Re: [Freesurfer] Error in running make_average_subject

can you include the full terminal output?

On 12/13/18 7:45 AM, Emanuel Alvaredo wrote:

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Hello Bruce, thanks for your anwer. Sure. The command is

make_average_subject --out avgsubjectPRUEBAESTASI! --subjects Bartley_Recon Baez_Recon Bonilla_Recon

The output is in the attached file

Thanks!

Emanuel

On Wed, Dec 12, 2018 at 7:05 PM Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote: Hi Emanuel,

can you include the full command line and output?

cheers Bruce On Wed, 12 Dec 2018, Emanuel Alvaredo wrote:

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Thanks for your answer Douglas. I replaced the make_average_surface file with the new one but I have the same message error. ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; mghRead(mri/norm.mgz, -1): could not open file

---

Labeling Slice relabeling unlikely voxels in interior of white matter mri/norm.mgz: could not load norm volume from (null)

Linux neuroWorkstation00 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:16:02 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

Thanks

Emanuel

On Tue, Dec 11, 2018 at 1:10 PM Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edumailto:DGREVE@mgh.harvard.edu> wrote: Sorry, the disk that held that patch failed and we did not have a backup so not everything was restored. I just put this file there:

  https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/make_average_surface

  Copy it to $FREESURFER_HOME/bin. Let me know how it goes


  On 12/10/18 12:48 PM, Emanuel Alvaredo wrote:

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  Thanks Bruce. The following is the command.

make_average_subject --out avgsubjectPRUEBAESTASIEmac --subjects subject1 subject2 subject3

And I made a mistake in may last mail. I use the word path instead of patch

I have found this page with a patch for de issue

https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2018-February/056008....

But I dont know how to apply the patch. Can you give some information about this?

Emanuel

On Fri, Dec 7, 2018 at 4:54 PM Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote: Hi Emanuel

  you need to send us the full command you ran and output of it if you want
  us to be able to help you

  cheers
  Bruce
  On Fri, 7 Dec 2018, Emanuel Alvaredo wrote:

  >
  >         External Email - Use Caution
  >
  > Hello!, I am getting the following error using the
  command make_average_subject
  >
  > mri/norm.mgz: could not load norm volume from (null)
  >
  > I have found this page with a path for de issue
  >
  >
  https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2018-February/056008.html
  >
  > But I dont know how to apply the path. Can you give some information about
  this?
  >
  > Thanks!
  >
  >
  >
  > Emanuel
  >
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