{
  "cells": [
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "\n# Cod egg\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "from opendrift.readers import reader_netCDF_CF_generic\nfrom opendrift.models.pelagicegg import PelagicEggDrift\nfrom datetime import datetime, timedelta\n\no = PelagicEggDrift(loglevel=20)  # Set loglevel to 0 for debug information\n\n# Forcing with Topaz ocean model and MEPS atmospheric model\no.add_readers_from_list([\n    'https://thredds.met.no/thredds/dodsC/cmems/topaz6/dataset-topaz6-arc-15min-3km-be.ncml',\n    'https://thredds.met.no/thredds/dodsC/mepslatest/meps_lagged_6_h_latest_2_5km_latest.nc'])"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "Adjusting some configuration\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "o.set_config('drift:vertical_mixing', True)\no.set_config('vertical_mixing:diffusivitymodel', 'windspeed_Sundby1983') # windspeed parameterization for eddy diffusivity"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "Vertical mixing requires fast time step\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "o.set_config('vertical_mixing:timestep', 60.) # seconds"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "spawn NEA cod eggs at defined position and time\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "time = datetime.utcnow()\no.seed_elements(14. , 68.1, z=-40, radius=2000, number=500,\n                time=time, diameter=0.0014, neutral_buoyancy_salinity=31.25)\no.seed_elements(12.5, 68., z=-40, radius=2000, number=500,\n                time=time, diameter=0.0014, neutral_buoyancy_salinity=31.25)\no.seed_elements(13.5, 68., z=-40, radius=2000, number=500,\n                time=time, diameter=0.0014, neutral_buoyancy_salinity=31.25)\no.seed_elements(13., 67.8, z=-40, radius=2000, number=500,\n                time=time, diameter=0.0014, neutral_buoyancy_salinity=31.25)"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "Running model\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "o.run(duration=timedelta(hours=48), time_step=3600)"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "Print and plot results.\nAt the end the wind vanishes, and eggs come to surface\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "print(o)\n\no.plot(fast=True)\no.animation(fast=True, color='z')"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "<img src=\"file://gallery/animations/example_codegg_0.gif\">\n\n"
      ]
    },
    {
      "cell_type": "code",
      "execution_count": null,
      "metadata": {
        "collapsed": false
      },
      "outputs": [],
      "source": [
        "o.animate_vertical_distribution()"
      ]
    },
    {
      "cell_type": "markdown",
      "metadata": {},
      "source": [
        "<img src=\"file://gallery/animations/example_codegg_1.gif\">\n\n"
      ]
    }
  ],
  "metadata": {
    "kernelspec": {
      "display_name": "Python 3",
      "language": "python",
      "name": "python3"
    },
    "language_info": {
      "codemirror_mode": {
        "name": "ipython",
        "version": 3
      },
      "file_extension": ".py",
      "mimetype": "text/x-python",
      "name": "python",
      "nbconvert_exporter": "python",
      "pygments_lexer": "ipython3",
      "version": "3.11.6"
    }
  },
  "nbformat": 4,
  "nbformat_minor": 0
}