def create_fuelsaved_plot():
"""
Creates a plot of the fuel saved using PT miles and fuel data, and average mpg of personal vehicles over the years.
"""
temp1 = combine_for_correlation(df1=get_fuel_usage(), df2=get_bus_miles())
temp2 = combine_for_correlation(df1=temp1, df2=get_car_economy())
temp2.loc[2007, 'Bus Miles'] = temp2.loc[2007, 'Bus Miles']*1e3
temp2['Car Fuel Usage'] = temp2['Bus Miles'].div(
temp2['Real World Fuel Economy (mpg)'])
plotly.offline.init_notebook_mode(connected=True)
fig, ax = plt.subplots()
fig.set_figheight(6)
fig.set_figwidth(12)
ax.set_xlabel('Years')
ax.set_ylabel('Fuel Consumption (gallons)')
ax.plot(temp2['Car Fuel Usage'], label='Car Fuel Usage', color='#80D9FF')
ax.plot(temp2['Diesel Usage'], label='Bus Fuel Usage', color='#BFFF00')
patch2 = mlines.Line2D([], [], color='#BFFF00', marker='*',
markersize=15, label='Bus Fuel Usage')
patch1 = mlines.Line2D([], [], color='#80D9FF', marker='*',
markersize=15, label='Car Fuel Usage')
# ax.legend(loc="upper right",handles=[patch1,patch2])
update = {'data': [{'fill': 'tozeroy'}]} # this updates BOTH traces now
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig.update(update)
plotly.offline.plot(plotly_fig, filename='mpl-multi-fill')
def analysis_destination(P, m, e, data='SIH.csv'):
dataset = pd.read_csv(data)
x1 = dataset.loc[(dataset['Product_Name'] == P) & (dataset['Month'] == m)]
y1 = x1.groupby('Day').sum()
y = y1.iloc[:, 2].values
x = x1.iloc[::4, 4].values
#place wise anlysis
des = x1.loc[x1['Destination'] == e]
xp = des.iloc[:, 4].values
yp = des.iloc[:, 5].values
plt.figure()
plt.bar(xp, yp, color='darkred')
axes = plt.gca()
axes.set_ylim([0, 4000])
plt.title('Destination of Supply Demand Analysis')
plt.xlabel('Day')
plt.ylabel('Quantity demanded')
fig = plt.gcf()
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig['layout']['width'] = 1200
plot_div = plot(plotly_fig, output_type='div', include_plotlyjs=False)
return plot_div
def analysis_seasonal(P, data='SIH.csv'):
dataset = pd.read_csv(data)
x3 = dataset.loc[dataset['Product_Name'] == P]
ses = x3.groupby('Month').sum()
ses = ses.rename(columns={'Day': 'month'})
ses.month = range(0, 12)
ses['month'] = ses['month'] + 1
xs = ses.iloc[:, 1]
ys = ses.iloc[:, 2]
plt.figure()
plt.xticks(xs)
plt.bar(xs, ys, color='darkblue')
plt.title('Monthly Demand')
plt.xlabel('Month')
plt.ylabel('Quantity demanded')
fig = plt.gcf()
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig['layout']['width'] = 1200
# py.iplot(plotly_fig, filename='mpl-basic-bar')
plot_div = plot(plotly_fig, output_type='div', include_plotlyjs=False)
return plot_div
def test_normal_mpl_dates(self):
datetime_format = '%Y-%m-%d %H:%M:%S'
y = [1, 2, 3, 4]
date_strings = [
'2010-01-04 00:00:00', '2010-01-04 10:00:00',
'2010-01-04 23:00:59', '2010-01-05 00:00:00'
]
# 1. create datetimes from the strings
dates = [
datetime.datetime.strptime(date_string, datetime_format)
for date_string in date_strings
]
# 2. create the mpl_dates from these datetimes
mpl_dates = date2num(dates)
# make a figure in mpl
fig, ax = plt.subplots()
ax.plot_date(mpl_dates, y)
# convert this figure to plotly's graph_objs
pfig = tls.mpl_to_plotly(fig)
print(date_strings)
print(pfig['data'][0]['x'])
# we use the same format here, so we expect equality here
self.assertEqual(fig.axes[0].lines[0].get_xydata()[0][0],
7.33776000e+05)
self.assertEqual(pfig['data'][0]['x'], date_strings)
def profitloss(product, filename='SIH2.csv'):
dataset = pd.read_csv(filename)
x_1 = dataset.loc[dataset['Product_Name'] == product]
ses1 = x_1.groupby('Month').sum()
ses1 = ses1.rename(columns={'Day': 'month'})
ses1.month = range(0, 12)
ses1['month'] = ses1['month'] + 1
x_11 = ses1.iloc[:, 1]
y_11 = ses1.iloc[:, 11]
colorbar = []
for i in range(1, len(y_11) + 1):
if (y_11[i] < 0):
colorbar.append('red')
else:
colorbar.append('lightblue')
plt.bar(x_11, abs(y_11), color=colorbar)
plt.title('Profit/Loss, month-wise')
blue_patch = mpatches.Patch(color='lightblue', label='Profit')
red_patch = mpatches.Patch(color='red', label='Loss')
plt.legend(handles=[blue_patch, red_patch])
fig = plt.gcf()
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig['layout']['width'] = 1200
plot_div = plot(plotly_fig, output_type='div', include_plotlyjs=False)
pprint(plotly_fig)
return plot_div
def testPlotlyfromMPL():
chart = c.Chart(2,1)
chart.chartBasic(pd.Series([0,1,4,2,3,4]),(0,1), kind='line')
mpl_fig = chart.fig
plotly_fig = tls.mpl_to_plotly(mpl_fig)
unique_url = py.plot(plotly_fig, fileopt='overwrite', auto_open=False)
print(unique_url)
def update_graph(run_click, feat, channel, tier, rocktypes):
if run_click:
try:
df = create_dataset(file)
colname = [
col for col in df.columns if channel in col and feat in col
][0]
groups = df.groupby(tier).groups
fig, ax = plt.subplots(figsize=(10, 4.5))
ls = [df[colname][groups[x]] for x in rocktypes]
for i in range(len(ls)):
ls[i].plot.kde(ax=ax, label=rocktypes[i], linewidth=3)
plt.title(feat + " on " + channel + " Channel", fontsize=20)
if feat == "Skewness":
plt.xlim((min(df[colname]), max(df[colname])))
else:
plt.xlim((min(df[colname]) - 50, max(df[colname]) + 50))
plt.tick_params(labelsize=15)
plt.ylabel("")
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig["layout"]["showlegend"] = True
plotly_fig["layout"]["autosize"] = True
plotly_fig["layout"]["hovermode"] = "x"
plotly_fig["layout"]["legend"] = {"font": {"size": "18"}}
print(type(plotly_fig))
return plotly_fig
except:
return {'data': [], 'layout': []}
def save_maxfig(fig,
fig_name,
save_plotly=False,
transperent=False,
frmt='png',
resize=None):
'''
Save figure in high resolution
example:
save_maxfig(fig,fig_name, save_plotly=True, transperent=True, frmt='eps', resize=[18,6])
:param fig: figure
:param fig_name: file name
:param save_plotly: save to plotly also
:param transperent: no background
:param frmt: file format
:param resize: size
:return:
'''
# matplotlib.rcParams.update({'font.size': 40})
fig.set_size_inches(12, 12)
if resize != None:
fig.set_size_inches(resize[0], resize[1])
fig_name += '.' + frmt
plt.savefig(fig_name, dpi=300, format=frmt)
if save_plotly:
# offline plotting
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig_name = +fig_name + '.html'
plotly_fig['layout'].update(height=1500, width=800, showlegend=False)
plotly.offline.plot(plotly_fig,
filename=plotly_fig_name,
auto_open=False) # offline ploty
def find_outliers(df, var):
box_plot_figure = plt.figure(figsize=(20, 5))
df = df.copy()
df.boxplot(column=var)
plt.show()
box_plot = tls.mpl_to_plotly(box_plot_figure)
return box_plot
def find_outliers(self):
for ind, v in enumerate(self.var):
box_plot_figure = plt.figure()
self.data.boxplot(column=v)
plt.show()
box_plot = tls.mpl_to_plotly(box_plot_figure)
