Lead-DBS
  • Home
  • About
    • Quickstart Primer (Post-OP MR-Scans)
    • Data & Code inclusion philosophy
    • Quickstart Primer (Post-OP CT-Scans)
    • Deep Brain Stimulation
    • Lead Connectome
    • Publications
    • List of Lead-DBS dependencies
    • Citing Lead-DBS
  • News
  • Contact
  • Help/Support
    • Manual
    • Knowledge Base
      • Atlases/Resources
        • Subcortical Atlases (MNI-Space)
        • Cortical Atlas Parcellations (MNI-Space)
        • Macaque Atlases (MNI-Space)
        • The DISTAL atlas
        • FEM-based VTA model
        • Normative Connectomes
      • Lead-DBS Methods
        • Subcortical Electrophysiology Mapping (SEM)
        • AC/PC to MNI conversion
        • Connectivity Benefit Mapping
      • Other Videos
      • Screenshots
      • Walkthrough-Videos
    • Slack User Channel
    • Forum
  • Workshops
    • Past workshops
      • Berlin 2016
      • Shanghai September 2018
      • Hamburg February 2019
    • Berlin September 2019
    • Machine Learning – Berlin September 2019
    • Brisbane February 2020
  • Download
  • Lead-Connectome
  • Search
  • Menu Menu

Normalization problem

You are here: Home1 / Forums2 / Support forum ARCHIVED – Please use Slack Channel instead3 / Normalization problem4
Viewing 4 posts - 1 through 4 (of 4 total)
  • Author
    Posts
  • 09/30/2016 at 1:52 PM #1479
    Rafael Rodriguez
    Participant

    Hi all. I’m trying to run my first LEAD. I am running lead v1.5.0.1 on Matlab 2015a, with SPM 12. In patient directory I have the anat.nii and the postop (tra, cor, sag). After normalize anat using ANTs (I can open the glanat.nii), the following errors pop up on matlab main window:

    Warning: No anatomy information found. Please put either anat.nii, anat_t1.nii or anat_pd.nii into subject folder.
    > In ea_assignpretra (line 15)
    In ea_conv_antswarps (line 24)
    In ea_ants_nonlinear (line 161)
    In ea_normalize_ants (line 33)
    In ea_autocoord (line 82)
    In ea_run (line 102)
    In lead_dbs>run_button_Callback (line 278)
    In gui_mainfcn (line 95)
    In lead_dbs (line 43)
    In @(hObject,eventdata)lead_dbs(‘run_button_Callback’,hObject,eventdata,guidata(hObject))
    Error using fprintf
    Invalid file identifier. Use fopen to generate a valid file identifier.

    Error in ea_assignpretra (line 26)
    fprintf(fs,’%s’,’dcmbiasfielddone’);

    Error in ea_conv_antswarps (line 24)
    options=ea_assignpretra(options);

    Error in ea_ants_nonlinear (line 161)
    ea_conv_antswarps(directory);

    Error in ea_normalize_ants (line 33)
    ea_ants_nonlinear([options.earoot,’templates’,filesep,’mni_hires’,options.primarytemplate,’.nii’],…

    Error in ea_autocoord (line 82)
    eval([options.normalize.method,'(options)’]); % triggers the normalization function and passes the options struct to it.

    Error in ea_run (line 102)
    ea_autocoord(options);

    Error in lead_dbs>run_button_Callback (line 278)
    ea_run(‘run’,options);

    Error in gui_mainfcn (line 95)
    feval(varargin{:});

    Error in lead_dbs (line 43)
    gui_mainfcn(gui_State, varargin{:});

    Error in @(hObject,eventdata)lead_dbs(‘run_button_Callback’,hObject,eventdata,guidata(hObject))

    Error while evaluating UIControl Callback

    09/30/2016 at 9:36 PM #1480
    andreashorn
    Keymaster

    Hi Rafael,

    sorry to hear. I just finished uploading a new release which should fix this issue.
    Let me know if it still happens!

    Best, Andy

    10/03/2016 at 3:44 PM #1483
    Rafael Rodriguez
    Participant

    Dear Andy
    I have updated to version v1.5.0.2 and normalization ran perfectly. Thank you very much.

    10/03/2016 at 3:59 PM #1484
    andreashorn
    Keymaster

    Great, thanks for letting us know!

  • Author
    Posts
Viewing 4 posts - 1 through 4 (of 4 total)
  • The forum ‘Support forum ARCHIVED – Please use Slack Channel instead’ is closed to new topics and replies.

Your Account

Log In
Register

Forum Statistics

Registered Users
131
Forums
1
Topics
185
Replies
607
Topic Tags
81

Subscribe to our newsletter

Latest Tweets

  • Tweet Avatar
    leaddbs
    @leaddbs
    RT @neumann_wj: Our #ECG contamination paper on implantable bidirectional brain stimulation systems is live. Great and fast paced c… https://t.co/Rkwp86ZxKE

    2d
  • Tweet Avatar
    leaddbs
    @leaddbs
    RT @andreashorn_: Clinically relevant study showing ECG artifacts are higher when IPG implanted on the left side. 👏👏 this will likely… https://t.co/ostng3NZxN

    2d
  • Tweet Avatar
    leaddbs
    @leaddbs
    Interesting single center case series with CM + ANT-DBS vs. CM-DBS only in 16 children and adults with drug-resista… https://t.co/0gzbgQlHud

    3d

Recent Posts

  • Lead-DBS on the cover of NeuroImage
  • Lead-DBS on the cover of Biological Psychiatry
  • Lead-DBS on the cover of Annals of Neurology
  • Crucial methodological updates for Lead-DBS
  • 2nd Lead-DBS Workshop in Shanghai, China

Archives

  • September 2020
  • June 2019
  • November 2018
  • September 2018
  • August 2018
  • March 2018
  • November 2017
  • September 2017
  • July 2017
  • April 2017
  • July 2016
  • June 2016
  • May 2016
  • March 2016
  • December 2015
  • November 2015
  • April 2015
  • January 2015
  • December 2014
  • October 2014
  • September 2014
  • July 2014
  • June 2014

Impressum & Datenschutzerklärung

Scroll to top