Gwenaelle
Here is the files I have in struc directory
ls fslvbm2*
fslvbm2a* fslvbm2a.o7900.3 fslvbm2b.o20990.1 fslvbm2d*
fslvbm2d.o21688.3
fslvbm2a.e7900.1 fslvbm2a.o7900.4 fslvbm2b.o20990.2 fslvbm2d.e21688.1
fslvbm2d.o21688.4
fslvbm2a.e7900.2 fslvbm2b* fslvbm2b.o20990.3 fslvbm2d.e21688.2
fslvbm2e*
fslvbm2a.e7900.3 fslvbm2b.e20990.1 fslvbm2b.o20990.4 fslvbm2d.e21688.3
fslvbm2e.e23423
fslvbm2a.e7900.4 fslvbm2b.e20990.2 fslvbm2c* fslvbm2d.e21688.4
fslvbm2e.o23423
fslvbm2a.o7900.1 fslvbm2b.e20990.3 fslvbm2c.e21370 fslvbm2d.o21688.1
fslvbm2a.o7900.2 fslvbm2b.e20990.4 fslvbm2c.o21370 fslvbm2d.o21688.2
ls H_20100316NM*, there is the same files for 3 other subjects.
H_20100316NM_T1_struc_brain_mixeltype.nii
H_20100316NM_T1_struc_GM_to_template_GM_init.log
H_20100316NM_T1_struc_brain.nii
H_20100316NM_T1_struc_GM_to_T_init.mat
H_20100316NM_T1_struc_brain_pve_0.nii
H_20100316NM_T1_struc_GM_to_T_init.nii
H_20100316NM_T1_struc_brain_pve_2.nii
H_20100316NM_T1_struc_GM_to_T_init_warp.msf
H_20100316NM_T1_struc_brain_pveseg.nii
H_20100316NM_T1_struc_GM_to_T_init_warp.nii
H_20100316NM_T1_struc_brain_seg.nii
H_20100316NM_T1_struc_GM_to_T.mat
H_20100316NM_T1_struc_cut.nii
H_20100316NM_T1_struc_GM_to_T.nii
H_20100316NM_T1_struc_GM.nii
H_20100316NM_T1_struc.nii
slicesdir/
template_4D_GM.nii
template_GM_flipped.nii
template_GM_init.nii
template_GM.nii
YUMI
> Hi Yumi,
>
> hmmm, this doesn't say much.... What is the result of an ls in your struc
> directory?
>
> Cheers,
> Gwenaelle
>
>
>> De: YUMI MAEDA <[log in to unmask]>
>> Objet: Re: [FSL] Re : [FSL] fslvbm_2_template error file
>> À: [log in to unmask]
>> Date: Lundi 14 mars 2011, 20h04
>> Gwenaelle,
>>
>> thank you very much for reply.
>>
>> fslvbm2a.e*.1-4 was empty. but fslvbm2a is like this,
>>
>> /usr/pubsw/packages/fsl/current/bin/fast -R 0.3 -H 0.1
>> H_20090707ML_T1_struc_brain ;
>>
>> /usr/pubsw/packages/fsl/current/bin/immv
>> H_20090707ML_T1_struc_brain_pve_1
>> H_20090707ML_T1_struc_GM
>> /usr/pubsw/packages/fsl/current/bin/fast -R 0.3 -H 0.1
>> H_20090901RM_T1_struc_brain ;
>>
>> /usr/pubsw/packages/fsl/current/bin/immv
>> H_20090901RM_T1_struc_brain_pve_1
>> H_20090901RM_T1_struc_GM
>> /usr/pubsw/packages/fsl/current/bin/fast -R 0.3 -H 0.1
>> M_20091215AR_T1_struc_brain ;
>>
>> /usr/pubsw/packages/fsl/current/bin/immv
>> M_20091215AR_T1_struc_brain_pve_1
>> M_20091215AR_T1_struc_GM
>> /usr/pubsw/packages/fsl/current/bin/fast -R 0.3 -H 0.1
>> M_20100215FM_T1_struc_brain ;
>>
>> /usr/pubsw/packages/fsl/current/bin/immv
>> M_20100215FM_T1_struc_brain_pve_1
>> M_20100215FM_T1_struc_GM
>>
>> YUMI
>>
>> > Hi Yumi,
>> >
>> > it is likely that the first step of fslvbm2 (fslvbm2a,
>> the automatic
>> > segmentation into GM) has failed, as the error message
>> at the registration
>> > step of the GM image indicates your image is empty.
>> >
>> > What information is in fslvbm2a.e*.1?
>> >
>> > Cheers,
>> > Gwenaelle
>> >
>> >
>> >> De: YUMI MAEDA <[log in to unmask]>
>> >> Objet: [FSL] fslvbm_2_template error file
>> >> À: [log in to unmask]
>> >> Date: Vendredi 11 mars 2011, 20h59
>> >> HI,
>> >>
>> >> I run fslvbm_2_template and I got some error files
>> like
>> >> this.
>> >> what does this mean?
>> >> thank you
>> >> YUMI
>> >>
>> >> fslvbm2b.e22162.1
>> >> WARNING::in calculating COG, total = 0.0
>> >> WARNING::in calculating COG, total = 0.0
>> >> WARNING::in calculating COG, total = 0.0
>> >>
>> >
>> >
>> --------------------------------------------------------------------
>> >
>> > Gwenaëlle Douaud, PhD
>> >
>> > FMRIB Centre, University of Oxford
>> > John Radcliffe Hospital, Headington OX3 9DU
>> Oxford UK
>> >
>> > Tel: +44 (0) 1865 222 523 Fax: +44 (0) 1865 222
>> 717
>> >
>> > www.fmrib.ox.ac.uk/~douaud
>> >
>> >
>> --------------------------------------------------------------------
>> >
>> >
>> >
>> >
>> >
>> >
>>
>>
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