oun...@nmr.mgh.harvard.edu
> On Behalf Of KennethSPrice
> Sent: Sunday, September 17, 2023 11:35 AM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] mri_convert: Segmentation fault (core dumped)
> synthsr scan
>
> External Email - Use Caution
>
> I'v
%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg74552.html
Hope this helps.
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of KennethSPrice
Sent: Sunday, September 17, 2023 11:35 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] mri_convert: Segmentation fault (core dumped
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I've set the coredumpsize to unlimited, and still get the same error. Could it
be something with the installation?
build-stamp.txt: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0
Linux DESKTOP-MRI 4.4.0-19041-Microsoft #3393-Microsoft Mon Aug 14
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Hello Ken,
The output from your linux shell limits in the log show the following,
cputime unlimitedfilesize
unlimiteddatasize unlimitedstacksize 8192
kbytescoredumpsize 0 kbytesmemoryuse unlimitedvmemoryuse
unlimiteddescriptors
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OK, I've attached the log file.
--- Original Message ---
On Friday, September 15th, 2023 at 2:59 PM, fsbuild wrote:
> External Email - Use Caution
>
> It might help if you could send along the crash report as an attachment..
>
> -R.
>
>> On
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It might help if you could send along the crash report as an attachment.
-R.
On Sep 15, 2023, at 14:36, KennethSPrice kennethspr...@protonmail.com
wrote:External Email - Use
CautionUpdate: I tried running
recon-all (5.1, ubuntu 18) on a sample
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Update: I tried running recon-all (5.1, ubuntu 18) on a sample MPRAGE scan and
got the "mri_convert: segmentation fault (core dumped)" error again. Any
clarity on this issue would be appreciated.
Thanks,
K
--- Original Message ---
On
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Howdy yall,
I ran a subject through synthsr (freesurfer 7.4) and am trying to run the
output through the freesurfer 5.1 pipeline (the rest of my dataset was
processed with 5.1). I am getting the error "Segmentation fault (core dumped)"
during the
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Hello Caspar,
So are you saying that if you run directly from the terminal in bash (or maybe
in csh with % sign as prompt)
$mri_convert -i inputvolume.mgz--out_orientation LPS-iis .5
-ijs .5 -iks .5-vs 1.2 1.2 1.2
- that the command works, but it
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Hi!
Unfortunately, it turns out that downgrading glibc does not solve this
issue, neither with .14 nor with .15 versions.
Doug, we are calling mri_convert from a csh script, with the following
options:
mri_convert -i inputvolume.mgz \
-o
Can you send the command line and full terminal output?
On 5/16/19 5:17 AM, Caspar M. Schwiedrzik wrote:
>
> External Email - Use Caution
>
> Hi!
> We are getting segmentation fault (core dumped) error when trying to
> run mri_convert on NIFTI files. This is running Freesurfer v5.3 on
>
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Hello Caspar,
So far, I have not found a CentOS rpm with that 2.14 version of libcrypt, but
you can download the source from the GNU project and try building it on your
machine with the following steps.
- R.
1) Become root in your terminal window
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Hi!
We are getting segmentation fault (core dumped) error when trying to run
mri_convert on NIFTI files. This is running Freesurfer v5.3 on Centos6,
specifically v1.179.2.7 of mri_convert.
I suspect that this has to do with libcrypt incompatibilities
Dear List,
I am facing a similar problem as described by Knut Bjuland:
http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg39745.html
I could not find a public reply in the mailing list archives.
Therefore I would like to know whether it would be safe to either
downgrade
Dear all,
I am experiencing segfaults when trying to convert from nifti to mgz.
Ubuntu 13.04
Freesurfer 5.1, 5.2 and 5.3-BETA.
I tried to find the problem using ldd, gdb, etc. but there is no debug
information. I tried to compile 5.3-BETA but it does not find libminc-dev
(while it is
Hi Oscar
if you send us the file and the command line we'll see if we can replicate
and fix.
cheers
Bruce
On Wed, 8 May 2013, Oscar Esteban wrote:
Dear all,
I am experiencing segfaults when trying to convert from nifti to mgz.
Ubuntu 13.04
Freesurfer 5.1, 5.2 and 5.3-BETA.
I tried to
Joerg,
Later this evening or tomorrow we'll post a beta that has the fixes for
this problem for you to try on Ubuntu. When its ready, the centos6_x86_64
build will appear in this directory:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
Nick
Dear freesurfer administrators,
That is the same error I got when using Fedora 18 and should be due to
the newest version of glibc.
Em Qui, 2013-05-02 às 11:46 -0400, Nick Schmansky escreveu:
Joerg,
Later this evening or tomorrow we'll post a beta that has the fixes for
this problem for you to try on Ubuntu. When its
Jorge and Marco,
The beta of v5.3 I mentioned is now available for centos6_x86_64 here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-BETA/
Please let me know if it works for you on Fedora 18 and Ubuntu 13. As I
understand the problem, it is not with glibc directly, but rather
Which version did you use? Try using the one in dev until we get a
chance to update stable.
On Fri, 7 Sep 2007, Jenn Segawa wrote:
Hi Doug,
I just ran it again, and it gave me the same error. Do I perhaps have
separate issue?
Thanks,
Jenn
On 9/7/07, Doug Greve [EMAIL PROTECTED] wrote:
I think I fixed it last night, can you try again?
doug
On Fri, 7 Sep 2007, Jenn Segawa wrote:
Hi,
Sorry if this is redundant, I think I'm having the same segmentation problem
as others last week, with the mri_convert command I've previously used (with
Unix) with no problem. I've tried
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