<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN"> <html> <head> <meta content="text/html;charset=ISO-8859-1" http-equiv="Content-Type"> <title></title> </head> <body bgcolor="#ffffff" text="#000000"> <a class="moz-txt-link-abbreviated" href="mailto:gate-users-request@lphe1pet1.epfl.ch">gate-users-request@lphe1pet1.epfl.ch</a> wrote: <blockquote cite="mid200511031100.jA3B063O011534@lphe1pet1.epfl.ch" type="cite"> <pre wrap="">Send gate-users mailing list submissions to <a class="moz-txt-link-abbreviated" href="mailto:gate-users@lphe1pet1.epfl.ch">gate-users@lphe1pet1.epfl.ch</a> To subscribe or unsubscribe via the World Wide Web, visit <a class="moz-txt-link-freetext" href="http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users">http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users</a> Please use the GATE's site webmaster e-mail to reach the person managing the list. Today's Topics: 1. Re: Installation without OpenGL (Sebastien JAN) 2. Re: Re: gate-users Digest, Vol 20, Issue 1 (Vandana Kohli) ---------------------------------------------------------------------- Message: 1 Date: Wed, 02 Nov 2005 12:05:29 +0100 From: Sebastien JAN <a class="moz-txt-link-rfc2396E" href="mailto:jan@shfj.cea.fr"><jan@shfj.cea.fr></a> Subject: Re: [gate-users] Installation without OpenGL To: GATE feedback and helpline for Users <a class="moz-txt-link-rfc2396E" href="mailto:gate-users@lphe1pet1.epfl.ch"><gate-users@lphe1pet1.epfl.ch></a> Message-ID: <a class="moz-txt-link-rfc2396E" href="mailto:43689D79.7060300@shfj.cea.fr"><43689D79.7060300@shfj.cea.fr></a> Content-Type: text/plain; charset=us-ascii; format=flowed Hi Mikhail, Probably you need to comment the following lines in your GNUmakefile: ########## LDFLAGS += -L/usr/X11R6/lib -lXt ifdef G4VIS_USE_OPENGLXM LDFLAGS += -lXm endif ########## Seb Mikhail Shilov wrote: </pre> <blockquote type="cite"> <pre wrap="">Dear All, I was just wondering if there is a way to compile Gate without OpenGL visualization module. When I disable the visualization in Geant4 compilation and then try to compile Gate it gives me an error that G4OpenGL library is not found.... Mikhail A. Shilov The Johns Hopkins University Department of Radiology Division of Medical Imaging Physics Tel: 443-287-7315 Fax: 410-614-1977 mailto: <a class="moz-txt-link-abbreviated" href="mailto:mshilov1@jhmi.edu">mshilov1@jhmi.edu</a> _______________________________________________ gate-users mailing list <a class="moz-txt-link-abbreviated" href="mailto:gate-users@lphe1pet1.epfl.ch">gate-users@lphe1pet1.epfl.ch</a> <a class="moz-txt-link-freetext" href="http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users">http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users</a> </pre> </blockquote> <pre wrap=""> ------------------------------ Message: 2 Date: Wed, 2 Nov 2005 12:57:56 -1000 From: Vandana Kohli <a class="moz-txt-link-rfc2396E" href="mailto:kohli.vandana@gmail.com"><kohli.vandana@gmail.com></a> Subject: Re: [gate-users] Re: gate-users Digest, Vol 20, Issue 1 To: GATE feedback and helpline for Users <a class="moz-txt-link-rfc2396E" href="mailto:gate-users@lphe1pet1.epfl.ch"><gate-users@lphe1pet1.epfl.ch></a> Message-ID: <a class="moz-txt-link-rfc2396E" href="mailto:298e9e170511021457h5f16c8adm2177cf69f82cbd59@mail.gmail.com"><298e9e170511021457h5f16c8adm2177cf69f82cbd59@mail.gmail.com></a> Content-Type: text/plain; charset="iso-8859-1" Thanks Patrice. I will be trying it out hopefully nextweek. Also, If we are writing ECAT7 output along with the root where else would I need to make changes?? Just one more question, see below On 11/1/05, patrice descourt <a class="moz-txt-link-rfc2396E" href="mailto:patrice.descourt@univ-brest.fr"><patrice.descourt@univ-brest.fr></a> wrote: </pre> <blockquote type="cite"> <pre wrap="">Dear Vandana you do not have to bother about installing geant or gate on each node, MPI logs on each node via rsh or ssh depending on your parameterization. Below are outlines along which you can get parallel jobs I will be pleased to give the final codes in a directory when I have written those because for now I only focus on the second implementation which is far more cumbersome. The first one should not present any problems : You just have to install MPI and compile Geant and Gate with mpicc which replaces gcc and run Gate via mpirun : mpirun -np #number of nodes your_compiled_code.exe you have to include #include "mpi.h" in each file using MPI library e.g Gate.cc and G4RunManager.hh >>>Are these the only two files where we have to include " mpi.h" ??? In Gate.cc you need at the beginning of main() to add MPI::Init(argc,argv); : this is to initialize MPI at the end of Gate.cc main() you put MPI::Finalize(); in G4RunManager::DoEventLoop() you put G4int proc_number = MPI::COMM_WORLD.Get_size(); G4int proc_ID = MPI::COMM_WORLD.Get_rank(); before the for loop which you replace with for(i_event = proc_ID; i_event<n_event; i_event += proc_number) now for the output, I review the ROOT one but the scheme is the same for any GateVOutputModule : in GateToRoot.hh you put #include "mpi.h" and put at the beginning of GateToRoot:RecordBeginOfAcquisition G4int proc_ID = MPI::COMM_WORLD.Get_rank(); and replace each GetFilePath() by GetFilePath()+"proc_"+proc_ID I will give all the codes when this is all implemented Cheers P.Descourt _______________________________________________ gate-users mailing list <a class="moz-txt-link-abbreviated" href="mailto:gate-users@lphe1pet1.epfl.ch">gate-users@lphe1pet1.epfl.ch</a> <a class="moz-txt-link-freetext" href="http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users">http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users</a> </pre> </blockquote> <pre wrap="">-------------- next part -------------- An HTML attachment was scrubbed... URL: <a class="moz-txt-link-freetext" href="http://lphe1pet1.epfl.ch/mailman/private/gate-users/attachments/20051102/8aa06270/attachment-0001.htm">http://lphe1pet1.epfl.ch/mailman/private/gate-users/attachments/20051102/8aa06270/attachment-0001.htm</a> ------------------------------ _______________________________________________ gate-users mailing list <a class="moz-txt-link-abbreviated" href="mailto:gate-users@lphe1pet1.epfl.ch">gate-users@lphe1pet1.epfl.ch</a> <a class="moz-txt-link-freetext" href="http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users">http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users</a> End of gate-users Digest, Vol 20, Issue 3 ***************************************** </pre> </blockquote> Dear Vandana have a look in GateSinoToEcat7.cc of course at the end of the GATE job you need to merge all output files in a single one Cheers Patrice </body> </html>