return box_plot
def plotlyUpload(table, columns, title, ylabel, limits, file_name,
use_columns=columns, online=False):
con = sqlite3.connect(
"C:\ProgramData\ForSens\Projekte\StuttgarterBruecke\Data\Data.db3")
df = pd.read_sql("SELECT * from "+table, con, parse_dates = ['TimeStep'])
df.columns=columns
con.close()
df = df.sort_index()
df = df[use_columns]
fig, ax = plt.subplots()
df.plot(ax=ax, x='TimeStep', legend=False)
ax.set_xlabel('')
ax.set_title(title)
ax.set_ylim(-.5,.5)
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig['layout']['plot_bgcolor'] = "rgb(213, 226, 233)"
plotly_fig['layout']['xaxis']['gridcolor'] = "white"
plotly_fig['layout']['yaxis']['gridcolor'] = "white"
plotly_fig['layout']['xaxis']['ticks'] = ""
plotly_fig['layout']['yaxis']['range'] = limits
plotly_fig['layout']['yaxis']['title'] = ylabel
plotly_fig['layout']['autosize'] = True
plotly_fig['layout']['showlegend'] = True
print dir(plotly_fig.layout)
if online==False:
plotly.offline.plot(plotly_fig, filename=file_name)
if online==True:
py.plot(plotly_fig, filename=file_name, fileopt='overwrite')
def pyplot(fig, ci=True, legend=True):
# Convert mpl fig obj to plotly fig obj, resize to plotly's default
py_fig = tls.mpl_to_plotly(fig, resize=True)
# Add fill property to lower limit line
if ci == True:
style1 = dict(fill='tonexty')
# apply style
py_fig['data'][2].update(style1)
# Change color scheme to black
py_fig['data'].update(dict(line=Line(color='black')))
# change the default line type to 'step'
py_fig['data'].update(dict(line=Line(shape='hv')))
# Delete misplaced legend annotations
py_fig['layout'].pop('annotations', None)
if legend == True:
# Add legend, place it at the top right corner of the plot
py_fig['layout'].update(
showlegend=True,
legend=Legend(
x=1.05,
y=1
)
)
# Send updated figure object to Plotly, show result in notebook
return py.iplot(py_fig)
def plot(self, *args, **kwargs):
m_fig = plt.figure()
plt.plot(*args, **kwargs)
p_fig = tools.mpl_to_plotly(m_fig)
trace = p_fig["data"][0]
trace = self._update_linestyle(m_fig, trace)
self.traces.append(trace)
def test_normal_mpl_dates(self):
datetime_format = '%Y-%m-%d %H:%M:%S'
y = [1, 2, 3, 4]
date_strings = ['2010-01-04 00:00:00',
'2010-01-04 10:00:00',
'2010-01-04 23:00:59',
'2010-01-05 00:00:00']
# 1. create datetimes from the strings
dates = [datetime.datetime.strptime(date_string, datetime_format)
for date_string in date_strings]
# 2. create the mpl_dates from these datetimes
mpl_dates = date2num(dates)
# make a figure in mpl
fig, ax = plt.subplots()
ax.plot_date(mpl_dates, y)
# convert this figure to plotly's graph_objs
pfig = tls.mpl_to_plotly(fig)
print(date_strings)
print(pfig['data'][0]['x'])
# we use the same format here, so we expect equality here
self.assertEqual(
fig.axes[0].lines[0].get_xydata()[0][0], 7.33776000e+05
)
self.assertEqual(pfig['data'][0]['x'], date_strings)
def plot_graph_cam(df, cam_feat_fn, cam_feat_nm, cl_feat_nm, feat, channel,
tier, rock, cam_feat_val):
try:
ls = [
df[(df[cam_feat_nm] == x) & (df[tier] == rock)][cl_feat_nm]
for x in cam_feat_val
]
# for x in cam_feat_val:
# ls.append(df[(df[cam_feat]==x)&(df[tier]==rock)][feat_nm])
fig, ax = plt.subplots(figsize=(10, 4.55))
for i in range(len(ls)):
ls[i].plot.kde(ax=ax, label=cam_feat_val[i], linewidth=3)
plt.title(feat + " on " + channel + " Channel" + " of " + rock +
" with Different " + cam_feat_fn,
fontsize=20)
plt.tick_params(labelsize=15)
plt.xlabel("Feature value", fontsize=15)
plt.ylabel("Density", fontsize=15)
min_val = min([min(x) for x in ls])
max_val = max([max(x) for x in ls])
ax.set_xlim([min_val, max_val])
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig["layout"]["showlegend"] = True
plotly_fig["layout"]["autosize"] = True
plotly_fig["layout"]["hovermode"] = "x"
plotly_fig["layout"]["legend"] = {"font": {"size": "18"}}
return plotly_fig
except:
return {'data': [], 'layout': []}
def create_streamgraph_themes_dates():
# #avec les x et y
x = [1, 2, 3, 4, 5]
y1 = [1, 1, 2, 3, 5]
y2 = [0, 4, 2, 6, 8]
y3 = [1, 3, 5, 7, 9]
y = np.vstack([y1, y2, y3])
labels = ["Fibonacci ", "Evens", "Odds"]
fig, ax = plt.subplots()
ax.stackplot(x, y1, y2, y3, baseline='weighted_wiggle', labels=labels)
# ax.stackplot(x, y1, y2, y3, baseline = 'wiggle', labels=labels)
ax.legend(loc='upper left')
plt.show()
# fig_json = json.dumps(fig)
# print(fig_json)
plotly_fig = tls.mpl_to_plotly(fig)
# plotly_fig = tls.mpl_to_plotly(plt.gcf())
pp = pprint.PrettyPrinter(indent=4)
# pprint(fig_json['coordinates'])
# pprint(fig['coordinates'])
pp.pprint(plotly_fig['layout'])
pp.pprint(plotly_fig['data'])
pp.pprint(plotly_fig['coordinates'])
def update_graph(run_click, feat, channel, tier, rocktypes):
if run_click:
try:
df = pd.read_csv(file)
colname = [
col for col in df.columns if channel in col and feat in col
][0]
groups = df.groupby(tier).groups
fig, ax = plt.subplots(figsize=(10, 4.5))
ls = [df[colname][groups[x]] for x in rocktypes]
for i in range(len(ls)):
ls[i].plot.kde(ax=ax, label=rocktypes[i], linewidth=3)
plt.title(feat + " on " + channel + " Channel", fontsize=20)
plt.tick_params(labelsize=15)
plt.xlabel("Feature value", fontsize=15)
plt.ylabel("Density", fontsize=15)
min_val = min([min(x) for x in ls])
max_val = max([max(x) for x in ls])
ax.set_xlim([min_val, max_val])
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig["layout"]["showlegend"] = True
plotly_fig["layout"]["autosize"] = True
plotly_fig["layout"]["hovermode"] = "x"
plotly_fig["layout"]["legend"] = {"font": {"size": "18"}}
return plotly_fig
except:
return {'data': [], 'layout': []}
def generate_graph(n_clicks, file_dropdown, input_dir, fsc_lower, fsc_upper,
ssc_lower, ssc_upper, fl1, fsc, ssc, amplification,
min_peak_size):
fsc_filt = [fsc_lower, fsc_upper]
ssc_filt = [ssc_lower, ssc_upper]
if n_clicks > 0:
mosaic = MosaicMetadata(input_dir, fsc_filt, ssc_filt, fl1, fsc, ssc,
amplification, min_peak_size)
data = prep_fcs(file_dropdown, mosaic)
bright_outputs, plot_outputs = calc_bright_cells(data, mosaic)
x_vals, y_vals, intense, freq = plot_outputs
fig, ax = plt.subplots()
plt.plot(intense, freq)
plt.plot(x_vals, y_vals, "o", color='k')
plotly_fig = tls.mpl_to_plotly(fig)
graph_dict = {
'data': [go.Scatter(x=x_vals, y=y_vals, mode='lines+markers')],
'layout': {
'yaxis': {
'type': 'log'
}
}
}
return [graph_dict]
else:
return ['']
def plotly_pandas(df_in,x_column,num_of_x_ticks=20,plot_title=None,
y_left_label=None,y_right_label=None,bar_plot=False,figsize=(16,10),number_of_ticks_display=20,use_secondary_yaxis=True):
f = plot_pandas(df_in,x_column=x_column,bar_plot=bar_plot,use_secondary_yaxis=use_secondary_yaxis)#.get_figure()
# list(filter(lambda s: 'get_y' in s,dir(f)))
plotly_fig = tls.mpl_to_plotly(f.get_figure())
