[ome-devel] Opera Flex file lattest changes

[Balaji Ramalingam]

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

The University of Dundee is a registered Scottish Charity, No: SC015096
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