[ome-devel] Opera Flex file lattest changes

[Anatole Chessel]

Hi all

   On a related note, it seems that those new flex files are sometime 
loaded incorrectly. I reported it a while back 
(https://trac.openmicroscopy.org.uk/ome/ticket/11382 I think). I can 
confirm the issue is still present in 5.0.


Thanks
Anatole


On 19/03/2014 17:39, Balaji Ramalingam wrote:
> Hi,
>
> Here's more,
> All the API calls are documented in here,
> Please search for getWells*/getPlate*,
>
> http://downloads.openmicroscopy.org/bio-formats/5.0.0/api/ome/xml/meta/MetadataRetrieve.html
>
> That should give you all the options that are supported (and the 
> signatures as well).
> Once we get the files, I can suggest a small code snippet to extract 
> the details as requested.
>
> Best,
> Balaji
>
> From: Balaji Ramalingam <b.ramalingam at dundee.ac.uk 
> <mailto:b.ramalingam at dundee.ac.uk>>
> Date: Wednesday, 19 March 2014 15:24
> To: "Bonamy, Ghislain" <ghislain.bonamy at novartis.com 
> <mailto:ghislain.bonamy at novartis.com>>, 
> "ome-devel at lists.openmicroscopy.org.uk 
> <mailto:ome-devel at lists.openmicroscopy.org.uk>" 
> <ome-devel at lists.openmicroscopy.org.uk 
> <mailto:ome-devel at lists.openmicroscopy.org.uk>>
> Subject: Re: [ome-devel] Opera Flex file lattest changes
>
> Hi,
>
> The following page lists the supported metadata fields for the flex 
> format,
> http://www.openmicroscopy.org/site/support/bio-formats4/formats/evotecperkinelmer-opera-flex-metadata.html
>
> It would be great if you could upload a sample set (images from one or 
> two wells) to ,
> http://qa.openmicroscopy.org.uk/qa/upload/?
>
> This will allow us to check the files locally and suggest suitable API 
> calls.
>
> Best,
> Balaji
>
> From: <Bonamy>, Ghislain <ghislain.bonamy at novartis.com 
> <mailto:ghislain.bonamy at novartis.com>>
> Date: Monday, 17 March 2014 11:27
> To: "ome-devel at lists.openmicroscopy.org.uk 
> <mailto:ome-devel at lists.openmicroscopy.org.uk>" 
> <ome-devel at lists.openmicroscopy.org.uk 
> <mailto:ome-devel at lists.openmicroscopy.org.uk>>
> Subject: [ome-devel] Opera Flex file lattest changes
>
> Hi everyone,
>
> It has been a while since I last posted. I had a quick question, which 
> Melissa can probably answer. The flex file form changed slightly in 
> v2.0 of Evoshell. In particular the file structure. The microscope now 
> generates the files as 1 file per field (as opposed to one file per 
> image). As before the rest of the dimensions (ie. Z-stacks and 
> channels) are encoded into the same file.
>
> I was wondering how I could request the metadata for a full well in s 
> ingle call? In particular I would like to make our webservice that 
> retrieves the images compatible with the previous version with as 
> little changes as possible. If there was a way to do things like:
>
> 1)Get the number of fields for Well B01 (002001*)
>
> 2)Get the image slice for WellB01 Channel2, Z-stack
>
> That would be perfect.
>
> Thanks in advance for the help. Hopefully this is clear, otherwise I 
> can post more details.
>
> Best,
>
> Ghislain Bonamy, PhD
>
> __________________________________________
>
> Group Leader
>
> Novartis
>
> Institute for
>
> Tropical
>
> Diseases
>
>
> The University of Dundee is a registered Scottish Charity, No: SC015096
>
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> -- 
> Anatole Chessel, PhD
> Research associate
> University of Cambridge
> Tennis Court Road, Cambridge CB2 1PD
> tel: +44 (0)1223 334065
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