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Add test case: Save image according to ome-ngff standards #73
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Hi @ClementCaporal , awesome idea! We already have a test case for loading zarr files: https://github.com/haesleinhuepf/human-eval-bia/blob/7e9712670168b71bea44e17e7389dfc120dcc96e/test_cases/open_zarr.ipynb Do you think you could formulate a similar task for saving ngff files? Thanks for the suggestion! |
Hello, Sorry for the delay, I am discovering how frustrating it can be to create a good prompt for a "simple" task. Meanwhile I did this notebook that just check if it is able to save a zarr file: https://gist.github.com/ClementCaporal/02a9401877c2b8b49fe6edbca5816962 |
Hi @ClementCaporal , awesome, the test-case looks good to me! Consider sending a pull-request. You can also later add a more complicated test-case for zarr files. And please do not make any decisions on how to change the test case depending on how individual LLMs solve the test. Ideallly you write a test-case without promoting any LLM. Otherwise you would bias the test 😉 |
I don't know if this is a well-defined "biological image analysis code" task, but ensuring that images produced by LLM are saved in ome/ome-ngff format to be compatible with other scripts may be something important?
As the LLM might not have a lot of training with this format, describing it at the beginning inside the prompt might be necessary? So it can at least put the right dimension order
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