Why does this D3 code not produce any output in Jupyter Notebook?
I followed this blog here and here's the code that I'm trying to run on my Jupyter Notebook - essentially a simple scatter plot from the iris dataset.
from IPython.core.display import display, HTML
from string import Template
import pandas as pd
import json, random
HTML('<script src="./d3.min.js"></script>')
filename = 'https://gist.githubusercontent.com/mbostock/3887118/raw/2e68ffbeb23fe4dadd9b0f6bca62e9def6ee9e17/data.tsv'
iris = pd.read_csv(filename,sep="\t")
iris_array_of_dicts = iris.to_dict(orient='records')
css_text = '''
.axis path,
.axis line {
fill: none;
stroke: #000;
shape-rendering: crispEdges;
}
.dot {
stroke: #000;
}
'''
js_text_template = Template('''
var margin = {top: 20, right: 20, bottom: 30, left: 40},
// **** width = 960 - margin.left - margin.right, ****
// **** height = 500 - margin.top - margin.bottom; ****
width = 720 - margin.left - margin.right,
height = 375 - margin.top - margin.bottom;
var x = d3.scale.linear()
.range([0, width]);
var y = d3.scale.linear()
.range([height, 0]);
var color = d3.scale.category10();
var xAxis = d3.svg.axis()
.scale(x)
.orient("bottom");
var yAxis = d3.svg.axis()
.scale(y)
.orient("left");
// **** var svg = d3.select("body").append("svg") ****
var svg = d3.select("#$graphdiv").append("svg")
.attr("width", width + margin.left + margin.right)
.attr("height", height + margin.top + margin.bottom)
.append("g")
.attr("transform", "translate(" + margin.left + "," + margin.top + ")");
// **** d3.tsv("data.tsv", function(error, data) { ****
// **** if (error) throw error; ****
var data = $python_data ;
data.forEach(function(d) {
d.sepalLength = +d.sepalLength;
d.sepalWidth = +d.sepalWidth;
});
x.domain(d3.extent(data, function(d) { return d.sepalWidth; })).nice();
y.domain(d3.extent(data, function(d) { return d.sepalLength; })).nice();
svg.append("g")
.attr("class", "x axis")
.attr("transform", "translate(0," + height + ")")
.call(xAxis)
.append("text")
.attr("class", "label")
.attr("x", width)
.attr("y", -6)
.style("text-anchor", "end")
.text("Sepal Width (cm)");
svg.append("g")
.attr("class", "y axis")
.call(yAxis)
.append("text")
.attr("class", "label")
.attr("transform", "rotate(-90)")
.attr("y", 6)
.attr("dy", ".71em")
.style("text-anchor", "end")
.text("Sepal Length (cm)")
svg.selectAll(".dot")
.data(data)
.enter().append("circle")
.attr("class", "dot")
.attr("r", 3.5)
.attr("cx", function(d) { return x(d.sepalWidth); })
.attr("cy", function(d) { return y(d.sepalLength); })
.style("fill", function(d) { return color(d.species); });
var legend = svg.selectAll(".legend")
.data(color.domain())
.enter().append("g")
.attr("class", "legend")
.attr("transform", function(d, i) { return "translate(0," + i * 20 + ")"; });
legend.append("rect")
.attr("x", width - 18)
.attr("width", 18)
.attr("height", 18)
.style("fill", color);
legend.append("text")
.attr("x", width - 24)
.attr("y", 9)
.attr("dy", ".35em")
.style("text-anchor", "end")
.text(function(d) { return d; });
// **** }); ****
''')
html_template = Template('''
<style> $css_text </style>
<div id="graph-div"></div>
<script> $js_text </script>
''')
js_text = js_text_template.substitute({'python_data': json.dumps(iris_array_of_dicts),
'graphdiv': 'graph-div'})
HTML(html_template.substitute({'css_text': css_text, 'js_text': js_text}))
The code runs without errors but doesn't display any output. I've also tried to use the display functionality but that still produces no results.
What am I doing wrong? My assumption is that since this is an old blog post, Jupyter has moved past supporting Javascript this way and I have to use cell and line magics now but I'm not sure as I'm new to Javascript.
