[Gate-users] Gate-users Digest, Vol 169, Issue 27
Mohammed REZZOUG
nmedrezz at gmail.com
Sun Jun 14 17:23:14 CEST 2020
thank you zakaria and josh
Le dim. 14 juin 2020 à 16:52, <
gate-users-request at lists.opengatecollaboration.org> a écrit :
> Send Gate-users mailing list submissions to
> gate-users at lists.opengatecollaboration.org
>
> To subscribe or unsubscribe via the World Wide Web, visit
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
> or, via email, send a message with subject or body 'help' to
> gate-users-request at lists.opengatecollaboration.org
>
> You can reach the person managing the list at
> gate-users-owner at lists.opengatecollaboration.org
>
> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of Gate-users digest..."
>
>
> Today's Topics:
>
> 1. Gate 9 installation (Hadi Rezaei)
> 2. Re: GATE IN MULTICORE PROCESSOR STAND ALONE WORKSTATION
> (Zakaria Aboulbanine)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Sun, 14 Jun 2020 15:57:11 +0430
> From: Hadi Rezaei <hrezaei.m.ph at gmail.com>
> To: gate-users at lists.opengatecollaboration.org
> Subject: [Gate-users] Gate 9 installation
> Message-ID:
> <
> CAEygHBngLqw4b7ZNuLoLvq_T5YCTLV2VkMyi9KyGTGPjaAM+KQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Dear Gate users
> Does GATE9 install and run on ubuntu 20.04?
> Any answer will be highly appreciated! Thank you!
> Best Regards
> -------------- next part --------------
> An HTML attachment was scrubbed...
> URL: <
> http://lists.opengatecollaboration.org/pipermail/gate-users/attachments/20200614/0a1843f8/attachment-0001.html
> >
>
> ------------------------------
>
> Message: 2
> Date: Sun, 14 Jun 2020 15:34:42 +0100
> From: Zakaria Aboulbanine <zakaria.aboulbanine at gmail.com>
> To: gate-users at lists.opengatecollaboration.org
> Subject: Re: [Gate-users] GATE IN MULTICORE PROCESSOR STAND ALONE
> WORKSTATION
> Message-ID:
> <
> CAGitKGKMg6nKGYJMs4vCiGmks8wNWmxRBNtZArBGo_y5NLiYjw at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Dear Mohammed,
>
> I think if you are using a single phase space source for multiple
> simulations and with the same seed number you will obviously get the same
> output file for all your separated maco.
> In this particular case I suggest to use multiple phase space files, ench
> one for a simulation macro as explained by Josh Knowland in the last
> message. Eventually you have to change your seed number then merge your
> output and the end.
>
> Regards.
>
> --
> Zakaria Aboulbanine
>
>
>
>
> Le dim. 14 juin 2020 à 03:07, <
> gate-users-request at lists.opengatecollaboration.org> a écrit :
>
> > Send Gate-users mailing list submissions to
> > gate-users at lists.opengatecollaboration.org
> >
> > To subscribe or unsubscribe via the World Wide Web, visit
> >
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
> > or, via email, send a message with subject or body 'help' to
> > gate-users-request at lists.opengatecollaboration.org
> >
> > You can reach the person managing the list at
> > gate-users-owner at lists.opengatecollaboration.org
> >
> > When replying, please edit your Subject line so it is more specific
> > than "Re: Contents of Gate-users digest..."
> >
> >
> > Today's Topics:
> >
> > 1. Re: GATE IN MULTICORE PROCESSOR STAND ALONE WORKSTATION
> > (Josh Knowland)
> >
> >
> > ----------------------------------------------------------------------
> >
> > Message: 1
> > Date: Sat, 13 Jun 2020 17:51:11 +0000
> > From: Josh Knowland <jknowland at lucernodynamics.com>
> > To: Mohammed REZZOUG <nmedrezz at gmail.com>
> > Cc: "gate-users at lists.opengatecollaboration.org"
> > <gate-users at lists.opengatecollaboration.org>
> > Subject: Re: [Gate-users] GATE IN MULTICORE PROCESSOR STAND ALONE
> > WORKSTATION
> > Message-ID:
> > <
> >
> BN8PR15MB2676F0BEB4FF89704A8FFEC9AF9E0 at BN8PR15MB2676.namprd15.prod.outlook.com
> > >
> >
> > Content-Type: text/plain; charset="utf-8"
> >
> > Hi Mohammed,
> > Did you divide the time for each macro?
