stimmenfryslan/notebooks/Dialect Regions from image....

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2018-09-28 10:35:17 +02:00
{
"cells": [
{
"cell_type": "markdown",
"metadata": {},
"source": [
"# Extract dialect regions from image\n",
"\n",
"Using image processing, extract region polygons for the dialects depicted in this image\n",
"\n",
"![dialect regions](../data/dialects.png)"
]
},
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{
"cell_type": "code",
"execution_count": 1,
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"metadata": {},
"outputs": [],
"source": [
"from math import floor\n",
"\n",
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"import json\n",
"import folium\n",
"from folium_jsbutton import JsButton\n",
"from imageio import imread\n",
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"\n",
"from collections import Counter\n",
"\n",
"from math import sqrt\n",
"import numpy as np\n",
"\n",
"%matplotlib notebook\n",
"from matplotlib import pyplot as plt\n",
"\n",
"from skimage.morphology import binary_closing\n",
"from skimage.measure import find_contours, label"
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]
},
{
"cell_type": "markdown",
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"metadata": {},
"source": [
"# Input\n",
"\n",
"Load the image and determine the used colors."
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]
},
{
"cell_type": "code",
"execution_count": 2,
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"metadata": {},
"outputs": [],
"source": [
"im = imread('../data/dialects.png')\n",
"\n",
"color_occurence = Counter(map(tuple, im.reshape(-1,3)))\n",
"\n",
"color_sorted_by_occurence = [c for c, _ in sorted(\n",
" color_occurence.items(),\n",
" key=lambda x: x[1],\n",
" reverse=True\n",
")]"
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]
},
{
"cell_type": "markdown",
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"metadata": {},
"source": [
"# Relevant colors\n",
"\n",
"Show the most used colors and select those of the relevant (dialect) regions"
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]
},
{
"cell_type": "code",
"execution_count": 3,
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"metadata": {},
"outputs": [
{
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" this.message.textContent = tooltip;\n",
"};\n",
"mpl.toolbar_items = [[\"Home\", \"Reset original view\", \"fa fa-home icon-home\", \"home\"], [\"Back\", \"Back to previous view\", \"fa fa-arrow-left icon-arrow-left\", \"back\"], [\"Forward\", \"Forward to next view\", \"fa fa-arrow-right icon-arrow-right\", \"forward\"], [\"\", \"\", \"\", \"\"], [\"Pan\", \"Pan axes with left mouse, zoom with right\", \"fa fa-arrows icon-move\", \"pan\"], [\"Zoom\", \"Zoom to rectangle\", \"fa fa-square-o icon-check-empty\", \"zoom\"], [\"\", \"\", \"\", \"\"], [\"Download\", \"Download plot\", \"fa fa-floppy-o icon-save\", \"download\"]];\n",
"\n",
"mpl.extensions = [\"eps\", \"jpeg\", \"pdf\", \"png\", \"ps\", \"raw\", \"svg\", \"tif\"];\n",
"\n",
"mpl.default_extension = \"png\";var comm_websocket_adapter = function(comm) {\n",
" // Create a \"websocket\"-like object which calls the given IPython comm\n",
" // object with the appropriate methods. Currently this is a non binary\n",
" // socket, so there is still some room for performance tuning.\n",
" var ws = {};\n",
"\n",
" ws.close = function() {\n",
" comm.close()\n",
" };\n",
" ws.send = function(m) {\n",
" //console.log('sending', m);\n",
" comm.send(m);\n",
" };\n",
" // Register the callback with on_msg.\n",
" comm.on_msg(function(msg) {\n",
" //console.log('receiving', msg['content']['data'], msg);\n",
" // Pass the mpl event to the overridden (by mpl) onmessage function.\n",
" ws.onmessage(msg['content']['data'])\n",
" });\n",
" return ws;\n",
"}\n",
"\n",
"mpl.mpl_figure_comm = function(comm, msg) {\n",
" // This is the function which gets called when the mpl process\n",
" // starts-up an IPython Comm through the \"matplotlib\" channel.\n",
"\n",
" var id = msg.content.data.id;\n",
" // Get hold of the div created by the display call when the Comm\n",
" // socket was opened in Python.\n",
" var element = $(\"#\" + id);\n",
" var ws_proxy = comm_websocket_adapter(comm)\n",
"\n",
" function ondownload(figure, format) {\n",
" window.open(figure.imageObj.src);\n",
" }\n",
"\n",
" var fig = new mpl.figure(id, ws_proxy,\n",
" ondownload,\n",
" element.get(0));\n",
"\n",
" // Call onopen now - mpl needs it, as it is assuming we've passed it a real\n",
" // web socket which is closed, not our websocket->open comm proxy.\n",
" ws_proxy.onopen();\n",
"\n",
" fig.parent_element = element.get(0);\n",
" fig.cell_info = mpl.find_output_cell(\"<div id='\" + id + \"'></div>\");\n",
" if (!fig.cell_info) {\n",
" console.error(\"Failed to find cell for figure\", id, fig);\n",
" return;\n",
" }\n",
"\n",
" var output_index = fig.cell_info[2]\n",
" var cell = fig.cell_info[0];\n",
"\n",
"};\n",
"\n",
"mpl.figure.prototype.handle_close = function(fig, msg) {\n",
" var width = fig.canvas.width/mpl.ratio\n",
" fig.root.unbind('remove')\n",
"\n",
" // Update the output cell to use the data from the current canvas.\n",
" fig.push_to_output();\n",
" var dataURL = fig.canvas.toDataURL();\n",
" // Re-enable the keyboard manager in IPython - without this line, in FF,\n",
" // the notebook keyboard shortcuts fail.\n",
" IPython.keyboard_manager.enable()\n",
" $(fig.parent_element).html('<img src=\"' + dataURL + '\" width=\"' + width + '\">');\n",
" fig.close_ws(fig, msg);\n",
"}\n",
"\n",
"mpl.figure.prototype.close_ws = function(fig, msg){\n",
" fig.send_message('closing', msg);\n",
" // fig.ws.close()\n",
"}\n",
"\n",
"mpl.figure.prototype.push_to_output = function(remove_interactive) {\n",
" // Turn the data on the canvas into data in the output cell.\n",
" var width = this.canvas.width/mpl.ratio\n",
" var dataURL = this.canvas.toDataURL();\n",
" this.cell_info[1]['text/html'] = '<img src=\"' + dataURL + '\" width=\"' + width + '\">';\n",
"}\n",
"\n",
"mpl.figure.prototype.updated_canvas_event = function() {\n",
" // Tell IPython that the notebook contents must change.\n",
" IPython.notebook.set_dirty(true);\n",
" this.send_message(\"ack\", {});\n",
" var fig = this;\n",
" // Wait a second, then push the new image to the DOM so\n",
" // that it is saved nicely (might be nice to debounce this).\n",
" setTimeout(function () { fig.push_to_output() }, 1000);\n",
"}\n",
"\n",
"mpl.figure.prototype._init_toolbar = function() {\n",
" var fig = this;\n",
"\n",
" var nav_element = $('<div/>')\n",
" nav_element.attr('style', 'width: 100%');\n",
" this.root.append(nav_element);\n",
"\n",
" // Define a callback function for later on.\n",
" function toolbar_event(event) {\n",
" return fig.toolbar_button_onclick(event['data']);\n",
" }\n",
" function toolbar_mouse_event(event) {\n",
" return fig.toolbar_button_onmouseover(event['data']);\n",
" }\n",
"\n",
" for(var toolbar_ind in mpl.toolbar_items){\n",
" var name = mpl.toolbar_items[toolbar_ind][0];\n",
" var tooltip = mpl.toolbar_items[toolbar_ind][1];\n",
" var image = mpl.toolbar_items[toolbar_ind][2];\n",
" var method_name = mpl.toolbar_items[toolbar_ind][3];\n",
"\n",
" if (!name) { continue; };\n",
"\n",
