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Dear Jessica, On Thu, Sep 24, 2015 at 6:13 PM, Jessica Schrouff <[log in to unmask]> wrote: > Dear SPM users and developers, > > I am trying to convince my team to switch to a SPM pre-processing pipeline > for our intracranial EEG data. We however keep on getting errors when > trying to perform simple operations: > > 1 - convert edf using a list of channels: I reported this issue > previously. I then resorted to the solution offered, i.e. convert all then > selectdata, but... > > 2 - convert edf using all channels: using the batch to convert an edf file > (all channels, continuous) results in an error at line 398 of > spm_eeg_convert. It seems that it cannot create the file_array because dim > is [0 0]. From what I saw, it first gets the deader and sets D.data to [] > (hence the [0 0] dimensions). When it creates the file array, it tries to > set a.dim (in the file_array code, nargin>=2) to the number of channels and > time points (which are correct), but fails saying that 'dim' needs to be an > integer positive. > (Matlab R2015a, SPM12 with latest updates). > Not sure about this problem, but try putting attached read_edf.m in SPM/external/fieldtrip/fileio/private and ft_read_data.m in SPM/external/fieldtrip/fileio and then selecting a channel subset should work. See if that helps. > > 3 - prepare faces versus scrambled faces EEG dataset. A student is > starting to use SPM and I suggested she uses the public EEG dataset and > follows the tutorial. She had an error when loading the sfp file in the > prepare step. Her Matlab windows just crashes and she needs to kill it. > Again this is something that'd be difficult to solve without being able to reproduce the problem. I suggest you try to trace in the debugger at which line the problem happens. > > (4, less important) - multiple warnings with the GUIs during the display > of MEEG objects with the latest versions of Matlab (R2014b), saying we > should switch to the latest uitable component. The display window does not > show the signal anymore (white axes) if we zoom then try to scroll at a > later time point. > I think Guillaume was working on some of this but the fixes might not be in the web version yet. You can write him to [log in to unmask] and ask to get the latest in-house version. > > I also have a question: can we input channel coordinates in 3d without > fiducials? We have 3d coordinates of intracranial electrodes that we don't > want to flatten to 2d but rather use to plot on a 3d mesh. To avoid keeping > separate files, I would like to get that information in the MEEG object. I > tried different things but it would always fail, asking me for fiducials > and trying to compute the 2d flattened coordinates of the channels. > If it's just about keeping something in the object and you don't want SPM to use it you can treat the D object as a struct and store anything there. e.g. D = spm_eeg_load D.blahblah = [1 2 3 4 5 6]; save(D); disp(D.blahblah) Best, Vladimir > > Can you please help with these multiple issues? > > Thank you, > Best regards, > Jessica >