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Hi Skye,
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<div class="">This is not something that we were aware of as an issue so thank you for bringing it to our attention. I retested the fix from 5.4.0 but did not see any regression with the sample files that we currently have.</div>
<div class="">If you are able to provide a file that shows this issue then we can further debug the problem. Any sample files can be submitted via the link below:</div>
<div class=""><a href="https://www.openmicroscopy.org/qa2/qa/upload/" class="">https://www.openmicroscopy.org/qa2/qa/upload/</a></div>
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<div class="">With Thanks,</div>
<div class="">David Gault</div>
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<div class="">On 12 Jul 2017, at 17:56, Skye McBride <<a href="mailto:smcbride@uottawa.ca" class="">smcbride@uottawa.ca</a>> wrote:</div>
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<span style="font-size: 11pt; font-family: Calibri, sans-serif;" class="">I am writing from the Cell Biology and Image Acquisition Core facility at the University of Ottawa. I recently noticed that we are having issues again with the BioFormats importer from
colour images in the .zvi format. Previously this issue was resolved for our 12-bit colour images with the release of 5.4.0 (see below) and I had identified that it was the RGB channel count that was causing our images to open not as RGB but rather as a GGB
image. Do you know if this is something that is being worked on?<o:p class=""></o:p></span></div>
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<span style="font-size: 11pt; font-family: Calibri, sans-serif;" class="">BioFormats 5.4.0<o:p class=""></o:p></span></div>
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<span style="font-size: 11pt; font-family: Calibri, sans-serif;" class="">* Zeiss AxioVision ZVI (Zeiss Vision Image)<o:p class=""></o:p></span></div>
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<span style="font-size: 11pt; font-family: Calibri, sans-serif;" class=""> * ensure that the bitsPerPixel field is always set to match the final pixel type, and populate any channel colors that were parsed in the metadata. The bits per pixel update should
only affect uint16 or int16 files where the acquisition bit depth is not a multiple of 8, and the RGB channel count is greater than 1<o:p class=""></o:p></span></div>
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<span style="font-size: 11pt; font-family: Calibri, sans-serif;" class="">Thanks in advance for any insight/help you can provide,<o:p class=""></o:p></span></div>
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<b class=""><span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(34, 34, 34);" class="">Skye McBride, MSc</span></b><span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(34, 34, 34);" class=""><br class="">
Microscopy and Imaging specialist </span><span style="font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""></o:p></span></p>
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<b class=""><span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(53, 28, 117);" class="">Cell Biology and Image Acquisition Core Facility</span></b><span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(34, 34, 34);" class=""><br class="">
</span><span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(53, 28, 117);" class="">Faculty of Medicine<br class="">
University of Ottawa<br class="">
Room 3171<br class="">
451 Smyth Road<br class="">
Ottawa, ON K1H 8M5<br class="">
Office: <a href="tel:613-562-5800%20ext%3A%208376" target="_blank" style="color: purple; text-decoration: underline;" class=""><span style="color: rgb(17, 85, 204);" class="">613-562-5800 ext: 8983</span></a></span><span style="font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""></o:p></span></p>
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<span lang="EN-US" style="font-size: 10pt; font-family: Arial, sans-serif; color: rgb(34, 34, 34);" class=""><a href="http://www.med.uottawa.ca/research/corelabs/CoreLabs_CBIA/eng/" target="_blank" style="color: purple; text-decoration: underline;" class=""><span style="color: rgb(17, 85, 204);" class="">CBIA
core facility </span></a></span><span style="font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""></o:p></span></div>
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