d1 = plotly_fig['data'][0]
# number_of_ticks_display=20
td = list(df_in[x_column])
spacing = len(td)//number_of_ticks_display
tdvals = td[::spacing]
d1.x = td
d_array = [d1]
if len(plotly_fig['data'])>1:
d2 = plotly_fig['data'][1]
d2.x = td
d2.xaxis = 'x'
d_array.append(d2)
layout = go.Layout(
title='plotly' if plot_title is None else plot_title,
xaxis=dict(
ticktext=tdvals,
tickvals=tdvals,
tickangle=90,
type='category'),
yaxis=dict(
title='y main' if y_left_label is None else y_left_label
),
)
if len(d_array)>1:
layout = go.Layout(
title='plotly' if plot_title is None else plot_title,
xaxis=dict(
ticktext=tdvals,
tickvals=tdvals,
tickangle=90,
type='category'),
xaxis2=dict(
ticktext=tdvals,
tickvals=tdvals,
tickangle=90,
type='category'),
yaxis=dict(
title='y main' if y_left_label is None else y_left_label
),
yaxis2=dict(
title='y alt' if y_right_label is None else y_right_label,
overlaying='y',
side='right')
)
fig = go.Figure(data=d_array,layout=layout)
if bar_plot: # fix y values, which have all become positive
df_yvals = df_in[[c for c in df_in.columns.values if c != x_column]]
for i in range(len(df_yvals.columns.values)):
fig.data[i].y = df_yvals[df_yvals.columns.values[i]]
return fig
def plot_value_array(image, model):
predictions1 = classify_image2(image, model)[0]
#predictions1 = predictions1.flatten()
fig, ax = plt.subplots(figsize=(20, 6), dpi=80)
ax.set_xticks(range(43))
ax.bar(range(43), predictions1, color="#777777")
plotly_fig = mpl_to_plotly(fig)
def about(request):
fig, ax = plt.subplots()
ax.plot([1, 3, 4], [3, 2, 5])
plotly_fig = tls.mpl_to_plotly(fig)
graph_div = plotly.offline.plot(plotly_fig,
auto_open=False,
output_type="div")
return render(request, 'Trending/about.html', {'fig': graph_div})
def handlePlotly(fig, args):
if args['plotly']:
import plotly.tools as tls
import plotly.offline as py
plotly_fig = tls.mpl_to_plotly(fig)
py.plot(plotly_fig)
else:
plt.show()
def q2(pairs):
# Measure the degree of each protein with at least 1 interaction in the network (exclude selfinteractions)
degs = {} #protein name to deg num
neighbors = {} #protein name to list of protein names who are neighbors
for p in pairs:
#exclude self interactions
if (p.proteinA != p.proteinB):
#Increment proteinA count in degs if found, otherwise add it
if (p.proteinA not in degs):
degs[p.proteinA] = 1
tempList = [p.proteinB]
neighbors[p.proteinA] = tempList
else:
degs[p.proteinA] = degs[p.proteinA] + 1
#add proteinB to the list that's already there
tempList = neighbors[p.proteinA]
tempList.append(p.proteinB)
neighbors[p.proteinA] = tempList
#Increment proteinB count in degs if found, otherwise add it
if (p.proteinB not in degs):
degs[p.proteinB] = 1
tempList = [p.proteinA]
neighbors[p.proteinB] = tempList
else:
degs[p.proteinB] = degs[p.proteinB] + 1
#add proteinA to the list that's already there
tempList = neighbors[p.proteinB]
tempList.append(p.proteinA)
neighbors[p.proteinB] = tempList
# Plot the degree distribution of the protein-protein interaction network (a histogram is fine)
fig = plt.figure()
n = list(degs.values())
bins = 75
plt.hist(n, bins)
plt.title("Degree distribution of protein-protein interaction network")
plt.xlabel("Degree Count")
plt.ylabel("Frequency")
plotly_fig = tls.mpl_to_plotly(fig)
py.plot(plotly_fig, filename='all_probe_data_before_log')
#finding highest degree protein
max = 0
maxP = ""
for k, v in degs.items():
if v > max:
max = v
maxP = k
print("Max degree value ", max)
print("Corresponding max protein ", maxP)
return degs, neighbors
def show_app_old(self):
fig = plt.figure()
ax = fig.add_subplot(111)
x = [1, 2, 3, 4]
y = [10, 20, 25, 30]
ax.plot(x, y, color='lightblue', linewidth = 3)
ax.scatter(x, y, color='darkgreen', marker ='.')
ax.set_xlim(0.5, 4.5)
ax.set_facecolor('xkcd:salmon')
ax.set_facecolor((1.0, 0.47, 0.42))
plotly_fig = mpl_to_plotly(fig)
#graph = dcc.Graph(id='myGraph', fig=plotly_fig)
fig = go.Figure(
data=[go.Bar(x=[1, 2, 3], y=[1, 3, 2])],
layout=go.Layout(
title=go.layout.Title(text="A Bar Chart")
)
)
fig2 = make_subplots(rows=2, cols=1)
fig2.add_trace(go.Scatter(y=[4.4, 2, 1], mode="lines", name="scatter 1"), row=1, col=1)
fig2.add_trace(go.Scatter(y=[4.1, 2, 1], mode="lines", name="scatter 2"), row=1, col=1)
fig2.add_trace(go.Scatter(y=[4, 2.2, 1.5], mode="lines", name="scatter 3", line=dict(color="blue")), row=1, col=1)
fig2.add_trace(go.Scatter(y=[4, 2, 1], mode="lines"), row=1, col=1)
fig2.add_trace(go.Bar(y=[2, 1, 3]), row=2, col=1)
fig2.update_layout(title={'text': "Plot Title", 'y':0.9, 'x':0.5, 'xanchor': 'center','yanchor': 'top'}, xaxis_title="x Axis Title", yaxis_title="y Axis Title",font=dict(family="Courier New, monospace",size=18,color="#7f7f7f"),title_text="A Bar Chart",title_font_size=30)
app.layout = html.Div(children=[
html.H1(children='Hello Dash'),
html.Div(children='''
Dash: A web application framework for Python.
'''),
dcc.Graph(
id='example-graph',
figure={
'data': [
{'x': x, 'y':y},
go.Bar(x=[1, 2, 3], y=[1, 3, 2])
],
'layout': {
'title': 'Dash Data Visualization'
}
},
config={'displayModeBar': True, 'scrollZoom': True}
),
dcc.Graph(id='myGraph2', figure=fig2,
config={'displayModeBar': True, 'scrollZoom': True}),
dcc.Graph(id='myGraph', figure=plotly_fig,
config={'displayModeBar': True, 'scrollZoom': True}),
html.H2(children="Dqwedw")
])
def iplot_mpl(
mpl_fig,
resize=False,
strip_style=False,
verbose=False,
show_link=True,
link_text="Export to plot.ly",
validate=True,
):
"""
Convert a matplotlib figure to a plotly graph and plot inside an IPython
notebook without connecting to an external server.
To save the chart to Plotly Cloud or Plotly Enterprise, use
`plotly.plotly.plot_mpl`.
For more information on converting matplotlib visualizations to plotly
graphs call `help(plotly.tools.mpl_to_plotly)`
For more information on plotting plotly charts offline in an Ipython
notebook call `help(plotly.offline.iplot)`
mpl_fig -- a matplotlib.figure to convert to a plotly graph
Keyword arguments:
resize (default=False) -- allow plotly to choose the figure size.
strip_style (default=False) -- allow plotly to choose style options.
verbose (default=False) -- print message.
show_link (default=True) -- display a link in the bottom-right corner of
of the chart that will export the chart to Plotly Cloud or
Plotly Enterprise
show_link (default=True) -- display a link in the bottom-right corner of
of the chart that will export the chart to
Plotly Cloud or Plotly Enterprise
link_text (default='Export to plot.ly') -- the text of export link
validate (default=True) -- validate that all of the keys in the figure
are valid? omit if your version of plotly.js
has become outdated with your version of
graph_reference.json or if you need to include
extra, unnecessary keys in your figure.
