<font size=2 face="sans-serif">We're doing this already for MRXS. Since
we're using OpenSlide, shouldn't the program also work w/ hamamatsu files?</font>
<br>
<br>
<br>
<br><font size=1 color=#5f5f5f face="sans-serif">From:
</font><font size=1 face="sans-serif">Mailly Philippe <philippe.mailly@snv.jussieu.fr></font>
<br><font size=1 color=#5f5f5f face="sans-serif">To:
</font><font size=1 face="sans-serif">openslide-users@lists.andrew.cmu.edu</font>
<br><font size=1 color=#5f5f5f face="sans-serif">Date:
</font><font size=1 face="sans-serif">17-07-12 15:08</font>
<br><font size=1 color=#5f5f5f face="sans-serif">Subject:
</font><font size=1 face="sans-serif">Re: NDPI support</font>
<br><font size=1 color=#5f5f5f face="sans-serif">Sent by:
</font><font size=1 face="sans-serif">openslide-users-bounces+sucaet=histogenex.com@lists.andrew.cmu.edu</font>
<br>
<hr noshade>
<br>
<br>
<br><tt><font size=2>Hi,<br>
<br>
The LOCI plugin reading NDPI file is limited to 65000x65000 pixels image
<br>
size, even if you have enough memory. For the moment, nobody can convert
<br>
ndpi file over 65000x65000 pixel which is bored because most of the <br>
Hamamatsu acquisitions generated files are over this resolution. For <br>
example a classical histological slide is about 110000x50000.<br>
It will be nice to have some tools that can convert scanner file as NDPI
<br>
to tiff using bigtif library for example.<br>
<br>
Philippe<br>
<br>
Le 17/07/2012 14:48, Mathieu Malaterre a écrit :<br>
> It seems to go a little further. Here is what I have:<br>
><br>
> Reading IFDs<br>
> Populating metadata<br>
> Populating OME metadata<br>
> java.lang.OutOfMemoryError: Java heap space<br>
> Dumping heap to java_pid16739.hprof ...<br>
> Heap dump file created [673548853 bytes in 0.278 secs]<br>
> Exception in thread "main" java.lang.OutOfMemoryError: Java
heap space<br>
> at
loci.formats.gui.AWTImageTools.makeRGBImage(AWTImageTools.java:576)<br>
> at
loci.formats.gui.AWTImageTools.makeImage(AWTImageTools.java:207)<br>
> at
loci.formats.gui.AWTImageTools.makeImage(AWTImageTools.java:494)<br>
> at
loci.formats.gui.AWTImageTools.openImage(AWTImageTools.java:782)<br>
> at
loci.formats.gui.BufferedImageReader.openImage(BufferedImageReader.java:94)<br>
> at
loci.formats.gui.BufferedImageReader.openImage(BufferedImageReader.java:77)<br>
> at
loci.formats.gui.ImageViewer.open(ImageViewer.java:347)<br>
> at
loci.formats.gui.ImageViewer.main(ImageViewer.java:829)<br>
><br>
><br>
> Using:<br>
><br>
> $ cat bfview<br>
> [...]<br>
> java -XX:+HeapDumpOnOutOfMemoryError -Xmx1024m -cp<br>
> "$DIR":"$DIR/bio-formats.jar":"$DIR/loci_tools.jar"
$PROG "$@"<br>
><br>
<br>
<br>
[attachment "philippe_mailly.vcf" deleted by Yves Sucaet/Histogenex]
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