Dear Haoran,
On 16 May 2011, at 10:13, "飞鸟" <[log in to unmask]> wrote:
> Dear Vladimir,
> Your guess was right. I really couldn't do 3D sources reconstruction of that data by GUI. It reminded me ''checkmeeg: data scale missing, assigning default
> checkmeeg: no fiducials are defined''. Then I did preprocess steps again, and found that I couldn't obtain the fiducials automatically(when I finished Converting step). I checked the other datasets, luckily, they didn't have this problem. I guess there must be some wrongs of my original dataset (only that one), right ?
right
> As for reconstruction batch problem, with the latest version of spm8(4029) and normal dataset, I can do reconstruction by that saved "renconstruction_batch" successfully. Thus, the problems related to reconstruction batch that I confronted previously may result from the different versions of spm8.
> By the way, in ''MEEG head model specification> EEG head modle'' module, must I specify the ''EEG head modle'' if I just process MEG dataset?
One peculiarity of batch is that when you build the configuration you
can't use information from the dataset which only becomes available
when you run the batch. In particular you can't know if the dataset in
question is EEG or MEG. So don't worry about the EEG head model. If
your dataset is MEG it will be ignored.
Best,
Vladimir
> Thank you very much for helping me solve these tiny problems!
>
> Haoran.
>
>
> At 2011-05-16 06:38:23,"Vladimir Litvak" <[log in to unmask]> wrote:
>
> >Dear Haoran,
> >
> >The problem seems to be not in the batch but in your MEG data (or was
> >it EEG?). There are no valid fiducials in that dataset. Could you
> >perform source reconstruction using the GUI? I'd be surprised if you
> >could. So we need to focus on how to get fiducials into your dataset
> >and for that you need to tell me more about where that data comes
> >from.
> >
> >Best,
> >
> >Vladimir
> >
> >2011/5/15 飞鸟 <[log in to unmask]>:
> >> Dear Vladimir,
> >> I tried again with the latest version of spm8(4029), the previous problem(
> >> template=1) disappeared. But this time, I confronted a new problem. It
> >> reminded me "No executable modules, but still unresolved dependencies or
> >> incomplete module inputs." But I don't know where the problems are. Could
> >> you help me see my reconstruction_batch.mat and give me some advice ? Thanks
> >> a lot.
> >>
> >> Haoran.
> >>
> >> These code appears in the matlab command window when I ran the batch:
> >> SPM8: spm_eeg_inv_mesh_ui (v4027) 11:09:13 - 15/05/2011
> >> ========================================================================
> >> template: 0
> >> sMRI: 'D:\Processed\DP01\sKEYAN-0002-00000-000001-01.img,1'
> >> def: 'D:\Processed\DP01\y_sKEYAN-0002-00000-000001-01.nii'
> >> Affine: [4x4 double]
> >> Msize: 2
> >> tess_mni: [1x1 struct]
> >> tess_ctx:
> >> 'D:\Processed\DP01\sKEYAN-0002-00000-000001-01cortex_8196.surf.gii'
> >> tess_scalp:
> >> 'D:\Processed\DP01\sKEYAN-0002-00000-000001-01scalp_2562.surf.gii'
> >> tess_oskull:
> >> 'D:\Processed\DP01\sKEYAN-0002-00000-000001-01oskull_2562.surf.gii'
> >> tess_iskull:
> >> 'D:\Processed\DP01\sKEYAN-0002-00000-000001-01iskull_2562.surf.gii'
> >> fid: [1x1 struct]
> >> Failed 'M/EEG head model specification'
> >> Reference to non-existent field 'fid'.
> >> In file "C:\Program Files\MATLAB\spm8new\config\spm_cfg_eeg_inv_headmodel.m"
> >> (v4118), function "specify_headmodel" at line 209.
> >> No executable modules, but still unresolved dependencies or incomplete
> >> module inputs.
> >> The following modules did not run:
> >> Failed: M/EEG head model specification
> >> Skipped: M/EEG source inversion
> >> Skipped: M/EEG inversion results
> >>
> >>
> >> At 2011-05-13 22:06:06,"Vladimir Litvak" <[log in to unmask]
> >>> wrote:
> >>
> >>>Dear Haoran,
> >>>
> >>>I tried and everything works fine for me. Make sure your SPM version
> >>>is up to date and if you can't make it work, send me your saved batch
> >>>and I'll take another look.
> >>>
> >>>Best,
> >>>
> >>>Vladimir
> >>>
> >>>2011/5/10 飞鸟 <[log in to unmask]>:
> >>>> Dear SPM's users,
> >>>> Have you ever used batch interface to do 3D source reconstruction for
> >>>> EEG/MEG data? I choosed three separate modules "M/EEG head model
> >>>> specification" "M/EEG source inversion" and "M/EEG inversion results" so as
> >>>> to reconstruct the sources. In the "M/EEG head model specification" module,
> >>>> I specified ''Meshes<Meshes source<individual structual image'' and then
> >>>> selected a mri file named "sDP74-0003-00000-000001-01.img,1". When all was
> >>>> ready and then I ran the batch, however, I found that it din't excuted the
> >>>> specified structual image ( as you can see below 'template=1') and the
> >>>> matlab command window appeared those:
> >>>>
> >>>> SPM8: spm_eeg_inv_mesh_ui (v3731) 21:39:06 - 09/05/2011
> >>>> ========================================================================
> >>>> template: 1
> >>>> Affine: [4x4 double]
> >>>> sMRI: 'C:\Program
> >>>> Files\MATLAB\toolbox\spm8\canonical\single_subj_T1.nii'
> >>>> Msize: 2
> >>>> tess_mni: [1x1 struct]
> >>>> tess_ctx: 'C:\Program
> >>>> Files\MATLAB\toolbox\spm8\canonical\cortex_8196.surf.gii'
> >>>> tess_scalp: 'C:\Program
> >>>> Files\MATLAB\toolbox\spm8\canonical\scalp_2562.surf.gii'
> >>>> tess_oskull: 'C:\Program
> >>>> Files\MATLAB\toolbox\spm8\canonical\oskull_2562.surf.gii'
> >>>> tess_iskull: 'C:\Program
> >>>> Files\MATLAB\toolbox\spm8\canonical\iskull_2562.surf.gii'
> >>>> fid: [1x1 struct]
> >>>>
> >>>> I didn't understand why. Anyone who knows the reason ? Thanks very much
> >>>> for any help !
> >>>>
> >>>> --
> >>>> Haoran LI (MS)
> >>>> Brain Imaging Lab,
> >>>> Research Center for Learning Science,
> >>>> Southeast University
> >>>> 2 Si Pai Lou , Nanjing, 210096, P.R.China
> >>>>
> >>>>
> >>
> >>
> >>
> >>
> >>
>
>
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