def make_sidebar():
global sidebar, master_selector
master_selector = Select(title="MASTOR SELECTOR:", value="test", options=["test", 'sandbox', 'template', "timeseries", "mdr_history"])
def selector_func(attrname, old, new):
new_master_plot( master_selector.value )
master_selector.on_change('value', selector_func )
sidebar = vform(master_selector)
def empty_plot():
p = figure(
tools="hover,wheel_zoom,reset",
width=FIGURE_WIDTH,
responsive=True,
tags=["clusterPlot"],
)
# Ensure that the lasso only selects with mouseup, not mousemove.
p.add_tools(LassoSelectTool(select_every_mousemove=False))
# These turn off the x/y axis ticks
p.axis.visible = None
# These turn the major grid off
p.xgrid.grid_line_color = None
p.ygrid.grid_line_color = None
# Plot non-selected circles with a particular style using CIRCLE_SIZE and
# 'color' list
but_relevant = Button(label="Relevant", type="success")
but_irrelevant = Button(label="Irrelevant", type="success")
but_neutral = Button(label="Neutral", type="success")
custom_tag_input = TextInput(value="Add custom tag...")
custom_tag_select = Select(value="Custom tags", options=["Custom tags"])
but_backward_crawl = Button(label="Backlinks", type="success")
but_forward_crawl = Button(label="Forwardlinks", type="success")
tags = hplot(custom_tag_input, custom_tag_select, but_relevant, but_irrelevant, but_neutral)
tags_crawl = hplot(but_backward_crawl, but_forward_crawl)
layout = vform(p, tags, tags_crawl)
# Combine script and div into a single string.
plot_code = components(layout)
return plot_code[0] + plot_code[1]
def start(self):
c = self.last_report()
b = [i for sub in c for i in sub]
graph = vform(*b)
s = '../Report' + '/' + 'report_%s.html' % self.build[0].replace('.', '_')
output_file(s, title=self.build[0] + '-' + self.devicename[0] + 'Report')
return show(graph)
def timeplot(data):
#input data is a DataFrame
time = pd.DatetimeIndex(data['ltime'])
#String list to store column names from the third column of the dataframe
columns = []
for x in data.columns[1:]:
columns.append(x)
#change string to float in the data
for x in columns[0:(len(columns) - 2)]:
if (type(data[x][0]) is str):
for i in range(len(data[x])):
data[x][i] = float(data[x][i].replace(',', ''))
output_notebook()
y = data[columns[1]]
x = time
p = Figure(x_axis_type='datetime', title="TimeSeries Plotting")
source = ColumnDataSource(data=dict(x=x, y=y, d=data))
#create a new columndatasoure to pass column name to CustomJS
source2 = ColumnDataSource(data=dict(columns=columns))
p.line('x', 'y', source=source)
p.xaxis.axis_label = "Time"
p.yaxis.axis_label = "Selected Y"
callback = CustomJS(args=dict(source=source, columns=source2),
code="""
var data = source.get('data');
var columns = columns.get('data')['columns'];
var f = cb_obj.get('value');
y = data['y'];
console.log('y');
console.log(y);
var d = data['d'];
//get the index of the chosen column from the widget
for(i = 0; i<columns.length;i++){
if(f[0]==columns[i]){
index = i;
}
}
//make the column transpose since the CustomJS
//takes dataframe as an array of arrays which is
//a row of the DataFrame
for (i = 0; i < d.length; i++) {
y[i] = d[i][index+1];
}
console.log('y');
console.log(y.length);
source.trigger('change');
""")
select = MultiSelect(title="Y_Option:",
value=[columns[0]],
options=columns,
callback=callback)
layout = vform(select, p)
show(layout)
def start(self):
c = self.last_report()
b = [i for sub in c for i in sub]
graph = vform(*b)
s = '../Report' + '/' + 'report_%s.html' % self.build[0].replace(
'.', '_')
output_file(s,
title=self.build[0] + '-' + self.devicename[0] + 'Report')
return show(graph)
def plotDayOfWeekTimeline(fileName, initData, bokehPlaceholderId='bokehContent'):
source = ColumnDataSource(data=initData)
selectDOW = Select(title="Days:", value="Monday", options=["Sunday", "Monday", "Tuesday", "Wednesday", "Thursday", "Friday", "Saturday"])
selectUT = Select(title="User Type:", value="All", options=["All", "Subscriber", "Customer"])
model = dict(source=source, select_dow = selectDOW, select_ut = selectUT)
