<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div></div><div><br></div><div>alex.</div><div><br></div><div><div><br></div><div><div>On May 21, 2009, at 12:11 AM, Curtis Rueden wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi Gaëtan,<br><br><div class="gmail_quote"><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">I don't get that error with a zvi file. Great!<br> </blockquote><div><br>Great. And we will eliminate the problem for TIFF files soon as well.<br><br></div><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"> However, the performances don't seem that good: with my simple python wrapper for bioformats, I open the image in 39 seconds.<br> With itk-plugin, at 39 second, only 6 plans are open on the 51 plans of the image.<br> </blockquote><div><br>That is bad news. I was planning on doing some benchmarks comparing with Bio-Formats + Ice, but was not expecting to see such bad performance with JNI. I will look into it and see what I can find out. It should be possible to do much better.<br> <br></div><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">I'll continue my investigations and will continue to report my progress.</blockquote> </div><br>Thank you.<br><br>-Curtis<br><br><div class="gmail_quote">2009/5/20 Gaëtan Lehmann <span dir="ltr"><<a href="mailto:gaetan.lehmann@jouy.inra.fr">gaetan.lehmann@jouy.inra.fr</a>></span><br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"> <br> Le 20 mai 09 à 14:58, Curtis Rueden a écrit :<div><div></div><div class="h5"><br> <br> <blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"> Hi Gaëtan,<br> <br> - "jace-runtime.jar:bio-formats.jar:loci_tools.jar"<br> + "jace.jar:jace-runtime.jar:bio-formats.jar:loci_tools.jar"<br> <br> Interesting; this library is not supposed to be necessary. But I'm glad you got it working.<br> <br> Any idea about what is wrong with the threads?<br> Also, do you now why it tries to start AWT? A GUI shouldn't be useful in that case!<br> <br> We are aware of the AWT error messages on Mac OS X, and are working to fix them. It is basically a matter of removing references to the java.awt.Rectangle class, which we use for convenience reasons right now, but can easily be changed.<br> <br> In the meantime, would you mind trying to read a file in a non-TIFF-based format? The AWT errors mainly happen with TIFF-based formats with the current codebase.<br> <br> </blockquote> <br></div></div> I don't get that error with a zvi file. Great!<br> <br> However, the performances don't seem that good: with my simple python wrapper for bioformats, I open the image in 39 seconds.<br> With itk-plugin, at 39 second, only 6 plans are open on the 51 plans of the image.<br> <br> I'll continue my investigations and will continue to report my progress.<div><div></div><div class="h5"><br> <br> Regards,<br> <br> Gaëtan<br> <br> <br> -- <br> Gaëtan Lehmann<br> Biologie du Développement et de la Reproduction<br> INRA de Jouy-en-Josas (France)<br> tel: +33 1 34 65 29 66 fax: 01 34 65 29 09<br> <a href="http://voxel.jouy.inra.fr" target="_blank">http://voxel.jouy.inra.fr</a> <a href="http://www.mandriva.org" target="_blank">http://www.mandriva.org</a><br> <a href="http://www.itk.org" target="_blank">http://www.itk.org</a> <a href="http://www.clavier-dvorak.org" target="_blank">http://www.clavier-dvorak.org</a><br> <br> </div></div></blockquote></div><br> <span><ATT00001.txt></span></blockquote></div><br></div></body></html>