Lorelei,
A couple of quick points:
(1) The likely cause of the error is that there is no data at this location.
Check the mask.img file to see where you have data.
(2) If your doing a PPI analysis, I'd recommend switching to the generalized
form of PPI (gPPI; http://brainmap.wisc.edu) which will do the VOI
extraction and PPI model estimation in a single step. All you need is a VOI
file (either mat or .img or .nii). These can be generated with SPM in a
variety of ways. If you want a sphere, then I can send some code when I'm at
my desk. If you want some other shape, sphere, or cluster, you can have
matlab create a mat structure with the VOI button and then use that in the
analysis. The only caveat is that the same voxels will be used in all
subjects, which some people have disagreed with.
(3) If you want a more generalizable extraction, or want to extract several
VOI at the same time, you use my VOI tools (
http://www.martinos.org/~mclaren/ftp/Utilities_DGM). The tools will produce
the same results as you have with the exception that they are not adjusted
for the contrast that you select.
Let me know if you have any questions, comments, or suggestions about these
tools.
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Office: (773) 406-2464
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On Fri, Apr 8, 2011 at 9:12 AM, Lorelei Howard <[log in to unmask]> wrote:
> Hello everyone,
>
> I have written a function for VOI extraction (see attached). It runs fine
> with the two following set of inputs:
> extract_VOI_timeseries('HC_MM',[-15,-22,-23],1)
> extract_VOI_timeseries('SPL_SCD',[15,-61,55],1)
>
> However, when I try this:
> extract_VOI_timeseries('Ang_NovRep',[39,-85,25],1)
>
> ...it won't run and I get the error messsages shown below. As far as I can
> tell, matlabbatch is defined with the correct info.
>
> Does anyone have any suggestions as to why it's not working in this case
> and what I need to do to rectify the situation?
>
> Thanks,
> Lorelei
>
>
> Error messages:
> >> cd (PPIpath)
> extract_VOI_timeseries('Ang_NovRep',[39,-85,25],1)
>
>
> ------------------------------------------------------------------------
> Running job #2
> ------------------------------------------------------------------------
> Running 'Volume of Interest'
> ## Note: this VOI facility is in a beta version. ##
> ## Interface and features might change in the future. ##
> Failed 'Volume of Interest'
> Error using ==> svd
> Input to SVD must not contain NaN or Inf.
> In file "C:\Program Files\SPM\spm8\spm_regions.m" (v3569), function
> "spm_regions" at line 185.
> In file "C:\Program Files\SPM\spm8\config\spm_run_voi.m" (v3531), function
> "spm_run_voi" at line 68.
>
> Running 'Volume of Interest'
> ## Note: this VOI facility is in a beta version. ##
> ## Interface and features might change in the future. ##
> Failed 'Volume of Interest'
> Error using ==> svd
> Input to SVD must not contain NaN or Inf.
> In file "C:\Program Files\SPM\spm8\spm_regions.m" (v3569), function
> "spm_regions" at line 185.
> In file "C:\Program Files\SPM\spm8\config\spm_run_voi.m" (v3531), function
> "spm_run_voi" at line 68.
>
> The following modules did not run:
> Failed: Volume of Interest
> Failed: Volume of Interest
>
> ??? Error using ==> cfg_util>local_runcj at 1501
> Job execution failed. The full log of this run can be found in MATLAB
> command window, starting with the lines (look for the line showing the
> exact #job as
> displayed in this error message)
> ------------------
> Running job #2
> ------------------
>
>
> Error in ==> cfg_util at 766
>
>
> Error in ==> spm_jobman at 208
>
>
> Error in ==> extract_VOI_timeseries at 74
>
>
>
>
>
>
>
>
>
>
>
> --
> Lorelei Howard
>
> Ph.D. Student
>
> Institute of Behavioural Neuroscience
> Cognitive, Perceptual and Brain Sciences Department
> University College London
> 26 Bedford Way
> WC1H 0AP
> +44 (0)20 7679 8553
>
>
