feat: debut koi
This commit is contained in:
Guillotin Damien
parent
4e193db593
commit
a30c57398b
542
graph21-22.ipynb
542
graph21-22.ipynb
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@ -64,9 +64,27 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 582,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"name": "stderr",
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"output_type": "stream",
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"text": [
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"\u001b[32m\u001b[1m Activating\u001b[22m\u001b[39m environment at `~/2A/Graphe/Project.toml`\n"
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]
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},
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{
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"name": "stderr",
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"output_type": "stream",
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"text": [
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"\u001b[32m\u001b[1m Updating\u001b[22m\u001b[39m `~/2A/Graphe/Project.toml`\n",
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"\u001b[90m [no changes]\u001b[39m\n",
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"\u001b[32m\u001b[1m Updating\u001b[22m\u001b[39m `~/2A/Graphe/Manifest.toml`\n",
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"\u001b[90m [no changes]\u001b[39m\n"
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]
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}
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],
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"source": [
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"# TO RUN ONCE\n",
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"using Pkg\n",
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@ -76,11 +94,19 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 583,
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"metadata": {
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"scrolled": true
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},
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"outputs": [],
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"outputs": [
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{
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"name": "stderr",
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"output_type": "stream",
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"text": [
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"\u001b[32m\u001b[1m Activating\u001b[22m\u001b[39m environment at `~/2A/Graphe/Project.toml`\n"
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]
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}
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],
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"source": [
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"# Import packages\n",
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"using Pkg\n",
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@ -92,7 +118,8 @@
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"using StatsBase\n",
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"using Plots\n",
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"using JLD2\n",
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"using Compose"
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"using Compose\n",
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"using Random"
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]
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},
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{
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@ -145,7 +172,7 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 584,
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"metadata": {},
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"outputs": [],
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"source": [
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@ -160,7 +187,7 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 585,
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"metadata": {},
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"outputs": [],
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"source": [
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@ -176,7 +203,7 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 586,
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"metadata": {},
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"outputs": [],
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"source": [
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@ -217,29 +244,68 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 587,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Bool[0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0]\n"
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]
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}
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],
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"source": [
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"# Infect Karat7"
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"# Infect Karat7\n",
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"karat7_n_infect = 5\n",
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"karat7_n = length(vertices(karat7))\n",
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"karat7_state = vcat(zeros(Bool, karat7_n - karat7_n_infect), ones(Bool, karat7_n_infect))\n",
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"karat7_state = shuffle(karat7_state)\n",
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"println(karat7_state)"
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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": null,
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"execution_count": 588,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Bool[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]\n"
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]
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}
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],
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"source": [
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"# Infect N7_2A"
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"# Infect N7_2A\n",
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"n7_2A_n_infect = 5\n",
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"n7_2A_n = length(vertices(n7_2A))\n",
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"n7_2A_state = vcat(zeros(Bool, n7_2A_n - n7_2A_n_infect), ones(Bool, n7_2A_n_infect))\n",
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"n7_2A_state = shuffle(n7_2A_state)\n",
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"println(n7_2A_state)"
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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": null,
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"execution_count": 589,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"Bool[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]\n"
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]
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}
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],
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"source": [
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"# Infect Toulouse_neigh"
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"# Infect Toulouse_neigh\n",
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"toulouse_neigh_n_infect = 5\n",
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"toulouse_neigh_n = length(vertices(toulouse_neigh))\n",
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"toulouse_neigh_state = vcat(zeros(Bool, toulouse_neigh_n - toulouse_neigh_n_infect), ones(Bool, toulouse_neigh_n_infect))\n",
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"toulouse_neigh_state = shuffle(toulouse_neigh_state)\n",
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"println(toulouse_neigh_state)"
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]
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},
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{
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@ -248,11 +314,9 @@
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"source": [
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"<div style=\"width:75%;margin:0 auto;\">\n",
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"\n",
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"<strong style=\"color:cadetblue\">Question 2 (written):</strong> What do you think/predict about the influence of the initial number of infected people and their locations on the evolution of an SIS model epidemic ?\n",
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"**<strong style=\"color:cadetblue\">Question 2 (written):</strong> What do you think/predict about the influence of the initial number of infected people and their locations on the evolution of an SIS model epidemic ?\n",
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"\n",
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"<br>\n",
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" \n",
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"<div style=\"background-color:#E7F1D1\"><strong>Answer:</strong></div>"
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"Plus le nombre initial d'infectés sera élevé, et plus l'épidémie va se propager rapidement. De plus, plus la répartition initial des infectés dans la population est uniforme, plus la propagation de l'épidemie sera rapide."