" var button = $('<button class=\"btn btn-default\" href=\"#\" title=\"' + name + '\"><i class=\"fa ' + image + ' fa-lg\"></i></button>');\n",
" button.click(method_name, toolbar_event);\n",
" button.mouseover(tooltip, toolbar_mouse_event);\n",
" nav_element.append(button);\n",
" }\n",
"\n",
" // Add the status bar.\n",
" var status_bar = $('<span class=\"mpl-message\" style=\"text-align:right; float: right;\"/>');\n",
" nav_element.append(status_bar);\n",
" this.message = status_bar[0];\n",
"\n",
" // Add the close button to the window.\n",
" var buttongrp = $('<div class=\"btn-group inline pull-right\"></div>');\n",
" var button = $('<button class=\"btn btn-mini btn-primary\" href=\"#\" title=\"Stop Interaction\"><i class=\"fa fa-power-off icon-remove icon-large\"></i></button>');\n",
" button.click(function (evt) { fig.handle_close(fig, {}); } );\n",
" button.mouseover('Stop Interaction', toolbar_mouse_event);\n",
" buttongrp.append(button);\n",
" var titlebar = this.root.find($('.ui-dialog-titlebar'));\n",
" titlebar.prepend(buttongrp);\n",
"}\n",
"\n",
"mpl.figure.prototype._root_extra_style = function(el){\n",
" var fig = this\n",
" el.on(\"remove\", function(){\n",
"\tfig.close_ws(fig, {});\n",
" });\n",
"}\n",
"\n",
"mpl.figure.prototype._canvas_extra_style = function(el){\n",
" // this is important to make the div 'focusable\n",
" el.attr('tabindex', 0)\n",
" // reach out to IPython and tell the keyboard manager to turn it's self\n",
" // off when our div gets focus\n",
"\n",
" // location in version 3\n",
" if (IPython.notebook.keyboard_manager) {\n",
" IPython.notebook.keyboard_manager.register_events(el);\n",
" }\n",
" else {\n",
" // location in version 2\n",
" IPython.keyboard_manager.register_events(el);\n",
" }\n",
"\n",
"}\n",
"\n",
"mpl.figure.prototype._key_event_extra = function(event, name) {\n",
" var manager = IPython.notebook.keyboard_manager;\n",
" if (!manager)\n",
" manager = IPython.keyboard_manager;\n",
"\n",
" // Check for shift+enter\n",
" if (event.shiftKey && event.which == 13) {\n",
" this.canvas_div.blur();\n",
" event.shiftKey = false;\n",
" // Send a \"J\" for go to next cell\n",
" event.which = 74;\n",
" event.keyCode = 74;\n",
" manager.command_mode();\n",
" manager.handle_keydown(event);\n",
" }\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_save = function(fig, msg) {\n",
" fig.ondownload(fig, null);\n",
"}\n",
"\n",
"\n",
"mpl.find_output_cell = function(html_output) {\n",
" // Return the cell and output element which can be found *uniquely* in the notebook.\n",
" // Note - this is a bit hacky, but it is done because the \"notebook_saving.Notebook\"\n",
" // IPython event is triggered only after the cells have been serialised, which for\n",
" // our purposes (turning an active figure into a static one), is too late.\n",
" var cells = IPython.notebook.get_cells();\n",
" var ncells = cells.length;\n",
" for (var i=0; i<ncells; i++) {\n",
" var cell = cells[i];\n",
" if (cell.cell_type === 'code'){\n",
" for (var j=0; j<cell.output_area.outputs.length; j++) {\n",
" var data = cell.output_area.outputs[j];\n",
" if (data.data) {\n",
" // IPython >= 3 moved mimebundle to data attribute of output\n",
" data = data.data;\n",
" }\n",
" if (data['text/html'] == html_output) {\n",
" return [cell, data, j];\n",
" }\n",
" }\n",
" }\n",
" }\n",
"}\n",
"\n",
"// Register the function which deals with the matplotlib target/channel.\n",
"// The kernel may be null if the page has been refreshed.\n",
"if (IPython.notebook.kernel != null) {\n",
" IPython.notebook.kernel.comm_manager.register_target('matplotlib', mpl.mpl_figure_comm);\n",
"}\n"
],
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],
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"source": [
"pallete_width = floor(sqrt(len(color_sorted_by_occurence)))\n",
"pallette = np.array(color_sorted_by_occurence)[:pallete_width*pallete_width]\n",
"pallette = pallette.reshape(pallete_width, pallete_width, 3)\n",
"\n",
"_, (ax0, ax1) = plt.subplots(1,2)\n",
"\n",
"ax0.imshow(pallette)\n",
"for x in range(pallete_width):\n",
" for y in range(pallete_width):\n",
" ax0.text(x-0.5, y+0.5, x + y*pallete_width)\n",
"ax0.set_xticks([])\n",
"ax0.set_yticks([])\n",
"ax0.set_title('(almost) all colors')\n",
"\n",
"legend_color_indices = [3, 4, 7, 8]\n",
"legend_colors = [color_sorted_by_occurence[i] for i in legend_color_indices]\n",
"pallette = np.array(legend_colors).reshape(1, len(legend_color_indices), 3)\n",
"\n",
"ax1.imshow(pallette)\n",
"ax1.set_xticks([])\n",
"ax1.set_yticks([])\n",
"ax1.set_title('selected colors')\n",
"None\n",
"\n",
"regions = ['Klaaifrysk', 'Waldfrysk', 'Sudwesthoeksk', 'Noardhoeksk']"
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]
},
{
"cell_type": "markdown",
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"metadata": {},
"source": [
"# Georeferencing\n",
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"\n",
"Use folium to find the nort-east and south-west corners of the image."
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]
},
{
"cell_type": "code",
"execution_count": 4,
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"metadata": {},
"outputs": [
{
"data": {
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"<div style=\"width:100%;\"><div style=\"position:relative;width:100%;height:0;padding-bottom:60%;\"><iframe src=\"data:text/html;charset=utf-8;base64,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
],
"text/plain": [
"<folium.folium.Map at 0x7fe931d2d828>"
]
},
"execution_count": 4,
"metadata": {},
"output_type": "execute_result"
2018-09-28 10:35:17 +02:00
}
],
"source": [
"bounds = [\n",
" [53.54434089638824, 6.520699920654293],\n",
" [52.59243228879456, 4.684483127594008]\n",
"]\n",
"\n",
"center = (bounds[0][0] + bounds[1][0]) / 2, (bounds[0][1] + bounds[1][1]) / 2\n",
"m = folium.Map(center, zoom_start=9, tiles='stamentoner')\n",
"\n",
"\n",
"img = folium.raster_layers.ImageOverlay(\n",
" name='Dialect regions',\n",
" image='../data/dialects.png',\n",
" bounds=bounds,\n",
" opacity=0.6,\n",
" interactive=True,\n",
" cross_origin=False,\n",
" zindex=1,\n",
")\n",
"img.add_to(m)\n",
"\n",
"control = 1\n",
"for corner, symbol0 in zip(['_northEast', '_southWest'], ['⌜', '⌟']):\n",
" for axis, symbol1 in zip(['lng', 'lat'], ['⟷', '↕']):\n",
" for direction in ['-', '+']:\n",
" JsButton(\n",
"# title='{} {} {}'.format(symbol0, symbol1, direction),\n",
" title = str(control),\n",
" function=\"\"\"\n",
" function(btn, map) {{\n",
" var overlay = image_overlay_{overlay_id};\n",
" var bounds = overlay.getBounds();\n",
" bounds.{corner}.{axis} {direction}= 0.001;\n",
" overlay.setBounds(bounds);\n",
" }}\n",
" \"\"\".format(\n",
" overlay_id = img._id, axis=axis, direction=direction,corner=corner\n",
" )).add_to(m)\n",
" control += 1\n",
" \n",
" \n",
"JsButton(\n",
" title = '[]',\n",
" function=\"\"\"\n",
" function(btn, map) {{\n",
" var overlay = image_overlay_{overlay_id};\n",
" var bounds = overlay.getBounds();\n",
" console.log([[bounds._northEast.lat, bounds._northEast.lng], [bounds._southWest.lat, bounds._southWest.lat]]);\n",
" }}\n",
"\"\"\".format(\n",
" overlay_id = img._id\n",
")).add_to(m)\n",
"\n",
"m"
2018-09-28 10:35:17 +02:00
]
},
{
"cell_type": "markdown",
2018-09-28 10:35:17 +02:00
"metadata": {},
"source": [
"# Locate contours\n",
"\n",
"Find the countours for the connected components marked by the colors."
