Hi Francesco
we are hoping to have version 6 out in early 2015
cheers
Bruce
On Wed, 3 Dec 2014,
Francesco Cardinale wrote:
Zeke,
Thank you for your prompt response.
I've been using for a long time my own bash script that parallelizes the
simultaneous computation of the hemisphere-specific steps. Moreover, I
re-organized the pipeline for obtaining the pial reconstruction asap.
I'm happy to know that next release of Freesurfer will support openmp under
MacOS X. Can you roughly estimate when it will be available?
I also tried with VMWare Fusion and a VM with CentOS 6.6, and it mapped 12
virtual cores on the real cores. The time needed for CAREG was reduced by
about 2/3.
My impression is that CUDA drivers are not available for AMD FirePro
graphics boards. Aren't they?
Thanks again
Cico
Francesco Cardinale
Neurosurgeon
"Claudio Munari" Centre for Epilepsy and Parkinson Surgery - Ospedale
Niguarda "Ca' Granda"
Piazza dell'Ospedale Maggiore, 3 - 20162 - Milano - Italia
phone 0039 02 64442917
fax 0039 02 64442868
e-mail francesco.cardin...@ospedaleniguarda.it
Il giorno 02/dic/2014, alle ore 15:59, Z K <zkauf...@nmr.mgh.harvard.edu> ha
scritto:
Francesco,
There are ways to speed up single subject processing time by
parrallelizing the parts of the recon-all stream that deal with
the left
and right hemisphere so they get processed simultaneously. This
would
require a custom script and thus is a bit more complicated than
a single
call to recon-all. But I can provide you the skeleton of such a
script
if you like.
We no longer support CUDA but it is included in the 5.3 release
and
people have reported success using it. The gpu can be used along
with
the openmp flag to further quicken processing time, but only on
CentOS
machines, as openmp is not supported on the Mac build of
freesurfer
v5.3. However, the next release of freesurfer WILL support
openmp on the
Mac side.
-Zeke
On 11/27/2014 04:31 AM, Francesco Cardinale wrote:
Dear Freesurfer experts,
I've been using Freesurfer on Mac computers for some
years with great
satisfaction. I just bought a "monster computer", a
Mac Pro with 12-core
Xeon E5, 64 Gb RAM, GPU AMD FirePro D700. This is,
out of doubt, a
marvellous machine to compute many subjects
simultaneously, but quite
often we need to run one single subject as fast as
possible. What can I
do? OpenMP optimization is available only for
CentOS, isn't it? What
about CentOS in a VM, will it be able to exploit
multithreading, or is
it necessary to configure a multiboot machine with
BootCamp? Any
suggestions to do that? Moreover, what about CUDA
and GPU acceleration?
Is it available for FirePro graphic cards? Any other
suggestions?
Anything really new in the field with the next
version of Freesurfer?
Thanks a lot
Francesco Cardinale, MD
Neurosurgeon
"Claudio Munari" Centre for Epilepsy and Parkinson
Surgery - Ospedale
Niguarda "Ca' Granda"
Piazza dell'Ospedale Maggiore, 3 - 20162 - Milano -
Italia
<x-apple-data-detectors://0/0>
phone 0039 02 64442917 <tel:0039%2002%2064442917>
fax 0039 02 64442868 <tel:0039%2002%2064442868>
e-mail francesco.cardin...@ospedaleniguarda.it
<mailto:francesco.cardin...@ospedaleniguarda.it>
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