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]
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},
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{
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@ -277,40 +341,93 @@
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"execution_count": 590,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"data": {
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"text/plain": [
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"SIS"
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]
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},
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"metadata": {},
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"output_type": "display_data"
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}
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],
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"source": [
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"function SIS(net,state,beta,alpha,t)\n",
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" \"\"\"Take a contact network at a certain state and apply t time steps\n",
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" of an SIS model.\n",
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" \n",
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" PARAMS\n",
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"\"\"\"Take a contact network at a certain state and apply t time steps\n",
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"of an SIS model.\n",
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"\n",
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"PARAMS\n",
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" net (LightGraph): graph representing the contact network\n",
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" state (Array{Int32,1}): disease status of each vertex\n",
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" beta (Float64): infection rate\n",
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" alpha (Float64): curing rate\n",
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" t (Int32): number of time step\n",
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" \n",
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" RETURNS\n",
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"\n",
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"RETURNS\n",
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" (Array{Int32,1}): The new state of the contact network after t time steps.\n",
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" \"\"\" \n",
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" # TODO\n",
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"\"\"\" \n",
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"function SIS(net, state, beta, alpha, time)\n",
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" X = []\n",
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" net_adjacency_matrix = adjacency_matrix(net)\n",
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" net_n = length(vertices(net))\n",
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" for t = 1:time\n",
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" # println(\"------------------ \", t)\n",
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" # println(state)\n",
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" number_infected_adjacent = net_adjacency_matrix * state\n",
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" # println(number_infected_adjacent)\n",
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" proba_infection = 1 .- (((1 - beta) * ones(Bool, net_n)) .^ number_infected_adjacent)\n",
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" # println(proba_infection)\n",
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" state = state .| (rand(net_n) .<= proba_infection)\n",
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" # println(state)\n",
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" state = state .& (rand(net_n) .>= alpha)\n",
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" # println(state)\n",
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" nb_infecte = sum(state)\n",
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" push!(X, nb_infecte)\n",
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" end\n",
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" return state, X\n",
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"end"
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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": null,
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"execution_count": 591,
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"metadata": {},
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"outputs": [],
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"outputs": [
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{
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"ename": "UndefVarError",
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"evalue": "UndefVarError: plot not defined",
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"output_type": "error",
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"traceback": [
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"UndefVarError: plot not defined\n",
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"\n",
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"Stacktrace:\n",
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" [1] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:3\n",
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" [2] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
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" [3] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
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" [4] invokelatest at ./essentials.jl:711 [inlined]\n",
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" [5] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
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" [6] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
