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Hi Greg,
<div class=""><br class="">
</div>
<div class="">thanks for the offer and no rush as we not actively planning any work on this format.</div>
<div class="">If you have easy access to these special image types, feel free to upload them at</div>
<div class=""><a href="http://qa.openmicroscopy.org.uk/qa/upload/" class="">http://qa.openmicroscopy.org.uk/qa/upload/</a> and we will record a card/ticket to</div>
<div class="">investigate the differences between Bio-Formats and the plugin on our side.</div>
<div class=""><br class="">
</div>
<div class="">Best,</div>
<div class="">Sebastien</div>
<div class=""><br class="">
<div>
<blockquote type="cite" class="">
<div class="">On 3 Apr 2017, at 18:27, Morgan, David Gene <<a href="mailto:dagmorga@indiana.edu" class="">dagmorga@indiana.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">Sebastien,<br class="">
<br class="">
If it would be helpful, I can probably supply a series of dm3/dm4 files that are likely to qualify as "special image types."<br class="">
<br class="">
--<br class="">
David Gene Morgan<br class="">
Electron Microscopy Center<br class="">
047D Simon Hall<br class="">
IU Bloomington<br class="">
812 856 1457 (office)<br class="">
812 856 3221 (3200)<br class="">
<a href="http://iubemcenter.indiana.edu" class="">http://iubemcenter.indiana.edu</a><br class="">
<br class="">
________________________________________<br class="">
From: ome-users <<a href="mailto:ome-users-bounces@lists.openmicroscopy.org.uk" class="">ome-users-bounces@lists.openmicroscopy.org.uk</a>> on behalf of Sebastien Besson (Staff) <<a href="mailto:s.besson@dundee.ac.uk" class="">s.besson@dundee.ac.uk</a>><br class="">
Sent: Monday, April 3, 2017 5:15 AM<br class="">
To: users OME<br class="">
Subject: Re: [ome-users] dm4 format<br class="">
<br class="">
Hi Greg,<br class="">
<br class="">
thanks for your answer and the additional precisions on the original DM3_Reader plugin.<br class="">
<br class="">
We have not received any community request related to the special handling of some DM3 image<br class="">
types. Let us know if you have any sample files reflecting this behavior. In the meantime, the<br class="">
existence of both plugins should allow users to choose their implementation when opening DM3<br class="">
files.<br class="">
<br class="">
Best,<br class="">
Sebastien<br class="">
<br class="">
<blockquote type="cite" class="">On 30 Mar 2017, at 14:26, Dr Gregory Jefferis <<a href="mailto:jefferis@mrc-lmb.cam.ac.uk" class="">jefferis@mrc-lmb.cam.ac.uk</a>> wrote:<br class="">
<br class="">
A brief comment on this thread seems in order since I am the original author of both the DM3_Reader plugin and HandleExtraFileTypes!<br class="">
<br class="">
On 29 Mar 2017, at 17:43, Morgan, David Gene wrote:<br class="">
<br class="">
<blockquote type="cite" class="">With regard to the DM3_Reader, are you referring to this plugin available from<br class="">
<br class="">
the ImageJ website [1]? If so, this plugin is managed completely separately from<br class="">
<br class="">
Bio-Formats and we do not know if it is actively maintained.<br class="">
</blockquote>
<br class="">
The canonical source for the standalone DM3 reader distributed with Fiji is here:<br class="">
<br class="">
<a href="https://github.com/fiji/IO/blob/master/src/main/java/sc/fiji/io/DM3_Reader.java" class="">https://github.com/fiji/IO/blob/master/src/main/java/sc/fiji/io/DM3_Reader.java</a><br class="">
<br class="">
I have not received any bug reports for a while, so it has not been updated since 22 Feb 2013. I believe this plugin may have slightly different support for a few unusual DM3 image types (e.g. EELS spectra?) compared with the bioformats reader. As mentioned
earlier it does not support the DM4 format – and it is rather unlikely that I will spend time to support this given the existence of bioformats.<br class="">
<br class="">
Best wishes,<br class="">
<br class="">
Greg.<br class="">
<br class="">
--<br class="">
Gregory Jefferis, PhD Tel: +44 1223 267048<br class="">
Division of Neurobiology<br class="">
MRC Laboratory of Molecular Biology<br class="">
Francis Crick Avenue<br class="">
Cambridge Biomedical Campus<br class="">
Cambridge, CB2 OQH, UK<br class="">
<br class="">
http://www2.mrc-lmb.cam.ac.uk/group-leaders/h-to-m/g-jefferis<br class="">
http://jefferislab.org<br class="">
http://www.zoo.cam.ac.uk/departments/connectomics<br class="">
_______________________________________________<br class="">
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ome-users@lists.openmicroscopy.org.uk<br class="">
http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users<br class="">
</blockquote>
<br class="">
<br class="">
The University of Dundee is a registered Scottish Charity, No: SC015096<br class="">
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http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users<br class="">
</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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