[Gate-users] Gate-users Digest, Vol 68, Issue 11

Tue Jan 17 11:57:14 CET 2012

Dear Nick
I did not understand ur problem exactly.
Just I have an experience in gjs time slicing as follow;

when there is some kind of rotation during simulation, for example
16 run 37.5 sec in benchSPECT, your time slicing must be a coefficient
of each run time
I mean some things like 8 runs in 75 sec. and I encountered errors if
did anythings else!

On 1/17/12, gate-users-request at lists.opengatecollaboration.org
<gate-users-request at lists.opengatecollaboration.org> wrote:
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> Today's Topics:
>
>    1. about VGATE (?mit Kara)
>    2. loss of intensity at irregular time intervals gjs (Nick Laver)
>    3. Geant4 versions to be avoided when working with	Optical
>       Photons (Vesna Cuplov)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 16 Jan 2012 15:57:48 +0200
> From: ?mit Kara <umitkara1983 at gmail.com>
> To: gate-users at lists.opengatecollaboration.org
> Subject: [Gate-users] about VGATE
> Message-ID:
> 	<CAO7_u7O+k3fj1XvgnHX34EKXrqR8BaiipONYp6QeXCB0WA6QXQ at mail.gmail.com>
> Content-Type: text/plain; charset=ISO-8859-1
>
> Hi
> Recently we  installed vGATE on visual machine, right now we have on
> desktop Imagej terminal so.on.. but 1 problem is i don't know that "how o
> run a simple example" how to get results and anaylize ... when we open a
> new terminal we wrote "Gate" and then we don't know what to do next..  can
> you inform me about to details of steps on using vGATE... we urgently need
> help on using vGATE.. would you mind, can you inform me about this topic..
>
> Best Regards
>
> Umit KARA
>
>
> ------------------------------
>
> Message: 2
> Date: Mon, 16 Jan 2012 17:23:10 +0000
> From: Nick Laver <Nick.Laver at kromek.com>
> To: "gate-users at lists.opengatecollaboration.org"
> 	<gate-users at lists.opengatecollaboration.org>
> Subject: [Gate-users] loss of intensity at irregular time intervals
> 	gjs
> Message-ID:
> 	<F8CD54188923C649BF1327859AF2BA9E5173A132 at K-MAIL1-V.kromek.local>
> Content-Type: text/plain; charset="us-ascii"
>
> Good evening Gaters,
>
> I am seeing a loss of intensity in a number of "time slices" when running my
> model using the gjs (gate job splitter), I was wondering if anybody had
> experienced anything similar?
> I am unable to run my model without the gjs to compare as 500+ CPU hours are
> required in each run to achieve a significant number of detected counts.
>
> I am splitting my simulation into 125 4ms slices (0.5 seconds in total)
> across as 9 node simulation farm (on which 67 "cores" are avaliable with 5
> remaining spare to allow access via a single node for code development and
> adding more runs to the pbs queue whilst simulations are running).
>
> My data output is into a ROOT format only and I have run my model with both
> moving and stationary samples and for an open beam measurement, and repeated
> identical runs with a different seed (autoseed is always used)
>
> My model is a (slightly modified in source code to allow > 3 clusters)
> version of the CTScanner scanner with 9 clusters and pixellated detectors.
>
> The loss of intensity does not seem to occur in regular time slices in each
> run nor are they a result of incomplete runs or my code crashing (verified
> from the log and err files produced at the end of each run and the
> completeness of the output root files)
>
> In the root files of reduced detected intensity, there are approximately
> half the expected counts (compared to the 4ms before and 4ms after for an
> open beam run) detected and an unusual amount of fluorescence in the output
> spectum.  The distribution of x-rays (singles) interacting with the crystal
> is also unusual in distribution between the front and back rows of pixels.
>
> Apologies for the poor description of my problem.
>
> Any advice/ideas are much appreciated.
>
> Kind regards,
>
> Nick
>
>
> ------------------------------
>
> Message: 3
> Date: Tue, 17 Jan 2012 11:17:24 +0100
> From: Vesna Cuplov <vesna.cuplov at gmail.com>
> To: gate-users at lists.opengatecollaboration.org
> Subject: [Gate-users] Geant4 versions to be avoided when working with
> 	Optical Photons
> Message-ID:
> 	<CAOibXMGB9zgGK44SVRS2OLDkhyP+HmJ1xGvEKLywJnHSSM1J8g at mail.gmail.com>
> Content-Type: text/plain; charset=ISO-8859-1
>
> Dear Gate users,
>
> For those of you using the Optical Photons with Gate, I would like to warn
> you about Geant4 versions to be avoided
> when working with optical photons.
>
> see:
> http://hypernews.slac.stanford.edu/HyperNews/geant4/get/opticalphotons/420/1.html
>
> Two recent versions of Geant4 simulate the timing of optical photons
> incorrectly: G4.9.4p02 and G4.9.5.
>
> It was suggested to use G4.9.4p03 for the simple reason that p03 collects
> all real bug-fixes to the original version 9.4
> in all domains of the Geant4 software.
>
> You can check the release information for each of the patches to learn what
> has been fixed.
>
> http://geant4.cern.ch/support/Patch4.9.4-1.txt
> http://geant4.cern.ch/support/Patch4.9.4-2.txt
> http://geant4.cern.ch/support/Patch4.9.4-3.txt
>
> vesna
>
>
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> End of Gate-users Digest, Vol 68, Issue 11
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