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From: Anna Lappala on 6 Mar 2010 10:20
"Jan Simon" <matlab.THIS_YEAR(a)nMINUSsimon.de> wrote in message <hms6ou$jjh$1(a)fred.mathworks.com>...
> Dear Anna!
>
> > I have a problem associated with the size of my matrix, which needs to be in 3D for 12000 given coordinates.. when i try to run my code, I get an error saying "Maximum variable size allowed by the program is exceeded." What can I do?
>
> Please post the size of the array exactly. A [12000 x 3] is a 3D array, or do you mean [12000 x 12000 x 12000] ?
>
> Kind regards, Jan

Dear Jan,

Thank you for your comment. The matrix is a 12000 by 3, so it is a basic 3d array which reflects the positions of every atom in a protein crystal.

Thank You!
From: Anna Lappala on 6 Mar 2010 10:20
"Jan Simon" <matlab.THIS_YEAR(a)nMINUSsimon.de> wrote in message <hms6ou$jjh$1(a)fred.mathworks.com>...
> Dear Anna!
>
> > I have a problem associated with the size of my matrix, which needs to be in 3D for 12000 given coordinates.. when i try to run my code, I get an error saying "Maximum variable size allowed by the program is exceeded." What can I do?
>
> Please post the size of the array exactly. A [12000 x 3] is a 3D array, or do you mean [12000 x 12000 x 12000] ?
>
> Kind regards, Jan

Dear Jan,

Thank you for your comment. The matrix is a 12000 by 3, so it is a basic 3d array which reflects the positions of every atom in a protein crystal.

Thank You!
From: Anna Lappala on 6 Mar 2010 10:30
Walter Roberson <roberson(a)hushmail.com> wrote in message <hmso2f$21n$3(a)canopus.cc.umanitoba.ca>...
> Anna Lappala wrote:
>
> > I have a problem associated with the size of my matrix, which needs to
> > be in 3D for 12000 given coordinates.. when i try to run my code, I get
> > an error saying "Maximum variable size allowed by the program is
> > exceeded." What can I do?
>
> I wonder if it would happen that a sparse matrix would be appropriate
> for your situation?

Thank you for your suggestion! I have thought about this, but the problem is that the datapoints in this 12000 by 3 matrix are actual data values which I have to use for further analysis in 3D so i am not sure if a sparse matrix is appropriate?

Thank you,
Anna
From: Jan Simon on 6 Mar 2010 11:20
Dear Anna!

> I have a problem associated with the size of my matrix, which needs to be in 3D for 12000 given coordinates.. when i try to run my code, I get an error saying "Maximum variable size allowed by the program is exceeded." What can I do?

A [12000 x 3] array is no problem in Matlab!
Please post the line, which causes the error.

BTW: Your array has 2 dimensions and is called a 2D array or matrix. It just contains 3D coordinates.

Kind regards, Jan
From: Matt J on 6 Mar 2010 11:24
"Anna Lappala" <s0793217(a)sms.ed.ac.uk> wrote in message <hmtrro$em3$1(a)fred.mathworks.com>...

>
> Thank you for your comment. The matrix is a 12000 by 3, so it is a basic 3d array which reflects the positions of every atom in a protein crystal.
=============

We'll need to see copy/pastes of code and error messages. There's no way a 12000x3 matrix would be considered too big.
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