Example:
```
from plotly.offline import init_notebook_mode, iplot_mpl
import matplotlib.pyplot as plt
init_notebook_mode()
fig = plt.figure()
x = [10, 15, 20, 25, 30]
y = [100, 250, 200, 150, 300]
plt.plot(x, y, "o")
iplot_mpl(fig)
```
"""
plotly_plot = tools.mpl_to_plotly(mpl_fig, resize, strip_style, verbose)
return iplot(plotly_plot, show_link, link_text, validate)
def transform_analyse_continous(df, var):
scatter_plot_figure = plt.figure(figsize=(20, 5))
df = df.copy()
plt.scatter(df[var], df[df.columns.values[-1]])
plt.ylabel(df.columns.values[-1])
plt.xlabel(var)
plt.show()
scatterplot = tls.mpl_to_plotly(scatter_plot_figure)
return scatterplot
def get_context_data(self, **kwargs):
context = super().get_context_data(**kwargs)
t = NetAssetReport()
task = build([t], local_scheduler=True)
if task:
plotly_fig = tls.mpl_to_plotly(t.fig)
div = opy.plot(plotly_fig, auto_open=False, output_type='div')
context['graph'] = div
return context
def analyse_discrete(df, var):
line_plot_figure = plt.figure(figsize=(20, 5))
df[df.columns.values[-1]].plot(label=df.columns.values[-1],
legend=False)
df[var].plot(secondary_y=True, label=var, legend=True)
plt.xticks(rotation=90)
plt.show()
line_plot = tls.mpl_to_plotly(line_plot_figure)
return line_plot
def generar_histograma(numeros_aleatorios):
plt.hist(numeros_aleatorios)
plt.title("Histograma GCL")
plt.xlabel("Valor")
plt.ylabel("Frecuencia")
fig = plt.gcf()
plotly_fig = tls.mpl_to_plotly( fig )
py.plot(plotly_fig, filename='histograma-gcl')
def hist(self, df, column, bins=None, color="b"):
m_fig = plt.figure()
if bins is not None:
df[column].hist(bins=bins, color=color)
else:
df[column].hist(color=color)
p_fig = tools.mpl_to_plotly(m_fig)
trace = p_fig["data"][0]
self.traces.append(trace)
def show_fig(fig, plotly=False):
if plotly:
import plotly.tools as tls
import plotly.offline as py
plotly_fig = tls.mpl_to_plotly(fig)
py.plot(plotly_fig)
else:
import matplotlib.pyplot as plt
plt.show()
def plot_quiver_img(self, img, flow, win=0, caption='view'):
fig, ax = plt.subplots(1)
ax.axis('off')
ax.imshow(img.transpose(1, 2, 0))
X, Y, U, V = flow_to_XYUV(flow)
ax.quiver(X, Y, U, V, angles='xy', color='y')
plotly_fig = mpl_to_plotly(fig)
self.vis.plotlyplot(plotly_fig)
plt.clf()
def transform_analyse_continous(self):
for ind, v in enumerate(self.var):
scatter_plot_figure = plt.figure()
plt.scatter(self.data[v], self.data[self.data_to_search.values[0]])
plt.ylabel(self.data_to_search.values[0])
plt.xlabel(v)
plt.show()
scatterplot = tls.mpl_to_plotly(scatter_plot_figure)
return scatterplot
def plot(self, mpl=False):
# Generates matplotlib obj
mpl_fig, ax = plt.subplots()
ax.set_ylabel("Absorbance " + self.params.wavelength)
ax.set_xlabel("Groups")
self.df.boxplot(ax=ax)
#labels = [item.get_text() for item in ax.get_xticklabels()]
if mpl:
#return mpl_fig
return None
else:
return plot(tls.mpl_to_plotly(mpl_fig))
def test_pandas_time_series_date_formatter(self):
ndays = 3
x = pd.date_range('1/1/2001', periods=ndays, freq='D')
y = [random.randint(0, 10) for i in range(ndays)]
s = pd.DataFrame(y, columns=['a'])
s['Date'] = x
s.plot(x='Date')
fig = plt.gcf()
pfig = tls.mpl_to_plotly(fig)
expected_x = ['2001-01-01 00:00:00',
'2001-01-02 00:00:00',
'2001-01-03 00:00:00']
expected_x0 = 11323.0 # this is floating point days since epoch
x0 = fig.axes[0].lines[0].get_xydata()[0][0]
self.assertEqual(x0, expected_x0)
self.assertEqual(pfig['data'][0]['x'], expected_x)
def mpl_to_json(figure, resize = True, strip_style = False):
""" Turn the matplotlib figure object into a JSON data object using tools
provided by plotly.py
Positional Arguments:
fig -- a figure object from matplotlib
Keywords Arguments:
resize (default is True) -- allow the plotly backend to choose the size
strip_style (default is False) -- allow plotly to choose style options
"""
fig = tools.mpl_to_plotly(figure, resize=resize, strip_style=strip_style)
# get the json scheme
data = json.dumps(fig['data'] if 'data' in fig else [],
cls=utils.PlotlyJSONEncoder)
layout = json.dumps(fig['layout'] if 'layout' in fig else [],
cls=utils.PlotlyJSONEncoder)
# make the total json object
return str(fig)
def quiver_region(self,fname='test'):
plotly_fig = tls.mpl_to_plotly(fig)
x = self.x
y = self.y
z = self.z
# Set up a regular grid of interpolation points
xi, yi = np.linspace(min(x), max(x), intervals), np.linspace(min(y), max(y), intervals)
xi, yi = np.meshgrid(xi, yi)
# Interpolate
rbf = scipy.interpolate.Rbf(x, y, z, function='linear')
zi = rbf(xi, yi)
quiver = tls.TraceFactory.create_quiver()
data = Data([quiver])
plotly_fig = Figure(data=data)
unique_url = py.plot(plotly_fig, filename = self.name)
msg =("Plotly Plot saved to " + unique_url)
plt.close()
return msg
def plot(self, mpl=True, plot_type="box", **plt_kwargs):
"""
Parameters
----------
mpl : boolean, optional
Set to True to render a matplotlib plot, otherwise a Plotly plot
is rendered
plot_type : {"box", "bar", "line", "hist"}, optional
Type of plot to render
\**plot_kwargs : dict, optional
Optional dictionary of specifications for your plot type of choice
"""
mpl_fig, ax = plt.subplots()
nl = "\n" if mpl else "<br>"
ax.set_ylabel(self.op_type + nl + self.params["wavelength"])
self.df.plot(kind=plot_type, ax=ax)
labels = [item.label.get_text() for item in ax.xaxis.get_major_ticks()]
if mpl:
return None
else:
if not plt_kwargs:
plt_kwargs = {
"layout": {
"xaxis": {
"tickmode": "array",
"ticktext": labels,
"tickvals": list(range(1, len(labels)+1)),
"tickangle": 0,
"tickfont": {
"size": 10
},
}
}
}
pyfig = tls.mpl_to_plotly(mpl_fig)
pyfig.update(plt_kwargs)
return py.iplot(pyfig)
def plot_mpl(fig, resize=True, strip_style=False, update=None, **plot_options):
"""Replot a matplotlib figure with plotly.
This function:
1. converts the mpl figure into JSON (run help(plolty.tools.mpl_to_plotly))
2. makes a request to Plotly to save this figure in your account
3. opens your figure in a browser tab OR returns the unique figure url
Positional agruments:
fig -- a figure object from matplotlib
Keyword arguments:
resize (default=True) -- allow plotly to choose the figure size
strip_style (default=False) -- allow plotly to choose style options
update (default=None) -- update the resulting figure with an 'update'
dictionary-like object resembling a plotly 'Figure' object
Additional keyword arguments:
plot_options -- run help(plotly.plotly.plot)
"""
fig = tools.mpl_to_plotly(fig, resize=resize, strip_style=strip_style)
if update and isinstance(update, dict):
try:
fig.update(update)
fig.validate()
except exceptions.PlotlyGraphObjectError as err:
err.add_note("Your updated figure could not be properly validated.")
err.prepare()
raise
elif update is not None:
raise exceptions.PlotlyGraphObjectError(
"'update' must be dictionary-like and a valid plotly Figure "
"object. Run 'help(plotly.graph_objs.Figure)' for more info."
)
return plot(fig, **plot_options)
plt.xlabel('Time(s)')
plt.ylabel('RAD (units)')
print '###########'
print 'saving fig for ' + readfile[i][0] + ' this is the #' + str(numsave) + ' time'
plt.savefig(readfile[i][0] + 'ZONE_' + str(k + 1) + '.png', dpi=200)
numsave += 1
plt.close()
print 'plot creation complete'
axt.set_title('Zone # ' + str(k + 1) + ' Estimated integration time: ' + str(len(goodtime)*10 + len(badtime)*10) + '(s)')
#axt.errorbar(goodtime, goodflux, yerr=gooderr, fmt='o')
#axt.errorbar(badtime, badflux, yerr=baderr,
# fmt='ro') # Work on getting flags running, your close but not there
axt.plot(gAppOutput[k], fluxfile[k], 'ko-')
axt.plot(goodtime, goodflux, 'ko')
axt.plot(badtime, badflux, 'ro')
plotly_fig = tls.mpl_to_plotly(fig)
plotly_fig["data"][0]["error_y"].update({
"visible": True,
"color":"rgb(255,127,14)",
"array":fluxfile[k]
})
url = py.plot_mpl(fig, filename = readfile[i][0] + '_ZONE_' + str(k+1), auto_open = False)
urlout.append(readfile[i][0] + '_ZONE_' + str(k+1) + '\t' + url + '\n')
currentdir = os.path.abspath('.')
os.chdir(start)
try:
logfile = open('HTMLOUT.log', 'a')
except IOError:
logfile = open('HTMLOUT.log', 'w')
logfile.write(readfile[i][0] + '\t' + str(k+1) + '\n')
logfile.close()
def plot_mpl(mpl_fig, resize=False, strip_style=False,
verbose=False, show_link=True, link_text='Export to plot.ly',
validate=True, output_type='file', include_plotlyjs=True,
filename='temp-plot.html', auto_open=True):
"""
Convert a matplotlib figure to a Plotly graph stored locally as HTML.
For more information on converting matplotlib visualizations to plotly
graphs, call help(plotly.tools.mpl_to_plotly)
For more information on creating plotly charts locally as an HTML document
or string, call help(plotly.offline.plot)
mpl_fig -- a matplotlib figure object to convert to a plotly graph
Keyword arguments:
resize (default=False) -- allow plotly to choose the figure size.
strip_style (default=False) -- allow plotly to choose style options.
verbose (default=False) -- print message.
show_link (default=True) -- display a link in the bottom-right corner of
of the chart that will export the chart to Plotly Cloud or
Plotly Enterprise
link_text (default='Export to plot.ly') -- the text of export link
validate (default=True) -- validate that all of the keys in the figure
are valid? omit if your version of plotly.js has become outdated
with your version of graph_reference.json or if you need to include
extra, unnecessary keys in your figure.
output_type ('file' | 'div' - default 'file') -- if 'file', then
the graph is saved as a standalone HTML file and `plot`
returns None.
