{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {
    "deletable": true,
    "editable": true
   },
   "source": [
    "# Live sample plots"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {
    "deletable": true,
    "editable": true
   },
   "source": [
    "This notebook illustrates how we can have live sample plots when calling the `sample` function with `live_plot=True`. It is based on the \"Coal mining disasters\" case study in the [Getting started notebook](https://github.com/pymc-devs/pymc3/blob/master/docs/source/notebooks/getting_started.ipynb)."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "deletable": true,
    "editable": true
   },
   "outputs": [],
   "source": [
    "import numpy as np\n",
    "from pymc3 import Model, Exponential, DiscreteUniform, Poisson, sample\n",
    "from pymc3.math import switch\n",
    "\n",
    "%matplotlib notebook"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "deletable": true,
    "editable": true
   },
   "outputs": [],
   "source": [
    "disaster_data = np.ma.masked_values([4, 5, 4, 0, 1, 4, 3, 4, 0, 6, 3, 3, 4, 0, 2, 6,\n",
    "                            3, 3, 5, 4, 5, 3, 1, 4, 4, 1, 5, 5, 3, 4, 2, 5,\n",
    "                            2, 2, 3, 4, 2, 1, 3, -999, 2, 1, 1, 1, 1, 3, 0, 0,\n",
    "                            1, 0, 1, 1, 0, 0, 3, 1, 0, 3, 2, 2, 0, 1, 1, 1,\n",
    "                            0, 1, 0, 1, 0, 0, 0, 2, 1, 0, 0, 0, 1, 1, 0, 2,\n",
    "                            3, 3, 1, -999, 2, 1, 1, 1, 1, 2, 4, 2, 0, 0, 1, 4,\n",
    "                            0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 1], value=-999)\n",
    "year = np.arange(1851, 1962)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "deletable": true,
    "editable": true
   },
   "outputs": [],
   "source": [
    "with Model() as disaster_model:\n",
    "\n",
    "    switchpoint = DiscreteUniform('switchpoint', lower=year.min(), upper=year.max(), testval=1900)\n",
    "\n",
    "    # Priors for pre- and post-switch rates number of disasters\n",
    "    early_rate = Exponential('early_rate', 1)\n",
    "    late_rate = Exponential('late_rate', 1)\n",
    "\n",
    "    # Allocate appropriate Poisson rates to years before and after current\n",
    "    rate = switch(switchpoint >= year, early_rate, late_rate)\n",
    "\n",
    "    disasters = Poisson('disasters', rate, observed=disaster_data)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "deletable": true,
    "editable": true,
    "scrolled": false
   },
   "outputs": [],
   "source": [
    "with disaster_model:\n",
    "    trace = sample(10000, live_plot=True, skip_first=100, refresh_every=300, roll_over=1000)"
   ]
  }
 ],
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   "codemirror_mode": {
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