Re: Fiji/ImageJ on a Windows server

Posted by Ben Micklem on Aug 26, 2014; 10:46am
URL: http://imagej.273.s1.nabble.com/Fiji-ImageJ-on-a-Windows-server-tp5009346p5009348.html

Hi Laurent,

I’m far from an expert on Java, and in fact have never run ImageJ on a
server, but the following thread hinted at optimisations that might be
needed:
http://imagej.1557.x6.nabble.com/A-note-on-JVM-performance-td3692131.html


Are you running the Server Java Virtual Machine?

Just done some more Googling, and it looks like the 64-bit version only
runs in the server JVM, so I guess you probably are using that.

This looks like a good place to start for tuning the server:

http://fiji.sc/Java_Options


Ben




On 26/08/2014 11:28, "Gelman, Laurent" <[hidden email]> wrote:

>Hi everybody,
>
>We recently purchased a server for image processing: 32 Cores (Intel Xeon
>E5-4627 V2 @ 3.3 GHz, 4 CPUs, no hyperthreading), 518 GB RAM, windows
>2012 R2.
>We then compared the speed of this server to that of a desktop machine:
>iMac, 8 Cores (Intel i7-4771 CPUs @ 3.5 GHz, multithreaded), 32GB RAM,
>Windows8 (I can explain why we run Windows8 on a iMac if some people are
>shocked, let's call this computer a "WinMac" :)).
>
>These are results of the speed tests:
>Stitching (Stitching plugin from Fiji): My "WinMac" is twice faster than
>the server.
>Denoising (with the PureDenoise plugin): My "WinMac" is 3.6 times faster
>than the server.
>
>The server has 32 cores, my WinMac 8 cores. I would not expect the server
>to be 4 times faster (CPUs are different, some writing to disk might be
>involved, etc.), but I would not expect it to be more than twice slower
>as well.
>
>IT tells me, maybe ImageJ or Fiji or Java is not optimized to run on
>servers.
>
>Is this the case? Is there a problem of configuration of Fiji or Java or
>Windows on the server? (I checked already "memory and threads"
>parameters).
>
>Thanks for your help,
>
>Best regards,
>
>Laurent.
>
>NB: When running Matlab, the server outperforms our desktops.
>
>___________________________
>Laurent Gelman, PhD
>Friedrich Miescher Institut
>Head, Facility for Advanced Imaging and Microscopy
>Light microscopy
>WRO 1066.2.16
>Maulbeerstrasse 66
>CH-4058 Basel
>[phone]
>[phone]
>www.fmi.ch<http://www.fmi.ch/>
>www.microscopynetwork.unibas.ch/<http://www.microscopynetwork.unibas.ch/>
>
>
>
>--
>ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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