> >
> > For example, each copy of your macro should specify:
> > The total activity to simulate as if you were running only one macro
> > a unique output filename
> > divided time slice and total time
> >
> > To split a simulation into 4 parts, I’d create 4 copies of the macro
> named:
> > Sim_00.mac
> > Sim_01.mac
> > Sim_02.mac
> > Sim_03.mac
> >
> > Then, each macro would specify its own output filename, but the same
> > activity and tim info (total time divided by the number of splits)
> >
> > Sim_00.mac
> > /gate/source/src_0/setActivity 1 mCi
> > /gate/output/ascii/setFileName Sim_00_
> > /gate/application/setTimeSlice 0.25 s
> > /gate/application/setTimeStart 0.0 s
> > /gate/application/setTimeStop 0.25 s
> >
> > Sim_01.mac
> > /gate/source/src_0/setActivity 1 mCi
> > /gate/output/ascii/setFileName Sim_01_
> > /gate/application/setTimeSlice 0.25 s
> > /gate/application/setTimeStart 0.0 s
> > /gate/application/setTimeStop 0.25 s
> >
> > Sim_02.mac
> > /gate/source/src_0/setActivity 1 mCi
> > /gate/output/ascii/setFileName Sim_02_
> > /gate/application/setTimeSlice 0.25 s
> > /gate/application/setTimeStart 0.0 s
> > /gate/application/setTimeStop 0.25 s
> >
> > Sim_03.mac
> > /gate/source/src_0/setActivity 1 mCi
> > /gate/output/ascii/setFileName Sim_03_
> > /gate/application/setTimeSlice 0.25 s
> > /gate/application/setTimeStart 0.0 s
> > /gate/application/setTimeStop 0.25 s
> >
> > Note how each macro has its own output filename, but they all have the
> > same time and source activity.
> >
> > The results would then be output files for each macro:
> > Sim_00_Run.dat
> > Sim_00_Singles.dat
> > Sim_01_Run.dat
> > Sim_01_Singles.dat
> > Sim_02_Run.dat
> > Sim_02_Singles.dat
> > Sim_03_Run.dat
> > Sim_03_Singles.dat
> >
> > The Run.dat files contain the number of primaries simulated for that
> > particular macro. Each should be approximately the source activity (1 mCi
> > in my example) divided by the number of splits.
> >
> > The Singles.dat files contain the singles for that macro. You should see
> > that they only contain singles for the time slice simulated.
> >
> > I hope that helps!
> > If you wish, you may send me your macros and I will take a look.
> > Josh
> >
> >
> >
> >
> >
> > From: Mohammed REZZOUG <nmedrezz at gmail.com>
> > Sent: Saturday, June 13, 2020 10:52 AM
> > To: Josh Knowland <jknowland at lucernodynamics.com>
> > Subject: Re: [Gate-users] GATE IN MULTICORE PROCESSOR STAND ALONE
> > WORKSTATION
> >
> > Thanks for your help
> > I used your method, I created 20 copies of my macro, but I got the same
> > result.
> > The simulation took the same time as if I was using one macro
> >
> > Le mer. 10 juin 2020 à 23:16, Mohammed REZZOUG <nmedrezz at gmail.com
> <mailto:
> > nmedrezz at gmail.com>> a écrit :
> > Thank you very much
> >
> > Le mer. 10 juin 2020 à 15:06, Josh Knowland <
> jknowland at lucernodynamics.com
> > <mailto:jknowland at lucernodynamics.com>> a écrit :
> > I forgot to add that my process does result in multiple output files, so
> > you will likely need to combine them afterwards. I use singles data, so
> > it’s a simple matter of combining the text files. I’m not sure how you
> > would combine different output files (root, etc.)
> >
> >
> >
> >
> > From: Gate-users <gate-users-bounces at lists.opengatecollaboration.org
> > <mailto:gate-users-bounces at lists.opengatecollaboration.org>> On Behalf
> Of
> > Josh Knowland
> > Sent: Wednesday, June 10, 2020 10:03 AM
> > To: Mohammed REZZOUG <nmedrezz at gmail.com<mailto:nmedrezz at gmail.com>>;
> > gate-users at lists.opengatecollaboration.org<mailto:
> > gate-users at lists.opengatecollaboration.org>
> > Subject: Re: [Gate-users] GATE IN MULTICORE PROCESSOR STAND ALONE
> > WORKSTATION
> >
> > Hello Mohammed,
> > This is actually a topic that I have experience with.
> >
> > I run my simulations remotely on a 64-core virtual machine through Azure,
> > but the process should be the same.
> > Here is the workflow I use:
> >
> > Generate a macro that does what I want. Test it out with a small
> activity
> > to make sure. Create multiple copies of the macro, each with a different
> > output filename. You can also use different time-slices if you want to,
> but
> > all other information can be the same (volume names, etc. do not need to
> > change). Run all the macros concurrently using a shell script like below.
> > Each process will be put on a different core and htop will display CPU
> > usage. It’s also possible to insert a command to send you an email alert
> > when all the scripts are finished. It will depend on your mail server,
> so I
> > haven’t shown a specific example here.