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" [7] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
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" [8] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
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" [9] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
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" [10] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
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" [11] include(::Module, ::String) at ./Base.jl:377\n",
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" [12] exec_options(::Base.JLOptions) at ./client.jl:288\n",
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" [13] _start() at ./client.jl:484"
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]
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}
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],
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"source": [
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"# Test on Karat7"
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"# Test on karat7\n",
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"state, X = SIS(karat7, karat7_state, 0.5, 0.1, 10)\n",
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"plot(1:10, X)"
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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": null,
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"execution_count": 592,
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"metadata": {},
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||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -319,7 +436,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 593,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -369,9 +486,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 594,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"Simulation_SIS (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function Simulation_SIS(net,nbinf,betas,alphas,t,nbsimu)\n",
|
||||
" \"\"\"Take a contact network, different diseases (defined by \n",
|
||||
|
|
@ -417,9 +544,38 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 595,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "MethodError",
|
||||
"evalue": "MethodError: no method matching adjoint(::Char)\nClosest candidates are:\n adjoint(!Matched::Missing) at missing.jl:100\n adjoint(!Matched::LightGraphs.DefaultDistance) at /home/dguillot/.julia/packages/LightGraphs/siFgP/src/distance.jl:22\n adjoint(!Matched::Number) at number.jl:169\n ...",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"MethodError: no method matching adjoint(::Char)\n",
|
||||
"Closest candidates are:\n",
|
||||
" adjoint(!Matched::Missing) at missing.jl:100\n",
|
||||
" adjoint(!Matched::LightGraphs.DefaultDistance) at /home/dguillot/.julia/packages/LightGraphs/siFgP/src/distance.jl:22\n",
|
||||
" adjoint(!Matched::Number) at number.jl:169\n",
|
||||
" ...\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:8\n",
|
||||
" [2] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [3] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [4] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [5] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [6] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [7] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [8] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [9] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [10] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [11] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [12] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [13] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Script launching predictions on different diseases on karat7 and printing \n",
|
||||
"# the precentage of infected at each time step.\n",
|
||||
|
|
@ -433,9 +589,38 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 596,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "MethodError",
|
||||
"evalue": "MethodError: no method matching adjoint(::Char)\nClosest candidates are:\n adjoint(!Matched::Missing) at missing.jl:100\n adjoint(!Matched::LightGraphs.DefaultDistance) at /home/dguillot/.julia/packages/LightGraphs/siFgP/src/distance.jl:22\n adjoint(!Matched::Number) at number.jl:169\n ...",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"MethodError: no method matching adjoint(::Char)\n",
|
||||
"Closest candidates are:\n",
|
||||
" adjoint(!Matched::Missing) at missing.jl:100\n",
|
||||
" adjoint(!Matched::LightGraphs.DefaultDistance) at /home/dguillot/.julia/packages/LightGraphs/siFgP/src/distance.jl:22\n",
|
||||
" adjoint(!Matched::Number) at number.jl:169\n",
|
||||
" ...\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:7\n",
|
||||
" [2] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [3] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [4] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [5] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [6] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [7] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [8] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [9] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [10] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [11] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [12] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [13] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Same as before but applied on toulouse_neigh. May be a bit long to run.\n",
|
||||
"betas = [0.05,0.1,0.15,0.25,0.35,0.45,0.55,0.65,0.75,0.85,0.95]\n",
|
||||
|
|
@ -461,7 +646,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 597,
|
||||
"metadata": {
|
||||
"scrolled": true
|
||||
},
|
||||
|
|
@ -489,7 +674,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 598,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -558,9 +743,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 599,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"SIR (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function SIR(net,state,beta,alpha,t)\n",
|
||||
" \"\"\"Take a contact network at a certain state and apply t time steps\n",
|
||||
|
|
