Hi Bhavana,
We recommend to assign about 35GB of RAM on our cluster nodes for this
operation. I am not sure how that compares to your VB.
Lilla
On Mon, 20 Feb 2017, Bhavana Ganesh wrote:
Hi Lilla,
I have allocated 40GB for my VB and 3GB of RAM space. I am not allocating
anything specific to the function.
Regards,
Bhavana
[linkedin-logo_318-50643.jpg] [world-wide-web-icon-for-website.png]
On Mon, Feb 20, 2017 at 12:21 PM, Lilla Zollei <lzol...@nmr.mgh.harvard.edu>
wrote:
Hi Bhavana,
How much memory are you allocating to this process?
Lilla
On Mon, 20 Feb 2017, Bhavana Ganesh wrote:
> Hi Developers,
>
> I'm receiving this error while I try to run mri_cvs_register. The same
error was received when I reran the same even after increasing the memory
allocated to my VB. Can anybody help me with the issue I am facing.
> Below are the details of my system and software configurations.
> PFA error log files.
>
> FreeSurfer version:
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
> Platform: CentOS7 on VirtualBox
>
> Command Run:
>
> mri_cvs_register --mov bert2
>
>
> 0]PETSC ERROR: --------------------- Error Message
------------------------------------
>
> [0]PETSC ERROR: Out of memory. This could be due to allocating
> [0]PETSC ERROR: too large an object or bleeding by not properly
> [0]PETSC ERROR: destroying unneeded objects.
> [0]PETSC ERROR: Memory allocated 0 Memory used by process -2147483648
> [0]PETSC ERROR: Try running with -malloc_dump or -malloc_log for info.
> [0]PETSC ERROR: Memory requested 576224344!
> [0]PETSC ERROR:
------------------------------------------------------------------------
> [0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15
17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124
> [0]PETSC ERROR: See docs/changes/index.html for recent updates.
> [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
> [0]PETSC ERROR: See docs/index.html for manual pages.
> [0]PETSC ERROR:
------------------------------------------------------------------------
> [0]PETSC ERROR: surf2vol on a linux-gnu named localhost.localdomain by
root Thu Feb 16 09:57:44 2017
> [0]PETSC ERROR: Libraries linked from
/autofs/space/lyon_006/pubsw/Linux2-2.3-x86_64/packages/petsc/2.3.3-p13/src/petsc-2.3.3-p13/lib/linux-gnu-c-opt
> [0]PETSC ERROR: Configure run at Tue Aug 10 15:01:59 2010
> [0]PETSC ERROR: Configure options --with-debugging=no --with-cc=gcc
--with-fc=g77 --download-f-blas-lapack=0 --download-mpich=1 --with-mpi=1
--with-x=0 --with-gnu-copyright-code=0 --with-shared=0 COPTFLAGS=-O3
CXXOPTFLAGS=-O3 FOPTFLAGS=-O3
> [0]PETSC ERROR:
------------------------------------------------------------------------
> [0]PETSC ERROR: PetscMallocAlign() line 61 in src/sys/memory/mal.c
> [0]PETSC ERROR: MatSeqAIJSetPreallocation_SeqAIJ() line 2818 in
src/mat/impls/aij/seq/aij.c
> [0]PETSC ERROR: MatTranspose_SeqAIJ() line 1460 in
src/mat/impls/aij/seq/aij.c
> [0]PETSC ERROR: MatTranspose() line 3500 in src/mat/interface/matrix.c
> [0]PETSC ERROR: TSolver::setup_load_sym() line 1130 in
unknowndirectory/solver.h
> after setup_load_mfc
> Linear solve converged due to CONVERGED_ITS iterations 1
>
> Thank You
>
> Regards,
> Bhavana
> [linkedin-logo_318-50643.jpg] [world-wide-web-icon-for-website.png]
>
>
>
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