Hello,
we are intermittently having the same problem: we run fslvbm_2_template with
the most recent FSL release on a Linux RedHat machine. All the files seem
to be created except the template_GM_4D. There are no error messages. We
can't see the commands running on the machine any longer and we waited 2
days and no change. Our terminal looks exactly the same as Amit pasted below.
This problem arose when we ran 66 subjects in an analysis, but we can
actually take 2 or 31 subjects from the same dataset and run
fslvbm_2_template successfully (i.e. we get a template_GM_4D).
Any thoughts?
Thanks,
Dost
On Wed, 9 Jul 2008 14:07:44 +0000, Gwenaëlle DOUAUD
<[log in to unmask]> wrote:
>Hi Amit,
>
>first you only need to run fslvbm_2_template -a, which is the option
recommended for this version of FSL-VBM (the option recommended in the
future version of FSL-VBM using FNIRT will be -n).
>Then, you need to wait until you get the results and it can take a while,
that's why you might still have no outcome. You should be able to see the
various commands involved in the script running on your computer. If nothing
has been created tomorrow, then let us know...
>
>Cheers,
>Gwenaelle
>
>
>
>--- En date de : Mer 9.7.08, Amit Raheja <[log in to unmask]> a écrit :
>
>> De: Amit Raheja <[log in to unmask]>
>> Objet: [FSL] Vbm
>> À: [log in to unmask]
>> Date: Mercredi 9 Juillet 2008, 15h43
>> I am having trouble with the fslvbm_2_template command. The
>> command seems
>> to run ok, but I do not get the 4D template output file.
>> Any ideas? Thank you.
>>
>> Here is the what is shown on my terminal.
>>
>> > bash-3.2$ fsl
>> > bash-3.2$ fslvbm_2_template -a
>> > CON10_FAi
>> > CON1_FAi
>> > CON2_FAi
>> > CON3_FAi
>> > CON4_FAi
>> > CON5_FAi
>> > CON6_FAi
>> > CON7_FAi
>> > CON8_FAi
>> > CON9_FAi
>> > TBI11_FAi
>> > TBI12_FAi
>> > TBI13_FAi
>> > TBI14_FAi
>> > TBI15_FAi
>> > TBI16_FAi
>> > TBI17_FAi
>> > TBI18_FAi
>> > TBI19_FAi
>> > TBI20_FAi
>> > TBI21_FAi
>> > TBI22_FAi
>> > TBI23_FAi
>> > TBI24_FAi
>> > TBI25_FAi
>> > TBI26_FAi
>> > TBI27_FAi
>> > Running segmentation: ID=91407
>> > Running registration: ID=92361
>> > Creating template: ID=95178
>> > Study-specific template will be created, when
>> complete, check
>> > FAi/template_4D_GM
>> > as a movie loop in fslview
>> > bash-3.2$ fslvbm_2_template -n
>> > CON10_FAi
>> > CON1_FAi
>> > CON2_FAi
>> > CON3_FAi
>> > CON4_FAi
>> > CON5_FAi
>> > CON6_FAi
>> > CON7_FAi
>> > CON8_FAi
>> > CON9_FAi
>> > TBI11_FAi
>> > TBI12_FAi
>> > TBI13_FAi
>> > TBI14_FAi
>> > TBI15_FAi
>> > TBI16_FAi
>> > TBI17_FAi
>> > TBI18_FAi
>> > TBI19_FAi
>> > TBI20_FAi
>> > TBI21_FAi
>> > TBI22_FAi
>> > TBI23_FAi
>> > TBI24_FAi
>> > TBI25_FAi
>> > TBI26_FAi
>> > TBI27_FAi
>> > Running segmentation: ID=96391
>> > Running registration: ID=97345
>> > Creating template: ID=8691
>> > Study-specific template will be created, when
>> complete, check
>> > FAi/template_4D_GM
>> > as a movie loop in fslview
>> > bash-3.2$
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