{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "# 38 Interactive plotting with Bokeh in GemGIS\n", "\n", "The ``bokeh`` package allows it to create interactive plots of the available geo data. \n" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Set File Paths and download Tutorial Data\n", "\n", "If you downloaded the latest `GemGIS` version from the Github repository, append the path so that the package can be imported successfully. Otherwise, it is recommended to install `GemGIS` via `pip install gemgis` and import `GemGIS` using `import gemgis as gg`. In addition, the file path to the folder where the data is being stored is set. The tutorial data is downloaded using Pooch (https://www.fatiando.org/pooch/latest/index.html) and stored in the specified folder. Use `pip install pooch` if Pooch is not installed on your system yet." ] }, { "cell_type": "code", "execution_count": 1, "metadata": { "ExecuteTime": { "end_time": "2021-03-17T12:01:03.074704Z", "start_time": "2021-03-17T12:01:00.812181Z" } }, "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "WARNING (theano.configdefaults): g++ not available, if using conda: `conda install m2w64-toolchain`\n", "C:\\Users\\ale93371\\Anaconda3\\envs\\test_gempy\\lib\\site-packages\\theano\\configdefaults.py:560: UserWarning: DeprecationWarning: there is no c++ compiler.This is deprecated and with Theano 0.11 a c++ compiler will be mandatory\n", " warnings.warn(\"DeprecationWarning: there is no c++ compiler.\"\n", "WARNING (theano.configdefaults): g++ not detected ! Theano will be unable to execute optimized C-implementations (for both CPU and GPU) and will default to Python implementations. Performance will be severely degraded. To remove this warning, set Theano flags cxx to an empty string.\n", "WARNING (theano.tensor.blas): Using NumPy C-API based implementation for BLAS functions.\n" ] } ], "source": [ "import gemgis as gg\n", "\n", "file_path ='../../../../gemgis_data/data/38_interactive_plotting_with_bokeh_in gemgis/'" ] }, { "cell_type": "code", "execution_count": 3, "metadata": { "ExecuteTime": { "end_time": "2021-03-17T12:01:32.205446Z", "start_time": "2021-03-17T12:01:26.773273Z" } }, "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "Downloading file '38_interactive_plotting_with_bokeh_in gemgis.zip' from 'https://rwth-aachen.sciebo.de/s/AfXRsZywYDbUF34/download?path=%2F38_interactive_plotting_with_bokeh_in gemgis.zip' to 'C:\\Users\\ale93371\\Documents\\gemgis_data\\data\\38_interactive_plotting_with_bokeh_in gemgis'.\n" ] } ], "source": [ "gg.download_gemgis_data.download_tutorial_data(filename=\"38_interactive_plotting_with_bokeh_in gemgis.zip\", dirpath=file_path)" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Loading Libraries" ] }, { "cell_type": "code", "execution_count": 2, "metadata": { "ExecuteTime": { "end_time": "2020-12-26T22:13:10.845566Z", "start_time": "2020-12-26T22:13:05.319280Z" } }, "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "WARNING (theano.configdefaults): g++ not available, if using conda: `conda install m2w64-toolchain`\n", "C:\\Users\\ale93371\\Anaconda3\\envs\\test_gempy\\lib\\site-packages\\theano\\configdefaults.py:560: UserWarning: DeprecationWarning: there is no c++ compiler.This is deprecated and with Theano 0.11 a c++ compiler will be mandatory\n", " warnings.warn(\"DeprecationWarning: there is no c++ compiler.\"\n", "WARNING (theano.configdefaults): g++ not detected ! Theano will be unable to execute optimized C-implementations (for both CPU and GPU) and will default to Python implementations. Performance will be severely degraded. To remove this warning, set Theano flags cxx to an empty string.\n", "WARNING (theano.tensor.blas): Using NumPy C-API based implementation for BLAS functions.\n" ] } ], "source": [ "import geopandas as gpd\n", "import rasterio" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Importing Bokeh \n", "\n", "Bokeh is being imported and the output of the plots is set to be in the notebooks." ] }, { "cell_type": "code", "execution_count": 3, "metadata": { "ExecuteTime": { "end_time": "2020-12-26T22:13:11.574415Z", "start_time": "2020-12-26T22:13:10.848563Z" } }, "outputs": [ { "data": { "text/html": [ "\n", "
" ] }, "metadata": {}, "output_type": "display_data" }, { "data": { "application/javascript": [ "\n", "(function(root) {\n", " function now() {\n", " return new Date();\n", " }\n", "\n", " var force = true;\n", "\n", " if (typeof root._bokeh_onload_callbacks === \"undefined\" || force === true) {\n", " root._bokeh_onload_callbacks = [];\n", " root._bokeh_is_loading = undefined;\n", " }\n", "\n", " var JS_MIME_TYPE = 'application/javascript';\n", " var HTML_MIME_TYPE = 'text/html';\n", " var EXEC_MIME_TYPE = 'application/vnd.bokehjs_exec.v0+json';\n", " var CLASS_NAME = 'output_bokeh rendered_html';\n", "\n", " /**\n", " * Render data to the DOM node\n", " */\n", " function render(props, node) {\n", " var script = document.createElement(\"script\");\n", " node.appendChild(script);\n", " }\n", "\n", " /**\n", " * Handle when an output is cleared or removed\n", " */\n", " function handleClearOutput(event, handle) {\n", " var cell = handle.cell;\n", "\n", " var id = cell.output_area._bokeh_element_id;\n", " var server_id = cell.output_area._bokeh_server_id;\n", " // Clean up Bokeh references\n", " if (id != null && id in Bokeh.index) {\n", " Bokeh.index[id].model.document.clear();\n", " delete Bokeh.index[id];\n", " }\n", "\n", " if (server_id !