]
},
{
"cell_type": "code",
"execution_count": 5,
"metadata": {
"scrolled": false
},
2018-09-28 10:35:17 +02:00
"outputs": [
{
"data": {
"application/javascript": [
"/* Put everything inside the global mpl namespace */\n",
"window.mpl = {};\n",
"\n",
"\n",
"mpl.get_websocket_type = function() {\n",
" if (typeof(WebSocket) !== 'undefined') {\n",
" return WebSocket;\n",
" } else if (typeof(MozWebSocket) !== 'undefined') {\n",
" return MozWebSocket;\n",
" } else {\n",
" alert('Your browser does not have WebSocket support.' +\n",
" 'Please try Chrome, Safari or Firefox ≥ 6. ' +\n",
" 'Firefox 4 and 5 are also supported but you ' +\n",
" 'have to enable WebSockets in about:config.');\n",
" };\n",
"}\n",
"\n",
"mpl.figure = function(figure_id, websocket, ondownload, parent_element) {\n",
" this.id = figure_id;\n",
"\n",
" this.ws = websocket;\n",
"\n",
" this.supports_binary = (this.ws.binaryType != undefined);\n",
"\n",
" if (!this.supports_binary) {\n",
" var warnings = document.getElementById(\"mpl-warnings\");\n",
" if (warnings) {\n",
" warnings.style.display = 'block';\n",
" warnings.textContent = (\n",
" \"This browser does not support binary websocket messages. \" +\n",
" \"Performance may be slow.\");\n",
" }\n",
" }\n",
"\n",
" this.imageObj = new Image();\n",
"\n",
" this.context = undefined;\n",
" this.message = undefined;\n",
" this.canvas = undefined;\n",
" this.rubberband_canvas = undefined;\n",
" this.rubberband_context = undefined;\n",
" this.format_dropdown = undefined;\n",
"\n",
" this.image_mode = 'full';\n",
"\n",
" this.root = $('<div/>');\n",
" this._root_extra_style(this.root)\n",
" this.root.attr('style', 'display: inline-block');\n",
"\n",
" $(parent_element).append(this.root);\n",
"\n",
" this._init_header(this);\n",
" this._init_canvas(this);\n",
" this._init_toolbar(this);\n",
"\n",
" var fig = this;\n",
"\n",
" this.waiting = false;\n",
"\n",
" this.ws.onopen = function () {\n",
" fig.send_message(\"supports_binary\", {value: fig.supports_binary});\n",
" fig.send_message(\"send_image_mode\", {});\n",
" if (mpl.ratio != 1) {\n",
" fig.send_message(\"set_dpi_ratio\", {'dpi_ratio': mpl.ratio});\n",
" }\n",
" fig.send_message(\"refresh\", {});\n",
" }\n",
"\n",
" this.imageObj.onload = function() {\n",
" if (fig.image_mode == 'full') {\n",
" // Full images could contain transparency (where diff images\n",
" // almost always do), so we need to clear the canvas so that\n",
" // there is no ghosting.\n",
" fig.context.clearRect(0, 0, fig.canvas.width, fig.canvas.height);\n",
" }\n",
" fig.context.drawImage(fig.imageObj, 0, 0);\n",
" };\n",
"\n",
" this.imageObj.onunload = function() {\n",
" fig.ws.close();\n",
" }\n",
"\n",
" this.ws.onmessage = this._make_on_message_function(this);\n",
"\n",
" this.ondownload = ondownload;\n",
"}\n",
"\n",
"mpl.figure.prototype._init_header = function() {\n",
" var titlebar = $(\n",
" '<div class=\"ui-dialog-titlebar ui-widget-header ui-corner-all ' +\n",
" 'ui-helper-clearfix\"/>');\n",
" var titletext = $(\n",
" '<div class=\"ui-dialog-title\" style=\"width: 100%; ' +\n",
" 'text-align: center; padding: 3px;\"/>');\n",
" titlebar.append(titletext)\n",
" this.root.append(titlebar);\n",
" this.header = titletext[0];\n",
"}\n",
"\n",
"\n",
"\n",
"mpl.figure.prototype._canvas_extra_style = function(canvas_div) {\n",
"\n",
"}\n",
"\n",
"\n",
"mpl.figure.prototype._root_extra_style = function(canvas_div) {\n",
"\n",
"}\n",
"\n",
"mpl.figure.prototype._init_canvas = function() {\n",
" var fig = this;\n",
"\n",
" var canvas_div = $('<div/>');\n",
"\n",
" canvas_div.attr('style', 'position: relative; clear: both; outline: 0');\n",
"\n",
" function canvas_keyboard_event(event) {\n",
" return fig.key_event(event, event['data']);\n",
" }\n",
"\n",
" canvas_div.keydown('key_press', canvas_keyboard_event);\n",
" canvas_div.keyup('key_release', canvas_keyboard_event);\n",
" this.canvas_div = canvas_div\n",
" this._canvas_extra_style(canvas_div)\n",
" this.root.append(canvas_div);\n",
"\n",
" var canvas = $('<canvas/>');\n",
" canvas.addClass('mpl-canvas');\n",
" canvas.attr('style', \"left: 0; top: 0; z-index: 0; outline: 0\")\n",
"\n",
" this.canvas = canvas[0];\n",
" this.context = canvas[0].getContext(\"2d\");\n",
"\n",
" var backingStore = this.context.backingStorePixelRatio ||\n",
"\tthis.context.webkitBackingStorePixelRatio ||\n",
"\tthis.context.mozBackingStorePixelRatio ||\n",
"\tthis.context.msBackingStorePixelRatio ||\n",
"\tthis.context.oBackingStorePixelRatio ||\n",
"\tthis.context.backingStorePixelRatio || 1;\n",
"\n",
" mpl.ratio = (window.devicePixelRatio || 1) / backingStore;\n",
"\n",
" var rubberband = $('<canvas/>');\n",
" rubberband.attr('style', \"position: absolute; left: 0; top: 0; z-index: 1;\")\n",
"\n",
" var pass_mouse_events = true;\n",
"\n",
" canvas_div.resizable({\n",
" start: function(event, ui) {\n",
" pass_mouse_events = false;\n",
" },\n",
" resize: function(event, ui) {\n",
" fig.request_resize(ui.size.width, ui.size.height);\n",
" },\n",
" stop: function(event, ui) {\n",
" pass_mouse_events = true;\n",
" fig.request_resize(ui.size.width, ui.size.height);\n",
" },\n",
" });\n",
"\n",
" function mouse_event_fn(event) {\n",
" if (pass_mouse_events)\n",
" return fig.mouse_event(event, event['data']);\n",
" }\n",
"\n",
" rubberband.mousedown('button_press', mouse_event_fn);\n",
" rubberband.mouseup('button_release', mouse_event_fn);\n",
" // Throttle sequential mouse events to 1 every 20ms.\n",
" rubberband.mousemove('motion_notify', mouse_event_fn);\n",
"\n",
" rubberband.mouseenter('figure_enter', mouse_event_fn);\n",
" rubberband.mouseleave('figure_leave', mouse_event_fn);\n",
