<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;" class="">
Hi Both
<div class=""><br class="">
</div>
<div class="">I just created <a href="https://github.com/flimfit/FLIMfit/issues/296" class="">https://github.com/flimfit/FLIMfit/issues/296</a> as a reminder.</div>
<div class=""><br class="">
</div>
<div class="">Best Wishes</div>
<div class=""><br class="">
</div>
<div class="">Ian</div>
<div class=""><br class="">
</div>
<div class=""><br class="">
<div>
<blockquote type="cite" class="">
<div class="">On 23 Mar 2017, at 00:10, Sean Warren <<a href="mailto:s.warren@garvan.org.au" class="">s.warren@garvan.org.au</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">Hi Romain,<br class="">
<br class="">
Thanks for the feedback. This is something I've discussed with others before.<br class="">
I am happy to change the default behaviour here, unless any other users are relying on this?<br class="">
<br class="">
Thanks<br class="">
Sean<br class="">
________________________________<br class="">
<br class="">
Dr. Sean Warren | Research Officer<br class="">
Invasion and Metastasis<br class="">
Cancer Division<br class="">
Garvan Institute of Medical Research<br class="">
The Kinghorn Cancer Centre, 370 Victoria Street, Darlinghurst, NSW 2010<br class="">
<br class="">
T: + 61 (0)2 9355 5852 I E: <a href="mailto:s.warren@garvan.org.au" class="">s.warren@garvan.org.au</a><br class="">
<br class="">
<a href="http://www.garvan.org.au/research/cancer/invasion-and-metastasis" class="">http://www.garvan.org.au/research/cancer/invasion-and-metastasis</a><br class="">
<br class="">
________________________________________<br class="">
From: FLIMfit-users [flimfit-users-bounces@lists.openmicroscopy.org.uk] on behalf of R.F. Laine via FLIMfit-users [flimfit-users@lists.openmicroscopy.org.uk]<br class="">
Sent: Thursday, 23 March 2017 03:09<br class="">
To: Munro, Ian<br class="">
Cc: flimfit-users@lists.openmicroscopy.org.uk<br class="">
Subject: Re: [FLIMfit-users] Segmentation problems on FLIMfit on macOS Sierra<br class="">
<br class="">
Hi Ian,<br class="">
Thanks for your quick reply.<br class="">
I actually went back to the data to understand the problem better and<br class="">
realised it is also a problem on the PC version (therefore not OS<br class="">
related). This seems to be to do with the fact that only the image on<br class="">
which a segmentation has been performed have a non-zero segmentation<br class="">
image when OK-ing the Segmentation manager window. I think the problem<br class="">
then stems down to the default behaviour of a non-segmented image (all 0<br class="">
or all 1). It is currently set to define an empty segmentation image for<br class="">
non-segmented image.<br class="">
<br class="">
This can be circumvented by selecting the whole image as the<br class="">
segmentation image for these. But it would make more sense to me if it<br class="">
was the opposite (non-segmented image are fully kept), as this would be<br class="">
more easily compatible with the intensity threshold.<br class="">
<br class="">
Sorry for posting a problem without fully exploring it before.<br class="">
This should be taken as a suggestion of improvement rather than bug<br class="">
report then !<br class="">
<br class="">
Cheers,<br class="">
<br class="">
Romain<br class="">
<br class="">
<br class="">
On 2017-03-22 15:50, Munro, Ian via FLIMfit-users wrote:<br class="">
<blockquote type="cite" class="">Thanks for reporting that Romain.<br class="">
I’ll have a look and get back to you as soon as I can.<br class="">
<br class="">
Ian<br class="">
<br class="">
<br class="">
<blockquote type="cite" class="">On 22 Mar 2017, at 11:45, R.F. Laine via FLIMfit-users<br class="">
<flimfit-users@lists.openmicroscopy.org.uk> wrote:<br class="">
<br class="">
Dear all,<br class="">
One of our collaborators is using FLIMfit to analyse some of our FLIM<br class="">
data. However, there seems to be an issue with the segmentation<br class="">
manager on the mac version that I do not have on my PC.<br class="">
<br class="">
Please see below the description of the issue:<br class="">
<br class="">
Machine: macOS Sierra 10.12.3, FLIMfit 4.12.1<br class="">
Description: When using the segmentation manager when multiple images<br class="">
are loaded, if one image is manually segmented, the other images<br class="">
subsequently appear black and can therefore not be analysed. This can<br class="">
only be resolved when the manual segmentation is deleted. As such, it<br class="">
is not possible to analyse multiple images when one image of the<br class="">
series has to be manually segmented. This happens with every dataset<br class="">
that I load.<br class="">
<br class="">
Has anyone observed/solved this?<br class="">
<br class="">
Many thanks !<br class="">
<br class="">
Romain<br class="">
<br class="">
--<br class="">
Dr. Romain Laine, PhD in Biophotonics<br class="">
Laser Analytics Group<br class="">
Department of Chemical Engineering and Biotechnology<br class="">
University of Cambridge<br class="">
West Cambridge Site<br class="">
Philippa Fawcett Drive<br class="">
Cambridge<br class="">
CB3 0AS<br class="">
_______________________________________________<br class="">
FLIMfit-users mailing list<br class="">
FLIMfit-users@lists.openmicroscopy.org.uk<br class="">
http://lists.openmicroscopy.org.uk/mailman/listinfo/flimfit-users<br class="">
</blockquote>
<br class="">
_______________________________________________<br class="">
FLIMfit-users mailing list<br class="">
FLIMfit-users@lists.openmicroscopy.org.uk<br class="">
http://lists.openmicroscopy.org.uk/mailman/listinfo/flimfit-users<br class="">
</blockquote>
<br class="">
--<br class="">
Dr. Romain Laine, PhD in Biophotonics<br class="">
Laser Analytics Group<br class="">
Department of Chemical Engineering and Biotechnology<br class="">
University of Cambridge<br class="">
West Cambridge Site<br class="">
Philippa Fawcett Drive<br class="">
Cambridge<br class="">
CB3 0AS<br class="">
_______________________________________________<br class="">
FLIMfit-users mailing list<br class="">
FLIMfit-users@lists.openmicroscopy.org.uk<br class="">
http://lists.openmicroscopy.org.uk/mailman/listinfo/flimfit-users<br class="">
NOTICE<br class="">
Please consider the environment before printing this email. This message and any attachments are intended for the addressee named and may contain legally privileged/confidential/copyright information. If you are not the intended recipient, you should not read,
use, disclose, copy or distribute this communication. If you have received this message in error please notify us at once by return email and then delete both messages. We accept no liability for the distribution of viruses or similar in electronic communications.
This notice should not be removed.<br class="">
</div>
</div>
</blockquote>
</div>
<br class="">
</div>
</body>
</html>