[Gate-users] Still working on Gate 9.0

[David Sarrut]

Hi Matthew,

- regarding the first question, could you please fill an issue and attach
some macros files to illustrate the problem (I do not personally know it),
so that someone can investigate?

- regarding the second point, as John very clearly said, it is unlikely to
have a simulation with less than 95% CPU usage (unless of course other if
other simulation or process are running in parallel on the same core ;). It
may be related to input/output ... is the simulation writing a lot of data?

thanks,
David

On Thu, Mar 12, 2020 at 10:51 AM John Apostolakis <John.Apostolakis at cern.ch>
wrote:

> Dear Matthew,
>
> Do you have an input file which can demonstrate this CPU usage ?  For
> example do you see it with example SPECT input files ?  If you can specify
> the GATE version and information about the OS / hardware that you used, it
> could also be helpful.
>
> In my experience with Geant4 something like this is seen only in
> applications which have an issue related to input / output, such as saving
> the Random Number Generator seed too often, or have a problem with
> multithreading.
>
> It is very unusual for other applications to show less than 95-99% CPU
> usage.
>
> Best regards,
> John
> ===================================================
> John Apostolakis,  EP Department, CERN
> SFT (SoFTware for Experiments) Group
> Office: Building 32/ room R-003 (ground floor),  Mail: J27210
> Email:  john.apostolakis at cern.ch <john.apostolakis at cern.ch>       Office
> Tel:  +41-22-767-7239
>
> ------------------------------------------------------------------------------------------
>
> On 11 Mar 2020, at 19:20, Matthew Strugari <matthew.strugari at dal.ca>
> wrote:
>
> Hi David and Gate-collaborators,
>
> Thank you all for your efforts on the Gate project!
>
> I have a couple questions in regards to the upcoming release. When
> modelling the collimator, the docs indicate that there is a parameterized
> collimator setup for parallel hole and fan beam collimators. When executing
> my macro, I would receive the message "GateVVolume.cc
> <http://gatevvolume.cc/> (l.192): The material of the volume side hole 1
> is not defined." After searching around in the internet for a bit, I came
> across Dr. Pietrzyk's discussion from 2015 (see here
> http://lists.opengatecollaboration.org/pipermail/gate-users/2015-July/008546.html)
> highlighting problems with the SPECThead model/class which does not include
> a component for the collimator. Has this issue been fixed or will this
> still be the case with Gate 9.0?
>
> The other general question that I have is: What percentage of CPU usage
> could I expect with general simulations? I am running simulations in batch
> mode and when I was performing dose point kernel calculations with the dose
> actor, the CPU usage was 100% for all 12 physical cores. However, when
> running SPECT simulations, the CPU usage fluctuates greatly between
> 10%-75%. I understand that 100% CPU usage is not ideal, but is there anyway
> to increase CPU usage for SPECT simulations (i.e. overclocking) to speed up
> the overall simulation duration?
>
> Positively,
> Matthew
>
> ------------------------------
> *From:* Gate-users <gate-users-bounces at lists.opengatecollaboration.org>
> on behalf of David Sarrut <David.Sarrut at creatis.insa-lyon.fr>
> *Sent:* March 10, 2020 6:51 AM
> *To:* gate-users <gate-users at lists.opengatecollaboration.org>
> *Subject:* [Gate-users] Still working on Gate 9.0
>
> As you know, we are currently preparing the next Gate release, version
> 9.0, based on the current Geant4 release 10.6 (patch01).
>
> We will perform the remaining tests in the next few days and plan to tag
> the 9.0 on early next week. The associated vGate, the virtual machine, will
> be provided a few days after (thanks Maxime!).
>
> In the meantime, please contact us for any remarks regarding this release,
> and keep continue to test it with your own favourite simulation.
>
> Also, keep in mind that the development is continuous: any PR that will
> arrive after this release will be integrated into the develop branch, will
> remain accessible to everyone and will officially be part of the next
> release.
>
> Sincerely,
> David
> PS1: I am sorry, I cannot personally reply to all the emails/questions I
> receive (and I am not expert in all parts of Gate). I try my best, but,
> please don't take it badly if I don't reply ...
>
> PS2: I know it is debatable, but it was decided to keep the 9.0 tag
> instead of 8.3 because this version contains a lot of changes (the policy
> in the past was not to upgrade the number according to backward
> compatibility).
>
> --
> David Sarrut, Phd
> Directeur de recherche CNRS
> CREATIS, UMR CNRS 5220, Inserm U1206
> Centre de lutte contre le cancer Léon Bérard
> 28 rue Laënnec, 69373 Lyon cedex 08
> Tel : 04 78 78 51 51 / 06 74 72 05 42
> http://www.creatis.insa-lyon.fr/~dsarrut
> _________________________________
>  "2 + 2 = 5,  for extremely large values of 2"
> _________________________________
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>
>
>

-- 
David Sarrut, Phd
Directeur de recherche CNRS
CREATIS, UMR CNRS 5220, Inserm U1206
Centre de lutte contre le cancer Léon Bérard
28 rue Laënnec, 69373 Lyon cedex 08
Tel : 04 78 78 51 51 / 06 74 72 05 42
http://www.creatis.insa-lyon.fr/~dsarrut
_________________________________
 "2 + 2 = 5,  for extremely large values of 2"
_________________________________
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