== undefined) {\n", " // Clean up Bokeh references\n", " var cmd = \"from bokeh.io.state import curstate; print(curstate().uuid_to_server['\" + server_id + \"'].get_sessions()[0].document.roots[0]._id)\";\n", " cell.notebook.kernel.execute(cmd, {\n", " iopub: {\n", " output: function(msg) {\n", " var id = msg.content.text.trim();\n", " if (id in Bokeh.index) {\n", " Bokeh.index[id].model.document.clear();\n", " delete Bokeh.index[id];\n", " }\n", " }\n", " }\n", " });\n", " // Destroy server and session\n", " var cmd = \"import bokeh.io.notebook as ion; ion.destroy_server('\" + server_id + \"')\";\n", " cell.notebook.kernel.execute(cmd);\n", " }\n", " }\n", "\n", " /**\n", " * Handle when a new output is added\n", " */\n", " function handleAddOutput(event, handle) {\n", " var output_area = handle.output_area;\n", " var output = handle.output;\n", "\n", " // limit handleAddOutput to display_data with EXEC_MIME_TYPE content only\n", " if ((output.output_type != \"display_data\") || (!output.data.hasOwnProperty(EXEC_MIME_TYPE))) {\n", " return\n", " }\n", "\n", " var toinsert = output_area.element.find(\".\" + CLASS_NAME.split(' ')[0]);\n", "\n", " if (output.metadata[EXEC_MIME_TYPE][\"id\"] !== undefined) {\n", " toinsert[toinsert.length - 1].firstChild.textContent = output.data[JS_MIME_TYPE];\n", " // store reference to embed id on output_area\n", " output_area._bokeh_element_id = output.metadata[EXEC_MIME_TYPE][\"id\"];\n", " }\n", " if (output.metadata[EXEC_MIME_TYPE][\"server_id\"] !== undefined) {\n", " var bk_div = document.createElement(\"div\");\n", " bk_div.innerHTML = output.data[HTML_MIME_TYPE];\n", " var script_attrs = bk_div.children[0].attributes;\n", " for (var i = 0; i < script_attrs.length; i++) {\n", " toinsert[toinsert.length - 1].firstChild.setAttribute(script_attrs[i].name, script_attrs[i].value);\n", " toinsert[toinsert.length - 1].firstChild.textContent = bk_div.children[0].textContent\n", " }\n", " // store reference to server id on output_area\n", " output_area._bokeh_server_id = output.metadata[EXEC_MIME_TYPE][\"server_id\"];\n", " }\n", " }\n", "\n", " function register_renderer(events, OutputArea) {\n", "\n", " function append_mime(data, metadata, element) {\n", " // create a DOM node to render to\n", " var toinsert = this.create_output_subarea(\n", " metadata,\n", " CLASS_NAME,\n", " EXEC_MIME_TYPE\n", " );\n", " this.keyboard_manager.register_events(toinsert);\n", " // Render to node\n", " var props = {data: data, metadata: metadata[EXEC_MIME_TYPE]};\n", " render(props, toinsert[toinsert.length - 1]);\n", " element.append(toinsert);\n", " return toinsert\n", " }\n", "\n", " /* Handle when an output is cleared or removed */\n", " events.on('clear_output.CodeCell', handleClearOutput);\n", " events.on('delete.Cell', handleClearOutput);\n", "\n", " /* Handle when a new output is added */\n", " events.on('output_added.OutputArea', handleAddOutput);\n", "\n", " /**\n", " * Register the mime type and append_mime function with output_area\n", " */\n", " OutputArea.prototype.register_mime_type(EXEC_MIME_TYPE, append_mime, {\n", " /* Is output safe? */\n", " safe: true,\n", " /* Index of renderer in `output_area.display_order` */\n", " index: 0\n", " });\n", " }\n", "\n", " // register the mime type if in Jupyter Notebook environment and previously unregistered\n", " if (root.Jupyter !== undefined) {\n", " var events = require('base/js/events');\n", " var OutputArea = require('notebook/js/outputarea').OutputArea;\n", "\n", " if (OutputArea.prototype.mime_types().indexOf(EXEC_MIME_TYPE) == -1) {\n", " register_renderer(events, OutputArea);\n", " }\n", " }\n", "\n", " \n", " if (typeof (root._bokeh_timeout) === \"undefined\" || force === true) {\n", " root._bokeh_timeout = Date.now() + 5000;\n", " root._bokeh_failed_load = false;\n", " }\n", "\n", " var NB_LOAD_WARNING = {'data': {'text/html':\n", " \"\\n\"+\n", " \"BokehJS does not appear to have successfully loaded. If loading BokehJS from CDN, this \\n\"+\n", " \"may be due to a slow or bad network connection. Possible fixes:\\n\"+\n", " \"
\\n\"+\n", " \"\\n\"+\n",
" \"from bokeh.resources import INLINE\\n\"+\n",
" \"output_notebook(resources=INLINE)\\n\"+\n",
" \"
\\n\"+\n",
" \"\\n\"+\n \"BokehJS does not appear to have successfully loaded. If loading BokehJS from CDN, this \\n\"+\n \"may be due to a slow or bad network connection. Possible fixes:\\n\"+\n \"
\\n\"+\n \"\\n\"+\n \"from bokeh.resources import INLINE\\n\"+\n \"output_notebook(resources=INLINE)\\n\"+\n \"
\\n\"+\n \"