[ome-users] Channel colours

[Josh Moore]

On Nov 7, 2013, at 10:46 AM, Paul Thomas (BIO) wrote:

> Josh,
> 
> Many thanks for the quick bug-fix.

Lest there be any confusion: I meant both of you were CC'd on the ticket. I'm not nearly good enough to have a bug fix that quick! Sorry for being unclear.

~Josh.

> Paul
> ____________________
> Dr. Paul Thomas, Director,
> The Henry Wellcome Laboratory for Cell Imaging,
> School of Biological Sciences,
> University of East Anglia,
> Norwich Research Park,
> Norwich,
> NR4 7TJ,
> United Kingdom.
> 
> e-mail: p.thomas at uea.ac.uk
> Tel: +44-1603-592196
> Fax: +44-1603-592250
> Imaging web-site: http://www.uea.ac.uk/biological-sciences/research/facilities/henry-wellcome-lab
> Personal web-page: http://biobis.bio.uea.ac.uk/biosql/fac_show.aspx?ID=548
> 
> 
>> -----Original Message-----
>> From: Josh Moore [mailto:josh at glencoesoftware.com]
>> Sent: 07 November 2013 09:07
>> To: Paul Thomas (BIO)
>> Cc: melissa at glencoesoftware.com; ome-users at lists.openmicroscopy.org.uk;
>> Wouter Hendrickx (MED)
>> Subject: Re: [ome-users] Channel colours
>> 
>> 
>> On Nov 7, 2013, at 10:01 AM, Paul Thomas (BIO) wrote:
>> 
>>> Dear Melissa,
>> 
>> Paul,
>> 
>>> Thank you for looking into this problem. Yes, please could you let us
>> know any progress on resolution of the bug? Please could you also add
>> my colleague (Wouter Hendrickx - cced in this message) to the ome-users
>> list?
>> 
>> Done and Done
>> 
>> Regards,
>> ~Josh
>> 
>>> Best wishes,
>>> Paul.
>>> ____________________
>>> Dr. Paul Thomas, Director,
>>> The Henry Wellcome Laboratory for Cell Imaging, School of Biological
>>> Sciences, University of East Anglia, Norwich Research Park, Norwich,
>>> NR4 7TJ,
>>> United Kingdom.
>>> 
>>> e-mail: p.thomas at uea.ac.uk
>>> Tel: +44-1603-592196
>>> Fax: +44-1603-592250
>>> Imaging web-site:
>>> http://www.uea.ac.uk/biological-sciences/research/facilities/henry-
>> wel
>>> lcome-lab Personal web-page:
>>> http://biobis.bio.uea.ac.uk/biosql/fac_show.aspx?ID=548
>>> 
>>>> -----Original Message-----
>>>> From: Melissa Linkert [mailto:melissa.linkert at gmail.com] On Behalf
>> Of
>>>> Melissa Linkert
>>>> Sent: 07 November 2013 01:18
>>>> To: Paul Thomas (BIO)
>>>> Cc: ome-users at lists.openmicroscopy.org.uk
>>>> Subject: Re: [ome-users] Channel colours
>>>> 
>>>> Hi Paul,
>>>> 
>>>>> I'm having an issue retaining my colour setting in my ome-tiffs
>>>>> 
>>>>> Images are acquired with axiovision 3 channels blue , red , green.
>>>> Opened in Fiji with bioformats as separate images so I can use the
>>>> image calculator and remove background, then I create a stack from
>>>> the
>>>> 3 open images blue red and green, and convert the stack to a
>>>> hyperstack using 3 channels without any z stack or t settings.
>>>> Finally I export to ome-tiff using bioformats. If I then close the
>>>> image and reopen, the colours are lost and all channels are red.
>>>> 
>>>> Thank you very much for the bug report.  I can reproduce the
>> problem,
>>>> and have filed a ticket to fix it on our issue tracking system:
>>>> 
>>>> http://trac.openmicroscopy.org.uk/ome/ticket/11658
>>>> 
>>>> If you would like to be automatically notified of updates to that
>>>> ticket, please let me know and I'll CC you.
>>>> 
>>>> Regards,
>>>> -Melissa
>>>> 
>>>> On Mon, Nov 04, 2013 at 04:43:04PM +0000, Paul Thomas (BIO) wrote:
>>>>> Dear  all
>>>>> 
>>>>> I'm having an issue retaining my colour setting in my ome-tiffs
>>>>> 
>>>>> Images are acquired with axiovision 3 channels blue , red , green.
>>>> Opened in Fiji with bioformats as separate images so I can use the
>>>> image calculator and remove background, then I create a stack from
>>>> the
>>>> 3 open images blue red and green, and convert the stack to a
>>>> hyperstack using 3 channels without any z stack or t settings.
>>>> Finally I export to ome-tiff using bioformats. If I then close the
>>>> image and reopen, the colours are lost and all channels are red.
>>>>> 
>>>>> Many thanks,
>>>>> 
>>>>> Paul.
>>>>> 
>>>>> ____________________
>>>>> Dr. Paul Thomas, Director,
>>>>> The Henry Wellcome Laboratory for Cell Imaging, School of
>> Biological
>>>>> Sciences, University of East Anglia, Norwich Research Park,
>> Norwich,
>>>>> NR4 7TJ,
>>>>> United Kingdom.
>>>>> 
>>>>> e-mail: p.thomas at uea.ac.uk
>>>>> Tel: +44-1603-592196
>>>>> Fax: +44-1603-592250
>>>>> Imaging web-site:
>>>>> http://www.uea.ac.uk/biological-sciences/research/facilities/henry-
>>>> wel
>>>>> lcome-lab Personal web-page:
>>>>> http://biobis.bio.uea.ac.uk/biosql/fac_show.aspx?ID=548
>>>>> 
>>>> 
>>>>> _______________________________________________
>>>>> ome-users mailing list
>>>>> ome-users at lists.openmicroscopy.org.uk
>>>>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>> 
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>