[Eeglablist] Why doesn't BINICA show up as an option in ICA?

Fri May 23 08:36:37 PDT 2014

Hi Jacob and Natalie,

I am glad to hear binica is able to run on a Windows 7 PC. As the wiki
appears to be incorrect on whether it can run on newer versions of windows
any extra detail either of you could provide on getting binica to work on
windows 7 would be much appreciated.

Following the wiki instructions, I've changed the ICABINARY path to the
wiki-downloaded ica.exe. I still can't get binica to run using Makoto's
script or the EEGLAB dialog, ICA does run through EEGLAB but it seems to be
runica that is implemented not binica as their is no noticable change in
decomposition speed

One thing I may be missing is the editing of the ica.sc file. The wiki is
vague on what exactly needs to be edited here so I may edited it
incorrectly. If necessary, how should the ica.sc be edited in order to get
binica to run?

Thanks,
Max

On Mon, May 12, 2014 at 2:00 PM, Jacob Anderson <jea at umn.edu> wrote:

> I just successfully ran the 'ica.exe' available from the Wiki on some data
> within EEGLAB/MATLAB. Cool, it appears to have worked fine!
> Cheers,
> Jake
>
>
>
> On Mon, May 12, 2014 at 12:27 PM, Jacob Anderson <ande2523 at umn.edu> wrote:
>
>> Dear Makoto,
>> From the Wiki BINICA page under the "Download" head, it looks like a
>> recent compiled version (with improved PCA reduction) for Windows isn't
>> available. It goes on to say that the older compiled versions won't run
>> within MATLAB and can't be used with binica.m(). However, one can download
>> those older versions to run them externally. The code you provided to
>> Natalie and her successful efforts to run BINICA (in Win8) suggest that you
>> can actually run BINICA within MATLAB on recent versions of Windows, which
>> is cool!  I was wondering if the version Natalie was using is the version
>> from the wiki page or if someone compiled a new one with the provided
>> source code. Natalie mentioned that she inherited the version she's using
>> and doesn't know much about its origins.
>> Cheers,
>> Jake
>>
>>
>>
>> On Mon, May 12, 2014 at 10:52 AM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>wrote:
>>
>>> Dear Jake,
>>>
>>> At least I haven't heard of any problem yet. Is there a binica problem
>>> depending on windows versions?
>>>
>>> Makoto
>>>
>>>
>>> 2014-05-11 19:22 GMT-07:00 Jacob Anderson <ande2523 at umn.edu>:
>>>
>>> Hi Everyone,
>>>> Will the older Windows binary work on Windows 7 machines? I'm assuming
>>>> that Natalie isn't running XP. The only Windows version I know of is on
>>>> BINICA wiki page. Is there another version that's available?
>>>>
>>>> Thanks,
>>>> Jake
>>>> On May 8, 2014 5:18 PM, "Natalie Prowse" <
>>>> NatalieProwse at cmail.carleton.ca> wrote:
>>>>
>>>>>  Thank-you Makoto.  I have logged the bug (1604) and am using your
>>>>> work around.
>>>>>
>>>>>
>>>>>  regards,
>>>>>
>>>>> -Natalie
>>>>>  ------------------------------
>>>>> *From:* Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
>>>>> *Sent:* Thursday, May 8, 2014 12:44 PM
>>>>> *To:* Natalie Prowse
>>>>> *Cc:* eeglablist at sccn.ucsd.edu
>>>>> *Subject:* Re: [Eeglablist] Why doesn't BINICA show up as an option
>>>>> in ICA?
>>>>>
>>>>>  Dear Natalie,
>>>>>
>>>>>  Sorry for inconvenience.
>>>>> I'd like to give you a temporal solution using a command line
>>>>> meanwhile you post it as a bug to bugzilla
>>>>> https://sccn.ucsd.edu/bugzilla/enter_bug.cgi
>>>>>
>>>>>  After loading the set file you want to decompose, run the following
>>>>> command.
>>>>>
>>>>>  [wts,sph] = binica(EEG.data(:,:), 'extended', 1);
>>>>> EEG.icaweights = wts;
>>>>> EEG.icasphere = sph;
>>>>> EEG = eeg_checkset(EEG, 'ica');
>>>>> eeglab redraw
>>>>>
>>>>>  Makoto
>>>>>
>>>>>
>>>>> 2014-04-30 11:59 GMT-07:00 Natalie Prowse <
>>>>> NatalieProwse at cmail.carleton.ca>:
>>>>>
>>>>>> Hi,
>>>>>>
>>>>>> I have the windows version of BINICA on my C: drive.
>>>>>>
>>>>>> I have verified that the PATH variable contains the path to the file:
>>>>>> C:\NICERLAB\Artifact_removal_code\BinICA
>>>>>>
>>>>>> I have verified that in the eeglab install
>>>>>> \functions\sigprocfunc\icadefs.m the ICABINARY variable is properly set:
>>>>>> ICABINARY = 'C:\NICERLAB\Artifact_removal_code\BinICA\ica.exe';
>>>>>>
>>>>>> And yet, after loading a Brain Vision file and then clicking on
>>>>>> Tools->Run ICA  I do not always get presented with BINICA as an option.  I
>>>>>> also have FASTICA installed, and it doesn't show up either.  This is RANDOM
>>>>>> - sometimes I see BINICA in the list, but more often times, I don't.  I
>>>>>> cannot pinpoint what is different when it's working vs not.
>>>>>>
>>>>>> Any ideas what could be interfering with EEGLab's ability to display
>>>>>> the BINICA or FASTICA option to me?
>>>>>>
>>>>>> Thanks,
>>>>>> -Natalie
>>>>>> _______________________________________________
>>>>>> Eeglablist page: http://sccn.ucsd.edu/eeglab/eeglabmail.html
>>>>>> To unsubscribe, send an empty email to
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>>>>>>
>>>>>
>>>>>
>>>>>
>>>>>  --
>>>>> Makoto Miyakoshi
>>>>> Swartz Center for Computational Neuroscience
>>>>> Institute for Neural Computation, University of California San Diego
>>>>>
>>>>> _______________________________________________
>>>>> Eeglablist page: http://sccn.ucsd.edu/eeglab/eeglabmail.html
>>>>> To unsubscribe, send an empty email to
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>>>>>
>>>>
>>>
>>>
>>> --
>>> Makoto Miyakoshi
>>> Swartz Center for Computational Neuroscience
>>> Institute for Neural Computation, University of California San Diego
>>>
>>> --
>>> *************************************************
>>> Jacob E. Anderson, MA
>>> Doctoral Student
>>> Institute of Child Development
>>> 51 East River Rd.
>>> Minneapolis, MN  55455
>>>
>>> E-mail: jea at umn.edu
>>> Web: Click Here<http://www.cehd.umn.edu/icd/people/gradstudents/andersonJ.html>
>>> Cell:    763-458-7152
>>>
>>>
>
>
> --
> *************************************************
> Jacob E. Anderson, MA
> Doctoral Student
> Institute of Child Development
> 51 East River Rd.
> Minneapolis, MN  55455
>
> E-mail: jea at umn.edu
> Web: Click Here<http://www.cehd.umn.edu/icd/people/gradstudents/andersonJ.html>
> Cell:    763-458-7152
>
> _______________________________________________
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