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Bio-Formats: Support for OCT Devices

Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats
Please note:
Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats

If you are having trouble with image files, there is information about reporting bugs in the Bio-Formats documentation. Please send us the data and let us know what version of Bio-Formats you are using. For issues with your code, please provide a link to a public repository, ideally GitHub.

Bio-Formats: Support for OCT Devices

Postby schlto » Thu Apr 27, 2017 12:24 pm

Hi everybody!

Me and a group of researchers are currently working with different Optical Coherence Tomography (OCT) formats for retinal imaging and analysis. Those formats include a wide range of mostly undocumented interfaces for manufacturers like Eyetec, Heidelberg, Nidek and Topcon.

The reason I'm writing you is because our project is entirely written in C++ and therefore most likely not compatible with the Java implementation of Bio-Formats. Could you make use those formats if we translated our project into Java, or is there an alternative way*?

For further informations just ask me or have a look at our repo and short wiki, https://bitbucket.org/uocte/uocte/wiki/Home.


Thank you for your time!
Tobias
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Re: Bio-Formats: Support for OCT Devices

Postby sbesson » Fri Apr 28, 2017 11:47 am

Hi Tobias

The reason I'm writing you is because our project is entirely written in C++ and therefore most likely not compatible with the Java implementation of Bio-Formats. Could you make use those formats if we translated our project into Java, or is there an alternative way*?


We had a couple of questions/request about the support of OCT formats like the Heidelberg file format. In the general sense, we are always interested by the community expertise for new file formats and modalities. It would be really good to discuss how to make efforts converge and integrate contributions.

On the technical front, it would be interesting clarifying what translating into Java would mean. From our experience, there are two options to add such support:


For further informations just ask me or have a look at our repo and short wiki, https://bitbucket.org/uocte/uocte/wiki/Home.


Thanks for making this information publicly available and we should definitely keep the back and forth using public threads like this one.

Best,
Sebastien
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