<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Kim,<div><br></div><div> Currently, our strategy for setting colours is based on wavelength metadata for each channel.</div><div>This kinda works in many cases, but there are always edge cases where it fails. </div><div>I forget the cut-offs at the moment, but it's possible that any excitation wavelength of 500 or below is blue. </div><div>We have attempted to update the cut-offs etc several times, and always find that some file renders incorrectly.</div><div>Yours are 484 and 500nm.</div><div><br></div><div>We are attempting to address this problem for file formats that explicitly specify colours in their metadata:</div><div><a href="http://trac.openmicroscopy.org.uk/ome/ticket/3651">http://trac.openmicroscopy.org.uk/ome/ticket/3651</a></div><div>This includes LIF, LEI & LSM files. </div><div><br></div><div>You might be interested in a script, submitted to us by Pierre Pouchin, that does this same job after import, based on the Original Metadata:</div><div><a href="http://www.openmicroscopy.org/community/viewtopic.php?f=16&t=920">http://www.openmicroscopy.org/community/viewtopic.php?f=16&t=920</a></div><div><br></div><div> Cheers,</div><div><br></div><div> Will.</div><div><br></div><div><br></div><div><div><div>On 25 Nov 2011, at 00:46, Kim Linton wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi There,<br><br>I've provided a link to a lif file that has the 2 channels. One should be a grey and the other should be green. When I loaded it into OMERO it is not bringing the pre-set colours across - it defaults to blue. Is this normal functionality or an issue?<br>
<br>The file can be located on Cloudstor - <a href="https://cloudstor.aarnet.edu.au/filesender/?vid=9B547F3D-666B-0B81-1B09-D82F8FF24253" target="_blank">https://cloudstor.aarnet.edu.au/filesender/?vid=9B547F3D-666B-0B81-1B09-D82F8FF24253</a>.<br>
<br>Cheers,<br><br>Kim<br clear="all"><br>-- <br><span style="font-family:arial,sans-serif;font-size:medium"><table style="padding-top:0px;padding-right:0px;padding-bottom:0px;padding-left:0px;border-collapse:collapse;background-color:rgb(255,255,255);width:832px;background-repeat:initial initial" cellpadding="0">
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<div><div><div><div><div style="font-size:13px;margin-top:5px;margin-right:15px;margin-bottom:5px;margin-left:15px;padding-bottom:20px"><div style="color:rgb(0,0,0)"><div><font color="#888888">Kim Linton<br>Senior Research Systems Facilitator<br>
Monash e-Research Centre<br>Building 75<br>Monash University<br>Clayton Victoria 3800, Australia<br>Ph: <a value="+61399058681" style="color:rgb(0,0,204)">+61 3 99020712</a><br>Fax: <a value="+61399020193" style="color:rgb(0,0,204)">+61 3 9902-0193</a><br>
Email: <a href="mailto:kim.linton@monash.edu" style="color:rgb(0,0,204)" target="_blank">kim.linton@monash.edu</a><br>Web: <a href="http://www.monash.edu.au/eresearch" style="color:rgb(0,0,204)" target="_blank">http://www.monash.edu.au/eresearch</a></font></div>
</div><div><font color="#999999">Part time: Mon, Tues, Thurs & Fri</font></div></div></div></div></div></div></div></div></div></div></div></div></div></td></tr></tbody></table></span><div><font color="#888888" face="arial, sans-serif"><span style="border-collapse:collapse"><br>
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