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cfobel/MicroDrop - routes table format.ipynb

Last active September 4, 2019 17:25
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MicroDrop step routes table format
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README.md

This repo includes a notebook to show the format of routes table/dataframe expected by the MicroDrop droplet-planning-plugin.

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MicroDrop - routes table format.ipynb
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"source": [
"routes = [['electrode087', 'electrode053', 'electrode006', 'electrode007',\n",
" 'electrode067'],\n",
" ['electrode009', 'electrode065', 'electrode066', 'electrode067']]"
]
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"data": {
"text/plain": [
"{'columns': ['route_i', 'transition_i', 'electrode_i'],\n",
" 'index': [0, 1, 2, 3, 4, 5, 6, 7, 8],\n",
" 'index_dtype': 'int64',\n",
" 'type': 'DataFrame',\n",
" 'values': [[0, 0, 'electrode087'],\n",
" [0, 1, 'electrode053'],\n",
" [0, 2, 'electrode006'],\n",
" [0, 3, 'electrode007'],\n",
" [0, 4, 'electrode067'],\n",
" [1, 0, 'electrode009'],\n",
" [1, 1, 'electrode065'],\n",
" [1, 2, 'electrode066'],\n",
" [1, 3, 'electrode067']]}"
]
},
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"metadata": {},
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],
"source": [
"table = {'columns': ['route_i', 'transition_i', 'electrode_i'],\n",
" 'index_dtype': 'int64',\n",
" 'type': 'DataFrame'}\n",
"\n",
"table['values'] = [[i, j, electrode] for i, route in enumerate(routes)\n",
" for j, electrode in enumerate(route)]\n",
"table['index'] = range(len(table['values']))\n",
"table"
]
},
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"end_time": "2019-09-04T17:19:22.109000Z",
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"outputs": [
{
"data": {
"text/html": [
"<div>\n",
"<style scoped>\n",
" .dataframe tbody tr th:only-of-type {\n",
" vertical-align: middle;\n",
" }\n",
"\n",
" .dataframe tbody tr th {\n",
" vertical-align: top;\n",
" }\n",
"\n",
" .dataframe thead th {\n",
" text-align: right;\n",
" }\n",
"</style>\n",
"<table border=\"1\" class=\"dataframe\">\n",
" <thead>\n",
" <tr style=\"text-align: right;\">\n",
" <th></th>\n",
" <th>route_i</th>\n",
" <th>transition_i</th>\n",
" <th>electrode_i</th>\n",
" </tr>\n",
" </thead>\n",
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
" <td>0</td>\n",
" <td>0</td>\n",
" <td>electrode087</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
" <td>0</td>\n",
" <td>1</td>\n",
" <td>electrode053</td>\n",
" </tr>\n",
" <tr>\n",
" <th>2</th>\n",
" <td>0</td>\n",
" <td>2</td>\n",
" <td>electrode006</td>\n",
" </tr>\n",
" <tr>\n",
" <th>3</th>\n",
" <td>0</td>\n",
" <td>3</td>\n",
" <td>electrode007</td>\n",
" </tr>\n",
" <tr>\n",
" <th>4</th>\n",
" <td>0</td>\n",
" <td>4</td>\n",
" <td>electrode067</td>\n",
" </tr>\n",
" <tr>\n",
" <th>5</th>\n",
" <td>1</td>\n",
" <td>0</td>\n",
" <td>electrode009</td>\n",
" </tr>\n",
" <tr>\n",
" <th>6</th>\n",
" <td>1</td>\n",
" <td>1</td>\n",
" <td>electrode065</td>\n",
" </tr>\n",
" <tr>\n",
" <th>7</th>\n",
" <td>1</td>\n",
" <td>2</td>\n",
" <td>electrode066</td>\n",
" </tr>\n",
" <tr>\n",
" <th>8</th>\n",
" <td>1</td>\n",
" <td>3</td>\n",
" <td>electrode067</td>\n",
" </tr>\n",
" </tbody>\n",
"</table>\n",
"</div>"
],
"text/plain": [
" route_i transition_i electrode_i\n",
"0 0 0 electrode087\n",
"1 0 1 electrode053\n",
"2 0 2 electrode006\n",
"3 0 3 electrode007\n",
"4 0 4 electrode067\n",
"5 1 0 electrode009\n",
"6 1 1 electrode065\n",
"7 1 2 electrode066\n",
"8 1 3 electrode067"
]
},
"metadata": {},
"output_type": "display_data"
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{
"data": {
"text/markdown": [
"### Equivalent list of route lists:"
],
"text/plain": [
"<IPython.core.display.Markdown object>"
]
},
"metadata": {},
"output_type": "display_data"
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{
"data": {
"text/plain": [
"[['electrode087',\n",
" 'electrode053',\n",
" 'electrode006',\n",
" 'electrode007',\n",
" 'electrode067'],\n",
" ['electrode009', 'electrode065', 'electrode066', 'electrode067']]"
]
},
"metadata": {},
"output_type": "display_data"
}
],
"source": [
"from IPython.display import Markdown\n",
"import zmq_plugin as zp\n",
"import zmq_plugin.schema\n",
"\n",
"# See https://github.com/sci-bots/zmq-plugin/blob/50e2e0a805b15ee27a02c0440bdf66caaff0679c/zmq_plugin/schema.py#L555-L596\n",
"df_routes = zp.schema.pandas_object_hook(table)\n",
"display(df_routes)\n",
"display(Markdown('### Equivalent list of route lists:'),\n",
" [df_j.electrode_i.tolist()\n",
" for route_j, df_j in df_routes.groupby('route_i')])"
]
}
],
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"display_name": "Python 2",
"language": "python",
"name": "python2"
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"version": 2
},
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"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython2",
"version": "2.7.14"
},
"latex_envs": {
"LaTeX_envs_menu_present": true,
"autoclose": false,
"autocomplete": true,
"bibliofile": "biblio.bib",
"cite_by": "apalike",
"current_citInitial": 1,
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"eqNumInitial": 1,
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"itemize": "Ctrl-I"
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"nav_menu": {},
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"skip_h1_title": false,
"title_cell": "Table of Contents",
"title_sidebar": "Contents",
"toc_cell": false,
"toc_position": {},
"toc_section_display": true,
"toc_window_display": false
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"nbformat": 4,
"nbformat_minor": 2
}
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