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Hi Enno,
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<div class="">If you try opening your files in ImageJ/Fiji with the Bio-formats plugin and choose to</div>
<div class="">“Display Metadata” and “Display OME-XML metadata”, do you see anything there</div>
<div class="">that represents the z info you need?</div>
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<div class=""> It would be really helpful if you could send us a sample ND2 file that has this metadata.</div>
<div class="">Then we can check if / where Bio-Formats is reading it.</div>
<div class="">Please let us know what values you’re expecting for the z-stage and z-piezo once you’ve</div>
<div class="">uploaded the file so we know what to look for.</div>
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<div class="">You an upload files at <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="">Many thanks,</div>
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<div class=""> Will.</div>
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<div class="">On 30 Aug 2016, at 12:00, Enno R. Oldewurtel <<a href="mailto:eoldewur@pasteur.fr" class="">eoldewur@pasteur.fr</a>> wrote:</div>
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<div class="">Dear all,<br class="">
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maybe someone can help me retrieving the metadata for z-positions from an ND2 file.<br class="">
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I have been using the following in the past:<br class="">
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m=r.pointer.getMetadataStore();<br class="">
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z=m.getPlanePositionZ(i,j).value;<br class="">
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But now I work on a Nikon microscope that has both a z-stage and a z-piezo. How can I retrieve the two z values? At the moment, getPlanePositionZ(i,j) gives me the position of the piezo.<br class="">
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Many thanks,<br class="">
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Enno<br class="">
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<div dir="ltr" class="">Enno Oldewurtel<br class="">
Institut Pasteur<br class="">
Laboratory of Microbial Morphogenesis and Growth<br class="">
Bâtiment 26 François Jacob (2e étage)<br class="">
28, rue du Docteur Roux<br class="">
75724 Paris Cedex 15<br class="">
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<a target="_blank" href="mailto:eoldewur@pasteur.fr" class="">eoldewur@pasteur.fr</a><br class="">
Office: +33 (0)1 45 68 86 12<br class="">
<a target="_blank" href="https://research.pasteur.fr/en/team/microbial-morphogenesis-and-growth/" class="">https://research.pasteur.fr/en/team/microbial-morphogenesis-and-growth/</a><br class="">
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