Hi Darren,
Thank you for emailing me the modified version of aal. It works fine with
my set up!
By the way, do you know of a fast, straightforward way to convert the
content of aal output (with all the labels) which appears in the SPM
Graphics window?
Normally, for the SPM results table, I can just right click on the table
and chose ‘print the table’, or something along these lines and the results
table appears in the Matlab Command window in text format.
For the AAL I ended up saving it as a PDF file and then importing it to MS
Word which is quite time consuming.
Thank you for your help. Best wishes
Agnieszka
Original Message:
-----------------
From: Darren Gitelman [log in to unmask]
Date: Fri, 14 Nov 2008 11:28:33 -0600
To: [log in to unmask]
Subject: Re: [SPM] SPM and Automated Anatomical Labeling (AAL) toolbox
Dear Agnes
I have a copy of aal that I modified, which I think runs on spm2 and
spm5. I have not used it in quite some time, but it is sitting in my
spm5 toolbox folder so it may work. Please do not distribute this copy
of AAL. It is not an original and has not been approved by the
original authors. Also I make no claims that it produces the same
results as the original.
-----
Darren Gitelman
On Fri, Nov 14, 2008 at 9:45 AM, Agnes Reid <[log in to unmask]> wrote:
> Hello,
>
>
>
> I am just wondering whether anyone has successfully managed to run
Automated
> Anatomical Labeling (AAL) toolbox for SPM2, using SMP5 in Matlab?
>
> If, yes, I would be grateful for any information regarding problems and
> their solutions. Or perhaps, someone had the same problem as mine – please
> see below for details.
>
>
>
> I am using SMP5 with Matlab 7 for Windows and have installed the AAL
toolbox
> for SPM2. The installation seemed to be successful and when choosing 'aal'
> from the toolbox window, I can clearly see the menu with 'Toolbox: GIN,
UMR
> 6095 (2003)' and its options.
>
>
>
> However, when I make my choice, e.g. 'Local Maxima Labelling' and chose my
> SPM.mat file (I am assuming that this is my SPM.mat file after I have
> specified my contrasts), the graphic window displays "Labels: volume
summary
> (labels and percentages per cluster)", but the window is empty, it also
> displays the correct directory for the SPM.mat file. The program seams to
> take ages which does not look promising, because when I run my contrast
> without using AAL, I only get a dozen of coordinates – so there is no much
> labelling to be done.
>
>
>
> I have checked Matlab Command Window and I get the following message given
> below.
>
>
>
> Thank you for your help,
>
>
>
> Agnieszka Reid, PhD
>
> University of Aston
>
>
>
>
>
> Message from the Matlab Command Window:
>
> "Initialising SPM.........done
>
>
>
> SPM present working directory:
>
> E:\Documents and Settings\Agnieska
>
> »
>
> ~ - SPM5: aal toolbox ---------------------------------------------
>
>
>
> Toolbox directory prepended to Matlab path:
>
> C:\SPM\spm5\toolbox\aal
>
>
>
> ----------------------------------------- 15:06:11 - 14/11/2008
>
>
>
>
>
> SPM5: spm_getSPM (v$Rev: 396 $) 15:06:17 -
14/11/2008
>
>
----------------------------------------------------------------
>
> SPM computation :
...initialising
>
> SPM computation :
...done
>
> SPM computation :
...done
>
> Warning: Unable to interpret TeX string
>
"\fMRIproperstudy\2ndlevelanalwithcovariates090908\onesamplettestCovariatesC
ontrols\procdata\CsPwordE\analyses\categorical".
>
>> In gin_list_dlabels at 153
>
> In gin_dlabels at 19
>
> Warning: The argument for the %s format specifier must be of type char (a
> string).
>
>> In gin_list_dlabels at 209
>
> In gin_dlabels at 19
>
> ??? Undefined function or variable "defaults".
>
>
>
> Error in ==> gin_list_dlabels at 322
>
> if defaults.analyze.flip
>
>
>
>
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