@ -582,7 +777,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 600,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -591,7 +786,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 601,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -600,7 +795,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 602,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -620,9 +815,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 603,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"Simulation_SIR (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function Simulation_SIR(net,nbinf,betas,alphas,t,nbsimu)\n",
|
||||
" \"\"\"Take a contact network, different diseases (defined by \n",
|
||||
|
|
@ -670,9 +875,37 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 604,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "MethodError",
|
||||
"evalue": "MethodError: no method matching getindex(::Char, ::Colon, ::Colon, ::Int64)\nClosest candidates are:\n getindex(::AbstractChar, !Matched::Integer...) at char.jl:199\n getindex(::AbstractChar) at char.jl:197\n getindex(::AbstractChar, !Matched::Integer) at char.jl:198",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"MethodError: no method matching getindex(::Char, ::Colon, ::Colon, ::Int64)\n",
|
||||
"Closest candidates are:\n",
|
||||
" getindex(::AbstractChar, !Matched::Integer...) at char.jl:199\n",
|
||||
" getindex(::AbstractChar) at char.jl:197\n",
|
||||
" getindex(::AbstractChar, !Matched::Integer) at char.jl:198\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:5\n",
|
||||
" [2] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [3] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [4] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [5] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [6] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [7] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [8] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [9] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [10] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [11] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [12] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [13] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Script launching prediction on one disease on n7_2A and plotting the percentage\n",
|
||||
"# of infected, susceptible and recovered at each time step.\n",
|
||||
|
|
@ -697,7 +930,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 605,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -720,7 +953,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 606,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -765,9 +998,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 607,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"SAIR (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function SAIR(net,state,beta0,beta1,alpha,kappa,t)\n",
|
||||
" \"\"\"Take a contact network at a certain state and apply t time steps\n",
|
||||
|
|
@ -791,7 +1034,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 608,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -800,7 +1043,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 609,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -809,7 +1052,7 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 610,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"source": [
|
||||
|
|
@ -829,9 +1072,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 611,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"Simulation_SAIR (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function Simulation_SAIR(net,nbinf,betas0,betas1,alphas,kappas,t,nbsimu)\n",
|
||||
" \"\"\"Take a contact network, different diseases (defined by \n",
|
||||
|
|
@ -881,9 +1134,37 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 612,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "MethodError",
|
||||
"evalue": "MethodError: no method matching getindex(::Char, ::Colon, ::Colon, ::Int64)\nClosest candidates are:\n getindex(::AbstractChar, !Matched::Integer...) at char.jl:199\n getindex(::AbstractChar) at char.jl:197\n getindex(::AbstractChar, !Matched::Integer) at char.jl:198",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"MethodError: no method matching getindex(::Char, ::Colon, ::Colon, ::Int64)\n",
|
||||
"Closest candidates are:\n",
|
||||
" getindex(::AbstractChar, !Matched::Integer...) at char.jl:199\n",
|
||||
" getindex(::AbstractChar) at char.jl:197\n",
|
||||
" getindex(::AbstractChar, !Matched::Integer) at char.jl:198\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:6\n",
|
||||
" [2] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [3] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [4] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [5] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [6] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [7] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [8] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [9] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [10] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [11] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [12] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [13] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Script launching prediction on one disease on toulouse_neigh and plotting the percentage\n",
|
||||
"# of infected at each time step for SIR and SAIR.\n",
|
||||
|
|
@ -945,9 +1226,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 613,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"jordan (generic function with 1 method)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function jordan(g,state)\n",
|
||||
" \"\"\"Find patient zero by mean of the jordan center method.\n",
|
||||
|
|
@ -976,9 +1267,19 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 614,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"data": {
|
||||
"text/plain": [
|
||||
"distance (generic function with 2 methods)"
|
||||
]
|
||||
},
|
||||
"metadata": {},
|
||||
"output_type": "display_data"
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"function distance(g,state,alpha=1.)\n",
|
||||
" \"\"\"Find patient zero by mean of the distance centrality method.\n",
|
||||
|
|
