[Eeglablist] Error while precomputing STUDY: NaN values in cluster.sets

Nikola Vukovic vukovicnikola at gmail.com
Tue Dec 1 12:37:27 PST 2015

Hi Makoto,

In the options pop up, precomputing ICA is checked correctly, and I think
also in the option file. Here's what's inside:

% eeg_options() - eeglab option script
% Note: DO NOT EDIT, instead use pop_editoptions() or the menu
%       /File/Maximize memory in EEGLAB gui

% STUDY and file options (set these checkboxes if you intend to work with
option_storedisk = 1 ; % If set, keep at most one dataset in memory. This
allows processing hundreds of datasets within studies.
option_savetwofiles = 1 ; % If set, save not one but two files for each
dataset (header and data). This allows faster data loading in studies.
option_saveversion6 = 1 ; % If set, write Matlab files in Matlab v6.5 (max
compatibility). If not, write files in Matlab v7.3 (larger than 2Gb).
% Memory options
option_single = 1 ; % If set, use single precision under Matlab 7.x. This
saves RAM but can lead to rare numerical imprecisions.
option_memmapdata = 0 ; % If set, use memory mapped array under Matlab 7.x.
This may slow down some computation (beta).
option_eegobject = 0 ; % If set, use the EEGLAB EEG object instead of the
standard EEG structure (beta).
% ICA options
option_computeica = 1 ; % If set, precompute ICA activations. This requires
more RAM but allows faster plotting of component activations.
option_scaleicarms = 1 ; % If set, scale ICA component activities to RMS
(Root Mean Square) in microvolt (recommended).
% Folder options
option_rememberfolder = 1 ; % If set, when browsing to open a new dataset
assume the folder/directory of previous dataset.
% Toolbox options
option_donotusetoolboxes = 0 ; % If set, do not use Matlab additional
toolboxes functions even if they are present (need to restart EEGLAB).
% EEGLAB connectivity and support
option_checkversion = 1 ; % If set, check for new version of EEGLAB at
option_chat = 0 ; % If set, enable EEGLAB chat - currently UCSD only -
restart EEGLAB after changing that option.


On Tue, Dec 1, 2015 at 9:25 PM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>

> Dear Nikola,
> I've seen this. In my case at least, it was because EEGLAB's default set
> up file was not correctly figured out, which prevented EEGLAB from creating
> EEG.icaact etc (do you remember that there are some items in 'memory and
> other options' that determines what to do with computed ica data... maybe
> related to that). After fixing the default parameter file, it start to work
> normally.
> I don't know if this is also the case for you, but just in case please
> check it out.
> Makoto
> On Mon, Nov 23, 2015 at 3:33 PM, Nikola Vukovic <vukovicnikola at gmail.com>
> wrote:
>> Dear EEGLAB list
>> I would be very grateful is someone could help me out with an error I've
>> been getting. When I try to precluster components in a given STUDY (it
>> happens for several study files), I get the following error:
>> because some datasets do not have ICA pairs. Look for NaN values in
>> STUDY.cluster(1).sets which indicate missing datasets. Each column in this
>> array indicate datasets with common ICA decompositions.
>> Looking inside the cluster(1).sets, I can indeed find some NaN fields, suggesting not all files have associated ICA decomposition data. This, however, is puzzling because I made sure to do ICA on each subject's dataset *before* epoching, meaning that all sets for individual conditions share the same weights for a subject. After getting this error I even tried to copy the weights (EEG.icawinv + EEG.icasphere + EEG.icaweights + EEG.icachansind) from the unepoched set to all the epoched ones.
>> Did anyone have this error too, and how could it be solved?
>> Thanks for any help,
>> Nikola
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> --
> Makoto Miyakoshi
> Swartz Center for Computational Neuroscience
> Institute for Neural Computation, University of California San Diego
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