plot = Figure(plot_width=1200, plot_height=400, x_axis_type="datetime")
plot.line('x', 'y', source=source, line_width=3, line_alpha=0.6)
callback = CustomJS(args=model, code="""
var dayOfWeek = select_dow.get('value')
var userType = select_ut.get('value')
var xmlhttp;
xmlhttp = new XMLHttpRequest();
xmlhttp.onreadystatechange = function() {
if (xmlhttp.readyState == XMLHttpRequest.DONE ) {
if(xmlhttp.status == 200){
var data = source.get('data');
var result = JSON.parse(xmlhttp.responseText);
var temp=[];
for(var date in result.x) {
temp.push(new Date(result.x[date]));
}
data['x'] = temp;
data['y'] = result.y;
source.trigger('change');
}
else if(xmlhttp.status == 400) {
alert(400);
}
else {
alert(xmlhttp.status);
}
}
};
var params = {dow:dayOfWeek, ut:userType};
url = "/select?" + jQuery.param( params );
xmlhttp.open("GET", url, true);
xmlhttp.send();
""")
selectDOW.callback = callback
selectUT.callback = callback
layout = vform(selectDOW, selectUT, plot)
script, div = components(layout)
html = readHtmlFile(fileName)
html = insertScriptIntoHeader(html, script)
html = appendElementContent(html, div, "div", "bokehContent")
return html
def timeplot(data):
#input data is a DataFrame
time = pd.DatetimeIndex(data['ltime'])
#String list to store column names from the third column of the dataframe
columns = []
for x in data.columns[1:]:
columns.append(x)
#change string to float in the data
for x in columns[0:(len(columns)-2)]:
if (type(data[x][0]) is str):
for i in range(len(data[x])):
data[x][i] = float(data[x][i].replace(',',''))
output_notebook()
y = data[columns[1]]
x = time
p = Figure(x_axis_type = 'datetime', title = "TimeSeries Plotting")
source = ColumnDataSource(data=dict(x=x, y=y, d=data))
#create a new columndatasoure to pass column name to CustomJS
source2 = ColumnDataSource(data = dict(columns = columns))
p.line('x', 'y', source = source)
p.xaxis.axis_label = "Time"
p.yaxis.axis_label = "Selected Y"
callback = CustomJS(args = dict(source = source, columns=source2), code="""
var data = source.get('data');
var columns = columns.get('data')['columns'];
var f = cb_obj.get('value');
y = data['y'];
console.log('y');
console.log(y);
var d = data['d'];
//get the index of the chosen column from the widget
for(i = 0; i<columns.length;i++){
if(f[0]==columns[i]){
index = i;
}
}
//make the column transpose since the CustomJS
//takes dataframe as an array of arrays which is
//a row of the DataFrame
for (i = 0; i < d.length; i++) {
y[i] = d[i][index+1];
}
console.log('y');
console.log(y.length);
source.trigger('change');
""")
select = MultiSelect(title="Y_Option:", value=[columns[0]],
options=columns, callback=callback)
layout = vform(select, p)
show(layout)
def plotPairs(fileName, bokehPlaceholderId='bokehContent'):
source = ColumnDataSource(data={'count':[], 'index':[]})
minCount = TextInput(value="20", title="Minimum number of trips per pair:")
checkbox_group = CheckboxGroup(labels=["Include trips from a station to itself."])
ShowButton = Toggle(label="Show", type="success")
model = dict(source=source, checkbox = checkbox_group, minCount = minCount)
plot = Figure(title="Accumulative Number Of Trips Over Top Station Pairs", x_axis_label='Top Station Pairs in Decreasing Order', y_axis_label='Accumulative Number of Trips', plot_width=1200, plot_height=400)
plot.ray(x = [0], y=[90], line_color='red', angle=0.0, name='90%', length = 0, line_width=2)
plot.ray(x = [0], y=[90], line_color='red', angle=180.0, angle_units = 'deg', length = 0, line_width=2)
plot.line(x = 'index', y ='count', source=source, line_width=2, line_alpha=0.6)
callback = CustomJS(args=model, code="""
var selectSelf = checkbox.get('active').length;
var minCountVal = minCount.get('value');
var xmlhttp;
xmlhttp = new XMLHttpRequest();
xmlhttp.onreadystatechange = function() {
if (xmlhttp.readyState == XMLHttpRequest.DONE ) {
if(xmlhttp.status == 200){
var data = source.get('data');
var result = JSON.parse(xmlhttp.responseText);
data['count'] = result.count;
data['index'] = result.index;
source.trigger('change');
alert('triggered');
