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czbiohub-sf / shrimPy

shrimPy: Smart High-throughput Robust Imaging & Measurement in Python
BSD 3-Clause "New" or "Revised" License
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IPC diagram #43

Open ziw-liu opened 1 year ago

ziw-liu commented 1 year ago

I made this mermaid diagram (click the copy button or 'edit' on this message for source code) to explain how information flows between softwares in future mantis acquisitions:

sequenceDiagram
    %% this section is for defining sequence, the diagram will still render without these
    participant Micro-Manager
    participant mantis
    participant recOrder
    participant ONNX
    loop every FOV
        mantis->>Micro-Manager: hardware event queue
        Micro-Manager->>mantis: raw BF
        mantis->>recOrder: BF and metadata
        Note over recOrder: waveorder reconstruction algorithms
        recOrder->>mantis: reconstructed phase
        mantis->>ONNX: reconstructed phase
        Note over ONNX: run microDL model
        ONNX->>mantis: nuclei prediction
        Note over mantis: FOV scoring
    end
    mantis->>Micro-Manager: new hardware event queue

This text-based approach can be versioned and is potentially useful for documenting the inter-thread/process communication architecture in this project. E.g. for #27.

mattersoflight commented 1 year ago

nice!