531 lines
47 KiB
Text
531 lines
47 KiB
Text
{
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"cells": [
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"# Bitcoin Alpha network"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 1,
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"metadata": {
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"autoscroll": false,
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"collapsed": false,
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"ein.tags": "worksheet-0",
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"slideshow": {
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"slide_type": "-"
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}
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},
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"outputs": [],
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"source": [
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"import numpy as np\n",
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"import pandas as pd\n",
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"import matplotlib.pyplot as plt\n",
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"%matplotlib inline"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 2,
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"metadata": {
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"autoscroll": false,
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"collapsed": false,
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"ein.tags": "worksheet-0",
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"slideshow": {
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"slide_type": "-"
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}
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},
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"outputs": [],
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"source": [
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"import igraph as ig\n",
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"import dionysus as d"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 3,
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"metadata": {},
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"outputs": [],
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"source": [
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"plt.style.use(\"fivethirtyeight\")\n",
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"plt.rcParams[\"figure.figsize\"] = 10, 6"
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]
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},
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## Data import"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 4,
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"metadata": {
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"autoscroll": false,
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"collapsed": false,
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"ein.tags": "worksheet-0",
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"slideshow": {
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"slide_type": "-"
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}
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},
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"outputs": [],
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"source": [
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"G = ig.read(\"data/bitcoin/bitcoinalpha.graphml\")"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 5,
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"metadata": {
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"autoscroll": false,
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"collapsed": false,
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"ein.tags": "worksheet-0",