}
else if(xmlhttp.status == 400) {
alert(400);
}
else {
alert(xmlhttp.status);
}
}
};
var params = {self:selectSelf, min:minCountVal};
url = "/pairsdist?" + jQuery.param( params );
xmlhttp.open("GET", url, true);
xmlhttp.send();
""")
ShowButton.callback = callback
layout = vform(checkbox_group, minCount, ShowButton, plot)
script, div = components(layout)
html = readHtmlFile(fileName)
html = insertScriptIntoHeader(html, script)
html = appendElementContent(html, div, "div", "bokehContent")
return html
def __init__(self, local_ip='n/a', public_ip='n/a', arp = []):
# Set palette of colors for n vlans
palette = [
"#004529", "#006837", "#238443", "#41ab5d", "#78c679", "#addd8e",
"#d9f0a3", "#f7fcb9", "#ffffe5","#084081", "#0868ac", "#2b8cbe", "#4eb3d3", "#7bccc4",
"#a8ddb5", "#ccebc5", "#e0f3db", "#f7fcf0","#4d004b", "#810f7c", "#88419d", "#8c6bb1",
"#EFEFEF","#CFCFCF","#5F5F5F","#000000", "#8c96c6", "#9ebcda", "#bfd3e6", "#e0ecf4",
"#f7fcfd","#fff7fb", "#ece2f0", "#d0d1e6", "#a6bddb", "#67a9cf", "#3690c0", "#02818a",
"#016c59", "#014636","#67001f", "#980043", "#ce1256","#e7298a", "#df65b0", "#c994c7",
"#d4b9da", "#e7e1ef", "#f7f4f9", "#fff7ec", "#fee8c8", "#fdd49e", "#fdbb84", "#fc8d59",
"#ef6548", "#d7301f", "#b30000", "#7f0000"
]
try:
import pandas as pd
except ImportError as e:
raise RuntimeError("Data requires pandas (http://pandas.pydata.org) to be installed")
data = pd.read_csv(join(dirname(__file__), "vlan.csv"))
# pandas magic
df = data[data.columns[:-1]]
df2 = df.set_index(df[df.columns[0]].astype(str))
df2.drop(df.columns[0], axis=1, inplace=True)
df3 = df2.transpose()
output_file("output/switch.html", title = 'vlan map')
# text_input = TextInput(value="VLAN NAME", title="Make Vlan:", callback= )
# Make Heapmap
hm = HeatMap(df3, title="VLANs", width=950, palette=palette)
# Make Ip/Arp Table
x = [ 'Local', 'Public']
y = [ local_ip,public_ip]
for i in arp:
valueX = i[1].strip().strip("()")
valueY = i[0].strip().strip("()")
x.append(valueX)
y.append(valueY)
data = dict(
sourceCol=x,
ipCol=y,
)
source = ColumnDataSource(data)
columns = [
TableColumn(field="sourceCol", title="Source"),
TableColumn(field="ipCol", title="IP Address"),
]
data_table = DataTable(source=source, columns=columns, width=650, height=450)
p = vform(hm,data_table)
show(p)
def my_link(s1):
ex = db.get_data(fname=s1)[0]
# patterns = []
# for foot in range(2):
# for st in ex.steps_annotation[foot]:
# if st[1]-st[0] < 30:
# continue
# patterns += [Pattern(dict(coord='RY', l_pat=st[1]-st[0],
# foot='right' if foot else 'left'),
# ex.data_sensor[6*foot+4, st[0]:st[1]])]
# patterns += [Pattern(dict(coord='AZ', l_pat=st[1]-st[0],
# foot='right' if foot else 'left'),
# ex.data_sensor[6*foot+2, st[0]:st[1]])]
# patterns += [Pattern(dict(coord='AV', l_pat=st[1]-st[0],
# foot='right' if foot else 'left'),
# ex.data_earth[6*foot+2, st[0]:st[1]])]
# stepDet = StepDetection(patterns=patterns, lmbd=.8, mu=.1)
# steps, steps_label = stepDet.compute_steps(ex)
# print('steps: ',steps)
seg = ex.seg_annotation
print('segm: ',seg)
print(ex.DAZ[0][seg[1]:seg[2]].T)
T = len(ex.DAZ[0][seg[0]:seg[1]])
t = np.arange(T)/100
plot = figure(width=350, plot_height=250, title="Aller")
plot.line(t,ex.DAZ[0][seg[0]:seg[1]])
T = len(ex.DAZ[0][seg[1]:seg[2]])
t = np.arange(T)/100
plot1 = figure(width=350, plot_height=250, title="u-Turn")
plot1.line(t,ex.DAZ[0][seg[1]:seg[2]])
T = len(ex.DAZ[0][seg[2]:seg[3]])
t = np.arange(T)/100
plot2 = figure(width=350, plot_height=250, title="Return")
plot2.line(t,ex.DAZ[0][seg[2]:seg[3]])
p = hplot(plot, plot1, plot2)
tab1 = Panel(child=p, title="Segmentation")
tabs = Tabs(tabs=[tab1])
text_input = TextInput(value=ex.fname, title="Enregistrement: ")
layout = vform(text_input, tabs)
html = file_html(layout, CDN, "home2")
return html
def empty_plot():
p = figure(
tools="hover,wheel_zoom,reset",
width=FIGURE_WIDTH,
height=FIGURE_HEIGHT,
responsive=True,
tags=["clusterPlot"],
min_border_bottom=MIN_BORDER_BOTTOM,
min_border_top=MIN_BORDER_TOP,
min_border_left=MIN_BORDER_LEFT,
min_border_right=MIN_BORDER_RIGHT,
)
