[ningfei]

As below:

20 subjects Gibbs-tracker (Horn 2013)
169 NKI subjects Gibbs-tracker (Horn 2016)
32 Adult Diffusion HCP subjects GQI (Horn 2017)
90 PPMI PD-patients GQI (Ewert 2017)

Best,
Ningfei

[ningfei]

Hi Alex,

Which group connectome from the meu do you need? I I can give another download link later.

Best,
Ningfei

[ningfei]

Dear Marucela,

The connectome folder looks in order. There should be an option Patient-specific fiber tracts inside the popup menu under Include structural (dMRI) connectivity. But it’s missing now, isn’t it? What’s the output of ea_genmodlist if you run it in the MATLAB command window?

Maybe you can also try to install the hotfix from here, which would update your lead-dbs to the development version. And see if the error still occurs. If so, you may send me some screenshots via Slack (join our Slack group here if you are not in it yet).

Best,
Ningfei

[ningfei]

Hi Marucela,

What’s the full path of your patient folder? What’s insides the folder connectomes/dMRI under patient folder? And your LEAD version?

Best,
Ningfei

[ningfei]

Hi nhaliasos,

Sorry to know it still didn’t work for you. You may apply the hotfix again and see if it works now. I just updated the hotfix.

Best,
Ningfei

[ningfei]

Hi nhaliasos,

This has just been fixed. You may try the Lead menu Install -> Install development version of Lead or download the updates from here (and then extract the zip file into your Lead folder). Let me know if you still have problem.

Best,
Ningfei

[ningfei]

Dear Nabin,

For that I guess it might be solved similarly. You could:

1. Open the 2D Settings (after the Write out 2D check box).
2. Choose the backdrop as you want (the first one is MNI T1 image, which is used by default).
3. Click Save and close.

Then try it again.

Best,
Ningfei

[ningfei]

Hi Nabin,

This is because the I changed the ANTs presets names. A simple solution would be:

1. Open the ANTs Settings button (after the Normalization methods popup menu).
2. Check the settings there, choose Effective: Low Varriance, Default
3. Clike Save button.

Try it again.

Best,
Ningfei

[ningfei]

Hi Martijn,

If you are using the Github version of Lead, be sure to download the additional data files as well (as indicated in the Github README). Extract the data file into Lead installation folder and try again.

Best,
Ningfei

[ningfei]

sorry, no idea what the problem is so far. I can’t reproduce the error here.

[ningfei]

Hi Giuseppe,

Which version of MATLAB are you using?

Best,
Ningfei

[ningfei]

Hi Martijn,

And if you want to try the github version of LEAD DBS, you might also need to set another two fields (in addtion to head and tail) of reco to make it work. So it would look like the following code (where 1 means right side and 2 means left side):

reco.props(1).elmodel = 'Medtronic 3389';
reco.props(2).elmodel = 'Medtronic 3389';
reco.props(1).manually_corrected = 1;
reco.props(2).manually_corrected = 1;
reco.mni.markers(1).head = [ x x x];
reco.mni.markers(1).tail = [ x x x];
reco.mni.markers(2).head = [ x x x];
reco.mni.markers(2).tail = [ x x x];
save('ea_reconstruction.mat', 'reco');

Besides, are you using MATLAB R2007a (MATLAB74)? LEAD DBS needs MATLAB version > R2014b for some functions and visualizations. Better to use R2015b or later with LEAD DBS.

Best,
Ningfei

[ningfei]

Hi, please check if you have this file /scratch/lead/ext_libs/support/libstdc++.so.6 (md5: b6532193067692c716a81da2194d733e). It should work if the newer lib file is at present. It will be loaded from lead folder first rather than use the system’s old one. If it still doesn’t work, you may try to add this line in your env or .bashrc: export LD_LIBRARY_PATH=/scratch/lead/ext_libs/support:$LD_LIBRARY_PATH to see if it works.

[ningfei]

Okay, cool :)

[ningfei]

Hi Vinny,

Thought you already downloaded it yesterday. So I deleted it. Use this one insteal.

Best,
Ningfei

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