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Tissue et al. information lost when mr.get_mibi_image(image_id) #36

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YubinXie opened this issue May 31, 2019 · 1 comment
Open

Tissue et al. information lost when mr.get_mibi_image(image_id) #36

YubinXie opened this issue May 31, 2019 · 1 comment

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@YubinXie
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YubinXie commented May 31, 2019

As shown below, when searching in the API, the tissue information is there. However, if we use mr.get_mibi_image(image_id), the tissue information is missing from metadata. Same for slides et al. information.

11ABAD37-5B75-4F46-B2C2-DB4A78216250

9407794F-3E3C-42E8-AF50-9F28ED149010

@rfinck
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rfinck commented May 31, 2019

Thanks @YubinXie for posting this! This is expected behavior (at present) because the image metadata gets written upon TIFF creation, and we need to add better MIBItracker integration to insert that information into the file. This is on our roadmap; in the mean time, you are correct that the information is available from the API (mr.get('/images/229/') in your example), so you can add it to the MibiImage you are working with (im.slide = <xx>).

I will leave this issue open so that we can update on progress of getting the data added as part of upload.

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