# Ensure that the lasso only selects with mouseup, not mousemove.
p.add_tools(LassoSelectTool(select_every_mousemove=False))
# These turn off the x/y axis ticks
p.axis.visible = None
# These turn the major grid off
p.xgrid.grid_line_color = None
p.ygrid.grid_line_color = None
# Plot non-selected circles with a particular style using CIRCLE_SIZE and
# 'color' list
but_relevant = Button(label="Relevant", type="success")
but_irrelevant = Button(label="Irrelevant", type="success")
but_neutral = Button(label="Neutral", type="success")
custom_tag_input = TextInput(value="Add custom tag...")
custom_tag_select = Select(value="Custom tags", options=["Custom tags"])
but_backward_crawl = Button(label="Backlinks", type="success")
but_forward_crawl = Button(label="Forwardlinks", type="success")
tags = hplot(but_relevant,
but_irrelevant,
but_neutral,
custom_tag_input,
custom_tag_select,
height=40)
tags_crawl = hplot(but_backward_crawl, but_forward_crawl)
layout = vform(p, tags, tags_crawl)
# Combine script and div into a single string.
plot_code = components(layout)
return plot_code[0] + plot_code[1]
def _table(self, source):
"""The table of replacement dates and segment positions.
Params:
-------
source : pandas.DataFrame
Data source.
Returns:
--------
bokeh.plotting.Figure
Table of replacement dates and segment positions.
"""
columns = [
TableColumn(field='ReplacementDate', title='Installation Date', formatter=DateFormatter(format='d M yy')),
TableColumn(field='SegmentPosition', title='Segment'),
TableColumn(field='DaysSinceReplacement', title='Days Since Installation')
]
return vform(DataTable(source=source, columns=columns, row_headers=False, width=400, height=1000))
def empty_plot():
p = figure(tools="hover", height=FIGURE_HEIGHT,
toolbar_location=None, responsive=True)
# Ensure that the lasso only selects with mouseup, not mousemove.
p.add_tools(LassoSelectTool(select_every_mousemove=False))
# These turn off the x/y axis ticks
p.axis.visible = None
# These turn the major grid off
p.xgrid.grid_line_color = None
p.ygrid.grid_line_color = None
# Plot non-selected circles with a particular style using CIRCLE_SIZE and
# 'color' list
button1 = Button(label="Relevant", type="success")
button2 = Button(label="Irrelevant", type="success")
button3 = Button(label="Neutral", type="success")
layout = vform(p, button1, button2, button3)
