Do you install the 32bit or 64 bit java invironment? <div> </div><div><sign signid="1"><div style="color:#909090;font-family:Arial Narrow;font-size:12px">------------------</div><div style='font-size:14px;font-family:Verdana;color:#000;'><div><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">Zheng Huang</span></div><div><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">State Key Laboratory of High Field Laser Physics, Shanghai Institute of Optics and Fine Mechanics, </span><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">Chinese Academy of Sciences, Shanghai 201800, China</span></div><div><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">Address: Qinghe Road No. 390, Jiading District, Shanghai </span><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">201800</span><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">, China </span></div><div><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">Tel: 13120836853</span></div><div><span style="color: rgb(128, 128, 128); font-family: ΢ÈíÑźÚ, Tahoma, ËÎÌå; line-height: 22px;">E-mail: 709314090@qq.com</span></div></div></sign></div><div> </div><div><br></div><div><br></div><div style="font-size: 12px;font-family: Arial Narrow;padding:2px 0 2px 0;">------------------ Original ------------------</div><div style="font-size: 12px;background:#efefef;padding:8px;"><div><b>From:</b> "Roberts, Thomas"<thomas.roberts.10@ucl.ac.uk>; </div><div><b>Date:</b> 2015Äê4ÔÂ20ÈÕ(ÐÇÆÚÒ») ÍíÉÏ11:31</div><div><b>To:</b> "openspim"<openspim@openspim.org>; </div><div><b>Subject:</b> [OpenSPIM] 64-bit Fiji Memory Limit Issue</div></div><div><br></div><style type="text/css" style="display:none;">.qmbox <!-- P {margin-top:0;margin-bottom:0;}
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<p>Hi everyone,<br>
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<p>This is probably a wider issue with Fiji than OpenSPIM, but I was wondering if anyone else encountered the same problem we are having.<br>
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<p>For reference, we are running 64-bit Windows 7 on a monster machine with 64GB RAM, an Intel Xeon <span style="font-size:12pt">E<span style="border-bottom:1px dashed #ccc;z-index:1" t="6" onclick="return false;" data="5-2650">5-2650</span> and an nVidia Quadro 5000.</span></p>
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<p>We generally run the 32-bit version of OpenSPIM for acquisition, but opening large image datasets (such as the ones in the Registation tutorial: <a href="http://openspim.org/Registration" id="LPlnk117814" target="_blank">http://openspim.org/Registration</a>) results in
Fiji reaching its memory limit. Because of this, I downloaded the 64-bit version of OpenSPIM/MM/Fiji in an attempt to increase the memory limit. <br>
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<p>If I set the memory limit to a large value (20,000 MB) by going to Edit > Options > Memory & Threads, I get the same error message, as below:<br>
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<div><em>Loading C:\Users\SPIM\Documents\OpenSPIM Dresden Data\tiffs\\spim_TL05_Angle0.tif</em></div>
<div><em>>>>>>>>>>>>>>>>>>>>>>>>>>>></em><br>
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<div><em><Out of memory></em><br>
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<div><em><All available memory (505MB) has been></em></div>
<div><em><used. To make more available, use the></em></div>
<div><em><Edit>Options>Memory & Threads command.></em></div>
<div><em>>>>>>>>>>>>>>>>>>>>>>>>>>>></em></div>
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<div>This is really odd, because if I go to Help > About ImageJ, it says that 13MB out of <span style="border-bottom:1px dashed #ccc;z-index:1" t="6" onclick="return false;" data="20000">20000</span>MB (<1%) is in use. Put another way, Fiji accepts that I want to increase the memory limit, but it still doesn't use more than 505MB of memory.<br>
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<div>As a sanity check, I have installed 64-bit Fiji on my office computer and I can open the Registration tutorial data there, but my personal computer is really slow at manipulating the large datasets!<br>
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<div>Has anyone else experienced this problem? Or does anyone have any suggestions for how to solve the issue?<br>
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<div>It's really frustrating as our behemoth PC refuses to do what it was bought to do!<br>
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<div>Many thanks in advance for any replies.<br>
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<div>Tom Roberts<br>
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<div>Research Associate<br>
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<div>UCL Centre for Advanced Biomedical Imaging<br>
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<div><a href="mailto:thomas.roberts.10@ucl.ac.uk" target="_blank">thomas.rober<wbr>ts.10@ucl.ac<wbr>.uk</a><br>
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