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Hi Michael,
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<div class="">can you confirm the exact version of Bio-Formats you are using? The error stack trace</div>
<div class="">does not look like you are using the latest Bio-Formats 5.1.x. Furthermore your issue</div>
<div class="">looks very similar to the one reported in this thread [1] and fixed in [2].</div>
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<div class="">Could you try installing the 5.1.8 version of Bio-Formats [3] and see if the error persists?</div>
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<div class="">Best regards,</div>
<div class="">Sebastien</div>
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<div class="">[1] <a href="http://lists.openmicroscopy.org.uk/pipermail/ome-users/2015-January/004988.html" class="">http://lists.openmicroscopy.org.uk/pipermail/ome-users/2015-January/004988.html</a></div>
<div class="">[2] <a href="https://github.com/openmicroscopy/bioformats/pull/1531" class="">https://github.com/openmicroscopy/bioformats/pull/1531</a></div>
<div class="">[3] <a href="http://downloads.openmicroscopy.org/bio-formats/5.1.8/" class="">
http://downloads.openmicroscopy.org/bio-formats/5.1.8/</a></div>
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<blockquote type="cite" class="">
<div class="">On 16 Mar 2016, at 17:04, Cammer, Michael <<a href="mailto:Michael.Cammer@med.nyu.edu" class="">Michael.Cammer@med.nyu.edu</a>> wrote:</div>
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<p class="MsoNormal">.czi files from the Zeiss 880 will not open. This includes both raw and processed data.<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">I was using a daily build version of LOCI BioFormats plugins from two weeks ago and just upgraded to daily build.<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">Please let me know if you’d like me to upload a dataset. We have examples from two different Ziess 880s, one here and one from a neighboring institution.<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">Thank you!!<o:p class=""></o:p></p>
<p class="MsoNormal">-Michael<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">Example error:<o:p class=""></o:p></p>
<p class="MsoNormal">ImageJ 1.50g18; Java 1.6.0_20 [64-bit]; Windows 7 6.1; 23MB of 12000MB (<1%)<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""></o:p></p>
<p class="MsoNormal">java.lang.NumberFormatException: null<o:p class=""></o:p></p>
<p class="MsoNormal"> at java.lang.Integer.parseInt(Integer.java:417)<o:p class=""></o:p></p>
<p class="MsoNormal"> at java.lang.Integer.parseInt(Integer.java:499)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.in.ZeissCZIReader.translateExperiment(ZeissCZIReader.java:2151)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.in.ZeissCZIReader.translateMetadata(ZeissCZIReader.java:1214)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:699)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.FormatReader.setId(FormatReader.java:1317)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:494)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.plugins.in.Importer.showDialogs(Importer.java:141)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.plugins.in.Importer.run(Importer.java:79)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.plugins.LociImporter.run(LociImporter.java:81)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runUserPlugIn(IJ.java:212)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runPlugIn(IJ.java:176)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runPlugIn(IJ.java:165)<o:p class=""></o:p></p>
<p class="MsoNormal"> at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:258)<o:p class=""></o:p></p>
<p class="MsoNormal"> at HandleExtraFileTypes.run(HandleExtraFileTypes.java:37)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runUserPlugIn(IJ.java:212)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runPlugIn(IJ.java:176)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runPlugIn(IJ.java:165)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:503)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.io.Opener.openImage(Opener.java:369)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.io.Opener.openImage(Opener.java:243)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.io.Opener.open(Opener.java:110)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.io.Opener.openAndAddToRecent(Opener.java:292)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.plugin.DragAndDrop.openFile(DragAndDrop.java:186)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.plugin.DragAndDrop.run(DragAndDrop.java:153)<o:p class=""></o:p></p>
<p class="MsoNormal"> at java.lang.Thread.run(Thread.java:619)<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal"><span style="font-size:10.0pt" class="">=========================================================================<o:p class=""></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt" class="">Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center<o:p class=""></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt" class=""> Cell: 914-309-3270 **
</span><b class=""><span style="font-size:10.0pt;font-family:"Adobe Fan Heiti Std B","sans-serif"" class="">Office: Skirball 2<sup class="">nd</sup> Floor main office, back right **</span></b><i class=""><span style="font-size:10.0pt" class=""><o:p class=""></o:p></span></i></p>
<p class="MsoNormal"><span style="font-size:10.0pt" class=""> <a href="http://ocs.med.nyu.edu/microscopy" class="">
<span style="color:blue" class="">http://ocs.med.nyu.edu/microscopy</span></a> & <a href="http://microscopynotes.com/" class="">
<span style="color:blue" class="">http://microscopynotes.com/</span></a><o:p class=""></o:p></span></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
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