Hi Paige,
You must be skipping some steps - before you can run a higher level
analysis, you need to use first_utils to convert the .bvars file into
a 4D nifti image. This is all covered in detail in the practical.
Cheers,
Paul
On 04/06/2019, Elizabeth Paige <[log in to unmask]> wrote:
> Hi Paul,
> Thank you for answering! I am using concat_bvars to prepare my
> segmentations, but I am getting the aforementioned error message when I try
> to load it to the gui, as I am told to do in the fsl course.
> Do you know why this error message is happening?
> Thank you!
> Paige
>> On Jun 4, 2019, at 4:17 AM, paul mccarthy <[log in to unmask]>
>> wrote:
>>
>> Hi Paige,
>>
>> concat_bvars is a preprocessing step needed to prepare sub-cortical
>> segmentations for a group analysis.
>>
>> I would recommend going through the FSL course material to familiarise
>> yourself with FSL - there is a good overview of the sub-cortical
>> analysis pipeline:
>>
>> http://fsl.fmrib.ox.ac.uk/fslcourse/
>> http://fsl.fmrib.ox.ac.uk/fslcourse/lectures/practicals/seg_struc/index.html#first
>>
>> Cheers,
>>
>> Paul
>>
>> On 04/06/2019, Paige Oden <[log in to unmask]> wrote:
>>> Hello! I am very new to fsl and I am stuck.
>>> First, I'm not entirely sure what the output of concat is meant to be,
>>> but
>>> it keeps coming out as a document that will not open. The command line
>>> I'm
>>> using is:
>>>
>>> concat_bvars c_to_p_to_pdi_R_Hipp.bvars MJF*C_first_R_Hipp.bvars
>>> MJF*P_first_R_Hipp.bvars MJF*PCI_first_R_Hipp.bvars
>>>
>>> Definitely not sure if that's what I'm supposed to be using, or if
>>> that's
>>> what's supposed to be happening, but that's what it is.
>>>
>>> Furthermore, when I try to load this concatenated file into my Higher
>>> Level
>>> GLM gui, it says that "This" is an invalid command. I don't know what to
>>> do
>>> about this because I don't know where 'This' is coming from.
>>>
>>> Thank you!
>>>
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