"\n",
" canvas_div.on(\"wheel\", function (event) {\n",
" event = event.originalEvent;\n",
" event['data'] = 'scroll'\n",
" if (event.deltaY < 0) {\n",
" event.step = 1;\n",
" } else {\n",
" event.step = -1;\n",
" }\n",
" mouse_event_fn(event);\n",
" });\n",
"\n",
" canvas_div.append(canvas);\n",
" canvas_div.append(rubberband);\n",
"\n",
" this.rubberband = rubberband;\n",
" this.rubberband_canvas = rubberband[0];\n",
" this.rubberband_context = rubberband[0].getContext(\"2d\");\n",
" this.rubberband_context.strokeStyle = \"#000000\";\n",
"\n",
" this._resize_canvas = function(width, height) {\n",
" // Keep the size of the canvas, canvas container, and rubber band\n",
" // canvas in synch.\n",
" canvas_div.css('width', width)\n",
" canvas_div.css('height', height)\n",
"\n",
" canvas.attr('width', width * mpl.ratio);\n",
" canvas.attr('height', height * mpl.ratio);\n",
" canvas.attr('style', 'width: ' + width + 'px; height: ' + height + 'px;');\n",
"\n",
" rubberband.attr('width', width);\n",
" rubberband.attr('height', height);\n",
" }\n",
"\n",
" // Set the figure to an initial 600x600px, this will subsequently be updated\n",
" // upon first draw.\n",
" this._resize_canvas(600, 600);\n",
"\n",
" // Disable right mouse context menu.\n",
" $(this.rubberband_canvas).bind(\"contextmenu\",function(e){\n",
" return false;\n",
" });\n",
"\n",
" function set_focus () {\n",
" canvas.focus();\n",
" canvas_div.focus();\n",
" }\n",
"\n",
" window.setTimeout(set_focus, 100);\n",
"}\n",
"\n",
"mpl.figure.prototype._init_toolbar = function() {\n",
" var fig = this;\n",
"\n",
" var nav_element = $('<div/>')\n",
" nav_element.attr('style', 'width: 100%');\n",
" this.root.append(nav_element);\n",
"\n",
" // Define a callback function for later on.\n",
" function toolbar_event(event) {\n",
" return fig.toolbar_button_onclick(event['data']);\n",
" }\n",
" function toolbar_mouse_event(event) {\n",
" return fig.toolbar_button_onmouseover(event['data']);\n",
" }\n",
"\n",
" for(var toolbar_ind in mpl.toolbar_items) {\n",
" var name = mpl.toolbar_items[toolbar_ind][0];\n",
" var tooltip = mpl.toolbar_items[toolbar_ind][1];\n",
" var image = mpl.toolbar_items[toolbar_ind][2];\n",
" var method_name = mpl.toolbar_items[toolbar_ind][3];\n",
"\n",
" if (!name) {\n",
" // put a spacer in here.\n",
" continue;\n",
" }\n",
" var button = $('<button/>');\n",
" button.addClass('ui-button ui-widget ui-state-default ui-corner-all ' +\n",
" 'ui-button-icon-only');\n",
" button.attr('role', 'button');\n",
" button.attr('aria-disabled', 'false');\n",
" button.click(method_name, toolbar_event);\n",
" button.mouseover(tooltip, toolbar_mouse_event);\n",
"\n",
" var icon_img = $('<span/>');\n",
" icon_img.addClass('ui-button-icon-primary ui-icon');\n",
" icon_img.addClass(image);\n",
" icon_img.addClass('ui-corner-all');\n",
"\n",
" var tooltip_span = $('<span/>');\n",
" tooltip_span.addClass('ui-button-text');\n",
" tooltip_span.html(tooltip);\n",
"\n",
" button.append(icon_img);\n",
" button.append(tooltip_span);\n",
"\n",
" nav_element.append(button);\n",
" }\n",
"\n",
" var fmt_picker_span = $('<span/>');\n",
"\n",
" var fmt_picker = $('<select/>');\n",
" fmt_picker.addClass('mpl-toolbar-option ui-widget ui-widget-content');\n",
" fmt_picker_span.append(fmt_picker);\n",
" nav_element.append(fmt_picker_span);\n",
" this.format_dropdown = fmt_picker[0];\n",
"\n",
" for (var ind in mpl.extensions) {\n",
" var fmt = mpl.extensions[ind];\n",
" var option = $(\n",
" '<option/>', {selected: fmt === mpl.default_extension}).html(fmt);\n",
" fmt_picker.append(option)\n",
" }\n",
"\n",
" // Add hover states to the ui-buttons\n",
" $( \".ui-button\" ).hover(\n",
" function() { $(this).addClass(\"ui-state-hover\");},\n",
" function() { $(this).removeClass(\"ui-state-hover\");}\n",
" );\n",
"\n",
" var status_bar = $('<span class=\"mpl-message\"/>');\n",
" nav_element.append(status_bar);\n",
" this.message = status_bar[0];\n",
"}\n",
"\n",
"mpl.figure.prototype.request_resize = function(x_pixels, y_pixels) {\n",
" // Request matplotlib to resize the figure. Matplotlib will then trigger a resize in the client,\n",
" // which will in turn request a refresh of the image.\n",
" this.send_message('resize', {'width': x_pixels, 'height': y_pixels});\n",
"}\n",
"\n",
"mpl.figure.prototype.send_message = function(type, properties) {\n",
" properties['type'] = type;\n",
" properties['figure_id'] = this.id;\n",
" this.ws.send(JSON.stringify(properties));\n",
"}\n",
"\n",
"mpl.figure.prototype.send_draw_message = function() {\n",
" if (!this.waiting) {\n",
" this.waiting = true;\n",
" this.ws.send(JSON.stringify({type: \"draw\", figure_id: this.id}));\n",
" }\n",
"}\n",
"\n",
"\n",
"mpl.figure.prototype.handle_save = function(fig, msg) {\n",
" var format_dropdown = fig.format_dropdown;\n",
" var format = format_dropdown.options[format_dropdown.selectedIndex].value;\n",
" fig.ondownload(fig, format);\n",
"}\n",
"\n",
"\n",
"mpl.figure.prototype.handle_resize = function(fig, msg) {\n",
" var size = msg['size'];\n",
" if (size[0] != fig.canvas.width || size[1] != fig.canvas.height) {\n",
" fig._resize_canvas(size[0], size[1]);\n",
" fig.send_message(\"refresh\", {});\n",
" };\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_rubberband = function(fig, msg) {\n",
" var x0 = msg['x0'] / mpl.ratio;\n",
" var y0 = (fig.canvas.height - msg['y0']) / mpl.ratio;\n",
" var x1 = msg['x1'] / mpl.ratio;\n",
" var y1 = (fig.canvas.height - msg['y1']) / mpl.ratio;\n",
" x0 = Math.floor(x0) + 0.5;\n",
" y0 = Math.floor(y0) + 0.5;\n",
" x1 = Math.floor(x1) + 0.5;\n",
