Unable to access SVReg labeled volume

Forums Forums Surface and Volume Registration (SVReg) Unable to access SVReg labeled volume

This topic contains 11 replies, has 2 voices, and was last updated by  Anand Joshi 5 months ago.

  • Author
    Posts
  • #1882

    amysore3
    Participant

    As I run the SV-registration module on an MRI scan, the entire process completes without any error and I can see the resulting volumes in the lower right hand corner display as they are being computed. When I try to access the labeled volume (File-Open-Label volume…), I am unable to find all the labeled volumes saved in the folder or access them in any other way. Are my labeled volumes not getting saved? If yes, why? How can I change it to save and access my labeled volumes? Please provide suggestions in this regard. Any help will be appreciated. Thank you in advance!

  • #1883

    Anand Joshi
    Moderator

    Hi, The labeled volume should be automatically stored in the same directory as the MRI scan. They have filenames <subjectid>.svreg.label.nii.gz
    Are you able to find that file?
    Here is the list of output files
    http://brainsuite.org/processing/svreg/output/

    Please let me know if you find these files generated in your mri directory.

  • #1913

    amysore3
    Participant

    Thank you for the response but I am not able to see these files in the same directory as my MRI scan. It feels like they aren’t getting saved. But I am not getting any error either which I believe means that the SVreg is running successfully but isn’t saving the labelled volumes. Please let me know what I could.

  • #1914

    Anand Joshi
    Moderator

    What are the files do you see in the mri directory? Do you have the .dfs files there?

  • #1915

    amysore3
    Participant

    Yes, I do see all the .dfs files in the MRI directory

  • #1916

    amysore3
    Participant

    I see only “.hemi.label.nii.gz”, “.pvc.label.nii.gz” and “.skull.label.nii.gz” labelled volumes and I see all the .dfs files.

  • #1917

    Anand Joshi
    Moderator

    Are there any files with svreg extension (e.g. *.svreg.dfs)

  • #1918

    amysore3
    Participant

    Yes., there are about 8-10 files with .svreg.dfs.

  • #1919

    Anand Joshi
    Moderator

    That means svreg has finished, however perhaps only the surface registration has run.
    Please make sure that the ‘surface registration only’ box us unchecked.
    http://brainsuite.org/quickstart/svreg/

  • #1920

    amysore3
    Participant

    Thank you. I will try running it again.

  • #1921

    amysore3
    Participant

    That worked. Thank you!

  • #1922

    Anand Joshi
    Moderator

    Awesome!

You must be logged in to reply to this topic.