If 'div', then `plot` returns a string that just contains the
HTML <div> that contains the graph and the script to generate the
graph.
Use 'file' if you want to save and view a single graph at a time
in a standalone HTML file.
Use 'div' if you are embedding these graphs in an HTML file with
other graphs or HTML markup, like a HTML report or an website.
include_plotlyjs (default=True) -- If True, include the plotly.js
source code in the output file or string.
Set as False if your HTML file already contains a copy of the plotly.js
library.
filename (default='temp-plot.html') -- The local filename to save the
outputted chart to. If the filename already exists, it will be
overwritten. This argument only applies if `output_type` is 'file'.
auto_open (default=True) -- If True, open the saved file in a
web browser after saving.
This argument only applies if `output_type` is 'file'.
Example:
```
from plotly.offline import init_notebook_mode, plot_mpl
import matplotlib.pyplot as plt
init_notebook_mode()
fig = plt.figure()
x = [10, 15, 20, 25, 30]
y = [100, 250, 200, 150, 300]
plt.plot(x, y, "o")
plot_mpl(fig)
```
"""
plotly_plot = tools.mpl_to_plotly(mpl_fig, resize, strip_style, verbose)
return plot(plotly_plot, show_link, link_text, validate, output_type,
include_plotlyjs, filename, auto_open)
def plot_2d_graph(self, data_frame, gp, chart_type):
if gp is None: gp = GraphProperties()
if gp.chart_type is None and chart_type is None: chart_type = 'line'
if gp.resample is not None: data_frame = data_frame.asfreq(gp.resample)
self.apply_style_sheet(gp)
# create figure & add a subplot
fig = plt.figure(figsize = ((gp.width * gp.scale_factor)/gp.dpi,
(gp.height * gp.scale_factor)/gp.dpi), dpi = gp.dpi)
ax = fig.add_subplot(111)
if gp.x_title != '': ax.set_xlabel(gp.x_title)
if gp.y_title != '': ax.set_ylabel(gp.y_title)
plt.xlabel(gp.x_title)
plt.ylabel(gp.y_title)
fig.suptitle(gp.title, fontsize = 14 * gp.scale_factor)
# format Y axis
y_formatter = matplotlib.ticker.ScalarFormatter(useOffset = False)
ax.yaxis.set_major_formatter(y_formatter)
# create a second y axis if necessary
ax2 = []
if gp.y_axis_2_series != []:
ax2 = ax.twinx()
# do not use a grid with multiple y axes
ax.yaxis.grid(False)
ax2.yaxis.grid(False)
# matplotlib 1.5
try:
cyc = matplotlib.rcParams['axes.prop_cycle']
color_cycle = [x['color'] for x in cyc]
except KeyError:
# pre 1.5
pass
# color_cycle = matplotlib.rcParams['axes.color_cycle']
bar_ind = np.arange(0, len(data_frame.index))
# for bar charts, create a proxy x-axis (then relabel)
xd, bar_ind, has_bar, no_of_bars = self.get_bar_indices(data_frame, gp, chart_type, bar_ind)
# plot the lines (using custom palettes as appropriate)
try:
# get all the correct colors (and construct gradients if necessary eg. from 'blues')
color_spec = self.create_color_list(gp, data_frame)
# for stacked bar
yoff_pos = np.zeros(len(data_frame.index.values)) # the bottom values for stacked bar chart
yoff_neg = np.zeros(len(data_frame.index.values)) # the bottom values for stacked bar chart
zeros = np.zeros(len(data_frame.index.values))
# for bar chart
bar_space = 0.2
bar_width = (1 - bar_space) / (no_of_bars)
bar_index = 0
has_matrix = False
# some lines we should exclude from the color and use the default palette
for i in range(0, len(data_frame.columns.values)):
if gp.chart_type is not None:
if isinstance(gp.chart_type, list):
chart_type = gp.chart_type[i]
else:
chart_type = gp.chart_type
if chart_type == 'heatmap':
# TODO experimental!
# ax.set_frame_on(False)
ax.pcolor(data_frame, cmap=plt.cm.Blues, alpha=0.8)
# plt.colorbar()
has_matrix = True
break
label = str(data_frame.columns[i])
ax_temp = self.get_axis(ax, ax2, label, gp.y_axis_2_series)
yd = data_frame.ix[:,i]
if color_spec[i] is None:
color_spec[i] = color_cycle[i % len(color_cycle)]
if (chart_type == 'line'):
linewidth_t = self.get_linewidth(label,
gp.linewidth, gp.linewidth_2, gp.linewidth_2_series)
if linewidth_t is None: linewidth_t = matplotlib.rcParams['axes.linewidth']
ax_temp.plot(xd, yd, label = label, color = color_spec[i],
linewidth = linewidth_t)
elif(chart_type == 'bar'):
# for multiple bars we need to allocate space properly
bar_pos = [k - (1 - bar_space) / 2. + bar_index * bar_width for k in range(0,len(bar_ind))]
ax_temp.bar(bar_pos, yd, bar_width, label = label, color = color_spec[i])
bar_index = bar_index + 1
elif(chart_type == 'stacked'):
bar_pos = [k - (1 - bar_space) / 2. + bar_index * bar_width for k in range(0,len(bar_ind))]
yoff = np.where(yd > 0, yoff_pos, yoff_neg)
ax_temp.bar(bar_pos, yd, label = label, color = color_spec[i], bottom = yoff)
yoff_pos = yoff_pos + np.maximum(yd, zeros)
yoff_neg = yoff_neg + np.minimum(yd, zeros)
# bar_index = bar_index + 1
elif(chart_type == 'scatter'):
ax_temp.scatter(xd, yd, label = label, color = color_spec[i])
if gp.line_of_best_fit is True:
self.trendline(ax_temp, xd.values, yd.values, order=1, color= color_spec[i], alpha=1,
scale_factor = gp.scale_factor)
# format X axis
self.format_x_axis(ax, data_frame, gp, has_bar, bar_ind, has_matrix)
except: pass
if gp.display_source_label == True:
ax.annotate('Source: ' + gp.source, xy = (1, 0), xycoords='axes fraction', fontsize=7 * gp.scale_factor,
xytext=(-5 * gp.scale_factor, 10 * gp.scale_factor), textcoords='offset points',
ha='right', va='top', color = gp.source_color)
if gp.display_brand_label == True:
self.create_brand_label(ax, anno = gp.brand_label, scale_factor = gp.scale_factor)
leg = []
leg2 = []
loc = 'best'
# if we have two y-axis then make sure legends are in opposite corners
if ax2 != []: loc = 2
try:
leg = ax.legend(loc = loc, prop={'size':10 * gp.scale_factor})
leg.get_frame().set_linewidth(0.0)
leg.get_frame().set_alpha(0)
if ax2 != []:
leg2 = ax2.legend(loc = 1, prop={'size':10 * gp.scale_factor})
leg2.get_frame().set_linewidth(0.0)
leg2.get_frame().set_alpha(0)
except: pass
try:
if gp.display_legend is False:
if leg != []: leg.remove()
if leg2 != []: leg.remove()
except: pass
try:
plt.savefig(gp.file_output, transparent=False)
except: pass
####### various matplotlib converters are unstable
# convert to D3 format with mpld3
try:
# output matplotlib charts externally to D3 based libraries
import mpld3
if gp.display_mpld3 == True:
mpld3.save_d3_html(fig, gp.html_file_output)
mpld3.show(fig)
except: pass
# FRAGILE! convert to Bokeh format
# better to use direct Bokeh renderer
try:
if (gp.convert_matplotlib_to_bokeh == True):
from bokeh.plotting import output_file, show
from bokeh import mpl
output_file(gp.html_file_output)
show(mpl.to_bokeh())
except: pass
# FRAGILE! convert matplotlib chart to Plotly format
# recommend using AdapterCufflinks instead to directly plot to Plotly
try:
import plotly.plotly as py
import plotly
import plotly.tools as tls
if gp.convert_matplotlib_to_plotly == True:
plotly.tools.set_credentials_file(username = gp.plotly_username,
api_key = gp.plotly_api_key)
py_fig = tls.mpl_to_plotly(fig, strip_style = True)
plot_url = py.plot_mpl(py_fig, filename = gp.plotly_url)
except:
pass
# display in matplotlib window
try:
if GraphicsConstants.plotfactory_silent_display == True:
return fig
elif gp.silent_display == False:
plt.show()
else:
return fig
except:
pass
print rmax10s
print vel10s
bin_means, bin_edges, binnumber = scipy.stats.binned_statistic(rmax10s, vel10s, statistic='mean', bins=4)
#print bin_means
#print bin_edges
plt.hlines(bin_means, bin_edges[:-1], bin_edges[1:], colors='g', lw=5, label='binned statistic of data')