" y1 = Math.floor(y1) + 0.5;\n",
" var min_x = Math.min(x0, x1);\n",
" var min_y = Math.min(y0, y1);\n",
" var width = Math.abs(x1 - x0);\n",
" var height = Math.abs(y1 - y0);\n",
"\n",
" fig.rubberband_context.clearRect(\n",
" 0, 0, fig.canvas.width, fig.canvas.height);\n",
"\n",
" fig.rubberband_context.strokeRect(min_x, min_y, width, height);\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_figure_label = function(fig, msg) {\n",
" // Updates the figure title.\n",
" fig.header.textContent = msg['label'];\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_cursor = function(fig, msg) {\n",
" var cursor = msg['cursor'];\n",
" switch(cursor)\n",
" {\n",
" case 0:\n",
" cursor = 'pointer';\n",
" break;\n",
" case 1:\n",
" cursor = 'default';\n",
" break;\n",
" case 2:\n",
" cursor = 'crosshair';\n",
" break;\n",
" case 3:\n",
" cursor = 'move';\n",
" break;\n",
" }\n",
" fig.rubberband_canvas.style.cursor = cursor;\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_message = function(fig, msg) {\n",
" fig.message.textContent = msg['message'];\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_draw = function(fig, msg) {\n",
" // Request the server to send over a new figure.\n",
" fig.send_draw_message();\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_image_mode = function(fig, msg) {\n",
" fig.image_mode = msg['mode'];\n",
"}\n",
"\n",
"mpl.figure.prototype.updated_canvas_event = function() {\n",
" // Called whenever the canvas gets updated.\n",
" this.send_message(\"ack\", {});\n",
"}\n",
"\n",
"// A function to construct a web socket function for onmessage handling.\n",
"// Called in the figure constructor.\n",
"mpl.figure.prototype._make_on_message_function = function(fig) {\n",
" return function socket_on_message(evt) {\n",
" if (evt.data instanceof Blob) {\n",
" /* FIXME: We get \"Resource interpreted as Image but\n",
" * transferred with MIME type text/plain:\" errors on\n",
" * Chrome. But how to set the MIME type? It doesn't seem\n",
" * to be part of the websocket stream */\n",
" evt.data.type = \"image/png\";\n",
"\n",
" /* Free the memory for the previous frames */\n",
" if (fig.imageObj.src) {\n",
" (window.URL || window.webkitURL).revokeObjectURL(\n",
" fig.imageObj.src);\n",
" }\n",
"\n",
" fig.imageObj.src = (window.URL || window.webkitURL).createObjectURL(\n",
" evt.data);\n",
" fig.updated_canvas_event();\n",
" fig.waiting = false;\n",
" return;\n",
" }\n",
" else if (typeof evt.data === 'string' && evt.data.slice(0, 21) == \"data:image/png;base64\") {\n",
" fig.imageObj.src = evt.data;\n",
" fig.updated_canvas_event();\n",
" fig.waiting = false;\n",
" return;\n",
" }\n",
"\n",
" var msg = JSON.parse(evt.data);\n",
" var msg_type = msg['type'];\n",
"\n",
" // Call the \"handle_{type}\" callback, which takes\n",
" // the figure and JSON message as its only arguments.\n",
" try {\n",
" var callback = fig[\"handle_\" + msg_type];\n",
" } catch (e) {\n",
" console.log(\"No handler for the '\" + msg_type + \"' message type: \", msg);\n",
" return;\n",
" }\n",
"\n",
" if (callback) {\n",
" try {\n",
" // console.log(\"Handling '\" + msg_type + \"' message: \", msg);\n",
" callback(fig, msg);\n",
" } catch (e) {\n",
" console.log(\"Exception inside the 'handler_\" + msg_type + \"' callback:\", e, e.stack, msg);\n",
" }\n",
" }\n",
" };\n",
"}\n",
"\n",
"// from http://stackoverflow.com/questions/1114465/getting-mouse-location-in-canvas\n",
"mpl.findpos = function(e) {\n",
" //this section is from http://www.quirksmode.org/js/events_properties.html\n",
" var targ;\n",
" if (!e)\n",
" e = window.event;\n",
" if (e.target)\n",
" targ = e.target;\n",
" else if (e.srcElement)\n",
" targ = e.srcElement;\n",
" if (targ.nodeType == 3) // defeat Safari bug\n",
" targ = targ.parentNode;\n",
"\n",
" // jQuery normalizes the pageX and pageY\n",
" // pageX,Y are the mouse positions relative to the document\n",
" // offset() returns the position of the element relative to the document\n",
" var x = e.pageX - $(targ).offset().left;\n",
" var y = e.pageY - $(targ).offset().top;\n",
"\n",
" return {\"x\": x, \"y\": y};\n",
"};\n",
"\n",
"/*\n",
" * return a copy of an object with only non-object keys\n",
" * we need this to avoid circular references\n",
" * http://stackoverflow.com/a/24161582/3208463\n",
" */\n",
"function simpleKeys (original) {\n",
" return Object.keys(original).reduce(function (obj, key) {\n",
" if (typeof original[key] !== 'object')\n",
" obj[key] = original[key]\n",
" return obj;\n",
" }, {});\n",
"}\n",
"\n",
"mpl.figure.prototype.mouse_event = function(event, name) {\n",
" var canvas_pos = mpl.findpos(event)\n",
"\n",
" if (name === 'button_press')\n",
" {\n",
" this.canvas.focus();\n",
" this.canvas_div.focus();\n",
" }\n",
"\n",
" var x = canvas_pos.x * mpl.ratio;\n",
" var y = canvas_pos.y * mpl.ratio;\n",
"\n",
" this.send_message(name, {x: x, y: y, button: event.button,\n",
" step: event.step,\n",
" guiEvent: simpleKeys(event)});\n",
"\n",
" /* This prevents the web browser from automatically changing to\n",
" * the text insertion cursor when the button is pressed. We want\n",
" * to control all of the cursor setting manually through the\n",
" * 'cursor' event from matplotlib */\n",
" event.preventDefault();\n",
" return false;\n",
"}\n",
"\n",
"mpl.figure.prototype._key_event_extra = function(event, name) {\n",
" // Handle any extra behaviour associated with a key event\n",
"}\n",
"\n",
"mpl.figure.prototype.key_event = function(event, name) {\n",
"\n",
" // Prevent repeat events\n",
" if (name == 'key_press')\n",
" {\n",
" if (event.which === this._key)\n",
" return;\n",
" else\n",
