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

[Makoto Miyakoshi]

Which means your system failed to create the eeg_option. The one that comes
with EEGLAB is like a template. Currently, your EEGLAB is running without
writable eeg_option!

Makoto

On Tue, Dec 1, 2015 at 12:52 PM, Nikola Vukovic <vukovicnikola at gmail.com>
wrote:

> Hmm, so there should be two option files then? In my case "which -all
> eeg_options" only returns one
> line: /Applications/EEGLAB/eeglab13.5.4b/functions/adminfunc/eeg_options.m
>
>
> On Tue, Dec 1, 2015 at 9:46 PM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
> wrote:
>
>> 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
>>
>
>


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