#digitizedrmax10s = np.digitize(rmax10s, bins)
#print digitizedrmax10s
#bin_meansrmax10s = [rmax10s[digitizedrmax10s == i].mean() for i in range(1, len(bins))]
#print bin_meansrmax10s
#digitizedvel10s = np.digitize(vel10s, bins)
#bin_meansvel10s = [vel10s[digitizedvel10s == i].mean() for i in range(1, len(bins))]
#plt.loglog(digitizedrmax10s, digitizedvel10s, '-', alpha=0.08, label='mean 10th percentile')
plt.loglog(rmax10s, vel10s, 'o', alpha=0.08, label='10th-50th host mass percentile')
plt.loglog(rmax50s, vel50s, 'o', alpha=0.08, label='50th-90th host mass percentile')
plt.loglog(rmax90s, vel90s, 'o', alpha=0.08, label='>=90th host mass percentile')
plt.loglog(rmaxxs, velxs, 'o', alpha=0.08, label='<10th host mass percentile')
plt.xlim(xmin=0.38, xmax=50)
plt.ylim(ymin=10.0, ymax=200)
plt.xlabel('Rmax (kpc)')
plt.ylabel('Vmax (km/s)')
plt.title('Rmax-Vmax by Host Mass')
#spearman = scipy.stats.spearmanr(rmaxs, vmaxs)
#print spearman
plot_mpl_fig()
mpl_fig1 = plt.gcf()
py_fig1 = tls.mpl_to_plotly(mpl_fig1, verbose=True)
py.iplot_mpl(mpl_fig1, strip_style=True, filename='Rmax-Vmax Percentile')
py_fig1_ss = tls.mpl_to_plotly(mpl_fig1, strip_style=True)
py.plot(py_fig1_ss, filename='Rmax-Vmax Percentile')
def plot_2d_graph(self, data_frame, gp, type):
matplotlib.rcdefaults()
# set the matplotlib style sheet
plt.style.use(Constants().plotfactory_pythalesians_style_sheet[Constants().plotfactory_default_stylesheet])
if hasattr(gp, 'style_sheet'):
plt.style.use(Constants().plotfactory_pythalesians_style_sheet[gp.style_sheet])
scale_factor = Constants().plotfactory_scale_factor
if hasattr(gp, 'scale_factor'): scale_factor = gp.scale_factor
dpi = Constants().plotfactory_dpi
if hasattr(gp, 'dpi'): dpi = gp.dpi
width = Constants().plotfactory_width; height = Constants().plotfactory_height
if hasattr(gp, 'width'): width = gp.width
if hasattr(gp, 'height'): width = gp.height
fig = plt.figure(figsize = ((width * scale_factor)/dpi, (height * scale_factor)/dpi), dpi = dpi)
# add a subplot
ax = fig.add_subplot(111)
matplotlib.rcParams.update({'font.size': matplotlib.rcParams['font.size'] * scale_factor})
# format Y axis
y_formatter = matplotlib.ticker.ScalarFormatter(useOffset = False)
ax.yaxis.set_major_formatter(y_formatter)
y_axis_2_series = []
ax2 = []
color_2_series = []
linewidth_2_series = []
if hasattr(gp, 'resample'):
data_frame = data_frame.asfreq(gp.resample)
# create a second y axis if necessary
if hasattr(gp, 'y_axis_2_series'):
if gp.y_axis_2_series == []:
pass
else:
y_axis_2_series = gp.y_axis_2_series
ax2 = ax.twinx()
# matplotlib.rcParams.update({'figure.subplot.right': matplotlib.rcParams['figure.subplot.right'] - 0.05})
# do not use a grid with multiple y axes
ax.yaxis.grid(False)
ax2.yaxis.grid(False)
# is there a second palette?
if hasattr(gp, 'color_2_series'):
if hasattr(gp.color_2_series, 'values'):
color_2_series = [str(x) for x in gp.color_2_series.values]
else:
color_2_series = [str(x) for x in gp.color_2_series]
# is there a second linewidth series
if hasattr(gp, 'linewidth_2_series'):
if hasattr(gp.linewidth_2_series, 'values'):
linewidth_2_series = [str(x) for x in gp.linewidth_2_series.values]
else:
linewidth_2_series = [str(x) for x in gp.linewidth_2_series]
# plot the lines (using custom palettes as appropriate)
try:
color = []; color_2 = []
linewidth_2 = matplotlib.rcParams['axes.linewidth']
exclude_from_color = []
if hasattr(gp, 'color'):
if isinstance(gp.color, list):
color = gp.color
else:
try:
color = self.create_colormap(
len(data_frame.columns.values) - len(color_2_series), gp.color)
except: pass
if hasattr(gp, 'width'):
if isinstance(gp.width, list):
color = gp.color
else:
try:
color = self.create_colormap(
len(data_frame.columns.values) - len(color_2_series), gp.color)
except: pass
if hasattr(gp, 'color_2'):
if isinstance(gp.color_2, list):
color_2 = gp.color_2
else:
try:
color_2 = self.create_colormap(len(color_2_series), gp.color_2)
except: pass
if hasattr(gp, 'exclude_from_color'):
if not(isinstance(gp.exclude_from_color, list)):
gp.exclude_from_color = [gp.exclude_from_color]
exclude_from_color = [str(x) for x in gp.exclude_from_color]
if hasattr(gp, 'linewidth_2'):
linewidth_2 = gp.linewidth_2
axis_1_color_index = 0
axis_2_color_index = 0
if type == 'bar':
# bottom = np.cumsum(np.vstack((np.zeros(data_frame.values.shape[1]), data_frame.values)), axis=0)[:-1]
# bottom = np.vstack((np.zeros((data_frame.values.shape[1],), dtype=data_frame.dtype),
# np.cumsum(data_frame.values, axis=0)[:-1]))
yoff = np.zeros(len(data_frame.index.values)) # the bottom values for stacked bar chart
# some lines we should exclude from the color and use the default palette
for i in range(0, len(data_frame.columns.values)):
label = str(data_frame.columns[i])
ax_temp = self.get_axis(ax, ax2, label, y_axis_2_series)
color_spec, axis_1_color_index, axis_2_color_index = \
self.get_color(label, axis_1_color_index, axis_2_color_index, color, color_2,
exclude_from_color, color_2_series)
xd = data_frame.index; yd = data_frame.ix[:,i]
if (type == 'line'):
linewidth = self.get_linewidth(label, linewidth_2, linewidth_2_series)
ax_temp.plot(xd, yd, label = label, color = color_spec,
linewidth = linewidth)
elif(type == 'bar'):
ax_temp.bar(xd, yd, label = label, color = color_spec, bottom = yoff)
yoff = yoff + yd
elif(type == 'scatter'):
ax_temp.scatter(xd, yd, label = label, color = color_spec)
if hasattr(gp, 'line_of_best_fit'):
if gp.line_of_best_fit == True:
self.trendline(ax_temp, xd.values, yd.values, order=1, color= color_spec, alpha=1,
scale_factor = scale_factor)
except: pass
# format X axis
self.format_x_axis(ax, data_frame, gp)
try:
fig.suptitle(gp.title, fontsize = 14 * scale_factor)
except: pass
try:
source = Constants().plotfactory_source
source_color = 'black'
display_brand_label = False
if hasattr(gp, 'source'):
source = gp.source
display_brand_label = True
if hasattr(gp, 'source_color'):
source_color = self.get_color_code(gp.source_color)
if display_brand_label or Constants().plotfactory_display_brand_label:
ax.annotate('Source: ' + source, xy = (1, 0), xycoords='axes fraction', fontsize=7 * scale_factor,
xytext=(-5 * scale_factor, 10 * scale_factor), textcoords='offset points',
ha='right', va='top', color = source_color)
except: pass
if hasattr(gp, 'display_brand_label'):
if gp.display_brand_label is True:
self.create_brand_label(ax, anno = Constants().plotfactory_brand_label, scale_factor = scale_factor)
else:
if Constants().plotfactory_display_brand_label is True:
self.create_brand_label(ax, anno = Constants().plotfactory_brand_label, scale_factor = scale_factor)
leg = []
leg2 = []
loc = 'best'
# if we have two y-axis then make sure legends are in opposite corners
if ax2 != []: loc = 2
try:
leg = ax.legend(loc = loc, prop={'size':10 * scale_factor})
leg.get_frame().set_linewidth(0.0)
leg.get_frame().set_alpha(0)
if ax2 is not []:
leg2 = ax2.legend(loc = 1, prop={'size':10 * scale_factor})
leg2.get_frame().set_linewidth(0.0)
leg2.get_frame().set_alpha(0)
except: pass
try:
if gp.display_legend == False:
if leg is not[]: leg.remove()
if leg2 is not[]: leg.remove()
except: pass
try:
plt.savefig(gp.file_output, transparent=False)
except: pass
try:
if hasattr(gp, 'silent_display'):
if gp.silent_display is False:
plt.show()
else:
plt.show()
except:
pass
# convert to D3 format with mpld3
try:
if hasattr(gp, 'html_file_output'):
mpld3.save_d3_html(fig, gp.html_file_output)
if hasattr(gp, 'display_mpld3'):
if gp.display_mpld3 == True: mpld3.show(fig)
