Remove serialem code and revise context determination#632

Merged

stephen-riggs merged 12 commits intomainfrom

Jul 18, 2025

Commits on Jul 17, 2025

Moved CLEM context determination logic to the start of the '_find_context' function, as it conflicts with some of the metadata determindation logic for SPA and Tomo
tieneupin
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Simplified the conditions for determining the context for CLEM TIFF files; the loading of the 'analyse_created_directories' key should not be needed
tieneupin
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Added examples of files from the CLEM workflow that are used to determine the context
tieneupin
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Removed the need for an instance environment when determining the context of CLEM files; removed the corresponding mocks in the test
tieneupin
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Added example CLEM workflow files that cannot be used to determine context, and more files that can
tieneupin
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Resolved merge conflicts with 'main' branch
tieneupin
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Commits on Jul 18, 2025