models/websci19/notebook.ipynb

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   "metadata": {},
   "source": [
    "# WebSci19 experiments\n",
    "\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 54,
   "metadata": {
    "pycharm": {
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     "name": "#%%\n"
    }
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "The autoreload extension is already loaded. To reload it, use:\n",
      "  %reload_ext autoreload\n"
     ]
    }
   ],
   "source": [
    "%load_ext autoreload\n",
    "%autoreload 2\n",
    "import plotly.offline as py\n",
    "import helper\n",
    "helper.bodge_path()\n",
    "\n",
    "from occ.model import follow1, follow2, modulated_internal\n",
    "from occ.model import UnitModel, u, n1, n2, Unit, marking\n",
    "from occ.sim import run, SystemModel, SimArgs\n",
    "from occ.vis import iplot_causal_graph\n",
    "from helper import two_community_network, generate_place_pair_with_random_markings, generate_place_pair_with_marking\n",
    "\n",
    "import logging\n",
    "logging.getLogger().setLevel(logging.WARNING)\n",
    "\n"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "Runs will be written to:"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 41,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "/Users/walton/Documents/DPhil/code/occmodeller/runs\n"
     ]
    }
   ],
   "source": [
    "print(occ.sim.BASEDIR)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 42,
   "metadata": {},
   "outputs": [],
   "source": [
    "sim_args = SimArgs(start=0, stop=20, step=.01)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Diffusion (3.4.1)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 43,
   "metadata": {
    "pycharm": {
     "is_executing": false,
     "name": "#%%\n"
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   },
   "outputs": [],
   "source": [
    "g = two_community_network()\n",
    "\n",
    "indexes = list(range(g.number_of_nodes()))\n",
    "launch_node = 0\n",
    "indexes.remove(launch_node)\n",
    "\n",
    "a = Unit.place('a', marking(indexes))\n",
    "b = Unit.place('b', marking([launch_node]))\n",
    "m = UnitModel(name=\"diffusion\", colors=[Unit], variables=[u, n1, n2],places=[a, b])\n",
    "m.add_transitions_from([\n",
    "    follow1(a, b, use_read_arc=False)\n",
    "])"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 44,
   "metadata": {},
   "outputs": [],
   "source": [
    "sim_result = run(SystemModel(m, g, 'two community'), sim_args)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 45,
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          "autorange": true,
          "showgrid": false,
          "showline": false,
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          "showticklabels": false,
          "ticks": "",
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           "text": ""
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         "zaxis": {
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        "title": {
         "text": "Temporal graph"
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       }
      }
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "iplot_causal_graph(sim_result)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Multiphase diffusion (3.4.2)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "metadata": {},
   "outputs": [],
   "source": [
    "indexes = list(range(14))\n",
    "for i in [5, 4, 3]:\n",
    "    indexes.remove(i)\n",
    "\n",
    "a = Unit.place('a', marking(indexes))\n",
    "b = Unit.place('b', marking([4, 3]))\n",
    "c = Unit.place('c', marking([5]))\n",
    "m = UnitModel(name=\"multiphase_diffusion\", colors=[Unit], variables=[u, n1, n2], places=[a, b])\n",
    "m.add_transitions_from([\n",
    "    follow1(a, b),\n",
    "    follow1(b, c)\n",
    "])\n",
    "medium_graph = nx.newman_watts_strogatz_graph(14, 4, 0.2, seed=5)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 46,
   "metadata": {},
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   "source": [
    "iplot_causal_graph(run(SystemModel(m, medium_graph, 'one community'), sim_args))"