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"slideshow": {
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"slide_type": "-"
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}
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},
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"outputs": [],
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"source": [
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"G.to_undirected(combine_edges=\"first\")"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 6,
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"metadata": {},
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"outputs": [
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{
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"data": {
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"text/plain": [
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"'IGRAPH U-W- 3783 14124 -- \\n+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)'"
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]
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},
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"execution_count": 6,
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"metadata": {},
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"output_type": "execute_result"
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}
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],
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"source": [
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"G.summary()"
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]
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},
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## Weight rank clique filtration and persistent homology"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 7,
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"metadata": {},
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"outputs": [],
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"source": [
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"from filtration import wrcf"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 8,
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"metadata": {},
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"outputs": [],
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"source": [
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"def get_diagram(graph, weight=\"weight\"):\n",
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" filt = wrcf(graph, weight=weight)\n",
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" pers = d.homology_persistence(filt)\n",
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" return(d.init_diagrams(pers, filt))"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 9,
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"metadata": {},
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"outputs": [
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{
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"data": {
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"text/plain": [
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"array([ 10., 9., 8., 7., 6., 5., 4., 3., 2., 1., -1.,\n",
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" -2., -3., -4., -5., -6., -7., -8., -9., -10.])"
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]
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},
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"execution_count": 9,
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"metadata": {},
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"output_type": "execute_result"
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}
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],
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"source": [
