tar and gzip the entire subject dir and upload it following these instructions:

https://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange

On Tue, 21 Nov 2017, Rosalia Dacosta Aguayo wrote:

Hi Bruce,

Thank you for answering.

Not, it is not a bug...in fact recon-all...-all had not problems. Just I was looking at the outputs...and as I am running FreeSurfer for my first time I wanted to ask about if this was a problem or I can go on....

Where I should upload the subject and which files? I mean, in order to do not overload the mail list...

Kind regards, Rosalia

2017-11-21 18:09 GMT+01:00 Bruce Fischl fischl@nmr.mgh.harvard.edu: hmmm, that is odd looking. Can you upload that subject so we can see if it is just a display bug or not? On Tue, 21 Nov 2017, Rosalia Dacosta Aguayo wrote:

  > Dear FreeSurfer Developers,
  >
  > I am checking the OutputData_freeview after running recon-all
  following your
  > tutorial:
  >
  https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/OutputData_freeview
  >
  > I have loaded T1.mgz, wm.mgz, brainmask.mgz and aseg.mgz, and
  then the
  > surfaces: rh.pial, rh.white, lh.pial and lh.white.
  >
  > In general, I did not see any problem...but when I wanted to
  see the
  > surface&mesh with vertices I saw something estrange I do not
  know if it is a
  > problem or it is normal (see the vertices in the temporal pole
  in grey
  > scale)...as this is my first run with FreeSurfer. I attach you
  the image.
  >
  > 1. FreeSurfer version:
  > freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
  > 2. Platform: CentOS release 6.7
  > 3. uname -a: Linux rosalia-PORTEGE-Z930 4.4.0-98-generic
  #121-Ubuntu SMP Tue
  > Oct 10 14:24:03 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
  > 4. Recon-all.log; see attached (although it ended without
  errors)
  >
  > I haven't come across this error in my searches, but I may be
  using the
  > wrong key terms. Would anyone be able to point me in the right
  direction or
  > trouble-shoot fixing this?
  >
  > Thank you for your time,
  > Rosalia
  >
  >
  >
  >
  >

---

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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.

Sorry Bruce,

I have sent it to your email directly...in order to avoid the process of uploading the data...because I am not familiar with it.

Kind regards, Rosalia

2017-11-21 18:25 GMT+01:00 Rosalia Dacosta Aguayo rdacostaa@gmail.com:

Sorry Bruce,

I prefer sending it to your email directly, then if you want to make it available to the other memebrs, there is not problem at all...

Kind regards, Rosalia

2017-11-21 18:17 GMT+01:00 Bruce Fischl fischl@nmr.mgh.harvard.edu:

...

tar and gzip the entire subject dir and upload it following these instructions:

https://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange

On Tue, 21 Nov 2017, Rosalia Dacosta Aguayo wrote:

Hi Bruce,

...

Thank you for answering.

Not, it is not a bug...in fact recon-all...-all had not problems. Just I was looking at the outputs...and as I am running FreeSurfer for my first time I wanted to ask about if this was a problem or I can go on....

Where I should upload the subject and which files? I mean, in order to do not overload the mail list...

Kind regards, Rosalia

2017-11-21 18:09 GMT+01:00 Bruce Fischl fischl@nmr.mgh.harvard.edu: hmmm, that is odd looking. Can you upload that subject so we can see if it is just a display bug or not? On Tue, 21 Nov 2017, Rosalia Dacosta Aguayo wrote:

  > Dear FreeSurfer Developers,
  >
  > I am checking the OutputData_freeview after running recon-all
  following your
  > tutorial:
  >
  https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/OutputD

ata_freeview > > I have loaded T1.mgz, wm.mgz, brainmask.mgz and aseg.mgz, and then the > surfaces: rh.pial, rh.white, lh.pial and lh.white. > > In general, I did not see any problem...but when I wanted to see the > surface&mesh with vertices I saw something estrange I do not know if it is a > problem or it is normal (see the vertices in the temporal pole in grey > scale)...as this is my first run with FreeSurfer. I attach you the image. > > 1. FreeSurfer version: > freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c > 2. Platform: CentOS release 6.7 > 3. uname -a: Linux rosalia-PORTEGE-Z930 4.4.0-98-generic #121-Ubuntu SMP Tue > Oct 10 14:24:03 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux > 4. Recon-all.log; see attached (although it ended without errors) > > I haven't come across this error in my searches, but I may be using the > wrong key terms. Would anyone be able to point me in the right direction or > trouble-shoot fixing this? > > Thank you for your time, > Rosalia > > > > > _______________________________________________ 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.