2 simple questions

[Andres Posada]

Hi all,

I am just starting to use FieldTrip, fantastic program and very easy to use.
I am doing the tutorial but I am blocked in two different places:
First, how I can prepocess (filter, baseline, etc) already saved data? I use
manual artifact rejection and I save the data ('save PreprocDataClean dataFIC').
Now when I want to filter and baseline this data, I cannot access them
(variable in matlab or a matlab file) with the commands:

cfg = []; 
cfg.datafile    = 'PreprocDataClean.mat'; (?)
cfg.blc        = 'yes';                        % apply baseline correction
cfg.blcwindow  = [-0.2 0];                     % baseline: -0.2 sec to 0
cfg.lpfilter   = 'yes';                        % apply lowpass filter
cfg.lpfreq     = 35;                           % lowpass at 35 Hz.
dataFIC        = preprocessing(cfg);   

The other problem, when I try to do the tutorial of beamforming, with the
mri data of the subject01 (available online) there is a SPM bug! My version
of Matlab is 7.0.1.24704 (R14) Service Pack 1 and I use SMP2 (last update).

The commands:

mri = read_fcdc_mri('Subject01.mri');
cfg                 = [];
cfg.name            = 'segment';
cfg.write           = 'yes';
cfg.coordinates     = 'ctf';
[segmentedmri]      = volumesegment(cfg, mri);    

and the bug is:

Warning: Cant get default Analyze orientation - assuming flipped
> In spm_flip_analyze_images at 9
  In spm_create_vol>create_vol at 193
  In spm_create_vol at 14
  In spm_write_vol at 76
  In fieldtrip-20070701\private\volumewrite_spm at 62
  In volumesegment at 222
  In temp at 6
performing the segmentation on the specified volume

    * - SPM2: spm_vol  -------------------------------------------------

        Error reading information on:
                ..ome/common/matlab/spm2/templates/T1.mnc
         
        Please check that it is in the correct format.

        -----------------------------------------  15:49:03 - 17/07/2007

??? Error using ==> spm_vol>subfunc1
Can't get volume information for '/home/common/matlab/spm2/templates/T1.mnc'

Error in ==> spm_vol>subfunc2 at 51
	V = subfunc1(P);

Error in ==> spm_vol at 37
V = subfunc2(P);

Error in ==> spm_segment>get_affine_mapping at 226
if ~isempty(VG) & ischar(VG), VG = spm_vol(VG); end;

Error in ==> spm_segment>init_sp at 567
MM          = get_affine_mapping(VF,PG,flags.affreg);

Error in ==> spm_segment at 91
SP         = init_sp(flags.estimate,VF,PG);

Error in ==> volumesegment at 246
  spm_segment(Va,cfg.template,flags);

Error in ==> temp at 6
[segmentedmri]      = volumesegment(cfg, mri);



----------------------------------
The aim of this list is to facilitate the discussion between users of the FieldTrip  toolbox, to share experiences and to discuss new ideas for MEG and EEG analysis. See also http://listserv.surfnet.nl/archives/fieldtrip.html and http://www.ru.nl/fcdonders/fieldtrip.