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"np.unique(G.es[\"rating\"])[::-1]"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 10,
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"metadata": {},
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"outputs": [],
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"source": [
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"dgms = get_diagram(G, weight=\"rating\")"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 11,
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"metadata": {},
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"outputs": [
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{
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"data": {
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"text/plain": [
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"[Diagram with 3783 points,\n",
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" Diagram with 29472 points,\n",
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" Diagram with 1410 points,\n",
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" Diagram with 175 points,\n",
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" Diagram with 10 points,\n",
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" Diagram with 0 points,\n",
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" Diagram with 0 points,\n",
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" Diagram with 0 points,\n",
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" Diagram with 0 points,\n",
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" Diagram with 0 points]"
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]
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},
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"execution_count": 11,
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"metadata": {},
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"output_type": "execute_result"
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}
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],
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"source": [
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"dgms"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 12,
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"metadata": {},
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"outputs": [
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{
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"data": {
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"image/png": 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\n",
|
|
"text/plain": [
|
|
"<Figure size 720x432 with 1 Axes>"
|
|
]
|
|
},
|
|
"metadata": {},
|
|
"output_type": "display_data"
|
|
}
|
|
],
|
|
"source": [
|
|
"d.plot.plot_bars(dgms[1])"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Normalize the time scale"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 10,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"data": {
|
|
"text/plain": [
|
|
"(1289192400.0, 1453438800.0)"
|
|
]
|
|
},
|
|
"execution_count": 10,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
|
],
|
|
"source": [
|
|
"time_min = min(G.es[\"time\"])\n",
|
|
"time_max = max(G.es[\"time\"])\n",
|
|
"time_min, time_max"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 11,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"G.es[\"time\"] = (np.array(G.es[\"time\"]) - time_min) / (time_max - time_min)"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 12,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"data": {
|
|
