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Hi Adam,
<div class=""><br class="">
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<div class="">thanks for the bug report which we were able to reproduce with the</div>
<div class="">uploaded file. A proposed fix [1] was opened to correct the bug and</div>
<div class="">will be under review shortly.</div>
<span class="">
<div class=""><br class="">
</div>
<div class="">Best regards,</div>
<div class="">Sebastien</div>
</span><span class=""><br class="">
</span>
<div class="">[1] <a href="https://github.com/openmicroscopy/bioformats/pull/1902" class="">
https://github.com/openmicroscopy/bioformats/pull/1902</a></div>
<div class=""><br class="">
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<div class="">On 29 Jul 2015, at 20:12, Adam Webb <<a href="mailto:Adam.Webb@lightsource.ca" class="">Adam.Webb@lightsource.ca</a>> wrote:</div>
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<p class="MsoNormal">Hi,<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">I have gotten an error opening a 16 bit tiff. This is similar to the one I posted previously (<a href="http://lists.openmicroscopy.org.uk/pipermail/ome-users/2015-May/005386.html" class="">http://lists.openmicroscopy.org.uk/pipermail/ome-users/2015-May/005386.html</a>).
The message is similar. <o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">(Fiji Is Just) ImageJ 2.0.0-rc-34/1.50a; Java 1.6.0_24 [64-bit]; Windows NT (unknown) 6.2; 62MB of 24000MB (<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.SimplePCITiffReader.initStandardMetadata(SimplePCITiffReader.java:179)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.in.BaseTiffReader.initMetadata(BaseTiffReader.java:98)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.in.BaseTiffReader.initFile(BaseTiffReader.java:577)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.FormatReader.setId(FormatReader.java:1426)<o:p class=""></o:p></p>
<p class="MsoNormal"> at loci.formats.ImageReader.setId(ImageReader.java:835)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.bf.BioFormatsFormat$Parser.typedParse(BioFormatsFormat.java:424)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.bf.BioFormatsFormat$Parser.typedParse(BioFormatsFormat.java:406)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.AbstractParser.parse(AbstractParser.java:253)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.AbstractParser.parse(AbstractParser.java:336)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.AbstractParser.parse(AbstractParser.java:52)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.AbstractReader.setSource(AbstractReader.java:270)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.services.DefaultInitializeService.initializeReader(DefaultInitializeService.java:90)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.img.ImgOpener.createReader(ImgOpener.java:547)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.img.ImgOpener.openImgs(ImgOpener.java:146)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.services.DefaultDatasetIOService.open(DefaultDatasetIOService.java:123)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.services.DefaultDatasetIOService.open(DefaultDatasetIOService.java:109)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.io.DatasetIOPlugin.open(DatasetIOPlugin.java:75)<o:p class=""></o:p></p>
<p class="MsoNormal"> at io.scif.io.DatasetIOPlugin.open(DatasetIOPlugin.java:50)<o:p class=""></o:p></p>
<p class="MsoNormal"> at net.imagej.legacy.plugin.DefaultLegacyOpener.open(DefaultLegacyOpener.java:135)<o:p class=""></o:p></p>
<p class="MsoNormal"> at net.imagej.legacy.DefaultLegacyHooks.interceptFileOpen(DefaultLegacyHooks.java:329)<o:p class=""></o:p></p>
<p class="MsoNormal"> at net.imagej.legacy.DefaultLegacyHooks.interceptRunPlugIn(DefaultLegacyHooks.java:152)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.IJ.runPlugIn(IJ.java)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.Executer.runCommand(Executer.java:132)<o:p class=""></o:p></p>
<p class="MsoNormal"> at ij.Executer.run(Executer.java:65)<o:p class=""></o:p></p>
<p class="MsoNormal"> at java.lang.Thread.run(Thread.java:662)<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">The image is from the same camera as before but might be a newer version of HCImage. I noticed that the metadata is somewhat different in this file compared to the previous ba_image. (This was QA 11088) I have uploaded the file bone_tmp1981_00011.tif
to the QA system.<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal">Cheers,<o:p class=""></o:p></p>
<p class="MsoNormal">Adam<o:p class=""></o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
<p class="MsoNormal"><o:p class=""> </o:p></p>
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