" this._key = event.which;\n",
" }\n",
" if (name == 'key_release')\n",
" this._key = null;\n",
"\n",
" var value = '';\n",
" if (event.ctrlKey && event.which != 17)\n",
" value += \"ctrl+\";\n",
" if (event.altKey && event.which != 18)\n",
" value += \"alt+\";\n",
" if (event.shiftKey && event.which != 16)\n",
" value += \"shift+\";\n",
"\n",
" value += 'k';\n",
" value += event.which.toString();\n",
"\n",
" this._key_event_extra(event, name);\n",
"\n",
" this.send_message(name, {key: value,\n",
" guiEvent: simpleKeys(event)});\n",
" return false;\n",
"}\n",
"\n",
"mpl.figure.prototype.toolbar_button_onclick = function(name) {\n",
" if (name == 'download') {\n",
" this.handle_save(this, null);\n",
" } else {\n",
" this.send_message(\"toolbar_button\", {name: name});\n",
" }\n",
"};\n",
"\n",
"mpl.figure.prototype.toolbar_button_onmouseover = function(tooltip) {\n",
" this.message.textContent = tooltip;\n",
"};\n",
"mpl.toolbar_items = [[\"Home\", \"Reset original view\", \"fa fa-home icon-home\", \"home\"], [\"Back\", \"Back to previous view\", \"fa fa-arrow-left icon-arrow-left\", \"back\"], [\"Forward\", \"Forward to next view\", \"fa fa-arrow-right icon-arrow-right\", \"forward\"], [\"\", \"\", \"\", \"\"], [\"Pan\", \"Pan axes with left mouse, zoom with right\", \"fa fa-arrows icon-move\", \"pan\"], [\"Zoom\", \"Zoom to rectangle\", \"fa fa-square-o icon-check-empty\", \"zoom\"], [\"\", \"\", \"\", \"\"], [\"Download\", \"Download plot\", \"fa fa-floppy-o icon-save\", \"download\"]];\n",
"\n",
"mpl.extensions = [\"eps\", \"jpeg\", \"pdf\", \"png\", \"ps\", \"raw\", \"svg\", \"tif\"];\n",
"\n",
"mpl.default_extension = \"png\";var comm_websocket_adapter = function(comm) {\n",
" // Create a \"websocket\"-like object which calls the given IPython comm\n",
" // object with the appropriate methods. Currently this is a non binary\n",
" // socket, so there is still some room for performance tuning.\n",
" var ws = {};\n",
"\n",
" ws.close = function() {\n",
" comm.close()\n",
" };\n",
" ws.send = function(m) {\n",
" //console.log('sending', m);\n",
" comm.send(m);\n",
" };\n",
" // Register the callback with on_msg.\n",
" comm.on_msg(function(msg) {\n",
" //console.log('receiving', msg['content']['data'], msg);\n",
" // Pass the mpl event to the overridden (by mpl) onmessage function.\n",
" ws.onmessage(msg['content']['data'])\n",
" });\n",
" return ws;\n",
"}\n",
"\n",
"mpl.mpl_figure_comm = function(comm, msg) {\n",
" // This is the function which gets called when the mpl process\n",
" // starts-up an IPython Comm through the \"matplotlib\" channel.\n",
"\n",
" var id = msg.content.data.id;\n",
" // Get hold of the div created by the display call when the Comm\n",
" // socket was opened in Python.\n",
" var element = $(\"#\" + id);\n",
" var ws_proxy = comm_websocket_adapter(comm)\n",
"\n",
" function ondownload(figure, format) {\n",
" window.open(figure.imageObj.src);\n",
" }\n",
"\n",
" var fig = new mpl.figure(id, ws_proxy,\n",
" ondownload,\n",
" element.get(0));\n",
"\n",
" // Call onopen now - mpl needs it, as it is assuming we've passed it a real\n",
" // web socket which is closed, not our websocket->open comm proxy.\n",
" ws_proxy.onopen();\n",
"\n",
" fig.parent_element = element.get(0);\n",
" fig.cell_info = mpl.find_output_cell(\"<div id='\" + id + \"'></div>\");\n",
" if (!fig.cell_info) {\n",
" console.error(\"Failed to find cell for figure\", id, fig);\n",
" return;\n",
" }\n",
"\n",
" var output_index = fig.cell_info[2]\n",
" var cell = fig.cell_info[0];\n",
"\n",
"};\n",
"\n",
"mpl.figure.prototype.handle_close = function(fig, msg) {\n",
" var width = fig.canvas.width/mpl.ratio\n",
" fig.root.unbind('remove')\n",
"\n",
" // Update the output cell to use the data from the current canvas.\n",
" fig.push_to_output();\n",
" var dataURL = fig.canvas.toDataURL();\n",
" // Re-enable the keyboard manager in IPython - without this line, in FF,\n",
" // the notebook keyboard shortcuts fail.\n",
" IPython.keyboard_manager.enable()\n",
" $(fig.parent_element).html('<img src=\"' + dataURL + '\" width=\"' + width + '\">');\n",
" fig.close_ws(fig, msg);\n",
"}\n",
"\n",
"mpl.figure.prototype.close_ws = function(fig, msg){\n",
" fig.send_message('closing', msg);\n",
" // fig.ws.close()\n",
"}\n",
"\n",
"mpl.figure.prototype.push_to_output = function(remove_interactive) {\n",
" // Turn the data on the canvas into data in the output cell.\n",
" var width = this.canvas.width/mpl.ratio\n",
" var dataURL = this.canvas.toDataURL();\n",
" this.cell_info[1]['text/html'] = '<img src=\"' + dataURL + '\" width=\"' + width + '\">';\n",
"}\n",
"\n",
"mpl.figure.prototype.updated_canvas_event = function() {\n",
" // Tell IPython that the notebook contents must change.\n",
" IPython.notebook.set_dirty(true);\n",
" this.send_message(\"ack\", {});\n",
" var fig = this;\n",
" // Wait a second, then push the new image to the DOM so\n",
" // that it is saved nicely (might be nice to debounce this).\n",
" setTimeout(function () { fig.push_to_output() }, 1000);\n",
"}\n",
"\n",
"mpl.figure.prototype._init_toolbar = function() {\n",
" var fig = this;\n",
"\n",
" var nav_element = $('<div/>')\n",
" nav_element.attr('style', 'width: 100%');\n",
" this.root.append(nav_element);\n",
"\n",
" // Define a callback function for later on.\n",
" function toolbar_event(event) {\n",
" return fig.toolbar_button_onclick(event['data']);\n",
" }\n",
" function toolbar_mouse_event(event) {\n",
" return fig.toolbar_button_onmouseover(event['data']);\n",
" }\n",
"\n",
" for(var toolbar_ind in mpl.toolbar_items){\n",
" var name = mpl.toolbar_items[toolbar_ind][0];\n",
