External Email - Use Caution

Ubuntu 14.04 should still work.

Matt.

From: Shachar Gal <gal.shachar@gmail.commailto:gal.shachar@gmail.com> Date: Monday, January 14, 2019 at 5:43 AM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu>, Matt Glasser <glasserm@wustl.edumailto:glasserm@wustl.edu>, Ido Tavor <idotavor@gmail.commailto:idotavor@gmail.com> Subject: Re: problem using recon-all

if the problem is with the versions, maybe downgrading my OS for now will do the trick? do you happen know what is the latest ubuntu that is compatible with the 5.3-HCP version? does this also occur in centOS?

thanks

On Sun, 13 Jan 2019 at 17:46 Shachar Gal <gal.shachar@gmail.commailto:gal.shachar@gmail.com> wrote: hello, I using the HCP FreeSurfer Pipeline (using FreeSurfer 5.3-HCP version) on ubuntu, and I encounter this error (copying from the recon-all.log) _______________________________________ #@# Talairach Sun Jan 13 17:35:07 IST 2019 /home/shachar/piano_hcp/102/102/mri

mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i orig.mgz --o orig_nu.mgz

Linux maestro 4.15.0-43-generic #46-Ubuntu SMP Thu Dec 6 14:45:28 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s 102 exited with ERRORS at Sun Jan 13 17:35:08 IST 2019 _______________________________________

i'm a bit confused by the lack of error descriptions, and would appreciate any leads for solving it :)

Shachar

________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.

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hey, is there any update regarding the release of the FreeSurfer 6 HCP-compatible version?

cheers, Shachar

On Mon, 14 Jan 2019 at 14:58 Shachar Gal gal.shachar@gmail.com wrote:

thanks, hope it'll work anyway, looking forward for the version 6 release

cheers, Shachar

On Mon, 14 Jan 2019 at 14:08 Glasser, Matthew glasserm@wustl.edu wrote:

...

Ubuntu 14.04 should still work.

Matt.

From: Shachar Gal gal.shachar@gmail.com Date: Monday, January 14, 2019 at 5:43 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu, Matt Glasser glasserm@wustl.edu, Ido Tavor idotavor@gmail.com Subject: Re: problem using recon-all

if the problem is with the versions, maybe downgrading my OS for now will do the trick? do you happen know what is the latest ubuntu that is compatible with the 5.3-HCP version? does this also occur in centOS?

thanks

On Sun, 13 Jan 2019 at 17:46 Shachar Gal gal.shachar@gmail.com wrote:

...

hello, I using the HCP FreeSurfer Pipeline (using FreeSurfer 5.3-HCP version) on ubuntu, and I encounter this error (copying from the recon-all.log) _______________________________________ #@# Talairach Sun Jan 13 17:35:07 IST 2019 /home/shachar/piano_hcp/102/102/mri

mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i orig.mgz --o orig_nu.mgz

Linux maestro 4.15.0-43-generic #46-Ubuntu SMP Thu Dec 6 14:45:28 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s 102 exited with ERRORS at Sun Jan 13 17:35:08 IST 2019 _______________________________________

i'm a bit confused by the lack of error descriptions, and would appreciate any leads for solving it :)

Shachar

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.

If you want to test it out yourself, you can get it from ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/hcp/

On 2/4/19 6:09 AM, Glasser, Matthew wrote:

External Email - Use Caution

There is a little more testing we are doing.

Matt.

From: Shachar Gal <gal.shachar@gmail.com mailto:gal.shachar@gmail.com> Date: Monday, February 4, 2019 at 3:32 AM To: Matt Glasser <glasserm@wustl.edu mailto:glasserm@wustl.edu> Cc: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu>, Ido Tavor <idotavor@gmail.com mailto:idotavor@gmail.com> Subject: Re: problem using recon-all

hey, is there any update regarding the release of the FreeSurfer 6 HCP-compatible version?

cheers, Shachar

On Mon, 14 Jan 2019 at 14:58 Shachar Gal <gal.shachar@gmail.com mailto:gal.shachar@gmail.com> wrote:

thanks,
hope it'll work
anyway, looking forward for the version 6 release

cheers,
Shachar

On Mon, 14 Jan 2019 at 14:08 Glasser, Matthew <glasserm@wustl.edu
<mailto:glasserm@wustl.edu>> wrote:

    Ubuntu 14.04 should still work.

    Matt.

    From: Shachar Gal <gal.shachar@gmail.com
    <mailto:gal.shachar@gmail.com>>
    Date: Monday, January 14, 2019 at 5:43 AM
    To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu
    <mailto:freesurfer@nmr.mgh.harvard.edu>>, Matt Glasser
    <glasserm@wustl.edu <mailto:glasserm@wustl.edu>>, Ido Tavor
    <idotavor@gmail.com <mailto:idotavor@gmail.com>>
    Subject: Re: problem using recon-all

    if the problem is with the versions, maybe downgrading my OS
    for now will do the trick? do you happen know what is the
    latest ubuntu that is compatible with the 5.3-HCP version?
    does this also occur in centOS?

    thanks

    On Sun, 13 Jan 2019 at 17:46 Shachar Gal
    <gal.shachar@gmail.com <mailto:gal.shachar@gmail.com>> wrote:

        hello,
        I using the HCP FreeSurfer Pipeline (using FreeSurfer
        5.3-HCP version) on ubuntu, and I encounter this error
        (copying from the recon-all.log)
        _______________________________________
        #@# Talairach Sun Jan 13 17:35:07 IST 2019
        /home/shachar/piano_hcp/102/102/mri

         mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50
        --no-rescale --i orig.mgz --o orig_nu.mgz

        Linux maestro 4.15.0-43-generic #46-Ubuntu SMP Thu Dec 6
        14:45:28 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

        recon-all -s 102 exited with ERRORS at Sun Jan 13 17:35:08
        IST 2019 _______________________________________

        i'm a bit confused by the lack of error descriptions, and
        would appreciate any leads for solving it :)

        Shachar

    ------------------------------------------------------------------------

    The materials in this message are private and may contain
    Protected Healthcare Information or other information of a
    sensitive nature. If you are not the intended recipient, be
    advised that any unauthorized use, disclosure, copying or the
    taking of any action in reliance on the contents of this
    information is strictly prohibited. If you have received this
    email in error, please immediately notify the sender via
    telephone or return mail.

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.

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