Solution
I have just tried and figured out the problem.
If you look at the console log, the browser do not interpret d3. To solve it add to your code.
<script src="http://d3js.org/d3.v3.min.js" charset="utf-8"></script>
You will now see your nice plot
Here an exemple of update
In [1]:
from IPython.core.display import display, HTML
from string import Template
import pandas as pd
import json, random
HTML('<script src="./d3.min.js"></script>')
filename = 'https://gist.githubusercontent.com/mbostock/3887118/raw/2e68ffbeb23fe4dadd9b0f6bca62e9def6ee9e17/data.tsv'
iris = pd.read_csv(filename,sep="\t")
iris_array_of_dicts = iris.to_dict(orient='records')
css_text = '''
.axis path,
.axis line {
fill: none;
stroke: #000;
shape-rendering: crispEdges;
}
.dot {
stroke: #000;
}
'''
js_text_template = Template('''
var margin = {top: 20, right: 20, bottom: 30, left: 40},
// **** width = 960 - margin.left - margin.right, ****
// **** height = 500 - margin.top - margin.bottom; ****
width = 720 - margin.left - margin.right,
height = 375 - margin.top - margin.bottom;
var x = d3.scale.linear()
.range([0, width]);
var y = d3.scale.linear()
.range([height, 0]);
var color = d3.scale.category10();
var xAxis = d3.svg.axis()
.scale(x)
.orient("bottom");
var yAxis = d3.svg.axis()
.scale(y)
.orient("left");
// **** var svg = d3.select("body").append("svg") ****
var svg = d3.select("#$graphdiv").append("svg")
.attr("width", width + margin.left + margin.right)
.attr("height", height + margin.top + margin.bottom)
.append("g")
.attr("transform", "translate(" + margin.left + "," + margin.top + ")");
// **** d3.tsv("data.tsv", function(error, data) { ****
// **** if (error) throw error; ****
var data = $python_data ;
data.forEach(function(d) {
d.sepalLength = +d.sepalLength;
d.sepalWidth = +d.sepalWidth;
});
x.domain(d3.extent(data, function(d) { return d.sepalWidth; })).nice();
y.domain(d3.extent(data, function(d) { return d.sepalLength; })).nice();
svg.append("g")
.attr("class", "x axis")
.attr("transform", "translate(0," + height + ")")
.call(xAxis)
.append("text")
.attr("class", "label")
.attr("x", width)
.attr("y", -6)
.style("text-anchor", "end")
.text("Sepal Width (cm)");
svg.append("g")
.attr("class", "y axis")
.call(yAxis)
.append("text")
.attr("class", "label")
.attr("transform", "rotate(-90)")
.attr("y", 6)
.attr("dy", ".71em")
.style("text-anchor", "end")
.text("Sepal Length (cm)")
svg.selectAll(".dot")
.data(data)
.enter().append("circle")
.attr("class", "dot")
.attr("r", 3.5)
.attr("cx", function(d) { return x(d.sepalWidth); })
.attr("cy", function(d) { return y(d.sepalLength); })
.style("fill", function(d) { return color(d.species); });
var legend = svg.selectAll(".legend")
.data(color.domain())
.enter().append("g")
.attr("class", "legend")
.attr("transform", function(d, i) { return "translate(0," + i * 20 + ")"; });
legend.append("rect")
.attr("x", width - 18)
.attr("width", 18)
.attr("height", 18)
.style("fill", color);
legend.append("text")
.attr("x", width - 24)
.attr("y", 9)
.attr("dy", ".35em")
.style("text-anchor", "end")
.text(function(d) { return d; });
// **** }); ****
''')
html_template = Template('''
<style > $css_text </style>
<div id="graph-div"></div>
<script > $js_text </script>
''')
js_text = js_text_template.substitute({'python_data': json.dumps(iris_array_of_dicts),
'graphdiv': 'graph-div'})
my_plot = html_template.substitute({'css_text': css_text, 'js_text': js_text})
d3_download = """ <script src="http://d3js.org/d3.v3.min.js" charset="utf-8" > </script>"""
my_plot = d3_download + my_plot
HTML(my_plot)
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