" var tooltip = mpl.toolbar_items[toolbar_ind][1];\n",
" var image = mpl.toolbar_items[toolbar_ind][2];\n",
" var method_name = mpl.toolbar_items[toolbar_ind][3];\n",
"\n",
" if (!name) { continue; };\n",
"\n",
" var button = $('<button class=\"btn btn-default\" href=\"#\" title=\"' + name + '\"><i class=\"fa ' + image + ' fa-lg\"></i></button>');\n",
" button.click(method_name, toolbar_event);\n",
" button.mouseover(tooltip, toolbar_mouse_event);\n",
" nav_element.append(button);\n",
" }\n",
"\n",
" // Add the status bar.\n",
" var status_bar = $('<span class=\"mpl-message\" style=\"text-align:right; float: right;\"/>');\n",
" nav_element.append(status_bar);\n",
" this.message = status_bar[0];\n",
"\n",
" // Add the close button to the window.\n",
" var buttongrp = $('<div class=\"btn-group inline pull-right\"></div>');\n",
" var button = $('<button class=\"btn btn-mini btn-primary\" href=\"#\" title=\"Stop Interaction\"><i class=\"fa fa-power-off icon-remove icon-large\"></i></button>');\n",
" button.click(function (evt) { fig.handle_close(fig, {}); } );\n",
" button.mouseover('Stop Interaction', toolbar_mouse_event);\n",
" buttongrp.append(button);\n",
" var titlebar = this.root.find($('.ui-dialog-titlebar'));\n",
" titlebar.prepend(buttongrp);\n",
"}\n",
"\n",
"mpl.figure.prototype._root_extra_style = function(el){\n",
" var fig = this\n",
" el.on(\"remove\", function(){\n",
"\tfig.close_ws(fig, {});\n",
" });\n",
"}\n",
"\n",
"mpl.figure.prototype._canvas_extra_style = function(el){\n",
" // this is important to make the div 'focusable\n",
" el.attr('tabindex', 0)\n",
" // reach out to IPython and tell the keyboard manager to turn it's self\n",
" // off when our div gets focus\n",
"\n",
" // location in version 3\n",
" if (IPython.notebook.keyboard_manager) {\n",
" IPython.notebook.keyboard_manager.register_events(el);\n",
" }\n",
" else {\n",
" // location in version 2\n",
" IPython.keyboard_manager.register_events(el);\n",
" }\n",
"\n",
"}\n",
"\n",
"mpl.figure.prototype._key_event_extra = function(event, name) {\n",
" var manager = IPython.notebook.keyboard_manager;\n",
" if (!manager)\n",
" manager = IPython.keyboard_manager;\n",
"\n",
" // Check for shift+enter\n",
" if (event.shiftKey && event.which == 13) {\n",
" this.canvas_div.blur();\n",
" event.shiftKey = false;\n",
" // Send a \"J\" for go to next cell\n",
" event.which = 74;\n",
" event.keyCode = 74;\n",
" manager.command_mode();\n",
" manager.handle_keydown(event);\n",
" }\n",
"}\n",
"\n",
"mpl.figure.prototype.handle_save = function(fig, msg) {\n",
" fig.ondownload(fig, null);\n",
"}\n",
"\n",
"\n",
"mpl.find_output_cell = function(html_output) {\n",
" // Return the cell and output element which can be found *uniquely* in the notebook.\n",
" // Note - this is a bit hacky, but it is done because the \"notebook_saving.Notebook\"\n",
" // IPython event is triggered only after the cells have been serialised, which for\n",
" // our purposes (turning an active figure into a static one), is too late.\n",
" var cells = IPython.notebook.get_cells();\n",
" var ncells = cells.length;\n",
" for (var i=0; i<ncells; i++) {\n",
" var cell = cells[i];\n",
" if (cell.cell_type === 'code'){\n",
" for (var j=0; j<cell.output_area.outputs.length; j++) {\n",
" var data = cell.output_area.outputs[j];\n",
" if (data.data) {\n",
" // IPython >= 3 moved mimebundle to data attribute of output\n",
" data = data.data;\n",
" }\n",
" if (data['text/html'] == html_output) {\n",
" return [cell, data, j];\n",
" }\n",
" }\n",
" }\n",
" }\n",
"}\n",
"\n",
"// Register the function which deals with the matplotlib target/channel.\n",
"// The kernel may be null if the page has been refreshed.\n",
"if (IPython.notebook.kernel != null) {\n",
" IPython.notebook.kernel.comm_manager.register_target('matplotlib', mpl.mpl_figure_comm);\n",
"}\n"
2018-09-28 10:35:17 +02:00
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],
"text/plain": [
"<IPython.core.display.HTML object>"
]
},
"metadata": {},
"output_type": "display_data"
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}
],
"source": [
"axes = plt.subplots(2,2)[1].ravel()\n",
"contours = []\n",
"for axis, c in zip(axes, np.array(legend_colors)):\n",
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" bi = (im[:-100] == c[None,None]).min(axis=2)\n",
" bi = binary_closing(bi, np.ones((5,5)))\n",
" \n",
" labels = label(bi, background=False)\n",
" contours.append(find_contours(bi, 0.5))\n",
"\n",
" axis.imshow(bi)\n",
" for n, contour in enumerate(contours[-1][:1]):\n",
" axis.plot(contour[:, 1], contour[:, 0], linewidth=2)\n",
" axis.set_xticks([]); axis.set_yticks([])\n",
"plt.tight_layout()"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"translate pixel coordinates to latitude - longitudes."
]
},
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{
"cell_type": "code",
"execution_count": 6,
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"metadata": {},
"outputs": [],
"source": [
"(y0, x1), (y1, x0) = bounds\n",
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"\n",
"scale_x = lambda x: x0 + (x / im.shape[1]) * (x1 - x0)\n",
"scale_y = lambda y: y0 + (y / im.shape[0]) * (y1 - y0)\n",
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"\n",
"contours_scaled = [\n",
" list(zip(scale_x(c[0][:, 1]), scale_y(c[0][:, 0])))\n",
" for c in contours\n",
"]"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"# Result"
]
},
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{
"cell_type": "code",
"execution_count": 7,
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"metadata": {
"scrolled": true
},