"image/png": 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Xvot69uyp4uJiFRcXX3FMTEyMNm7c2J6SAAAAEIL8dkEUAAAA0FGEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDEIpwAAADAG4RQAAADGIJwCAADAGIRTAAAAGINwCgAAAGMQTgEAAGAMwikAAACMQTgFAACAMQinAAAAMAbhFAAAAMYgnAIAAMAYhFMAAAAYg3AKAAAAYxBOAQAAYAzCKQAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjNGucLpz507NmDFDCQkJslqt2rBhg9d+t9utoqIijRw5UtHR0Zo8ebIOHDjgNcblciknJ0exsbGKjY1VTk6OXC6X15j9+/frvvvuU3R0tBISErR06VK53e4OniIAAACCRbvCaWtrqxITE7VkyRKFh4dfsn/VqlUqKSnR0qVLtW3bNtlsNk2dOlUnT570jMnOzlZtba3Ky8tVXl6u2tpazZo1y7P/m2++0dSpU2W327Vt2zYtWbJEq1ev1quvvuqH0wQAAEAw6NGeQRMnTtTEiRMlSbm5uV773G63SktLNXfuXE2ZMkWSVFpaqri4OJWXlysrK0t1dXX68MMPtXXrViUlJUmSVqxYoYyMDNXX1ysuLk7vvPOOTp06pdLSUoWHhysxMVGfffaZfvGLX+ipp56SxWLx53kDAADAQB1ec3r48GE1NjYqNTXVsy08PFzjx49XTU2NJMnhcKh3795KTk72jBk3bpwiIiK8xtx+++1eM7NpaWk6duyYDh8+3NEyAQAAEATaNXP6XRobGyVJNpvNa7vNZtOxY8ckSU1NTYqMjPSa/bRYLLrxxhvV1NTkGTNw4MBLnuPivqFDh172+PX19R09hXbrzGN1jV4+jQ7W1yNY64Y3+hga6GNooI+hobP6GBcX9537OxxOu9rVTtBfLi4/CGk7GnwaHoyvR7foYzdAH0MDfQwN9DE0mNTHDn+sHxUVJUlyOp1e251Op+x2uyTJbrerubnZ68p7t9utEydOeI253HNc3AcAAIDQ1+FwOmTIEEVFRamqqsqz7fTp06qurvasMU1KSlJLS4scDodnjMPhUGtrq9eY6upqnT592jOmqqpKAwYM0JAhQzpaJgAAAIJAu8JpS0uLamtrVVtbqwsXLujo0aOqra3VkSNHZLFY9MQTT2jVqlWqrKzUp59+qtzcXEVERGj69OmSpPj4eN17773Ky8uTw+GQw+FQXl6e0tPTPVPI06dPV3h4uHJzc/Xpp5+qsrJSK1euVG5uLlfqAwAAdBPtWnO6Z88e3X///Z7fi4qKVFRUpAcffFClpaWaM2eOTp06pfz8fLlcLo0dO1YVFRXq06eP5zFlZWUqKCjQtGnTJEkZGRlatmyZZ3+/fv303nvvad68eZowYYKsVquefPJJPfXUU/46VwAAABjO4nK5+AqmdjBpoXCgWN/w7YIoV9agAFUSON2hj90BfQwN9DE00MfQYFIfO7zmFAAAAPAXwikAAACMQTgFAACAMQinAAAAMAbhFAAAAMYgnAIAAMAYhFMAAAAYg3AKAAAAYxBOAQAAYAzCKQAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABj9OjqAhBY1jcauroEAACAdmPmFAAAAMYgnAIAAMAYhFMAAAAYg3AKAAAAYxBOAQAAYAzCKQAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDL+E07a2Ni1evFi33nqroqKidOutt2rx4sU6f/68Z4zb7VZRUZFGjhyp6OhoTZ48WQcOHPB6HpfLpZycHMXGxio2NlY5OTlyuVz+KBEAAABBwC/hdOXKlSorK9PSpUvlcDi0ZMkSrV27VsuXL/eMWbVqlUpKSrR06VJt27ZNNptNU6dO1cmTJz1jsrOzVVtbq/LycpWXl6u2tlazZs3yR4kAAAAIAj388SQOh0OTJk1SRkaGJGnIkCHKyMjQH/7wB0nfzpqWlpZq7ty5mjJliiSptLRUcXFxKi8vV1ZWlurq6vThhx9q69atSkpKkiStWLFCGRkZqq+vV1xcnD9KBQAAgMH8Ek7HjRundevW6bPPPtOIESN08OBBbd++XXl5eZKkw4cPq7GxUampqZ7HhIeHa/z48aqpqVFWVpYcDod69+6t5ORkr+eNiIhQTU3NFcNpfX29P06hXTrzWP7TK2DPHJyvR/DWDW/0MTTQx9BAH0NDZ/XxahOOfgmnc+fOVUtLi5KTkxUWFqbz589r3rx5ys7OliQ1NjZKkmw2m9fjbDabjh07JklqampSZGSkLBaLZ7/FYtGNN96opqamKx67s2ZUg3b2dkdDwJ46GF+PoO0jvNDH0EAfQwN9DA0m9dEv4bSiokJvvfWWysrKNHLkSO3bt0/z589XbGysZs6c6Y9DAAAAoBvwSzhduHChnnrqKU2bNk2SNGrUKB05ckQrVqzQzJkzFRUVJUlyOp2KiYnxPM7pdMput0uS7Ha7mpub5Xa7PbOnbrdbJ06c8IwBAABAaPPL1fp//vOfFRYW5rUtLCxMFy5ckPTtBVJRUVGqqqry7D99+rSqq6s9a0yTkpLU0tIih8PhGeNwONTa2uq1DhUAAAChyy8zp5MmTdLKlSs1ZMgQjRw5UrW1tSopKdGMGTMkfbt29IknntDy5csVFxenm266SS+//LIiIiI0ffp0SVJ8fLzuvfde5eXlaeXKlZKkvLw8paenG7MGAgAAAIHll3C6bNkyvfjii/rxj3+sEydOKCoqSj/60Y9UUFDgGTNnzhydOnVK+fn5crlcGjt2rCoqKtSnTx/PmLKyMhUUFHiWB2RkZGjZsmX+KBEAAABBwOJyudxdXUQwMOkqNl9Y3wjc1fqurEEBe+5ACdY+wht9DA30MTTQx9BgUh/9suYUAAAA8AfCKQAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDEIpwAAADAG4RQAAADGIJwCAADAGIRTAAAAGINwCgAAAGMQTgEAAGAMwikAAACMQTgFAACAMQinAAAAMAbhFAAAAMYgnAIAAMAYhFMAAAAYg3AKAAAAYxBOAQAAYAzCKQAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxvBbOD1+/Lhmz56t4cOHKyoqSsnJydqxY4dnv9vtVlFRkUaOHKno6GhNnjxZBw4c8HoOl8ulnJwcxcbGKjY2Vjk5OXK5XP4qEQAAAIbzSzh1uVxKT0+X2+3W22+/rZqaGi1btkw2m80zZtWqVSopKdHSpUu1bds22Ww2TZ06VSdPnvSMyc7OVm1trcrLy1VeXq7a2lrNmjXLHyUCAAAgCPTwx5O88sorio6O1po1azzbhg4d6vlvt9ut0tJSzZ07V1OmTJEklZaWKi4uTuXl5crKylJdXZ0+/PBDbd26VUlJSZKkFStWKCMjQ/X19YqLi/NHqQAAADCYX8LpBx98oLS0NGVlZWn79u2Kjo7WzJkz9fjjj8tisejw4cNqbGxUamqq5zHh4eEaP368ampqlJWVJYfDod69eys5OdkzZty4cYqIiFBNTQ3hFIBxrG80+DTelTUoQJUAQOjwSzj98ssvtW7dOuXm5mru3Lnat2+fnnnmGUlSTk6OGhsbJcnrY/6Lvx87dkyS1NTUpMjISFksFs9+i8WiG2+8UU1NTVc8dn19vT9OoV0681j+0ytgzxycr0fw1g1vZvTRt/eXGTWbhdckNNDH0NBZfbzahKNfwumFCxd02223adGiRZKk73//+zp06JDKysqUk5Pjj0NcUWfNqAbt0oIdvs3s+CIYX4+g7SO8GNNHH99fRtRsEGP6iA6hj6HBpD765YKoqKgoxcfHe20bMWKEjh496tkvSU6n02uM0+mU3W6XJNntdjU3N8vtdnv2u91unThxwjMGAAAAoc0v4XTcuHH6/PPPvbZ9/vnniomJkSQNGTJEUVFRqqqq8uw/ffq0qqurPWtMk5KS1NLSIofD4RnjcDjU2trqtQ4VAAAAocsv4TQ3N1e7d+/Wyy+/rEOHDun999/X66+/ruzsbEnfrh194okntGrVKlVWVurTTz9Vbm6uIiIiNH36dElSfHy87r33XuXl5cnhcMjhcCgvL0/p6enGTDMDAAAgsPyy5nTMmDHasGGDXnjhBRUXF2vw4MF69tlnPeFUkubMmaNTp04pPz9fLpdLY8eOVUVFhfr06eMZU1ZWpoKCAk2bNk2SlJGRoWXLlvmjRAAAAAQBv4RTSUpPT1d6evoV91ssFhUWFqqwsPCKY6xWq15//XV/lQQAAIAg47dwCgChwNd7lwIA/Msva04BAAAAfyCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDEIpwAAADAG4RQAAADGIJwCAADAGIRTAAAAGINwCgAAAGP06OoCAAQP6xsN7R7ryhoUwEoAAKGKmVMAAAAYg3AKAAAAY/CxPgAj+LJkYPedASwEANClCKdAiPEl5EmsDQUAmIWP9QEAAGAMZk4BBISvM7gAAEjMnAIAAMAghFMAAAAYg3AKAAAAY7DmFOjmgnFt6A929JJ28G1VABCKCKdAEAjGAAkAwLXgY30AAAAYg3AKAAAAYxBOAQAAYAzCKQAAAIxBOAUAAIAxAhJOly9fLqvVqvz8fM82t9utoqIijRw5UtHR0Zo8ebIOHDjg9TiXy6WcnBzFxsYqNjZWOTk5crlcgSgRfmB9o6HdPwAAAO3h93C6e/du/fKXv9SoUaO8tq9atUolJSVaunSptm3bJpvNpqlTp+rkyZOeMdnZ2aqtrVV5ebnKy8tVW1urWbNm+btEAAAAGMqv4fTrr7/W448/rldffVVWq9Wz3e12q7S0VHPnztWUKVOUmJio0tJStbS0qLy8XJJUV1enDz/8UCtXrlRSUpKSkpK0YsUK/fu//7vq6+v9WSYAAAAM5deb8F8MnykpKVq6dKln++HDh9XY2KjU1FTPtvDwcI0fP141NTXKysqSw+FQ7969lZyc7Bkzbtw4RUREqKamRnFxcZc9ZmcG1+AMyb26ugBJZr12JtXSfmb0MVj51vPAvdbB+f9eYPGahAb6GBo6q49XynQX+S2c/su//IsOHTqk119//ZJ9jY2NkiSbzea13Waz6dixY5KkpqYmRUZGymKxePZbLBbdeOONampquuJxr3aC/lJfX99px/IrH77iMZBMee3oY/f0gx1mhPug/H8vgIL2/Qgv9DE0mNRHv4TT+vp6vfDCC9q6dauuu+46fzwlACAI+XIB5O47A1gIgKDll3DqcDjU3NyscePGeba1tbXpk08+0fr167Vr1y5JktPpVExMjGeM0+mU3W6XJNntdjU3N8vtdntmT91ut06cOOEZA4QK7mAAAMDl+eWCqMmTJ+uTTz7R9u3bPT+33Xabpk2bpu3bt+umm25SVFSUqqqqPI85ffq0qqurPWtMk5KS1NLSIofD4RnjcDjU2trqtQ4VAAAAocsvM6dWq9Xr6nxJ6tWrl/r376/ExERJ0hNPPKHly5crLi5ON910k15++WVFRERo+vTpkqT4+Hjde++9ysvL08qVKyVJeXl5Sk9PN2YNBAAAAALLr1frf5c5c+bo1KlTys/Pl8vl0tixY1VRUaE+ffp4xpSVlamgoEDTpk2TJGVkZGjZsmWdVSLQIXxUDwBAxwUsnH7wwQdev1ssFhUWFqqwsPCKj7FarZe92h8AAADdQ0C+vhQAAAC4FoRTAAAAGKPT1pwCANrP1zXMrqxBAaoEADoX4RQAOgkXzQHA1fGxPgAAAIxBOAUAAIAxCKcAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDG7Cj07Bt90AAID2IJwCQAjw5R+A/OMPgMkIp8B34OsmAQDoXKw5BQAAgDEIpwAAADAG4RQAAADGIJwCAADAGFwQhW7lBzt6STu4yAkAAFMxcwoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDHQxYbmAAANfUlEQVQIpwAAADAGV+sDQDfjy9fyurIGBbASM/j6NcWBek1MqQPoasycAgAAwBjMnAIAjMesItB9MHMKAAAAY/glnC5fvlwTJkxQTEyMhg8frszMTH366adeY9xut4qKijRy5EhFR0dr8uTJOnDggNcYl8ulnJwcxcbGKjY2Vjk5OXK5XP4oEQAAAEHALx/r79ixQ4899pjGjBkjt9utl156SX/3d3+nmpoa9e/fX5K0atUqlZSUqKSkRHFxcVq2bJmmTp2q3bt3q0+fPpKk7OxsHT16VOXl5ZKkp59+WrNmzdLGjRv9USYAwEe+fpzeHXBBGRBYfgmnFRUVXr+vWbNGsbGx2rVrlzIyMuR2u1VaWqq5c+dqypQpkqTS0lLFxcWpvLxcWVlZqqur04cffqitW7cqKSlJkrRixQplZGSovr5ecXFx/igVAAAABgvIBVEtLS26cOGCrFarJOnw4cNqbGxUamqqZ0x4eLjGjx+vmpoaZWVlyeFwqHfv3kpOTvaMGTdunCIiIlRTU0M4xRUxswMAQOgISDidP3++brnlFs8MaGNjoyTJZrN5jbPZbDp27JgkqampSZGRkbJYLJ79FotFN954o5qamq54rPr6en+Xb8Sx/KdXVxdwTXx7rYPzHAH48l737X1uyp8hgazDpL+TTKoF166z+ni1CUe/h9Nnn31Wu3bt0tatWxUWFubvp79EZ82oBu3Sgh3BOavo02sdpOcIwIf3uo/vc1P+DAlkHab8nRS0fz/Ci0l99OutpAoLC/Xuu++qsrJSQ4cO9WyPioqSJDmdTq/xTqdTdrtdkmS329Xc3Cy32+3Z73a7deLECc8YAAAAhDa/zZw+88wzeu+997R582aNGDHCa9+QIUMUFRWlqqoqjRkzRpJ0+vRpVVdX64UXXpAkJSUlqaWlRQ6Hw7Pu1OFwqLW11WsdKgAAV8NadCB4+SWczps3Txs3btSvf/1rWa1WzxrTiIgI9e7dWxaLRU888YSWL1+uuLg43XTTTXr55ZcVERGh6dOnS5Li4+N17733Ki8vTytXrpQk5eXlKT093ZhpZnQe/mIBAKB78ks4LSsrkyTPbaIueuaZZ1RYWChJmjNnjk6dOqX8/Hy5XC6NHTtWFRUVnnucXnyegoICTZs2TZKUkZGhZcuW+aNEAIBhfrCjF2vGAVzCL+G0Pd/iZLFYVFhY6Amrl2O1WvX666/7oyQAAAAEIb9eEAUAAAB0REDucwoAAFg/D1wLwmkQ4g87AAAQqvhYHwAAAMZg5hQAgCDky6dorqxBAawE8C9mTgEAAGAMwikAAACMwcf6AACEOF8vpGUZALoSM6cAAAAwBjOnBuDWUAAAAN9i5hQAAADGIJwCAADAGHysDwAAvPiy3Gz3nQEsBN0SM6cAAAAwBuEUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDEIpwAAADAG4RQAAADG4OtLAQCAkXz5GlVfubIGBey50THMnAIAAMAYzJwGSCD/tQcAAPBdfM0hu+8MUCHXgHDaTj/Y0UvaQeAEAAAIJMIpAADodnyZWfRlfaqvM5asfb0U4RQAAFwzXz5ZJIihPQinAACgUwTr9RjBWnewMjKclpWV6ZVXXlFjY6NGjhypoqIijR8/vqvLAgAA8KtALS8IZsaF04qKCs2fP18///nPNW7cOJWVlemBBx7Qrl27FBMT09XlAQAAdInuMoNrcblc7q4u4i+lpaVp1KhReuWVVzzbxowZoylTpmjRokVdWBkAAAACzaib8J89e1Z79+5Vamqq1/bU1FTV1NR0UVUAAADoLEaF0+bmZrW1tclms3ltt9lsampq6qKqAAAA0FmMCqcAAADo3owKp5GRkQoLC5PT6fTa7nQ6Zbfbu6gqAAAAdBajwun111+v0aNHq6qqymt7VVWVkpOTu6gqAAAAdBbjbiX15JNPatasWRo7dqySk5O1fv16HT9+XFlZWV1dGgAAAALMqJlTSfr7v/97FRUVqbi4WHfddZd27dqlt99+W7GxsQE9bllZmW699VZFRUXp7rvv1ieffPKd43fs2KG7775bUVFR+v73v6/169cHtD60jy99rKys1NSpUzV8+HANHjxYaWlp2rJlSydWiyvx9f14UXV1tSIjI3X77bcHuEK0h699PHv2rF588UXdeuutstvtuvnmm/Xaa691UrW4El/7+M477+jOO+/UgAEDNGLECOXk5KixsbGTqsX/tXPnTs2YMUMJCQmyWq3asGHDVR+zf/9+3XfffYqOjlZCQoKWLl0qt7vz7jxqXDiVpOzsbO3bt09NTU36/e9/rzvuuCOgx7t44/8f//jH+vjjj5WUlKQHHnhAR44cuez4L7/8Uv/wD/+gpKQkffzxx/rnf/5nFRQUaNOmTQGtE9/N1z7u3LlTKSkpevvtt/Xxxx/rhz/8oR5++OF2ByEEhq99vMjlcmn27Nm6++67O6lSfJdr6eOjjz6q3/3ud1q1apV2796tX/7ylxo1alQnVo3/y9c+7tq1S7NmzdKDDz6o6upqbdiwQQcPHtTjjz/eyZXjotbWViUmJmrJkiUKDw+/6vhvvvlGU6dOld1u17Zt27RkyRKtXr1ar776aidU+y3jbsLfFXy98f+iRYu0efNm/fGPf/Rs+6d/+icdPHhQ//Ef/9EpNeNS/vgCh9TUVN1+++168cUXA1UmruJa+/jwww/r5ptvltvtVmVlpaqrqzujXFyBr33ctm2b/vEf/1F79uxRZGRkZ5aK7+BrH1evXq01a9boT3/6k2fbr3/9az3zzDNqaOge325kskGDBmnZsmV66KGHrjhm3bp1+ulPf6rPPvvME2aLi4u1fv16ffrpp7JYLAGv08iZ0850LTf+dzgcl4xPS0vTnj17dO7cuYDViivz1xc4tLS0yGq1+rs8tNO19rGsrExOp1P5+fmBLhHtcC19/OCDD3TbbbeppKREiYmJGjNmjAoKCtTS0tIZJeMyrqWPycnJamxs1L/927/J7XarublZFRUV+uEPf9gZJcMPHA6Hbr/9dq9Z1rS0NB07dkyHDx/ulBq6fTi9lhv/NzU1XXb8+fPn1dzcHLBacWX++AKHtWvX6n/+53+UmZkZiBLRDtfSx/3792vp0qVas2aNwsLCOqNMXMW19PHLL7/Url279Kc//Um/+tWvVFxcrN/97nfKzc3tjJJxGdfSx6SkJK1bt045OTmy2WwaPny43G63SktLO6Nk+MGVMs7FfZ2h24dTQJI2bdqkhQsXau3atQG/+A7+c+bMGT366KP62c9+pqFDh3Z1OeiACxcuyGKxaO3atfqbv/kbpaWlqbi4WJWVlXxDYBA5ePCgnnnmGeXn5+ujjz7Su+++q8bGRs2dO7erS0MQMe5WUp3tWm78b7fbLzu+R48erJXqIh35AodNmzZp9uzZeu2115SRkRHIMnEVvvbx+PHjqqur05NPPqknn3xS0rchx+12KzIyUu+8884lH0ki8K7l/RgVFaUBAwaoX79+nm0jRoyQJB09epQvYukC19LH5cuXa8yYMXr66aclSTfffLN69eqljIwMLVy4UIMGDQp43eiYK2Wci/s6Q7efOb2WG/8nJSVddvxtt92m6667LmC14squ9Qsc3nvvPc2aNUu/+MUvNGXKlECXiavwtY8DBw7UJ598ou3bt3t+Hn30UQ0bNkzbt29XUlJSZ5WOv3At78dx48bp+PHjXmtMv/jiC0lSTExM4IrFFV1LH0+dOnXJ8pqLv1+4cCEwhcKvkpKSVF1drdOnT3u2VVVVacCAARoyZEin1BA2f/78n3bKkQzWp08fFRUVKTo6Wt/73vdUXFysTz75RK+++qr69eunWbNm6V//9V91//33S5L++q//WqtWrZLT6VRMTIy2bNmin//851q8eLFGjhzZxWfTffnax3fffVc5OTl6/vnnNXHiRLW2tqq1tVXnzp1r1+02EBi+9DEsLEw2m83r549//KO++OILFRYW6vrrr+/q0+m2fH0/3nTTTdqwYYP27t2rkSNH6osvvlB+fr7uuOOO77yyGIHlax9PnTql1atXKzIyUjfccIMOHjyo+fPnKyoqSnPmzOnis+meWlpadPDgQTU2NurNN99UYmKi+vbtq7Nnz6pfv356/vnntXz5cj344IOSpOHDh+uNN97Qvn37FBcXp+rqai1cuFBz587ttG/r7PYf60vf3vj/f//3f1VcXKzGxkYlJCR43fj/6NGjXuOHDh2qt99+W88++6zWr1+v6OhoLV26lJm3LuZrH9evX6/z58+rsLBQhYWFnu133HGHPvjgg06tHf+fr32EmXztY+/evfX++++roKBAqampslqtmjx5crtvA4fA8LWPDz30kFpaWrR27Vo999xz6tu3r1JSUvTTn/60C6qHJO3Zs8fzjwdJKioqUlFRkR588EGVlpbq+PHj+q//+i/P/n79+um9997TvHnzNGHCBFmtVj355JN66qmnOq1m7nMKAAAAY3T7NacAAAAwB+EUAAAAxiCcAgAAwBiEUwAAABiDcAoAAABjEE4BAABgDMIpAAAAjEE4BQAAgDH+H9z1tm6WAZRLAAAAAElFTkSuQmCC\n",
|
|
"text/plain": [
|
|
"<Figure size 720x432 with 1 Axes>"
|
|
]
|
|
},
|
|
"metadata": {},
|
|
"output_type": "display_data"
|
|
}
|
|
],
|
|
"source": [
|
|
"plt.hist(G.es[\"time\"], bins=50);"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Discretize the time scale using non-overlapping windows"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 69,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"N = 8 # Number of windows"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 70,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"subgs = list(range(N))\n",
|
|
"for i in range(N):\n",
|
|
" subgs[i] = G.subgraph_edges(G.es(lambda e: (e[\"time\"] < (i+1)/N) & (e[\"time\"] > i/N)))"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 71,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"data": {
|
|
"text/plain": [
|
|
"'IGRAPH U-W- 3783 14124 -- \\n+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)'"
|
|
]
|
|
},
|
|
"execution_count": 71,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
|
],
|
|
"source": [
|
|
"G.summary()"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 72,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"name": "stdout",
