Hi Katica

we need to see what happened before that that caused the talairach.mg3z to not be created.

cheers Bruce

On Mon, 11 Nov 2013, Boric, Katica A. wrote:

Greetings Freesurfers! recon-all -s XXX_SurferOutput exited with ERRORS

These are the errors in the log:

Reading transforms/talairach.m3z  ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0

I would really appreciate any advice!

Thank you very much,

Katica

looks like mri_ca_register was killed in the middle. How much ram do you ahve on that machine? What kind of machine is it and what FS version are you running? On Mon, 11 Nov 2013, Boric, Katica A. wrote:

Hi Bruce! Thank you very much!

An error before that is:

ERROR: mri_ca_register with non-zero status 137 but continuing despite the error #-------------------------------------- #@# CA Reg Inv Thu Nov 7 18:46:24 PST 2013 /home/spaz/Cat/subjects/MGH020_SurferOutput/mri

mri_ca_register -invert-and-save transforms/talairach.m3z

Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0 Linux localhost.localdomain 3.6.11-4.fc16.x86_64 #1 SMP Tue Jan 8 20:57:42 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s MGH020_SurferOutput exited with ERRORS at Thu Nov 7 18:46:30 PST 2013

I have also attached whole recon-all.log

Thanks again, Katica ________________________________________ From: Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Monday, November 11, 2013 11:12 AM To: Boric, Katica A. Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon all error

Hi Katica

we need to see what happened before that that caused the talairach.mg3z to not be created.

cheers Bruce

On Mon, 11 Nov 2013, Boric, Katica A. wrote:

...

Greetings Freesurfers! recon-all -s XXX_SurferOutput exited with ERRORS

These are the errors in the log:

Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0

I would really appreciate any advice!

Thank you very much,

Katica

you can if you have enough ram, but maybe 8 isn't enough, particularly if you are doing anything else on the computer at that time On Mon, 11 Nov 2013, Boric, Katica A. wrote:

Hi Bruce! Thank you very much! I guess I know what happened now! Most likely it ran out of RAM, because I was processing 2 MRIs at the same time... I guess I can't do that!

I am using freesurfer-x86_64-redhat-linux-gnu-stable5-20130513 on a VMware virtual machine 9.0.2 build-1031769. The physical computer is an Intel(R) Core i5 CPU 2.67GHz with 8GB of RAM

I will just do it again! Thanks again,

Katica

---

From: Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Monday, November 11, 2013 2:33 PM To: Boric, Katica A. Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon all error

looks like mri_ca_register was killed in the middle. How much ram do you ahve on that machine? What kind of machine is it and what FS version are you running? On Mon, 11 Nov 2013, Boric, Katica A. wrote:

...

Hi Bruce! Thank you very much!

An error before that is:

ERROR: mri_ca_register with non-zero status 137 but continuing despite the error #-------------------------------------- #@# CA Reg Inv Thu Nov 7 18:46:24 PST 2013 /home/spaz/Cat/subjects/MGH020_SurferOutput/mri

mri_ca_register -invert-and-save transforms/talairach.m3z

Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0 Linux localhost.localdomain 3.6.11-4.fc16.x86_64 #1 SMP Tue Jan 8 20:57:42 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s MGH020_SurferOutput exited with ERRORS at Thu Nov 7 18:46:30 PST 2013

I have also attached whole recon-all.log

Thanks again, Katica ________________________________________ From: Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Monday, November 11, 2013 11:12 AM To: Boric, Katica A. Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon all error

Hi Katica

we need to see what happened before that that caused the talairach.mg3z to not be created.

cheers Bruce

On Mon, 11 Nov 2013, Boric, Katica A. wrote:

...

Greetings Freesurfers! recon-all -s XXX_SurferOutput exited with ERRORS

These are the errors in the log:

Reading transforms/talairach.m3z ERROR: cannot find or read transforms/talairach.m3z ERROR: mri_ca_register with non-zero status 0

I would really appreciate any advice!

Thank you very much,

Katica

---

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