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

[Makoto Miyakoshi]

Dear Sebastian,

If you are separating conditions into different .set files, stop doing it.
As long as your conditions are all within-subject, use one datafile per
subject and let STUDY design separate the within-subject conditions. By
doing so you can probably avoid the current issue.

Makoto

On Wed, Dec 2, 2015 at 3:33 AM, Sebastian Grissmann <
sebastian.grissmann at lead.uni-tuebingen.de> wrote:

>
> Hi there,
>
> I had the same issue twice.
>
> The only (suboptimal) solution I found
> was to remove the subjects with NaN values.
>
> Best,
> Sebastian
>
>
>
> Quoting Nikola Vukovic <vukovicnikola at gmail.com>:
>
> Hi Tarik,
>>
>> Indeed this seems to be a long standing bug - it has stalled my analysis
>> for two weeks now... I have found one similar post on Bugzilla a couple of
>> years ago, but it was not resolved, and so I posted it again there (
>> https://sccn.ucsd.edu/bugzilla/show_bug.cgi?id=1822), but it hasn't been
>> looked at by the admins...
>>
>> As for EEGLab not knowing which dataset belongs to which subject, it must
>> be due to some non-obvious field. At study creation, I tag all datasets
>> with subject and condition information, like this:
>> { 'index' 1 'load' '/EEG/RF01/Epoched/RF01_S 1.set' 'subject' 'RF01'
>> 'condition' 'IAllo' }
>>
>> N
>>
>> On Tue, Dec 1, 2015 at 5:45 AM, Tarik S Bel-Bahar <
>> tarikbelbahar at gmail.com>
>> wrote:
>>
>> Greetings,
>>>
>>> I've seen this several times, and it's led to a lot of wasted time. I'm
>>> sure others have come across it before,  perhaps it was already mentioned
>>> it on eeglablist posts, did you check?.
>>>
>>> This issue sounds like a bug, if so it should be reported to the EEGLAB
>>> bugzilla.
>>>
>>> I believe that the problem is that eeglab is looking for exactly matching
>>> ICs across datasets that it considers to be coming from one ID or
>>> subject.
>>> I would also check if there is not some special information (such as ID
>>> or
>>> group) that is being read incorrectly and affecting how STUDY thinks
>>> about
>>> organizing the ICs.
>>>
>>> Try uploading a small study of short datasets with the ICs, which
>>> replicates the problem when STUDY is set up.
>>>
>>>
>>>
>>>
>>> On Wed, Nov 25, 2015 at 10:41 AM, Akshay Maggu <akshaymaggu86 at gmail.com>
>>> wrote:
>>>
>>> Hi Nikola,
>>>>
>>>> I am facing the same issue. All pre-processing steps carefully followed
>>>> and ICAs done for all subjects. But still this 'Na' error (
>>>> https://www.dropbox.com/s/sw6xvujbalidg24/error_preclustering.JPG?dl=0)
>>>> pops up saying that some of the datasets have ICA decompositions
>>>> missing.
>>>>
>>>> Let's see what experts on the list have to say about it.
>>>>
>>>> Akshay
>>>>
>>>> On Tue, Nov 24, 2015 at 7:33 AM, 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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>>>>>
>>>>
>>>>
>>>> --
>>>> Akshay Raj Maggu,
>>>> PhD Candidate,
>>>> Laboratory for Language, Learning and the Brain,
>>>> Department of Linguistics and Modern Languages,
>>>> The Chinese University of Hong Kong,
>>>> Hong Kong.
>>>> Webpage: http://www.cuhk.edu.hk/lin/new/people/students/maggu/
>>>> *Save trees.. Save life! Please don't print this email unless you really
>>>> need to.....*
>>>>
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>>>
>>>
>
>
> --
> Sebastian Grissmann (Mag. rer. nat)
> PhD student
>
> LEAD Graduate School
> University of Tübingen
> Gartenstrasse 29 (1st floor)
> 72074 Tübingen
> Germany
> Phone  +49 7071 29-73579
>
> www.lead.uni-tuebingen.de
>
>
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-- 
Makoto Miyakoshi
Swartz Center for Computational Neuroscience
Institute for Neural Computation, University of California San Diego
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