# Combine script and div into a single string.
plot_code = components(layout)
return plot_code[0] + plot_code[1]
y='y',
width=1,
height=10,
color='crcolor',
source=crsource)
# set up hover tool to show color hex code and sample swatch
p2.select_one(HoverTool).tooltips = [('color',
'$color[hex, rgb, swatch]:crcolor'),
('RGB levels', '@RGBs')]
# theme everything for a cleaner look
curdoc().theme = Theme(json=yaml.load("""
attrs:
Plot:
toolbar_location: null
Grid:
grid_line_color: null
Axis:
axis_line_color: null
major_label_text_color: null
major_tick_line_color: null
minor_tick_line_color: null
"""))
layout = hplot(vform(red_slider, green_slider, blue_slider), vform(p1, p2))
output_file("color_sliders.html")
show(layout)
var area = b*b*slope/2-a*a*slope/2;
area = ['Area is: ' + area.toFixed(3)];
data['area'] = area;
source.trigger('change');
""" )
slidera = Slider(start=-10, end=1, value=-5, step=.1,
title="a", callback=callbacka)
sliderb = Slider(start=1, end=10, value=5, step=.1,
title="b", callback=callbackb)
slider = Slider(start=-5, end=5, value=1, step=.1,
title="Slope", callback=callback)
layout = vform(slidera,sliderb,slider,plot)
save(layout)
script, div = components(layout, CDN)
with open('lineplotab.js','w') as f:
f.write(script)
#now fix for what we want
with open('lineplotab.js','r') as f:
in_data = f.readlines()
with open('lineplotab.js','w') as f:
for i in in_data[1:-1]:
f.write(i)
x = np.linspace(-20,20,100)
y = myfunc(x)
plot = figure(y_range=(-5, 5),title = 'sin(x) + x/8', x_range=(-1,10), plot_width=750, plot_height=400)
plot.toolbar_location = None
plot.line(x, y, line_width=3, line_alpha=1,color = 'orange')
plot.xaxis.axis_label = 'x'
plot.yaxis.axis_label = 'f(x)'
layout = vform(plot)
save(layout)
script, div = components(layout, CDN)
with open('sinplot.js','w') as f:
f.write(script)
#now fix for what we want
with open('sinplot.js','r') as f:
in_data = f.readlines()
with open('sinplot.js','w') as f:
for i in in_data[1:-1]:
f.write(i)
freq_slider = Slider(start=0.1,
end=10,
value=1,
step=.1,
title="Frequency",
callback=callback)
callback.args["freq"] = freq_slider
phase_slider = Slider(start=0,
end=6.4,
value=0,
step=.1,
title="Phase",
callback=callback)
callback.args["phase"] = phase_slider
offset_slider = Slider(start=-5,
end=5,
value=0,
step=.1,
title="Offset",
callback=callback)
callback.args["offset"] = offset_slider
layout = hplot(vform(amp_slider, freq_slider, phase_slider, offset_slider),
plot)
output_file("slider.html")
show(layout)
def mann_only_interactive(data,
cut1,
cut2,
chrs_plot=None,
ms=6,
color_sequence=['#7fc97f', "#beaed4", '#fdc086']):
'''
Generate interactive dots.
:param data:
:param cut1:
:param cut2:
:param ms: Marker size. Default 6.
:return:
'''
# Defining DataFrame for bokeh
ts = DataFrame({
'snp': data['snp'],
'pos': data['pos'],
'chr': data['chr'],
'color': np.zeros(len(data), dtype='S20'),
'abspos': data['pos'],
'pval1': -np.log10(data['pval1']),
'pval1_q': -np.log10(data['pval1_q']),
'pval2': -np.log10(data['pval2']),
'pval2_q': -np.log10(data['pval2_q'])
})
# Calculating proper positions
if chrs_plot is None:
chrs = np.unique(ts['chr'])
if type(chrs[0]) == str:
chrs = sorted_nicely(chrs)
else:
chrs.sort()
else:
chrs = chrs_plot
print(chrs)
temp_pos = 0
xtixks_pos = np.zeros(len(chrs) + 1)
print(chrs)
for i in range(len(chrs)):
# Can be optimized here
temp = ts['abspos'][ts['chr'] == chrs[i]]
if len(temp) > 0:
temp = np.max(temp)
else:
temp = 1000
print(temp)
xtixks_pos[i + 1] = temp
# temp_pos += temp
# xtixks_pos[i+1] = temp_pos
# ts['abspos'][ts['chr'] == chrs[i+1]] += temp_pos
print(xtixks_pos)
xtixks_pos = np.cumsum(xtixks_pos)
print(xtixks_pos)
for i in range(len(chrs)):
ts['abspos'][ts['chr'] == chrs[i]] += xtixks_pos[i]
print(xtixks_pos)
xtixks_pos = (xtixks_pos[1:] + xtixks_pos[:-1]) / 2.0
print(xtixks_pos)
print(chrs)