"outputs": [],
"source": [
"geojson = json.dumps({\n",
" \"type\": \"FeatureCollection\",\n",
" \"features\": [\n",
" {\n",
" \"type\": \"Feature\",\n",
" \"properties\": {'dialect': dialect},\n",
" \"geometry\": {\n",
" \"type\": \"Polygon\",\n",
" \"coordinates\": [list(map(list, contour))]\n",
" }\n",
" }\n",
" for contour, dialect in zip(contours_scaled, regions)\n",
" ]\n",
"})\n",
"\n",
"with open('../data/frysian_dialect_regions.geojson', 'w') as f:\n",
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" f.write(geojson)"
]
},
{
"cell_type": "code",
"execution_count": 8,
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"metadata": {},
"outputs": [
{
"data": {
"text/html": [
"<div style=\"width:100%;\"><div style=\"position:relative;width:100%;height:0;padding-bottom:60%;\"><iframe src=\"data:text/html;charset=utf-8;base64,PCFET0NUWVBFIGh0bWw+CjxoZWFkPiAgICAKICAgIDxtZXRhIGh0dHAtZXF1aXY9ImNvbnRlbnQtdHlwZSIgY29udGVudD0idGV4dC9odG1sOyBjaGFyc2V0PVVURi04IiAvPgogICAgPHNjcmlwdD5MX1BSRUZFUl9DQU5WQVM9ZmFsc2U7IExfTk9fVE9VQ0g9ZmFsc2U7IExfRElTQUJMRV8zRD1mYWxzZTs8L3NjcmlwdD4KICAgIDxzY3JpcHQgc3JjPSJodHRwczovL2Nkbi5qc2RlbGl2ci5uZXQvbnBtL2xlYWZsZXRAMS4yLjAvZGlzdC9sZWFmbGV0LmpzIj48L3NjcmlwdD4KICAgIDxzY3JpcHQgc3JjPSJodHRwczovL2FqYXguZ29vZ2xlYXBpcy5jb20vYWpheC9saWJzL2pxdWVyeS8xLjExLjEvanF1ZXJ5Lm1pbi5qcyI+PC9zY3JpcHQ+CiAgICA8c2NyaXB0IHNyYz0iaHR0cHM6Ly9tYXhjZG4uYm9vdHN0cmFwY2RuLmNvbS9ib290c3RyYXAvMy4yLjAvanMvYm9vdHN0cmFwLm1pbi5qcyI+PC9zY3JpcHQ+CiAgICA8c2NyaXB0IHNyYz0iaHR0cHM6Ly9jZG5qcy5jbG91ZGZsYXJlLmNvbS9hamF4L2xpYnMvTGVhZmxldC5hd2Vzb21lLW1hcmtlcnMvMi4wLjIvbGVhZmxldC5hd2Vzb21lLW1hcmtlcnMuanMiPjwvc2NyaXB0PgogICAgPGxpbmsgcmVsPSJzdHlsZXNoZWV0IiBocmVmPSJodHRwczovL2Nkbi5qc2RlbGl2ci5uZXQvbnBtL2xlYWZsZXRAMS4yLjAvZGlzdC9sZWFmbGV0LmNzcyIvPgogICAgPGxpbmsgcmVsPSJzdHlsZXNoZWV0IiBocmVmPSJodHRwczovL21heGNkbi5ib290c3RyYXBjZG4uY29tL2Jvb3RzdHJhcC8zLjIuMC9jc3MvYm9vdHN0cmFwLm1pbi5jc3MiLz4KICAgIDxsaW5rIHJlbD0ic3R5bGVzaGVldCIgaHJlZj0iaHR0cHM6Ly9tYXhjZG4uYm9vdHN0cmFwY2RuLmNvbS9ib290c3RyYXAvMy4yLjAvY3NzL2Jvb3RzdHJhcC10aGVtZS5taW4uY3NzIi8+CiAgICA8bGluayByZWw9InN0eWxlc2hlZXQiIGhyZWY9Imh0dHBzOi8vbWF4Y2RuLmJvb3RzdHJhcGNkbi5jb20vZm9udC1hd2Vzb21lLzQuNi4zL2Nzcy9mb250LWF3ZXNvbWUubWluLmNzcyIvPgogICAgPGxpbmsgcmVsPSJzdHlsZXNoZWV0IiBocmVmPSJodHRwczovL2NkbmpzLmNsb3VkZmxhcmUuY29tL2FqYXgvbGlicy9MZWFmbGV0LmF3ZXNvbWUtbWFya2Vycy8yLjAuMi9sZWFmbGV0LmF3ZXNvbWUtbWFya2Vycy5jc3MiLz4KICAgIDxsaW5rIHJlbD0ic3R5bGVzaGVldCIgaHJlZj0iaHR0cHM6Ly9yYXdnaXQuY29tL3B5dGhvbi12aXN1YWxpemF0aW9uL2ZvbGl1bS9tYXN0ZXIvZm9saXVtL3RlbXBsYXRlcy9sZWFmbGV0LmF3ZXNvbWUucm90YXRlLmNzcyIvPgogICAgPHN0eWxlPmh0bWwsIGJvZHkge3dpZHRoOiAxMDAlO2hlaWdodDogMTAwJTttYXJnaW46IDA7cGFkZGluZzogMDt9PC9zdHlsZT4KICAgIDxzdHlsZT4jbWFwIHtwb3NpdGlvbjphYnNvbHV0ZTt0b3A6MDtib3R0b206MDtyaWdodDowO2xlZnQ6MDt9PC9zdHlsZT4KICAgIAogICAgPHN0eWxlPiNtYXBfYmM4NmY4ZjZmODViNGNkYzlhMmZhYzExZjAxMzAyODkgewogICAgICAgIHBvc2l0aW9uOiByZWxhdGl2ZTsKICAgICAgICB3aWR0aDogMTAwLjAlOwogICAgICAgIGhlaWdodDogMTAwLjAlOwogICAgICAgIGxlZnQ6IDAuMCU7CiAgICAgICAgdG9wOiAwLjAlOwogICAgICAgIH0KICAgIDwvc3R5bGU+CjwvaGVhZD4KPGJvZHk+ICAgIAogICAgCiAgICA8ZGl2IGNsYXNzPSJmb2xpdW0tbWFwIiBpZD0ibWFwX2JjODZmOGY2Zjg1YjRjZGM5YTJmYWMxMWYwMTMwMjg5IiA+PC9kaXY+CjwvYm9keT4KPHNjcmlwdD4gICAgCiAgICAKICAgIAogICAgICAgIHZhciBib3VuZHMgPSBudWxsOwogICAgCgogICAgdmFyIG1hcF9iYzg2ZjhmNmY4NWI0Y2RjOWEyZmFjMTFmMDEzMDI4OSA9IEwubWFwKAogICAgICAgICdtYXBfYmM4NmY4ZjZmODViNGNkYzlhMmZhYzExZjAxMzAyODknLCB7CiAgICAgICAgY2VudGVyOiBbNTMuMDY4Mzg2NTkyNTkxNCwgNS42MDI1OTE1MjQxMjQxNTFdLAogICAgICAgIHpvb206IDksCiAgICAgICAgbWF4Qm91bmRzOiBib3VuZHMsCiAgICAgICAgbGF5ZXJzOiBbXSwKICAgICAgICB3b3JsZENvcHlKdW1wOiBmYWxzZSwKICAgICAgICBjcnM6IEwuQ1JTLkVQU0czODU3LAogICAgICAgIHpvb21Db250cm9sOiB0cnVlLAogICAgICAgIH0pOwoKICAgIAogICAgCiAgICB2YXIgdGlsZV9sYXllcl82MTY0YzEzYTZlNGU0NGM5YThjNWQyNGY5YTY2YTMxYSA9IEwudGlsZUxheWVyKAogICAgICAgICdodHRwczovL3tzfS50aWxlcy5tYXBib3guY29tL3YzL21hcGJveC53b3JsZC1icmlnaHQve3p9L3t4fS97eX0ucG5nJywKICAgICAgICB7CiAgICAgICAgImF0dHJpYnV0aW9uIjogbnVsbCwKICAgICAgICAiZGV0ZWN0UmV0aW5hIjogZmFsc2UsCiAgICAgICAgIm1heE5hdGl2ZVpvb20iOiAxOCwKICAgICAgICAibWF4Wm9vbSI6IDE4LAogICAgICAgICJtaW5ab29tIjogMCwKICAgICAgICAibm9XcmFwIjogZmFsc2UsCiAgICAgICAgInN1YmRvbWFpbnMiOiAiYWJjIgp9KS5hZGRUbyhtYXBfYmM4NmY4ZjZmODViNGNkYzlhMmZhYzExZjAxMzAyODkpOwogICAgCiAgICAgICAgCiAgICAgICAgdmFyIGdlb19qc29uXzE3NTk1M2YwMGQ4MzQzODM5N2I1ZWNiMzhlNzVhZDVhID0gTC5nZW9Kc29uKAogICAgICAgICAgICB7ImZlYXR1cmVzIjogW3siZ2VvbWV0cnkiOiB7ImNvb3JkaW5hdGVzIjogW1tbNS43OTA3NzUyMzI3Mjk3MDc1LCA1Mi45MDk5NjE4MDI4OTkwMjZdLCBbNS43ODg0OTQyMTgwNzk5NDM1LCA1Mi45MDk5NjE4MDI4OTkwMjZdLCBbNS43ODYyMTMyMDM0MzAxNzksIDUyLjkwOTk2MTgwMjg5OTAyNl0sIFs1Ljc4MzkzMjE4ODc4MDQxNDUsIDUyLjkwOTk2MTgwMjg5OTAyNl0sIFs1Ljc4Mjc5MTY4MTQ1NTUzMjUsIDUyLjkxMDY0MTczNzYxODczXSwgWzUuNzgxNjUxMTc0MTMwNjUsIDUyLjkxMTMyMTY3MjMzODQ0NV0sIFs1Ljc4MDUxMDY2NjgwNTc2OCwgNTIuOTEyMDAxNjA3MDU4MTVdLCBbNS43ODA1MTA2NjY4M
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],
"text/plain": [
"<folium.folium.Map at 0x7fe931e575c0>"
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]
},
"execution_count": 8,
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"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"m = folium.Map(\n",
" location=center,\n",
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" tiles='Mapbox Bright',\n",
" zoom_start=9\n",
")\n",
"folium.GeoJson('dialect_regions.geojson', name='geojson').add_to(m)\n",
"\n",
"m"
]
}
],
"metadata": {
"kernelspec": {
"display_name": "Python 3",
"language": "python",
"name": "python3"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
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},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.6.5"
}
},
"nbformat": 4,
"nbformat_minor": 1
}