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  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Diffusion with echo (3.4.3)\n",
    "\n",
    "The first model requres two neighbours to transition"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 47,
   "metadata": {},
   "outputs": [],
   "source": [
    "g = two_community_network()\n",
    "indexes = list(range(g.number_of_nodes()))\n",
    "init1 = 3\n",
    "init2 = 4\n",
    "\n",
    "indexes.remove(init1)\n",
    "indexes.remove(init2)\n",
    "\n",
    "a = Unit.place('a', marking(indexes))\n",
    "b = Unit.place('b', marking([init1, init2]))\n",
    "m = UnitModel(name=\"two_neighbour_diffusion\", colors=[Unit], variables=[u, n1, n2],\n",
    "              places=[a, b])\n",
    "m.add_transitions_from([\n",
    "    follow2(a, b, 1),\n",
    "])\n"
   ]
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   "cell_type": "code",
   "execution_count": 48,
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      "INFO:root:Calling: '['~/bin/spike exe -f input/conf.spc']' from cwd: /Users/walton/Documents/DPhil/code/occmodeller/runs/32/spike\n",
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   ],
   "source": [
    "iplot_causal_graph(run(SystemModel(m, g, 'two community'), sim_args))"
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  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Single issue consensus formation (3.4.4)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 51,
   "metadata": {},
   "outputs": [],
   "source": [
    "g = two_community_network()\n",
    "\n",
    "a, A = generate_place_pair_with_random_markings('a', 'A', g.number_of_nodes())\n",
    "\n",
    "m = UnitModel(name=\"single_issue_consensus\", colors=[Unit], variables=[u, n1, n2],\n",
    "              places=[a, A])\n",
    "m.add_transitions_from([\n",
    "    follow1(a, A, .5),\n",
    "    follow1(A, a, .5),\n",
    "    follow2(a, A, 1),\n",
    "    follow2(A, a, 1),\n",
    "])\n"
   ]
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   "source": [
    "iplot_causal_graph(run(SystemModel(m, g, 'two community'), sim_args))"
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  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Issue conflation (3.4.5)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 57,
   "metadata": {},
   "outputs": [],
   "source": [
    "g = two_community_network()\n",
    "n = g.number_of_nodes()\n",
    "\n",
    "def triangle_coords_around_zero(edge_width):\n",
    "    a = (-.5 * edge_width, -edge_width * .866 / 2)\n",
    "    b = (.5 * edge_width, -edge_width * .866 / 2)\n",
    "    c = (0 * edge_width, edge_width * 0.866 / 2)\n",
    "    return a, b, c\n",
    "\n",
    "a_off, b_off, e_off = triangle_coords_around_zero(.05)\n",
    "a, A = generate_place_pair_with_random_markings('a', 'A', n, pos_offset=a_off)\n",
    "b, B = generate_place_pair_with_random_markings('b', 'B', n, pos_offset=b_off)\n",
    "e, E = generate_place_pair_with_marking('e', 'E', n, list(range(int(n / 2))), pos_offset=e_off)\n",
    "\n",
    "m = UnitModel(name=\"conflation_through_emotion\", colors=[Unit], variables=[u, n1, n2],\n",
    "              places=[a, A, b, B, e, E])\n",
    "\n",
    "r_f1 = 1\n",
    "r_f2 = 2\n",
    "r_e_f1 = r_f1\n",
    "r_e_f2 = r_f2\n",
    "r_ab_to_e = 1\n",
    "\n",
    "m.add_transitions_from([\n",
    "    follow1(a, A, r_f1, enabled_by_local=E),\n",
    "    follow1(A, a, r_f1, enabled_by_local=e),\n",
    "\n",
    "    follow1(b, B, r_f1, enabled_by_local=E),\n",
    "    follow1(B, b, r_f1, enabled_by_local=e),\n",
    "\n",
    "    follow1(e, E, r_e_f1),\n",
    "    follow1(E, e, r_e_f1),\n",
    "\n",
    "    modulated_internal(A, a, e, rate=r_ab_to_e),\n",
    "    modulated_internal(B, b, e, rate=r_ab_to_e),\n",
    "    modulated_internal(a, A, E, rate=r_ab_to_e),\n",
    "    modulated_internal(b, B, E, rate=r_ab_to_e),\n",
    "])\n"
   ]
  },
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   "cell_type": "code",
   "execution_count": 59,
   "metadata": {},
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