# Old color selection
# for i in range(len(chrs)):
# if i % 2 == 0:
# ts['color'][ts['chr'] == chrs[i]] = '#FA8072'
# else:
# ts['color'][ts['chr'] == chrs[i]] = '#00BFFF'
for i in range(len(chrs)):
ts['color'][ts['chr'] == chrs[i]] = color_sequence[i %
len(color_sequence)]
# Defining hover tools
hover1 = HoverTool(tooltips=[
("chr", "@chr"),
("snp", "@snp"),
("pos", "@pos"),
("-log10(pval1,pval2)", "(@pval1, @pval2)"),
])
hover2 = HoverTool(tooltips=[
("chr", "@chr"),
("snp", "@snp"),
("pos", "@pos"),
("-log10(pval1,pval2)", "(@pval1, @pval2)"),
])
hoverq = HoverTool(tooltips=[
("chr", "@chr"),
("snp", "@snp"),
("pos", "@pos"),
("-log10(pval1,pval2)", "(@pval1, @pval2)"),
])
tools1 = ['reset', 'xwheel_zoom', 'xpan', 'box_select', hover1]
tools2 = ['reset', 'xwheel_zoom', 'xpan', 'box_select', hover2]
toolsq = ['reset', 'wheel_zoom', 'pan', 'box_select', hoverq]
source = ColumnDataSource(data=ts)
# original_source = ColumnDataSource(data=ts)
source_filt = ColumnDataSource(
data=dict(snp=[], pos=[], pval1=[], pval2=[]))
source.callback = CustomJS(args=dict(source_filt=source_filt),
code="""
var inds = cb_obj.get('selected')['1d'].indices;
var d1 = cb_obj.get('data');
var d2 = source_filt.get('data');
d2['snp'] = []
d2['pos'] = []
d2['chr'] = []
d2['pval1'] = []
d2['pval2'] = []
for (i = 0; i < inds.length; i++) {
d2['snp'].push(d1['snp'][inds[i]])
d2['pos'].push(d1['pos'][inds[i]])
d2['chr'].push(d1['chr'][inds[i]])
d2['pval1'].push(d1['pval1'][inds[i]])
d2['pval2'].push(d1['pval2'][inds[i]])
}
source_filt.trigger('change');
// data_table_filt.trigger('change');
""")
selection_glyph = Circle(fill_color='firebrick', line_color=None, size=ms)
nonselection_glyph = Circle(fill_color='gray',
fill_alpha=0.1,
line_color=None,
size=ms)
selection_glyph_2 = Square(fill_color='firebrick',
line_color=None,
size=ms)
nonselection_glyph_2 = Square(fill_color='gray',
fill_alpha=0.1,
line_color=None,
size=ms)
upper_bound = np.ceil(
np.max([np.max(ts['pval1']), np.max(ts['pval2'])]) + .51)
p1 = figure(responsive=True,
plot_width=900,
plot_height=300,
tools=tools1,
x_range=[0, np.max(ts['abspos'])],
y_range=[-0.12 * upper_bound, upper_bound],
webgl=True)
r1 = p1.circle('abspos',
'pval1',
source=source,
line_color=None,
color='color',
size=ms)
r1.selection_glyph = selection_glyph
r1.nonselection_glyph = nonselection_glyph
p1.patch([0, np.max(ts['abspos']),
np.max(ts['abspos']), 0],
[0, 0, -np.log10(cut1), -np.log10(cut1)],
alpha=0.5,
line_color=None,
fill_color='gray',
line_width=2)
p2 = figure(responsive=True,
plot_width=900,
plot_height=300,
tools=tools2,
x_range=p1.x_range,
y_range=p1.y_range,
webgl=True)
r2 = p2.square('abspos',
'pval2',
source=source,
line_color=None,
color='color',
size=ms)
r2.selection_glyph = selection_glyph_2
r2.nonselection_glyph = nonselection_glyph_2
p2.patch([0, np.max(ts['abspos']),
np.max(ts['abspos']), 0],
[0, 0, -np.log10(cut1), -np.log10(cut1)],
alpha=0.5,
line_color=None,
fill_color='gray',
line_width=2)
pq1 = figure(responsive=True,
plot_width=400,
plot_height=400,
tools=toolsq,
webgl=True)
pq1.line([0, 7], [0, 7],
line_width=3,
color="black",
alpha=0.5,
line_dash=[4, 4])
rq1 = pq1.circle('pval1_q',
'pval1',
source=source,
line_color=None,
size=ms)
# err_x = -np.log10(np.concatenate([data['pval1_q'][:100], data['pval1_q'][100::-1]]))
# err_y = -np.log10(np.concatenate([data['pval1_q_top'][:100], data['pval1_q_bot'][100::-1]]))
# er1 = pq1.patch(err_x, err_y, alpha=0.2, color='blue')
rq2 = pq1.square('pval2_q',
'pval2',
source=source,
line_color=None,
size=ms,
color="red")
# err_x = -np.log10(np.concatenate([data['pval2_q'][:100], data['pval2_q'][100::-1]]))
# err_y = -np.log10(np.concatenate([data['pval2_q_top'][:100], data['pval2_q_bot'][100::-1]]))
# er2 = pq1.patch(err_x, err_y, alpha=0.2, color='olive')
rq1.selection_glyph = selection_glyph
rq1.nonselection_glyph = nonselection_glyph
rq2.selection_glyph = selection_glyph_2
