Software_Overview

flowchart TD
        A(["INSTINCT .csv results file, e.g. (Q:\ANALYSIS\+INSTINCT results\Bearded\Final_INSTINCT_runs_toTransfertoSC\Manolo_Castellote\manolo_full_datasets_year2\full_ds_w_maybes.csv"])
        A --> B["Run Instinct2SC_v2r6; point to INSTINCT results file, location to put exported pngResults (e.g., Q:\ANALYSIS\+Kotz\PngResultsforALL_08Jul2025), and where NAS waves are"]
        B --> C{"New INSTINCT png reslts now in PngResultsforALL_date file"}
        C -->|"SC to compare?"| D["Run INSTINCT2SCcompare_v6r2.m"]
    C -->|"Collate to get Pngresltsforall?"| E["convert2bin_v5r3"]
    C -->|"Collate for extracting bins/pngs?"| F["convert2bin_v5r7"]
    F -->|"Run for bins to plot in R/Matlab?"| G["extractBins_v1r2"]
    F -->|"Run for pngs to box/review in Raven?"| H["extractPngs_v1r3"]
    G -->|"Make plots"| I["plotLT_all_v7r2"]
    G -->|"Make plots"| J["boxwhisk..."]
    E -->|"Make Plots"| K["plotLT_all_v6r9"]
    

flowchart TD
        A(["raw files on AURAL M2 drive"])
        A --> B["Copy to external drive - folder with Mooring Deployment Name"]
        B --> F["Copy to A drive back in Seattle"]
        A --> B[" Label external drive with Mooring Deployment name"]
        B --> C{"Run InfoWav on copied files"}
        C --> D["Rename Bilan to bilan_moorDeployName"]
        C --> E["Run AuralRename_v2"]
    C -->|"Collate to get Pngresltsforall?"| E["convert2bin_v5r3"]
    C -->|"Collate for extracting bins/pngs?"| F["convert2bin_v5r7"]
    F -->|"Run for bins to plot in R/Matlab?"| G["extractBins_v1r2"]
    F -->|"Run for pngs to box/review in Raven?"| H["extractPngs_v1r3"]
    G -->|"Make plots"| I["plotLT_all_v7r2"]
    G -->|"Make plots"| J["boxwhisk..."]
    E -->|"Make Plots"| K["plotLT_all_v6r9"]