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<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">Hi
Konrad,</span></div>
<br class="">
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">As
you probably saw in the release announcement [1], a large portion of the Bio-Formats 6.1.0 work was targeted towards the integration of the library into OMERO 5.5 due in the upcoming week as well as adding support for the BigDataViewer format. Several in-progress
fixes, including the one you raised a few months ago, were not ready for inclusion.</span></div>
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class=""><br class="">
</span><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">With the 6.1.0 release behind us, our priority
for the next few weeks is to focus on the backlog of open contributions, integrating everything that passes our QA process as patch releases. The NDPI fix is still blocked on making it backwards compatible with all our Hamamatsu NDPI samples but we expect
a resolution soon. As before, you can follow the work at <a href="https://github.com/openmicroscopy/bioformats/pull/3248" class="">
https://github.com/openmicroscopy/bioformats/pull/3248</a>.</span></div>
<br class="">
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">We
understand your frustration with this process. In OME, it’s always true we have a large and growing backlog, especially in supporting proprietary file formats. Hamamatsu NDPI is an important file format, and has many users. Our overarching view on proprietary
file formats (PFFs) from commercial vendors is published [2]. We are always interested in working with these partners to ensure long-term, durable support for PFFs in Bio-Formats. </span></div>
<br class="">
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">Best,</span></div>
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">Sebastien</span></div>
<br class="">
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">[1]
</span><a href="https://www.openmicroscopy.org/2019/05/20/bio-formats-6-1-0.html" style="text-decoration:none;" class=""><span style="font-size: 11pt; font-family: Arial; color: rgb(17, 85, 204); font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; text-decoration: underline; -webkit-text-decoration-skip: none; vertical-align: baseline; white-space: pre-wrap;" class="">https://www.openmicroscopy.org/2019/05/20/bio-formats-6-1-0.html</span></a></div>
<div style="line-height: 1.38; margin-top: 0pt; margin-bottom: 0pt;" class=""><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">[2]
</span><a href="http://blog.openmicroscopy.org/file-formats/community/2016/08/31/bf-partnerships/" style="text-decoration:none;" class=""><span style="font-size: 11pt; font-family: Arial; color: rgb(17, 85, 204); font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; text-decoration: underline; -webkit-text-decoration-skip: none; vertical-align: baseline; white-space: pre-wrap;" class="">http://blog.openmicroscopy.org/file-formats/community/2016/08/31/bf-partnerships/</span></a><span style="font-size: 11pt; font-family: Arial; font-variant-ligatures: normal; font-variant-east-asian: normal; font-variant-position: normal; vertical-align: baseline; white-space: pre-wrap;" class="">
</span></div>
<div><br class="">
<blockquote type="cite" class="">
<div class="">On 23 May 2019, at 20:33, Kölble, Konrad <<a href="mailto:Konrad.Koelble@uk-erlangen.de" class="">Konrad.Koelble@uk-erlangen.de</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">Hi All,<br class="">
does 6.1.0 fix the NDPI issue noticed last October?<br class="">
<br class="">
Cheers<br class="">
Konrad<br class="">
<br class="">
Von: ome-users [<a href="mailto:ome-users-bounces@lists.openmicroscopy.org.uk" class="">ome-users-bounces@lists.openmicroscopy.org.uk</a>]" im Auftrag von "David Gault (Staff) [<a href="mailto:d.gault@dundee.ac.uk" class="">d.gault@dundee.ac.uk</a>]<br class="">
Gesendet: Montag, 20. Mai 2019 17:02<br class="">
An: <a href="mailto:ome-users@lists.openmicroscopy.org.uk" class="">ome-users@lists.openmicroscopy.org.uk</a><br class="">
Betreff: [ome-users] Release of Bio-Formats 6.1.0<br class="">
<br class="">
Dear all,<br class="">
Today we are releasing Bio-Formats 6.1.0. This latest release contains the completion of Phase I of OME’s work on improved support for binary vessels. In addition to the KLB format we supported in version 6.0, we have now added a BigDataViewer reader...<br class="">
<br class="">
We’ve also worked to improve the integration of Bio-Formats 6.1 into OMERO 5.5 (to be released Summer 2019). Finally, we’ve also reviewed and updated many of Bio-Formats dependencies to align them with the Fiji ecosystem...<br class="">
File format fixes and improvements:<br class="">
...<br class="">
removed header key from original metadata<br class="">
Hamamatsu VMS<br class="">
...<br class="">
<blockquote type="cite" class="">________________________________________<br class="">
Von: ome-users [<a href="mailto:ome-users-bounces@lists.openmicroscopy.org.uk" class="">ome-users-bounces@lists.openmicroscopy.org.uk</a>]" im Auftrag von "David Gault (Staff) [<a href="mailto:d.gault@dundee.ac.uk" class="">d.gault@dundee.ac.uk</a>]<br class="">
Gesendet: Mittwoch, 17. Oktober 2018 12:06<br class="">
An: OME User Support List<br class="">
Betreff: Re: [ome-users] Insight uploaded BF *.ndpi fails to render in<br class="">
<br class="">
Hi Konrad,<br class="">
<br class="">
Thank you for reporting this bug and providing a sample file to test.<br class="">
I was able to reproduce the issue and it was being caused by a bug in the Bio-Formats reader.<br class="">
I have opened a PR to fix the issue which will be reviewed and tested for inclusion in a future release:
<a href="https://github.com/openmicroscopy/bioformats/pull/3248" class="">https://github.com/openmicroscopy/bioformats/pull/3248</a><br class="">
<br class="">
With Thanks,<br class="">
David Gault<br class="">
<br class="">
<blockquote type="cite" class="">On 16 Oct 2018, at 12:53, Kölble, Konrad <<a href="mailto:Konrad.Koelble@uk-erlangen.de" class="">Konrad.Koelble@uk-erlangen.de</a>> wrote:<br class="">
<br class="">
Hi,<br class="">
recently about 10% of our brightfield *.ndpi uploads using OMERO.insight-5.4.1-ice36-b75-win<br class="">
fail to render in OMERO.web 5.4.6-ice36-b87. You'll find a 2.6GB<br class="">
06-T05322_1A_HEc.ndpi<br class="">
as an example of such a fail2show under <a href="https://volafile.org/r/pmbwqedm" class="">
https://volafile.org/r/pmbwqedm</a><br class="">
<br class="">
Cheers<br class="">
Konrad<br class="">
</blockquote>
</blockquote>
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</blockquote>
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