Error using LGI script despite making suggested chages to Matlab script.

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prasser

27 Sep 2016 27 Sep '16

7:53 p.m.

Hi,

I'm looking to please get some help with -lgi.

I'm using matlab R2015b and FS5.3 with recon-all -s subj_id -lgi on os x 10.11.

Looking at the output, the first error occurs about here:

preparing pial mesh structure ... ...searching for mesh edges...done (206.94 sec). ... creating path file for vertex 1 / 65274 area file for outer ROIs saved at 1 In an assignment A(:) = B, the number of elements in A and B must be the same.

Error in dsearchn (line 79) [d(i),t(i)] = min(sum((x-yi).^2,2));

I have changed the script SearchProjectionOnPial.m as suggested on the ReleaseNotes page.

Any help would be much appreciated.

Thanks.

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prasser

29 Sep 29 Sep

6:46 p.m.

New subject: Repost: Error using LGI script despite making suggested chages to Matlab script.

Hi, Reposting. Thanks.

---- On Tue, 27 Sep 2016 16:53:21 -0700 prasser<prasser@zoho.com> wrote ----

Hi,

I'm looking to please get some help with -lgi.

I'm using matlab R2015b and FS5.3 with recon-all -s subj_id -lgi on os x 10.11.

Looking at the output, the first error occurs about here:

Error in dsearchn (line 79) [d(i),t(i)] = min(sum((x-yi).^2,2));

I have changed the script SearchProjectionOnPial.m as suggested on the ReleaseNotes page.

Any help would be much appreciated.

Thanks.

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

Alan Francis

30 Sep 30 Sep

9:32 a.m.

New subject: Repost: Error using LGI script despite making suggested chages to Matlab script.

Hi Prasser:

Did you set the environment for MATLAB e.g.,

setenv MATLABPATH /Applications/MATLAB_versionsetenv PATH ${MATLABPATH}/bin:${PATH}

This is required for FS to source MATLAB.

best,

Alan

On Thu, Sep 29, 2016 at 6:46 PM, prasser prasser@zoho.com wrote:

...

Hi, Reposting. Thanks.

---- On Tue, 27 Sep 2016 16:53:21 -0700 *prasser<prasser@zoho.com prasser@zoho.com>* wrote ----

Hi,

I'm looking to please get some help with -lgi.

I'm using matlab R2015b and FS5.3 with recon-all -s subj_id -lgi on os x 10.11.

Looking at the output, the first error occurs about here:

preparing pial mesh structure ... ...searching for mesh edges...done (206.94 sec). ... creating path file for vertex 1 / 65274 area file for outer ROIs saved at 1 In an assignment A(:) = B, the number of elements in A and B must be the same.

Error in dsearchn (line 79) [d(i),t(i)] = min(sum((x-yi).^2,2));

I have changed the script SearchProjectionOnPial.m as suggested on the ReleaseNotes page.

Any help would be much appreciated.

Thanks.

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

-- |~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~| *Alan N. Francis PhD* Instructor - Imaging Neuroscience Brain Imaging Center McLean Hospital Harvard Medical School 115 Mill Street, Belmont, MA 02478 alanf@bwh.harvard.edu ezra_wegbreit@brown.edu afrancis@mclean.harvard.edu |~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|

prasser

3 Oct 3 Oct

9:21 p.m.

Thanks for your help. Yes. It looks like it is crashing during make_roi_paths.m Any ideas? Thanks.

---- On Fri, 30 Sep 2016 06:32:06 -0700 Alan Francis <alandarkenergy@gmail.com> wrote ----

Hi Prasser:

Did you set the environment for MATLAB e.g.,

setenv MATLABPATH /Applications/MATLAB_version setenv PATH ${MATLABPATH}/bin:${PATH}

This is required for FS to source MATLAB.

best,

Alan

On Thu, Sep 29, 2016 at 6:46 PM, prasser <prasser@zoho.com> wrote: Hi, Reposting. Thanks.

---- On Tue, 27 Sep 2016 16:53:21 -0700 prasser<prasser@zoho.com> wrote ----

Hi,

I'm looking to please get some help with -lgi.

I'm using matlab R2015b and FS5.3 with recon-all -s subj_id -lgi on os x 10.11.

Looking at the output, the first error occurs about here:

Error in dsearchn (line 79) [d(i),t(i)] = min(sum((x-yi).^2,2));

I have changed the script SearchProjectionOnPial.m as suggested on the ReleaseNotes page.

Any help would be much appreciated.

Thanks.

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

-- |~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~| Alan N. Francis PhD Instructor - Imaging Neuroscience Brain Imaging Center McLean Hospital Harvard Medical School 115 Mill Street, Belmont, MA 02478 alanf@bwh.harvard.edu afrancis@mclean.harvard.edu |~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~| _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

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