>>>> -Jeremy
>>>> 
>>>> Jeremy Reynolds, Ph.D.
>>>> Assistant Professor
>>>> Department of Psychology,
>>>> University of Denver
>>>> 2155 S. Race St
>>>> Denver, CO 80208
>>>> Phone:	303.871.4622
>>>> Fax:		303.871.4747
>>>> [log in to unmask]
>>>> 
>>>> On Apr 19, 2010, at 4:21 AM, Mark Woolrich wrote:
>>>> 
>>>>> Hi Jeremy,
>>>>> 
>>>>> OK. Will need to take a look at this. Please could you upload the
>>>>> stats directory in question
>>>>> 
>>>>> http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
>>>>> 
>>>>> and then email me the upload ID.
>>>>> 
>>>>> Cheers, Mark.
>>>>> 
>>>>> On 10 Apr 2010, at 19:58, Reynolds, Jeremy wrote:
>>>>> 
>>>>>> Hi Mark,
>>>>>> 
>>>>>> Thanks for the response. I am just using flame1, so that is helpful.
>>>>>> 
>>>>>> As for image size -- I am attaching a larger version below, but I'm  
>>>>>> not sure if I can go any larger due to the limits of the mailing  
>>>>>> list. Let me know if this is still not large enough.
>>>>>> 
>>>>>> Thanks again.
>>>>>> 
>>>>>> -J
>>>>>> 
>>>>>> <Screen shot 2010-04-06 at 10.36.31 AM.gif><ATT00001..txt>
>>> 
>>>> Hello all,
>>>> 
>>>> I am having some difficulty understanding the relationship between  
>>>> the fstatX and zfstatX (and zflame1lowerfstatX) files produced by  
>>>> flameo (running flame1), and I was wondering if someone could help  
>>>> me out.
>>>> 
>>>> After looking at the source of flameo and gsmanager.cc, I can see  
>>>> that zfstatX is the same as zflame1lowerfstatX, which is consistent  
>>>> with my results. What confuses me, though, is that these 2 files are  
>>>> not the same as if I performed:
>>>> 
>>>> ftoz -zout zfstatX_f2zredo fstatX fdof1_fX fdof2_fX
>>>> 
>>>> despite the fact that my look at the source code seemed to indicate  
>>>> that the z statistic should be created with very similar internal  
>>>> calls across ftoz and flameo (in Gsmanager::f_ols_contrast within  
>>>> flameo). Because the z-converted files are not the same, I'm not  
>>>> sure which file I should trust to use for inference. The fstat file  
>>>> (and the zfstat file produced by an explicit call to ftoz) looks  
>>>> like what I would expect, in that the image histogram looks  
>>>> continuous, and the spatial distribution of those statistics across  
>>>> the brain looks exactly like I would expect. The zfstat file  
>>>> produced directly by flameo looks like a thresholded image in which  
>>>> the absolute value of all voxels is greater than approximately 5.75.  
>>>> I have attached a picture of the three image histograms, with the  
>>>> fstat image on the left, the zfstat image produced by flameo in the  
>>>> middle, and the zfstat file produced by a call at the command line  
>>>> to ftoz.
>>>> 
>>>> To help with interpretation, here is some more information regarding  
>>>> my design. In the first-level analysis, I am attempting to use FIR  
>>>> basis functions to estimate a timecourse in response to various  
>>>> stimulus conditions. I am using a set of 10 delta functions that  
>>>> span the 20 s following stimulus onset. I am then using a second- 
>>>> level model on the copes reflecting each of the delta functions,  
>>>> such that I have 10 copes for each of the 18 subjects (180 input  
>>>> files total). In the second-level model, I am using an intercept (1  
>>>> regressor) and dummy coded factors for subject (17 regressors, each  
>>>> corresponding to the presence of a different subject) and timepoint  
>>>> (9 regressors, each corresponding to the presence of a different  
>>>> time point). The f statistic of interest is the main effect of  
>>>> timepoint, which should have a first degree of freedom of 9, and a  
>>>> second degree of freedom of 153 (the fdof1_fX and fdof2_fX files do  
>>>> reflect this).
>>>> 
>>>> Any help would be much appreciated.  Thanks in advance.
>>> 
>> 
>