|
|
"output_type": "stream",
|
|
"text": [
|
|
"IGRAPH U-W- 1203 3017 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 779 1714 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 999 2820 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 1201 2959 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 776 1721 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 562 1285 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 231 447 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n",
|
|
"IGRAPH U-W- 95 155 -- \n",
|
|
"+ attr: id (v), label (v), Edge Label (e), id (e), rating (e), time (e), weight (e)\n"
|
|
]
|
|
}
|
|
],
|
|
"source": [
|
|
"for g in subgs:\n",
|
|
" print(g.summary())"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Apply persistent homology to each window"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 73,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"from dask.distributed import Client"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 74,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"client = Client(processes=False)"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 75,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"dgms = client.map(get_diagram, subgs)"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 90,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"data": {
|
|
"text/plain": [
|
|
"{'inproc://129.67.184.177/6482/23': 32}"
|
|
]
|
|
},
|
|
"execution_count": 90,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
|
],
|
|
"source": [
|
|
"client.ncores()"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 76,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"data": {
|
|
"text/plain": [
|
|
"[[Diagram with 1203 points,\n",
|
|
" Diagram with 945 points,\n",
|
|
" Diagram with 8 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 779 points,\n",
|
|
" Diagram with 399 points,\n",
|
|
" Diagram with 7 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 999 points,\n",
|
|
" Diagram with 628 points,\n",
|
|
" Diagram with 107 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 1201 points,\n",
|
|
" Diagram with 647 points,\n",
|
|
" Diagram with 27 points,\n",
|
|
" Diagram with 1 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 776 points,\n",
|
|
" Diagram with 372 points,\n",
|
|
" Diagram with 16 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 562 points,\n",
|
|
" Diagram with 189 points,\n",
|
|
" Diagram with 11 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 231 points,\n",
|
|
" Diagram with 111 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points],\n",
|
|
" [Diagram with 95 points,\n",
|
|
" Diagram with 31 points,\n",
|
|
" Diagram with 0 points,\n",
|
|
" Diagram with 0 points]]"
|
|
]
|
|
},
|
|
"execution_count": 76,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
|
],
|
|
"source": [
|
|
"dgms = client.gather(dgms)\n",
|
|
"dgms"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 86,
|
|
"metadata": {},
|
|
"outputs": [
|
|
{
|
|
"ename": "TypeError",
|
|
"evalue": "plotting not available",
|
|
"output_type": "error",
|
|
"traceback": [
|
|
"\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
|
|
"\u001b[0;31mTypeError\u001b[0m Traceback (most recent call last)",
|
|
"\u001b[0;32m<ipython-input-86-c9bce81ae290>\u001b[0m in \u001b[0;36m<module>\u001b[0;34m()\u001b[0m\n\u001b[0;32m----> 1\u001b[0;31m \u001b[0mig\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mplot\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0msubgs\u001b[0m\u001b[0;34m[\u001b[0m\u001b[0;36m0\u001b[0m\u001b[0;34m]\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m",
|
|
