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

Nikola Vukovic vukovicnikola at gmail.com
Wed Dec 2 10:18:23 PST 2015


So I was playing some more with the STUDY files, and I found the solution!
For some reason, the ICA matrices were not copied correctly from the
continuous subject-level dataset into the separate epoched sets - despite
the fact that loading the latter in eeglab shows the ICA as present, and
even allows the components to be plotted. The solution for me was to
manually copy the ICA weights from the non-NaN epoched sets to the
problematic ones. Having done that, it seems to work now - I was able to
precluster the STUDY components without the error message.
Hope this helps someone with a similar issue...
N


On Wed, Dec 2, 2015 at 12:33 PM, 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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