<html><head><meta http-equiv="Content-Type" content="text/html charset=windows-1252"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">Splendid! Thanks Doug.<div><br></div><div><br><div><div>On 31 Jul 2015, at 14:23, Doug Richardson <<a href="mailto:ds.richardson@gmail.com">ds.richardson@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><meta http-equiv="content-type" content="text/html; charset=utf-8"><div dir="auto"><div>Hi Alexandre,</div><div><br></div><div>If you update to ZEN2 it has much improved support for tif or bigtif export (both recognized by Fiji/Bioformats). Although it takes a very long time to open the largest files. During export we subset by scene and channel and this makes things manageable.</div><div><br></div><div>If you don't have ZEN2 you can get the somewhat clunkier stand alone czi to tif converter. Linked from here on our website: <a href="http://hcbi.fas.harvard.edu/resources_software">http://hcbi.fas.harvard.edu/resources_software</a></div><div><br></div><div>Zeiss should also be able to help you with this.</div><div><br></div><div>Doug</div><div><br></div><div><br><br>Sent from my iPhone</div><div><br>On Jul 31, 2015, at 8:08 AM, Alexandre Dufour <<a href="mailto:adufour@pasteur.fr">adufour@pasteur.fr</a>> wrote:<br><br></div><blockquote type="cite"><meta http-equiv="Content-Type" content="text/html charset=windows-1252">Thanks for the prompt reply Josh.<div><br></div><div>Just for my information: since it appears this isn’t going to be done anytime soon, and we do have a lot of users no this new machine, what alternative solution should I lean towards (in other words, what should I tell them)?</div><div><br></div><div>Cheers</div><div>Alexandre<br><div><br></div><div><br><div><div><div>On 31 Jul 2015, at 14:06, Josh Moore <<a href="mailto:josh@glencoesoftware.com">josh@glencoesoftware.com</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div style="font-size: 16px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;">On Fri, Jul 31, 2015 at 1:44 PM, Alexandre Dufour <<a href="mailto:adufour@pasteur.fr">adufour@pasteur.fr</a>> wrote:<br><blockquote type="cite">Hi everyone,<br></blockquote><br>Hi Alexandre,<br><br><br><blockquote type="cite">I was trying to fiddle with a CZI file that has JPEG-XR compression, alas it<br>won’t open via the latest Bio-Formats (official or nightly), with the<br>following error:<br><br>loci.formats.UnsupportedCompressionException: JPEG-XR not yet supported<br><br>After digging through some archives, I found:<br>- this ticket: <a href="https://trac.openmicroscopy.org/ome/ticket/8493">https://trac.openmicroscopy.org/ome/ticket/8493</a><br>- this PR: <a href="https://github.com/openmicroscopy/bioformats/pull/1014">https://github.com/openmicroscopy/bioformats/pull/1014</a><br>which suggests that the issue had been fixed over a year ago, hence my<br>surprise.<br></blockquote><br>Sorry for the surprise. We did indeed start the work on a JPEG-XR<br>codec but realized that we weren't going to be able to complete it and<br>achieve our other goals. The PR you reference (8493) added as the<br>title says the "initial structure" for the package, but the critical<br>methods are not yet implemented. Similarly, all the JPEG-XR tickets<br>(8493 and the 12 associated tasks) were all closed: "needsfunding"<br>about 3 months ago:<br><br> Resolution set to needfunding<br> Status changed from accepted to closed<br><br>We're certainly also interested in seeing this supported, but at the<br>moment, no work is ongoing.<br><br>All the best,<br>~Josh<br><br><br><br><blockquote type="cite">I have such a sample with me if you are interested (FTP access preferred).<br><br>Cheers<br>Alexandre<br><br>—<br>Alexandre Dufour, PhD<br><br>Senior Research Fellow @ Biological Image Analysis group<br>Institut Pasteur, Dpt. of Cell Biology & Infection, Paris campus (France)<br>CNRS UMR 3691 “Pathological and Physiological Cell Dynamics”<br><br>Meet Icy, the next-generation Bioimage Informatics platform<br></blockquote>_______________________________________________<br>ome-users mailing list<br><a href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a><br><a href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a></div></blockquote></div><br></div></div></div></blockquote><blockquote type="cite"><span>_______________________________________________</span><br><span>ome-users mailing list</span><br><span><a href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a></span><br><span><a href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a></span><br></blockquote></div>_______________________________________________<br>ome-users mailing list<br><a href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a><br>http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users<br></blockquote></div><br></div></body></html>