rq2.nonselection_glyph = nonselection_glyph_2
# Labels for axes
pq1.yaxis.axis_label = "Experimental quantiles, -log10(p)"
pq1.xaxis.axis_label = "Theoretical quantiles, -log10(p)"
p1.yaxis.axis_label = "-log10(p)"
p1.xaxis.axis_label = "Chromosomes"
p2.yaxis.axis_label = "-log10(p)"
p2.xaxis.axis_label = "Chromosomes"
p1.xgrid.grid_line_color = None
p2.xgrid.grid_line_color = None
# print(xtixks_pos)
p1.xaxis[0].ticker = FixedTicker(ticks=[])
p2.xaxis[0].ticker = FixedTicker(ticks=[])
p1.text(xtixks_pos,
xtixks_pos * 0 - 0.12 * upper_bound,
[str(chrs[i]) for i in range(len(chrs))],
text_align='center')
p2.text(xtixks_pos,
xtixks_pos * 0 - 0.12 * upper_bound,
[str(chrs[i]) for i in range(len(chrs))],
text_align='center')
# p1.xaxis[0].ti
columns = [
TableColumn(field="chr", title="chr"),
TableColumn(field="snp", title="snp"),
TableColumn(field="pos", title="pos"),
TableColumn(field="pval1", title="pval1"),
TableColumn(field="pval2", title="pval2"),
]
data_table = DataTable(source=source,
columns=columns,
width=300,
height=280)
p3 = vform(data_table)
data_table_filt = DataTable(source=source_filt,
columns=columns,
width=500,
height=500)
p4 = vform(data_table_filt)
return p1, p2, p3, p4, pq1
from bokeh.models.widgets import Div
from bokeh.io import output_file, show, vform
output_file("div.html")
div = Div(text="""Your <a href="https://en.wikipedia.org/wiki/HTML">HTML</a>-supported text is initialized with the <b>text</b> argument. The
remaining div arguments are <b>width</b> and <b>height</b>. For this example, those values
are <i>200</i> and <i>100</i> respectively.""",
width=200, height=100)
show(vform(div))
def individual_stock(request, stock_id):
stock1 = get_object_or_404(Stock, pk=stock_id)
# Stock Information per Stock
stock1.lastprice = ystockquote.get_price(stock1)
stock1.volume = ystockquote.get_volume(stock1)
price_change = ystockquote.get_change(stock1)
market_cap = ystockquote.get_market_cap(stock1)
get_high = ystockquote.get_52_week_high(stock1)
get_low = ystockquote.get_52_week_low(stock1)
pb_ratio = ystockquote.get_price_book_ratio(stock1)
ebitda = ystockquote.get_ebitda(stock1)
dividend = ystockquote.get_dividend_yield(stock1)
# Graph
# Last known weekday
current_day = weekday().isoformat()
# Retrieve live data YYYY-MM-DD
historical_price = ystockquote.get_historical_prices(
stock1, '2010-01-24', current_day)
correct_order = sorted(historical_price)
stock_prices = []
dates = []
for values in correct_order:
stock_prices.append(historical_price[values]['Adj Close'])
dates.append(values)
# Convert to Float
for p in range(len(stock_prices)):
stock_prices[p] = float(stock_prices[p])
# Convert to Datetime Format
dates_objects = []
for d in dates:
dates_objects.append(datetime.strptime(d, '%Y-%m-%d'))
source = ColumnDataSource(
data=dict(x=dates_objects, y=stock_prices, time=dates))
# Tools
hover = HoverTool(tooltips=[
('Stock Price', '@y'),
('time', '@time'),
],
mode='vline')
crosshair = CrosshairTool(dimensions=['height'])
TOOLS = [hover, crosshair]
plot = figure(x_axis_type="datetime",
responsive=True,
plot_height=250,
tools=TOOLS,
toolbar_location=None)
plot.line('x', 'y', source=source)
first_date = dates[0]
last_date = dates[-1]
callback = CustomJS(args=dict(x_range=plot.x_range),
code="""
var start = cb_obj.get("value");
x_range.set("start", start);
x_range.set("end", start+2);
""")
slider = vform(
Slider(start=0, end=100, title="Start Date", callback=callback))
widget_script, widget_div = components(slider)
script, div = components(plot)
stock1.save()
context = {
'stock': stock1,
'hprice': stock_prices,
'widget_script': widget_script,
'widget_div': widget_div,
'the_script': script,
'the_div': div,
'thedate': dates_objects,
'dates': dates
}
return render(request, 'stocktracker/individual.html', context)
if (!String.prototype.format) {
String.prototype.format = function() {
var args = arguments;
return this.replace(/{(\d+)}/g, function(match, number) {