@ -1012,9 +1313,38 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 615,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "ArgumentError",
|
||||
"evalue": "ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] to_index(::String) at ./indices.jl:297\n",
|
||||
" [2] to_index(::Array{String,1}, ::String) at ./indices.jl:274\n",
|
||||
" [3] to_indices at ./indices.jl:325 [inlined]\n",
|
||||
" [4] to_indices at ./indices.jl:322 [inlined]\n",
|
||||
" [5] setindex!(::Array{String,1}, ::String, ::String) at ./abstractarray.jl:1073\n",
|
||||
" [6] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:32\n",
|
||||
" [7] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [8] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [9] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [10] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [11] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [12] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [13] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [14] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [15] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [16] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [17] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [18] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Loading a snapshot of karat7\n",
|
||||
"@load \"karat7_Q22_1.jld2\" g state pat_zero alpha beta loc_x loc_y\n",
|
||||
|
|
@ -1064,9 +1394,38 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 616,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "ArgumentError",
|
||||
"evalue": "ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] to_index(::String) at ./indices.jl:297\n",
|
||||
" [2] to_index(::Array{String,1}, ::String) at ./indices.jl:274\n",
|
||||
" [3] to_indices at ./indices.jl:325 [inlined]\n",
|
||||
" [4] to_indices at ./indices.jl:322 [inlined]\n",
|
||||
" [5] setindex!(::Array{String,1}, ::String, ::String) at ./abstractarray.jl:1073\n",
|
||||
" [6] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:32\n",
|
||||
" [7] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [8] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [9] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [10] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [11] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [12] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [13] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [14] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [15] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [16] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [17] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [18] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Loading a snapshot of karat7\n",
|
||||
"@load \"karat7_Q22_2.jld2\" g state pat_zero alpha beta loc_x loc_y\n",
|
||||
|
|
@ -1116,9 +1475,38 @@
|
|||
},
|
||||
{
|
||||
"cell_type": "code",
|
||||
"execution_count": null,
|
||||
"execution_count": 617,
|
||||
"metadata": {},
|
||||
"outputs": [],
|
||||
"outputs": [
|
||||
{
|
||||
"ename": "ArgumentError",
|
||||
"evalue": "ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String",
|
||||
"output_type": "error",
|
||||
"traceback": [
|
||||
"ArgumentError: invalid index: \"Find patient zero by mean of the distance centrality method.\\n\\nPARAMS\\n g (LightGraph): graph representing the contact network\\n state (Array{Int32,1}): disease status of each vertex\\n alpha (Float64): curing rate\\n\\nRETURNS\\n (Int32): the patient zero vertex number \\n\" of type String\n",
|
||||
"\n",
|
||||
"Stacktrace:\n",
|
||||
" [1] to_index(::String) at ./indices.jl:297\n",
|
||||
" [2] to_index(::Array{String,1}, ::String) at ./indices.jl:274\n",
|
||||
" [3] to_indices at ./indices.jl:325 [inlined]\n",
|
||||
" [4] to_indices at ./indices.jl:322 [inlined]\n",
|
||||
" [5] setindex!(::Array{String,1}, ::String, ::String) at ./abstractarray.jl:1073\n",
|
||||
" [6] top-level scope at /home/dguillot/2A/Graphe/graph21-22.ipynb:32\n",
|
||||
" [7] include_string(::Module, ::String, ::String) at ./loading.jl:1080\n",
|
||||
" [8] #invokelatest#1 at ./essentials.jl:712 [inlined]\n",
|
||||
" [9] invokelatest at ./essentials.jl:711 [inlined]\n",
|
||||
" [10] (::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String})() at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:18\n",
|
||||
" [11] withpath(::VSCodeServer.var\"#146#147\"{VSCodeServer.NotebookRunCellArguments,String}, ::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/repl.jl:185\n",
|
||||
" [12] notebook_runcell_request(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.NotebookRunCellArguments) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:14\n",
|
||||
" [13] dispatch_msg(::VSCodeServer.JSONRPC.JSONRPCEndpoint{Base.PipeEndpoint,Base.PipeEndpoint}, ::VSCodeServer.JSONRPC.MsgDispatcher, ::Dict{String,Any}) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/JSONRPC/src/typed.jl:67\n",
|
||||
" [14] serve_notebook(::String; crashreporting_pipename::String) at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/packages/VSCodeServer/src/serve_notebook.jl:94\n",
|
||||
" [15] top-level scope at /home/dguillot/.vscode-server/extensions/julialang.language-julia-1.5.6/scripts/notebook/notebook.jl:12\n",
|
||||
" [16] include(::Module, ::String) at ./Base.jl:377\n",
|
||||
" [17] exec_options(::Base.JLOptions) at ./client.jl:288\n",
|
||||
" [18] _start() at ./client.jl:484"
|
||||
]
|
||||
}
|
||||
],
|
||||
"source": [
|
||||
"# Loading a snapshot of grid50\n",
|
||||
"@load \"grid50_Q22.jld2\" g state pat_zero alpha beta loc_x loc_y\n",
|
||||
|
|
@ -1169,7 +1557,7 @@
|
|||
],
|
||||
"metadata": {
|
||||
"kernelspec": {
|
||||
"display_name": "Julia 1.4.2",
|
||||
"display_name": "Julia 1.4.1",
|
||||
"language": "julia",
|
||||
"name": "julia-1.4"
|
||||
},
|
||||
|
|
@ -1177,7 +1565,7 @@
|
|||
"file_extension": ".jl",
|
||||
"mimetype": "application/julia",
|
||||
"name": "julia",
|
||||
"version": "1.4.2"
|
||||
"version": "1.4.1"
|
||||
}
|
||||
},
|
||||
"nbformat": 4,
|
||||
|
|
|
|||
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n7_2A.png
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Loading…
Reference in a new issue