<html><head><meta http-equiv="Content-Type" content="text/html charset=iso-8859-1"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Forwarding so the list benefits too.<br>
<div><br><div>Begin forwarded message:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;"><span style="font-family:'Helvetica'; font-size:medium; color:rgba(0, 0, 0, 1.0);"><b>From: </b></span><span style="font-family:'Helvetica'; font-size:medium;">Derik Barseghian <<a href="mailto:barseghian@nceas.ucsb.edu">barseghian@nceas.ucsb.edu</a>><br></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;"><span style="font-family:'Helvetica'; font-size:medium; color:rgba(0, 0, 0, 1.0);"><b>Subject: </b></span><span style="font-family:'Helvetica'; font-size:medium;"><b>Re: [kepler-users] Error in running Kepler 2.3 on a cluster</b><br></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;"><span style="font-family:'Helvetica'; font-size:medium; color:rgba(0, 0, 0, 1.0);"><b>Date: </b></span><span style="font-family:'Helvetica'; font-size:medium;">September 6, 2012 9:25:57 PM PDT<br></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;"><span style="font-family:'Helvetica'; font-size:medium; color:rgba(0, 0, 0, 1.0);"><b>To: </b></span><span style="font-family:'Helvetica'; font-size:medium;">"Himanshu ............." <<a href="mailto:himanshu.king@gmail.com">himanshu.king@gmail.com</a>><br></span></div><br><meta http-equiv="Content-Type" content="text/html charset=iso-8859-1"><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Humanshu,<div>I think I was wrong, kepler 2.3.0 uses 512m by default, not 1000m. 2.4.0 will use 1000m.</div><div><br><div>How are you determining the change is not taking affect? I just tried and it worked for me.</div><div><br></div><div>This is what I did for my release version of kepler 2.3.0 on ubuntu:</div><div>vi /home/derik/KeplerData/kepler.modules/build-area/settings/memory.xml</div><div>#change max to something smaller:</div><div><entry key="max">256m</entry></div><div>#save, and start kepler</div><div>./kepler.sh</div><div><br></div><div># During startup I see the change in a stdout msg:</div><div><div>Kepler.run going to run.setMain(org.kepler.Kepler)</div><div>JVM Memory = 5m 256m</div></div><div><br></div><div>If you're using the 2.3 branch instead of 2.3.0 release, you may need to also change this copy of memory.xml:</div><div>vi kepler.modules23/build-area/settings/memory.xml</div><div><br></div><div>Derik</div><div>
<br><div><div>On Sep 6, 2012, at 9:11 PM, "Himanshu ............." <<a href="mailto:himanshu.king@gmail.com">himanshu.king@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi Derik,<div><br></div><div>Thanks for your reply. Its a virtual machine on which I am trying to run Kepler. When I had first encountered this error,I concluded the same thing so I increased the RAM size but still I got the same error. Since Kepler is not getting started at all, so I can't change the JVM memory settings. And as per your second suggestion I tried editing the memory.xml file but changes are not getting affected.</div>
<div><br></div><div>Thanks</div><div>Himanshu<br><br><div class="gmail_quote">On Thu, Sep 6, 2012 at 2:54 PM, Derik Barseghian <span dir="ltr"><<a href="mailto:barseghian@nceas.ucsb.edu" target="_blank">barseghian@nceas.ucsb.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word">Hi,<div><br></div><div>Kepler 2.3 uses 1gb of memory by default. Maybe the machine on which you're getting the error does not have this much RAM available?</div>
<div>You can adjust Kepler's memory use from within Kepler using the Tools=>JVM Memory Settings menu, or by editing the KeplerData/kepler.modules/build-area/settings/memory.xml file.</div><div>Decreasing the max memory setting to 500m may be fine if you're not running complicated workflows.</div>
<div><br></div><div>Derik</div><div><br><div><div><div><div class="h5"><div>On Sep 6, 2012, at 4:50 AM, "Himanshu ............." <<a href="mailto:himanshu.king@gmail.com" target="_blank">himanshu.king@gmail.com</a>> wrote:</div>
<br></div></div><blockquote type="cite"><div><div class="h5"><span style="color:rgb(34,34,34);font-size:13px;font-family:arial,sans-serif">Dear All,</span><div style="color:rgb(34,34,34);font-size:13px;font-family:arial,sans-serif">
<br></div><div style="color:rgb(34,34,34);font-size:13px;font-family:arial,sans-serif">I am trying to run Kepler 2.3 on my cluster. Operating system is Red Hat and Java version is 1.6 (64 bit). I am getting following error.</div>
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<div>[null] Error occurred during initialization of VM</div><div>[null] Too small initial heap for new size specified</div></div><div style="color:rgb(34,34,34);font-size:13px;font-family:arial,sans-serif">
<br></div><div style="color:rgb(34,34,34);font-size:13px;font-family:arial,sans-serif">It looks like a JVM error to me but i am not sure how to change the minimum heap size. If it helps, I have installed Kepler 2.3 on my local machine which is running on fedora and 32 bit Java and it is working fine. I am wondering why the default memory size is not sufficient to start Kepler 2.3 on a cluster or problem is something else. Please give me suggestions to solve this problem.</div>
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Thanks</div></div></div>
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