<!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"> I don't have the 2G limit, but I am running GATE on a 64-bits machine and it may be an explanation. But I copy/paste one of Fernando's email from last October and it seems that the 2G limit is not a limit anymore with the new version! So, try to update your version of ROOT and see if it solves the problem. Hope this helps, Corinne Fernando Rannou <a href="mailto:gate-devel%40lphe1pet1.epfl.ch?Subject=%5Bgate-devel%5D%202%20Giga%20limit%20ain%27t%20no%20more%20%28%3F%29&In-Reply-To=" title="[gate-devel] 2 Giga limit ain't no more (?)">rannou at mednet.ucla.edu </a> Sat Oct 16 23:09:01 CEST 2004 <ul> <li>Previous message: <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/002471.html">[gate-devel] Update on the bug in the Voxels </a></li> <li>Next message: <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/002476.html">[gate-devel] GateToASCIIMessenger </a></li> <li> Messages sorted by: <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/date.html#2474">[ date ]</a> <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/thread.html#2474">[ thread ]</a> <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/subject.html#2474">[ subject ]</a> <a href="http://www-lphe.epfl.ch/%7EPET/OpenGATE/documentation/GATE-DEVEL_TALK/html/2004-October/author.html#2474">[ author ]</a> </li> </ul> <hr> <pre>Dear Gaters, look at this ls -la command: -rw-r--r-- 1 rannou isl 3.7G Oct 19 10:13 ptsrc_10mmLead_0.0_Large.root Yeap, a 3.7 Giga bytes ROOT file. This file contains singles and coincidences. I then processed the file with a .C program to create my listmode data and everything went smooth. The listmode file was smaller than 2Giga though. But In theory the latest version of ROOT can read and write files larger than 2 Gigabytes What to do: 1) update ROOT to version v4.01.02. 2) edit the petsim/include/GateToRoot.hh file as follows: In the class SingleOutputChannel : public VOutputChannel, in the inline method Book, add the SetMaxTreeSize call to set the maximum size of the Singles tree. inline void Book() { m_collectionID=-1; if (m_outputFlag) { m_tree = new GateSingleTree(m_collectionName); m_tree->SetMaxTreeSize(17179869184L); m_tree->Init(m_buffer); } } Do the same for class CoincidenceOutputChannel : public VOutputChannel inline void Book() { m_collectionID=-1; if (m_outputFlag) { m_tree = new GateCoincTree(m_collectionName); m_tree->SetMaxTreeSize(17179869184L); m_tree->Init(m_buffer); } } 3) Recompile Gate The method TTree::SetMaxTreeSize(Long64_t maxsize) takes a 64 bits Long, so in theory you could go all the way to 2^64=18446744073709550000 bytes, if unsigned (I'm not sure, maybe is only to 2^63). Right now, the value I 'm using is 16Gb. I got all this info from ROOT people. Who can help me test this? We would need to decide what max size value to use in the GATE release. Fernando</pre> Nehmeh, Sadek/Medical Physics wrote: <blockquote cite="mid2867578BB7767E45B3C9E3CBA9C5A65F7F05CE@smskpexmbx3.mskcc.root.mskcc.org" type="cite"> <pre wrap="">Theodore, I know there is 2GB limitation in the root file size. One way to analyze your data, and that's how I do it, is to loop over the root files and do you analysis on a file-by-file basis, while you update your output information. Another thing you may need to be careful with when you combine your root files into one is that some variables, like for example the eventID which will be incremented to cover the total number if events from all runs, may exceed the max number allowed for an integer for example. In this case, random numbers will be assigned to the varaible. Regards, Sadek ---------------------------------------- Sadek A. Nehmeh, Ph.D. Assistant Attending Physicist Medical Physics Department Nuclear Medicine Service Memorial Sloan-Kettering Cancer Center Tel: (212)-639-2175 Email: <a class="moz-txt-link-abbreviated" href="mailto:nehmehs@mskcc.org">nehmehs@mskcc.org</a> ------------------------------------------ -----Original Message----- From: <a class="moz-txt-link-abbreviated" href="mailto:gate-users-bounces@lphe1pet1.epfl.ch">gate-users-bounces@lphe1pet1.epfl.ch</a> [<a class="moz-txt-link-freetext" href="mailto:gate-users-bounces@lphe1pet1.epfl.ch">mailto:gate-users-bounces@lphe1pet1.epfl.ch</a>] On Behalf Of Mutanga Theodore Sent: Sunday, December 12, 2004 7:28 AM To: <a class="moz-txt-link-abbreviated" href="mailto:gate-users@lphe1pet1.epfl.ch">gate-users@lphe1pet1.epfl.ch</a> Subject: [gate-users] root file size Greetings, I am running some 100 simulations in batch mode on the cluster, 50 % of them succeeded and I have to collect the files together to get one big root file.And also the .ima , .dim and .info files. I tried to use Dirk K's Combine.C code to combine the files. The resulting output file is still split into other smaller files when the size gets to about 2G. Is there some means of not having this split , ? I don't know how to analyze the files with root if I have them seperated. Regards Theo _______________________________________________ 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> ===================================================================== Please note that this e-mail and any files transmitted with it may be privileged, confidential, and protected from disclosure under applicable law. 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If you have received this communication in error, please notify the sender immediately by replying to this message and deleting this message, any attachments, and all copies and backups from your computer. _______________________________________________ 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> <div class="moz-signature">-- <link rel="important stylesheet" href="chrome://messenger/skin/messageBody.css"> <title>message</title> <div class="moz-text-html" lang="x-western"> <div style="text-align: center; font-style: italic;"> <div style="text-align: left;">Corinne J. Groiselle, PhD </div> <div style="text-align: left; font-family: times new roman,times,serif; color: rgb(102, 102, 102);">Instructor of Radiology Department of Radiology / Division of Nuclear Medicine University of Massachusetts Medical School 55 Lake Avenue North Worcester, MA 01655 USA Phone: (508)-856-6123 - FAX: (508)-856-4572 Email: <a class="moz-txt-link-abbreviated" href="mailto:Corinne.Groiselle@umassmed.edu">Corinne.Groiselle@umassmed.edu</a> Professional homepage: <a class="moz-txt-link-freetext" href="http://users.umassmed.edu/corinne.groiselle">http://users.umassmed.edu/corinne.groiselle</a> Official faculty page: <a class="moz-txt-link-freetext" href="http://www.umassmed.edu/faculty/show.cfm?faculty=731">http://www.umassmed.edu/faculty/show.cfm?faculty=731</a> Personal homepage: <a class="moz-txt-link-freetext" href="http://corinne.groiselle.free.fr">http://corinne.groiselle.free.fr</a> </div> </div> </div> </div> </body> </html>