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

[Makoto Miyakoshi]

Dear Nikokla,

Try 'which -all eeg_options'. What does it say? I show mine below as an
example of good case.

>> which -all eeg_options
/home/makoto/eeg_options.m
/data/projects/makoto/Tools/eeglab/functions/adminfunc/eeg_options.m  %
Shadowed

Makoto

On Tue, Dec 1, 2015 at 12:37 PM, Nikola Vukovic <vukovicnikola at gmail.com>
wrote:

> 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
> studies)
> 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
> startup.
> option_chat = 0 ; % If set, enable EEGLAB chat - currently UCSD only -
> restart EEGLAB after changing that option.
>
>
> Nikola
>
> On Tue, Dec 1, 2015 at 9:25 PM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
> wrote:
>
>> 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:
>>>
>>> FOR CLUSTERING, YOU MAY ONLY USE DIPOLE OR SCALP MAP CLUSTERING. This is
>>> 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
>>
>
>


-- 
Makoto Miyakoshi
Swartz Center for Computational Neuroscience
Institute for Neural Computation, University of California San Diego
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