"\u001b[0;32m~/.local/share/virtualenvs/tda-networks--KypeAmE/lib/python3.5/site-packages/igraph/drawing/__init__.py\u001b[0m in \u001b[0;36mplot\u001b[0;34m(obj, target, bbox, *args, **kwds)\u001b[0m\n\u001b[1;32m 444\u001b[0m \u001b[0mbbox\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0mBoundingBox\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mbbox\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 445\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m--> 446\u001b[0;31m \u001b[0mresult\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0mPlot\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mtarget\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0mbbox\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0mbackground\u001b[0m\u001b[0;34m=\u001b[0m\u001b[0mkwds\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mget\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;34m\"background\"\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0;34m\"white\"\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m 447\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 448\u001b[0m \u001b[0;32mif\u001b[0m \u001b[0;34m\"margin\"\u001b[0m \u001b[0;32min\u001b[0m \u001b[0mkwds\u001b[0m\u001b[0;34m:\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n",
|
|
"\u001b[0;32m~/.local/share/virtualenvs/tda-networks--KypeAmE/lib/python3.5/site-packages/igraph/drawing/__init__.py\u001b[0m in \u001b[0;36m__init__\u001b[0;34m(self, target, bbox, palette, background)\u001b[0m\n\u001b[1;32m 115\u001b[0m \"\"\"\n\u001b[1;32m 116\u001b[0m \u001b[0mself\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0m_filename\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;32mNone\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m--> 117\u001b[0;31m \u001b[0mself\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0m_surface_was_created\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;32mnot\u001b[0m \u001b[0misinstance\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mtarget\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0mcairo\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mSurface\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m 118\u001b[0m \u001b[0mself\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0m_need_tmpfile\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;32mFalse\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 119\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n",
|
|
"\u001b[0;32m~/.local/share/virtualenvs/tda-networks--KypeAmE/lib/python3.5/site-packages/igraph/drawing/utils.py\u001b[0m in \u001b[0;36m__getattr__\u001b[0;34m(self, _)\u001b[0m\n\u001b[1;32m 394\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 395\u001b[0m \u001b[0;32mdef\u001b[0m \u001b[0m__getattr__\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mself\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0m_\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m:\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m--> 396\u001b[0;31m \u001b[0;32mraise\u001b[0m \u001b[0mTypeError\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;34m\"plotting not available\"\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m 397\u001b[0m \u001b[0;32mdef\u001b[0m \u001b[0m__call__\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mself\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0m_\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m:\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 398\u001b[0m \u001b[0;32mraise\u001b[0m \u001b[0mTypeError\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;34m\"plotting not available\"\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n",
|
|
"\u001b[0;31mTypeError\u001b[0m: plotting not available"
|
|
]
|
|
}
|
|
],
|
|
"source": [
|
|
"ig.plot(subgs[0])"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": null,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": []
|
|
}
|
|
],
|
|
"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": "3.5.2"
|
|
}
|
|
},
|
|
"nbformat": 4,
|
|
"nbformat_minor": 2
|
|
}
|