except: pass
# convert to Plotly format (fragile!)
# TODO better to create Plotly graphs from scratch rather than convert from matplotlib
# TODO also dependent on matplotlib version for support
try:
if hasattr(gp, 'plotly_url'):
plotly.tools.set_credentials_file(username = Constants().plotly_username,
api_key = Constants().plotly_api_key)
py_fig = tls.mpl_to_plotly(fig, strip_style = True)
plot_url = py.plot_mpl(py_fig, filename = gp.plotly_url)
except:
pass
def mpl_to_plotly(figure, resize = True, strip_style = False):
""" wrapper function for plotly.tools.mpl_to_plotly
"""
return tools.mpl_to_plotly(figure, resize=resize, strip_style=strip_style)
def plot_2d_graph(self, data_frame, gp, chart_type):
if gp.resample is not None:
data_frame = data_frame.asfreq(gp.resample)
# set the matplotlib style sheet & defaults
matplotlib.rcdefaults()
# first search PyThalesians styles, then try matplotlib
try:
plt.style.use(Constants().plotfactory_pythalesians_style_sheet[gp.style_sheet])
except:
plt.style.use(gp.style_sheet)
matplotlib.rcParams.update({"font.size": matplotlib.rcParams["font.size"] * gp.scale_factor})
# create figure & add a subplot
fig = plt.figure(
figsize=((gp.width * gp.scale_factor) / gp.dpi, (gp.height * gp.scale_factor) / gp.dpi), dpi=gp.dpi
)
ax = fig.add_subplot(111)
# format Y axis
y_formatter = matplotlib.ticker.ScalarFormatter(useOffset=False)
ax.yaxis.set_major_formatter(y_formatter)
# create a second y axis if necessary
ax2 = []
if gp.y_axis_2_series != []:
ax2 = ax.twinx()
# do not use a grid with multiple y axes
ax.yaxis.grid(False)
ax2.yaxis.grid(False)
# plot the lines (using custom palettes as appropriate)
try:
# get all the correct colors (and construct gradients if necessary eg. from 'blues')
color_spec = self.create_color_list(gp, data_frame)
if type == "bar":
# bottom = np.cumsum(np.vstack((np.zeros(data_frame.values.shape[1]), data_frame.values)), axis=0)[:-1]
# bottom = np.vstack((np.zeros((data_frame.values.shape[1],), dtype=data_frame.dtype),
# np.cumsum(data_frame.values, axis=0)[:-1]))
yoff = np.zeros(len(data_frame.index.values)) # the bottom values for stacked bar chart
# some lines we should exclude from the color and use the default palette
for i in range(0, len(data_frame.columns.values)):
if chart_type is not None:
if gp.chart_type is not None:
if isinstance(gp.type, list):
chart_type = gp.chart_type[i]
else:
chart_type = gp.chart_type
label = str(data_frame.columns[i])
ax_temp = self.get_axis(ax, ax2, label, gp.y_axis_2_series)
xd = data_frame.index
yd = data_frame.ix[:, i]
if chart_type == "line":
linewidth_t = self.get_linewidth(label, gp.linewidth, gp.linewidth_2, gp.linewidth_2_series)
if linewidth_t is None:
linewidth_t = matplotlib.rcParams["axes.linewidth"]
ax_temp.plot(xd, yd, label=label, color=color_spec[i], linewidth=linewidth_t)
elif chart_type == "bar":
ax_temp.bar(xd, yd, label=label, color=color_spec[i], bottom=yoff)
yoff = yoff + yd
elif chart_type == "scatter":
ax_temp.scatter(xd, yd, label=label, color=color_spec[i])
if gp.line_of_best_fit is True:
self.trendline(
ax_temp,
xd.values,
yd.values,
order=1,
color=color_spec[i],
alpha=1,
scale_factor=gp.scale_factor,
)
except:
pass
# format X axis
self.format_x_axis(ax, data_frame, gp)
fig.suptitle(gp.title, fontsize=14 * gp.scale_factor)
if gp.display_source_label == True:
ax.annotate(
"Source: " + gp.source,
xy=(1, 0),
xycoords="axes fraction",
fontsize=7 * gp.scale_factor,
xytext=(-5 * gp.scale_factor, 10 * gp.scale_factor),
textcoords="offset points",
ha="right",
va="top",
color=gp.source_color,
)
if gp.display_brand_label == True:
self.create_brand_label(ax, anno=gp.brand_label, scale_factor=gp.scale_factor)
leg = []
leg2 = []
loc = "best"
# if we have two y-axis then make sure legends are in opposite corners
if ax2 != []:
loc = 2
try:
leg = ax.legend(loc=loc, prop={"size": 10 * gp.scale_factor})
leg.get_frame().set_linewidth(0.0)
leg.get_frame().set_alpha(0)
if ax2 != []:
leg2 = ax2.legend(loc=1, prop={"size": 10 * gp.scale_factor})
leg2.get_frame().set_linewidth(0.0)
leg2.get_frame().set_alpha(0)
except:
pass
try:
if gp.display_legend is False:
if leg != []:
leg.remove()
if leg2 != []:
leg.remove()
except:
pass
try:
plt.savefig(gp.file_output, transparent=False)
except:
pass
####### various matplotlib converters are unstable
# convert to D3 format with mpld3
try:
if gp.display_mpld3 == True:
mpld3.save_d3_html(fig, gp.html_file_output)
mpld3.show(fig)
except:
pass
# FRAGILE! convert to Bokeh format
# better to use direct Bokeh renderer
try:
if gp.convert_matplotlib_to_bokeh == True:
from bokeh.plotting import output_file, show
from bokeh import mpl
output_file(gp.html_file_output)
show(mpl.to_bokeh())
except:
pass
# FRAGILE! convert matplotlib chart to Plotly format
# recommend using AdapterCufflinks instead to directly plot to Plotly
try:
if gp.convert_matplotlib_to_plotly == True:
plotly.tools.set_credentials_file(username=gp.plotly_username, api_key=gp.plotly_api_key)
py_fig = tls.mpl_to_plotly(fig, strip_style=True)
plot_url = py.plot_mpl(py_fig, filename=gp.plotly_url)
except:
pass
# display in Matplotlib
try:
if gp.silent_display == False:
plt.show()
except:
pass
# In[25]:
py.iplot_mpl(mpl_fig, filename='baltimore-poverty')
# So, at the moment, matplotlib legends do not fully convert to plotly legends (please refer to our [user guide](https://plot.ly/python/matplotlib-to-plotly-tutorial/#Careful,-matplotlib-is-not-perfect-%28yet%29)). Let's tweak this now.
# In[26]:
import plotly.tools as tls
# In[27]:
# Convert mpl fig object to plotly fig object, resize to plotly's default.
py_fig = tls.mpl_to_plotly(mpl_fig, resize=True)
# In[28]:
# Give each trace a name to appear in legend.
py_fig['data'][0]['name'] = py_fig['layout']['annotations'][0]['text']
py_fig['data'][1]['name'] = py_fig['layout']['annotations'][1]['text']
