osmose¶

OSMOSE Python - orchestration layer for the OSMOSE marine ecosystem simulator.

Modules

`analysis`	Ensemble statistics and ecological indicators for OSMOSE outputs.
`calibration`	OSMOSE calibration module — optimization, surrogate modelling, and sensitivity analysis.
`cleanup`	Temporary directory management for osmose-python.
`cli`	OSMOSE command-line interface.
`community_metrics`	Community-level ecosystem-state diagnostics from OSMOSE output.
`config`
`demo`	Demo scenario generation and config version migration.
`docs_content`	Read and parse the project's README/CHANGELOG for in-app rendering.
`engine`	Python OSMOSE simulation engine.
`engine_capabilities`	Pure, browser-free description of what each engine produces for a config.
`ensemble`	Ensemble replicate aggregation for OSMOSE simulation outputs.
`feedback`	Feedback store + token check (pure core — no web/UI imports).
`fishbase`	FishBase/SeaLifeBase trait bootstrap client.
`forcing`	Pure CMEMS->OSMOSE forcing conversion (grid-general, browser/MCP-free).
`grid`	Grid creation and spatial utilities for OSMOSE.
`history`	Run history tracking for OSMOSE simulations.
`java_background_staging`	Stage a background-species (`simulation.nbackground > 0`) config to run on the Java 4.4.1 jar.
`live_movement`	Live-during-run movement snapshots + queue transport (Python engine only).
`logging`	Centralized logging configuration for OSMOSE.
`maps`
`plotly_theme`	Canonical Plotly theme definitions for OSMOSE charts.
`plotting`	Pure chart functions for OSMOSE outputs — all return go.Figure.
`reporting`	Generate HTML reports from OSMOSE simulation results.
`results`	Read OSMOSE simulation output files.
`runner`	Manage OSMOSE Java engine execution.
`scenario_wizard`
`scenarios`	Scenario management for OSMOSE configurations.
`schema`
`size_spectrum`	Community size-spectrum diagnostics from OSMOSE `*DistribBySize` output.
`spatial_series`	Extract a single grid cell's value over time from a spatial NetCDF output.
`trophic_network`	Community trophic-network diagnostics from OSMOSE dietMatrix output.
`validation`	ICES validation harness for OSMOSE model outputs.