[Eeglablist] AMICA Error

[Jason Palmer]

>From the error message, it looks like there is a permission problem. Can you use chmod or something in a Mac terminal to make amica12mac64 executable by all? I’m not a regular mac user, and don’t recall getting this in testing, but that’s the only thing I can see from the output. The binary is not running. As a baseline test, you should be able to run “amica12mac64 amicadefs.param” on the mac command line.

Jason

 

From: Makoto Miyakoshi [mailto:mmiyakoshi at ucsd.edu] 
Sent: Sunday, June 07, 2015 6:58 PM
To: Tyler Grummett; Srinivas Kota; Jason Palmer
Cc: EEGLAB List
Subject: Re: [Eeglablist] AMICA Error

 

Dear Jason,

 

Could you help us here?

 

Makoto

 

On Thu, Jun 4, 2015 at 3:43 PM, Tyler Grummett <tyler.grummett at flinders.edu.au> wrote:

Hey Srinivas,

 

AMICA has always struggled for me on matlab 2014a. I've run the code perfectly on 2012a and then used the same script in 2014a/b and it's given me the same kind of error.

 

I'm hoping someone with more experience will answer you, but it at least doesn't appear as though you're doing something wrong.

 

Hope that helps :)

 

Tyler




On 5 Jun 2015, at 7:00 am, Srinivas Kota <svkota at gmail.com> wrote:

Any help would be appreciated with AMICA error.  

 

I am using MATLAB R2014a on Mac OS 10.9.5. Here is the two lines of code I was trying to run.  

 

outdir = '/Users/administrator/Desktop/amica_practice/output';

runamica12( 'Memorize.fdt', 'num_chans', 71,'outdir', outdir );

 

To track error, I made minor changes in runamica12.m

 

% from line 850

if RUN_LOCALLY == 1

    disp('line 852')

    AMBIN

    outdir

    system([AMBIN ' ' outdir 'input.param'])

    mods = loadmodout12(outdir)

    weights = mods.W(:,:,1);

    sphere = mods.S(1:mods.num_pcs,:);

    if isnumeric(dat)

        delete(filename);

        %system(['rm ' pwd filesep 'tmpdata.fdt']);

        %system(['del ' pwd filesep 'tmpdata.fdt']);

    end

 

Here is the error :

 

/bin/bash: qconf: command not found

/bin/bash: qconf: command not found

/bin/bash: qconf: command not found

No recognized parallel environment found. Run qconf -spl to get a list of available environments and use keyword use_pe.

Running locally with maximum of 4 threads.

mkdir: /Users/administrator/Desktop/amica_practice/output/: File exists

line 852

 

AMBIN = /Users/administrator/Desktop/amica_matlab_scripts/amica12mac64

outdid = /Users/administrator/Desktop/amica_practice/output/

 

/bin/bash: /Users/administrator/Desktop/amica_matlab_scripts/amica12mac64: Permission denied

 

ans = 126

 

No gm present, setting num_models to 1

No W present, exiting

 

mods = 

 

    num_models: 1

      mod_prob: 1

 

Reference to non-existent field 'W'.

 

Error in runamica12 (line 856)

    weights = mods.W(:,:,1);

 

Error in prac_amica (line 7)

runamica12( 'Memorize.fdt', 'num_chans', 71,'outdir', outdir );


*********************************************************** 

Srinivas Kota, Ph.D
Research Scientist
Movement and Neurosciences Center
Institute for Rehabilitation Science and Engineering
Madonna Rehabilitation Hospital
5401 South St, Lincoln, NE 68506
Email: svkota at gmail.com
Ph:  (618) 319-0471 (cell)
 <https://owa.madonna.org/owa/redir.aspx?C=RNnR5lrQvEmYU7lVtl6kLHIjwe3PiNAI8ouI90lD2Vnn4niuQ5QMBdLYDKmByFhfb525xS5XXT8.&URL=http%3a%2f%2fwww.madonna.org%2fresearch_institute%2findex.html> www.madonna.org/research_institute/index.html 　
***********************************************************

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-- 

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

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