> > #!/bin/bash
> > (
> > (
> > Gate macro_00.mac > macro_00_log.txt &
> > Gate macro_01.mac > macro_01_log.txt &
> > Gate macro_02.mac > macro_02_log.txt &
> > Gate macro_03.mac > macro_03_log.txt &
> > Gate macro_04.mac > macro_04_log.txt &
> > Gate macro_05.mac > macro_05_log.txt &
> > Gate macro_06.mac > macro_06_log.txt &
> > Gate macro_07.mac > macro_07_log.txt &
> > Gate macro_08.mac > macro_08_log.txt &
> > Gate macro_09.mac > macro_09_log.txt &
> > Gate macro_10.mac > macro_10_log.txt &
> > wait
> > )
> > # insert command to send email here
> > ) &
> > htop
> >
> >
> >
> > An alternative approach is to use parameterized macros. For this, you’d
> > create one macro with GATE parameters as place holders using braces.
> Then,
> > the script file would call that macro multiple times while changing the
> > parameters. For instance, you could run one simulation by splitting it
> over
> > time by using parameters for timestart and timestop like this in the
> macro:
> >
> > /gate/application/setTimeSlice 0.125 s
> > /gate/application/setTimeStart {timestart} s
> > /gate/application/setTimeStop {timestop} s
> >
> > Then the script would define the parameters for each process:
> >
> > #!/bin/bash
> > (
> > (
> > Gate -a [timestart,0.000][timestop,0.125] paramMacro.mac >
> > output_00_log.txt &
> > Gate -a [timestart,0.125][timestop,0.250] paramMacro.mac >
> > output_01_log.txt &
> > Gate -a [timestart,0.250][timestop,0.375] paramMacro.mac >
> > output_02_log.txt &
> > Gate -a [timestart,0.375][timestop,0.500] paramMacro.mac >
> > output_03_log.txt &
> > Gate -a [timestart,0.500][timestop,0.625] paramMacro.mac >
> > output_04_log.txt &
> > Gate -a [timestart,0.625][timestop,0.750] paramMacro.mac >
> > output_05_log.txt &
> > Gate -a [timestart,0.750][timestop,0.875] paramMacro.mac >
> > output_06_log.txt &
> > Gate -a [timestart,0.875][timestop,1.000] paramMacro.mac >
> > output_07_log.txt &
> > wait
> > )
> > wait
> > # insert command to send email here
> > ) &
> > htop
> >
> >
> >
> > I hope that helps!
> > Josh
> >
> >
> >
> >
> >
> > From: Gate-users <gate-users-bounces at lists.opengatecollaboration.org
> > <mailto:gate-users-bounces at lists.opengatecollaboration.org>> On Behalf
> Of
> > Mohammed REZZOUG
> > Sent: Wednesday, June 10, 2020 10:35 AM
> > To: gate-users at lists.opengatecollaboration.org<mailto:
> > gate-users at lists.opengatecollaboration.org>
> > Subject: [Gate-users] GATE IN MULTICORE PROCESSOR STAND ALONE WORKSTATION
> >
> > Dear Gate users
> >
> >
> > I am using the a workstation with 24 cores. The problem at hand is that
> > when I run the code
> > and analyze my processor, I find that only one core is being used. It
> > takes a long time for
> > the simulation to get executed even for primitive problems.
> >
> >
> >
> > In the manual there are instructions about parallel processing using
> >
> > clusters but there is no mention about multi core systems.
> >
> >
> >
> > Is it possible to divide the work among the cores of my system like in
> >
> > clusters ?
> >
> >
> > ---
> >
> > Mohammed
> > -------------- next part --------------
> > An HTML attachment was scrubbed...
> > URL: <
> >
> http://lists.opengatecollaboration.org/pipermail/gate-users/attachments/20200613/03e6b3f9/attachment.html
> > >
> >
> > ------------------------------
> >
> > Subject: Digest Footer
> >
> > _______________________________________________
> > Gate-users mailing list
> > Gate-users at lists.opengatecollaboration.org
> > http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
> >
> > ------------------------------
> >
> > End of Gate-users Digest, Vol 169, Issue 25
> > *******************************************
> >
> -------------- next part --------------
> An HTML attachment was scrubbed...
> URL: <
> http://lists.opengatecollaboration.org/pipermail/gate-users/attachments/20200614/a980ce1f/attachment.html
> >
>
> ------------------------------
>
> Subject: Digest Footer
>
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.opengatecollaboration.org
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
>
> ------------------------------
>
> End of Gate-users Digest, Vol 169, Issue 27
> *******************************************
>
-------------- section suivante --------------
Une pièce jointe HTML a été nettoyée...
URL: <http://lists.opengatecollaboration.org/pipermail/gate-users/attachments/20200614/a80fc786/attachment-0001.html>
More information about the Gate-users
mailing list