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Hi Felix,
<div class=""><br class="">
</div>
<div class="">In order to configure the logging level I can recommend using the following utility class <a href="http://downloads.openmicroscopy.org/bio-formats/5.1.4/api/loci/common/DebugTools.html#enableLogging(java.lang.String)" class="">http://downloads.openmicroscopy.org/bio-formats/5.1.4/api/loci/common/DebugTools.html#enableLogging(java.lang.String)</a></div>
<div class="">So you can add the following to your code for example: </div>
<div class=""><span style="font-family: Monaco; font-size: 11px;" class="">DebugTools.enableLogging(</span><span style="font-family: Monaco; font-size: 11px; color: rgb(57, 51, 255);" class="">"ERROR"</span><span style="font-family: Monaco; font-size: 11px;" class="">);</span></div>
<div class=""><br class="">
</div>
<div class="">The exception that you are seeing in the logs is indeed due to a library being unavailable. This particular reader still has further development required, including around the loading of libraries. The exception shown is caught and handled but
is output to the logger as a debug level log entry.</div>
<div class=""><br class="">
</div>
<div class="">With Thanks,</div>
<div class="">David Gault</div>
<div class=""><br class="">
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<div class=""><br class="">
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<blockquote type="cite" class="">
<div class="">On 21 Oct 2015, at 16:15, MEYENHOFER Felix <<a href="mailto:felix.meyenhofer@unifr.ch" class="">felix.meyenhofer@unifr.ch</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">Hi <br class="">
<br class="">
Whenever I call a bio-formats reader the error further down shows up. It continues to run, but I wonder if this is just an info, that we are missing the license? However as long as we don’t use the slidebookreader, I don’t see why it’s throwing an error instead
of a warning.<br class="">
<br class="">
Also I was wondering how to turn of the DEBUG output of Bio-Formats?<br class="">
<br class="">
<br class="">
17:04:00.645 [SciJava-35e0c0f9-Thread-2] DEBUG loci.formats.FormatHandler - 3i SlideBook SlideBook6Reader library not found. Please see
<a href="http://www.openmicroscopy.org/site/support/bio-formats/formats/3i-slidebook.html" class="">
http://www.openmicroscopy.org/site/support/bio-formats/formats/3i-slidebook.html</a> for details.<br class="">
java.lang.UnsatisfiedLinkError: null<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.in.SlideBook6Reader.<clinit>(SlideBook6Reader.java:90) ~[formats-gpl-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.lang.Class.forName0(Native Method) [na:1.8.0_40]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.lang.Class.forName(Class.java:264) [na:1.8.0_40]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ClassList.<init>(ClassList.java:127) [formats-api-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ClassList.<init>(ClassList.java:85) [formats-api-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ImageReader.getDefaultReaderClasses(ImageReader.java:78) [formats-api-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ImageReader.<init>(ImageReader.java:115) [formats-api-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ReaderWrapper.<init>(ReaderWrapper.java:62) [formats-api-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at loci.formats.ChannelSeparator.<init>(ChannelSeparator.java:78) [formats-bsd-5.1.5.jar:5.1.5]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at NdpiTileColorSeparator.tile2GcStack(NdpiTileColorSeparator.java:219) [classes/:na]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at NdpiTileColorSeparator.run(NdpiTileColorSeparator.java:123) [classes/:na]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at org.scijava.command.CommandModule.run(CommandModule.java:201) [scijava-common-2.47.0.jar:2.47.0]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167) [scijava-common-2.47.0.jar:2.47.0]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126) [scijava-common-2.47.0.jar:2.47.0]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65) [scijava-common-2.47.0.jar:2.47.0]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at org.scijava.thread.DefaultThreadService$2.call(DefaultThreadService.java:191) [scijava-common-2.47.0.jar:2.47.0]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.util.concurrent.FutureTask.run(FutureTask.java:266) [na:1.8.0_40]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) [na:1.8.0_40]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) [na:1.8.0_40]<br class="">
<span class="Apple-tab-span" style="white-space:pre"></span>at java.lang.Thread.run(Thread.java:745) [na:1.8.0_40]<br class="">
<br class="">
<br class="">
Best regards, <br class="">
<br class="">
-------------------------------------<br class="">
Felix Meyenhofer<br class="">
University of Fribourg<br class="">
Departement of Medicine - Anatomy<br class="">
1, Rte. Albert Gockel<br class="">
CH-1700 Fribourg <br class="">
<br class="">
Tel: +41 26 300 85 45<br class="">
Web: <a href="http://www.unifr.ch/anatomy" class="">www.unifr.ch/anatomy</a><br class="">
<a href="http://www.unifr.ch/bioimage" class="">www.unifr.ch/bioimage</a><br class="">
-------------------------------------<br class="">
<br class="">
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</div>
</blockquote>
</div>
<br class="">
</div>
<br>
<span style="font-size:10pt;">The University of Dundee is a registered Scottish Charity, No: SC015096</span>
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