# In[29]:
# Delete misplaced legend annotations.
py_fig['layout'].pop('annotations', None)
def plot_2d_graph(self, data_frame, gp, chart_type):
if gp.resample is not None: data_frame = data_frame.asfreq(gp.resample)
# set the matplotlib style sheet & defaults
matplotlib.rcdefaults()
# first search PyThalesians styles, then try matplotlib
try:
plt.style.use(Constants().plotfactory_pythalesians_style_sheet[gp.style_sheet])
except:
plt.style.use(gp.style_sheet)
matplotlib.rcParams.update({'font.size': matplotlib.rcParams['font.size'] * gp.scale_factor})
# create figure & add a subplot
fig = plt.figure(figsize = ((gp.width * gp.scale_factor)/gp.dpi,
(gp.height * gp.scale_factor)/gp.dpi), dpi = gp.dpi)
ax = fig.add_subplot(111)
# format Y axis
y_formatter = matplotlib.ticker.ScalarFormatter(useOffset = False)
ax.yaxis.set_major_formatter(y_formatter)
if gp.x_title != '': ax.set_xlabel(gp.x_title)
if gp.y_title != '': ax.set_ylabel(gp.y_title)
# create a second y axis if necessary
ax2 = []
if gp.y_axis_2_series != []:
ax2 = ax.twinx()
# do not use a grid with multiple y axes
ax.yaxis.grid(False)
ax2.yaxis.grid(False)
color_cycle = matplotlib.rcParams['axes.color_cycle']
bar_ind = np.arange(0, len(data_frame.index))
xd, bar_ind, has_bar, no_of_bars = self.get_bar_indices(data_frame, gp, chart_type, bar_ind)
# plot the lines (using custom palettes as appropriate)
try:
# get all the correct colors (and construct gradients if necessary eg. from 'blues')
color_spec = self.create_color_list(gp, data_frame)
# for stacked bar
yoff = np.zeros(len(data_frame.index.values)) # the bottom values for stacked bar chart
# for bar chart
# bar_ind = np.arange(len(data_frame.index))
# has_bar = False
bar_space = 0.2
bar_width = (1 - bar_space) / (no_of_bars)
bar_index = 0
# some lines we should exclude from the color and use the default palette
for i in range(0, len(data_frame.columns.values)):
if chart_type is not None:
if gp.chart_type is not None:
if isinstance(gp.chart_type, list):
chart_type = gp.chart_type[i]
else:
chart_type = gp.chart_type
label = str(data_frame.columns[i])
ax_temp = self.get_axis(ax, ax2, label, gp.y_axis_2_series)
yd = data_frame.ix[:,i]
if (chart_type == 'line'):
linewidth_t = self.get_linewidth(label,
gp.linewidth, gp.linewidth_2, gp.linewidth_2_series)
if linewidth_t is None: linewidth_t = matplotlib.rcParams['axes.linewidth']
ax_temp.plot(xd, yd, label = label, color = color_spec[i],
linewidth = linewidth_t)
elif(chart_type == 'bar'):
bar_pos = [k - (1 - bar_space) / 2. + bar_index * bar_width for k in range(0,len(bar_ind))]
if color_spec[i] is not None:
ax_temp.bar(bar_pos, yd, bar_width, label = label,
color = color_spec[i])
else:
ax_temp.bar(bar_pos, yd, bar_width, label = label,
color = color_cycle[i % len(color_cycle)])
bar_index = bar_index + 1
# bar_ind = bar_ind + bar_width
has_bar = True
elif(chart_type == 'stacked'):
ax_temp.bar(xd, yd, label = label, color = color_spec[i], bottom = yoff)
yoff = yoff + yd
has_bar = True
elif(chart_type == 'scatter'):
ax_temp.scatter(xd, yd, label = label, color = color_spec[i])
if gp.line_of_best_fit is True:
self.trendline(ax_temp, xd.values, yd.values, order=1, color= color_spec[i], alpha=1,
scale_factor = gp.scale_factor)
# format X axis
self.format_x_axis(ax, data_frame, gp, has_bar, bar_ind)
except: pass
plt.xlabel(gp.x_title)
plt.ylabel(gp.y_title)
fig.suptitle(gp.title, fontsize = 14 * gp.scale_factor)
if gp.display_source_label == True:
ax.annotate('Source: ' + gp.source, xy = (1, 0), xycoords='axes fraction', fontsize=7 * gp.scale_factor,
xytext=(-5 * gp.scale_factor, 10 * gp.scale_factor), textcoords='offset points',
ha='right', va='top', color = gp.source_color)
if gp.display_brand_label == True:
self.create_brand_label(ax, anno = gp.brand_label, scale_factor = gp.scale_factor)
leg = []
leg2 = []
loc = 'best'
# if we have two y-axis then make sure legends are in opposite corners
if ax2 != []: loc = 2
try:
leg = ax.legend(loc = loc, prop={'size':10 * gp.scale_factor})
leg.get_frame().set_linewidth(0.0)
leg.get_frame().set_alpha(0)
if ax2 != []:
leg2 = ax2.legend(loc = 1, prop={'size':10 * gp.scale_factor})
leg2.get_frame().set_linewidth(0.0)
leg2.get_frame().set_alpha(0)
except: pass
try:
if gp.display_legend is False:
if leg != []: leg.remove()
if leg2 != []: leg.remove()
except: pass
try:
plt.savefig(gp.file_output, transparent=False)
except: pass
####### various matplotlib converters are unstable
# convert to D3 format with mpld3
try:
if gp.display_mpld3 == True:
mpld3.save_d3_html(fig, gp.html_file_output)
mpld3.show(fig)
except: pass
# FRAGILE! convert to Bokeh format
# better to use direct Bokeh renderer
try:
if (gp.convert_matplotlib_to_bokeh == True):
from bokeh.plotting import output_file, show
from bokeh import mpl
output_file(gp.html_file_output)
show(mpl.to_bokeh())
except: pass
# FRAGILE! convert matplotlib chart to Plotly format
# recommend using AdapterCufflinks instead to directly plot to Plotly
try:
if gp.convert_matplotlib_to_plotly == True:
plotly.tools.set_credentials_file(username = gp.plotly_username,
api_key = gp.plotly_api_key)
py_fig = tls.mpl_to_plotly(fig, strip_style = True)
plot_url = py.plot_mpl(py_fig, filename = gp.plotly_url)
except:
pass
# display in Matplotlib
try:
if gp.silent_display == False: plt.show()
except:
pass
def iplot_mpl(mpl_fig, resize=False, strip_style=False,
verbose=False, show_link=True,
link_text='Export to plot.ly', validate=True,
image=None, image_filename='plot_image',
image_height=600, image_width=800):
"""
Convert a matplotlib figure to a plotly graph and plot inside an IPython
notebook without connecting to an external server.
To save the chart to Plotly Cloud or Plotly Enterprise, use
`plotly.plotly.plot_mpl`.
For more information on converting matplotlib visualizations to plotly
graphs call `help(plotly.tools.mpl_to_plotly)`
For more information on plotting plotly charts offline in an Ipython
notebook call `help(plotly.offline.iplot)`
mpl_fig -- a matplotlib.figure to convert to a plotly graph
Keyword arguments:
resize (default=False) -- allow plotly to choose the figure size.
strip_style (default=False) -- allow plotly to choose style options.
verbose (default=False) -- print message.
show_link (default=True) -- display a link in the bottom-right corner of
of the chart that will export the chart to
Plotly Cloud or Plotly Enterprise
link_text (default='Export to plot.ly') -- the text of export link
validate (default=True) -- validate that all of the keys in the figure
are valid? omit if your version of plotly.js
has become outdated with your version of
graph_reference.json or if you need to include
extra, unnecessary keys in your figure.
image (default=None |'png' |'jpeg' |'svg' |'webp') -- This parameter sets
the format of the image to be downloaded, if we choose to download an
image. This parameter has a default value of None indicating that no
image should be downloaded.
image_filename (default='plot_image') -- Sets the name of the file your
image will be saved to. The extension should not be included.
image_height (default=600) -- Specifies the height of the image in `px`.
image_width (default=800) -- Specifies the width of the image in `px`.
Example:
```
from plotly.offline import init_notebook_mode, iplot_mpl
import matplotlib.pyplot as plt
fig = plt.figure()
x = [10, 15, 20, 25, 30]
y = [100, 250, 200, 150, 300]
plt.plot(x, y, "o")
init_notebook_mode()
iplot_mpl(fig)
# and if you want to download an image of the figure as well
iplot_mpl(fig, image='jpeg')
```
"""
plotly_plot = tools.mpl_to_plotly(mpl_fig, resize, strip_style, verbose)
return iplot(plotly_plot, show_link, link_text, validate,
image=image, filename=image_filename,
image_height=image_height, image_width=image_width)
def mu2e_plot(df, x, y, conditions=None, mode='mpl', info=None, savename=None, ax=None,
auto_open=True):
"""Generate 2D plots, x vs y.
Generate a 2D plot for a given DF and two columns. An optional selection string is applied to
the data via the :func:`pandas.DataFrame.query` interface, and is added to the title. This
function supports matplotlib and various plotly plotting modes.
Args:
df (pandas.DataFrame): The input DF, must contain columns with labels corresponding to the
'x' and 'y' args.
x (str): Name of the independent variable.
y (str): Name of the dependent variable.
conditions (str, optional): A string adhering to the :mod:`numexpr` syntax used in
:func:`pandas.DataFrame.query`.
mode (str, optional): A string indicating which plotting package and method should be used.
Default is 'mpl'. Valid values: ['mpl', 'plotly', 'plotly_html', 'plotly_nb']
info (str, optional): Extra information to add to the legend.
savename (str, optional): If not `None`, the plot will be saved to the indicated path and
file name.
ax (matplotlib.axis, optional): Use existing mpl axis object.
auto_open (bool, optional): If `True`, automatically open a plotly html file.
Returns:
axis object if 'mpl', else `None`.
"""
_modes = ['mpl', 'plotly', 'plotly_html', 'plotly_nb']
if mode not in _modes:
raise ValueError(mode+' not one of: '+', '.join(_modes))
if conditions:
df, conditions_title = conditions_parser(df, conditions)
leg_label = y+' '+info if info else y
ax = df.plot(x, y, ax=ax, kind='line', label=leg_label, legend=True, linewidth=2)
ax.grid(True)
plt.ylabel(y)
plt.title(' '.join([x for x in [x, 'v', y, conditions] if x]))
if 'plotly' in mode:
fig = ax.get_figure()
py_fig = tls.mpl_to_plotly(fig)
py_fig['layout']['showlegend'] = True
if mode == 'plotly_nb':
# init_notebook_mode()
iplot(py_fig)
elif mode == 'plotly_html':
if savename:
plot(py_fig, filename=savename, auto_open=auto_open)
else:
plot(py_fig, auto_open=auto_open)
elif savename:
plt.savefig(savename)
if mode == 'mpl':
return ax
else:
return None
