Pietro

2012/10/15 Bruce Fischl <fischl@nmr.mgh.harvard.edu>

Hi Pietro,

yes, possibly. Subject motion can cause this to happen.

cheers
Bruce
On Mon, 15 Oct 2012, pietro de rossi wrote:

Thanks Bruce.
is it possible that this is a problem of the scan I was running? The other 5
scans I was running in parallel went through without errors...
I'm checking control points and wm.mgz anyway...

2012/10/15 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Hi Pietro

that's a pretty big defect. Have you checked the ?h.orig.nofix
to see why it is so large? The other problem is that the current
FS mac release is 32 bit, which is why you are running out of
memory. It would work properly on a Linux box with more ram I
suspect. We are hoping to have a 64 bit mac release soon, but in
the interim I would suggest you track down the cause of your
huge defect and correct it either with control points, or by
editing the wm.mgz

cheers
Bruce

On Mon, 15 Oct 2012, pietro de rossi wrote:

Hi free surfer users and developers,
for the first time I got this error after running
recon-all:

CORRECTING DEFECT 76 (vertices=36299, convex hull=8085)
mris_fix_topology(74305) malloc: *** mmap(size=1148719104)
failed (error
code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
Bus error
Darwin HG-01881507-DM7.local 11.4.0 Darwin Kernel Version
11.4.0: Mon Apr 9
19:32:15 PDT 2012; root:xnu-1699.26.8~1/RELEASE_X86_64
x86_64

recon-all -s 122 exited with ERRORS at Sat Oct 13 22:31:01
EDT 2012

What can I do to fix the problem?

Thanks in advance,

Pietro

--
Pietro De Rossi, MD
-------------------------------------
Sapienza Università di Roma, Facoltà di Medicina e
Psicologia, Dipartimento
NESMOS (Neuroscienze, Salute Mentale, Organi di Senso),
Ospedale
Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma

NESMOS Department (Neurosciences, Mental Health and
Sensory Functions),
School of Medicine and Psychology, Sapienza University,
Sant?Andrea Hospital,
Via di Grottarossa 1035-1039, 00189 Rome, Italy

Neurobehavioral Clinical Research Section, Social and Behavioral
Research
Branch, National Human Genome Research Institute (NHGRI),
National
Institutes of Health (NIH), Bethesda, Maryland 20892, USA

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--
Pietro De Rossi, MD
-------------------------------------
Sapienza Università di Roma, Facoltà di Medicina e Psicologia, Dipartimento
NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), Ospedale
Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma

NESMOS Department (Neurosciences, Mental Health and Sensory Functions),
School of Medicine and Psychology, Sapienza University, Sant?Andrea Hospital,
Via di Grottarossa 1035-1039, 00189 Rome, Italy

Neurobehavioral Clinical Research Section, Social and Behavioral Research
Branch, National Human Genome Research Institute (NHGRI), National
Institutes of Health (NIH), Bethesda, Maryland 20892, USA

Pietro De Rossi, MD

-------------------------------------
Sapienza Università di Roma, Facoltà di Medicina e Psicologia, Dipartimento NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), Ospedale Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma

NESMOS Department (Neurosciences, Mental Health and Sensory Functions), School of Medicine and Psychology, Sapienza University, Sant’Andrea Hospital, Via di Grottarossa 1035-1039, 00189 Rome, Italy

Neurobehavioral Clinical Research Section, Social and Behavioral Research Branch, National Human Genome Research Institute (NHGRI), National Institutes of Health (NIH), Bethesda, Maryland 20892, USA