return typeof args[number] != 'undefined'
? args[number]
: match
;
});
};
}
para.set('text', "Slider Values\\n\\n Slider 1: {0}\\n Slider 2: {1}\\n Slider 3: {2}".format(s1, s2, s3))
""")
para = PreText(text = "Slider Values:\n\n Slider 1: 0\n Slider 2: 0\n Slider 3: 0", width = 200, height = 150)
s1 = Slider(title="Slider 1 (Continuous)", start=0, end=1000, value=0, step=1, callback=callback, callback_policy="continuous")
s2 = Slider(title="Slider 2 (Throttle)", start=0, end=1000, value=0, step=1, callback=callback, callback_policy="throttle", callback_throttle=2000)
s3 = Slider(title="Slider 3 (Mouse Up)", start=0, end=1000, value=0, step=1, callback=callback, callback_policy="mouseup")
callback.args['para'] = para
callback.args['slider1'] = s1
callback.args['slider2'] = s2
callback.args['slider3'] = s3
output_file('slider_callback_policy.html')
show(vform(s1, s2, s3, para))
from bokeh.io import vform
from bokeh.models import CustomJS, ColumnDataSource, Slider
from bokeh.plotting import Figure, output_file, show
output_file("callback.html")
x = [x*0.005 for x in range(0, 200)]
y = x
source = ColumnDataSource(data=dict(x=x, y=y))
plot = Figure(plot_width=400, plot_height=400)
plot.line('x', 'y', source=source, line_width=3, line_alpha=0.6)
def callback(source=source):
data = source.get('data')
f = cb_obj.get('value')
x, y = data['x'], data['y']
for i in range(len(x)):
y[i] = Math.pow(x[i], f)
source.trigger('change')
slider = Slider(start=0.1, end=4, value=1, step=.1, title="power",
callback=CustomJS.from_py_func(callback))
layout = vform(slider, plot)
show(layout)
tau_re_s.value = opt_tau.real / (2 * pi * fmax)
tau_im_s.value = opt_tau.imag / (2 * pi * fmax)
for w in [tau_re_s, tau_im_s]:
w.on_change('value', update_data1)
eps_s.on_change('value', update_data2)
frange_s.on_change('range', update_data2)
reset.on_click(click)
# Set up layouts and add to document
inputs_1 = widgetbox(tau_re_s, tau_im_s)
#inputs_2 = widgetbox(Nom_text, fmin_s, fmax_s, eps_s)
inputs_2 = widgetbox(frange_s, eps_s)
inputs_2 = widgetbox(frange_s, eps_s)
inputs_3 = vform(reset)
spacer_1 = Spacer(width=20, height=40)
spacer_2 = Spacer(width=20, height=40)
spacer_3 = Spacer(width=20, height=130)
div1 = Div(
text=
"""<font size="4"><b>Seed parameter tau</b></font> <br> (relative w.r.t. f_max)""",
width=300,
height=30)
text1 = widgetbox(div1)
div2 = Div(text="""<font size="4"><b>Frequency range & damping</b></font>""",
width=300,
height=20)
text2 = widgetbox(div2)
from bokeh.models.widgets import Div
from bokeh.io import output_file, show, vform
output_file("div.html")
div = Div(
text=
"""Your <a href="https://en.wikipedia.org/wiki/HTML">HTML</a>-supported text is initialized with the <b>text</b> argument. The
remaining div arguments are <b>width</b> and <b>height</b>. For this example, those values
are <i>200</i> and <i>100</i> respectively.""",
width=200,
height=100)
show(vform(div))
from bokeh.models.widgets import RadioGroup
from bokeh.io import output_file, show, vform
output_file("radio_group.html")
radio_group = RadioGroup(labels=["Option 1", "Option 2", "Option 3"], active=0)
show(vform(radio_group))
def create_html(self):
self.reduce()
temp = datetime.now()
filename = temp.strftime("%y_%m_%d__%H_%M_%S_") + "{:0>6}".format(temp.microsecond) + ".html"
output_file(self.directory_to_save + filename)
current_position = ColumnDataSource(data={'num':[0]})
flags = ColumnDataSource(data={'flag':[{'is_playing': False}]})
text = ColumnDataSource(data=dict(score=['Score ' + self.all_bodies['score'][0]]))
current_polyg = ColumnDataSource(data=self.all_bodies['rects_timesteps'][0])
all_polyg = ColumnDataSource(data=self.all_bodies)
current_circles = ColumnDataSource(data=self.all_bodies['circles_timesteps'][0])
slider_callback = Callback(
args=dict(
current=current_polyg,
current_circles=current_circles,
all_polyg=all_polyg,
text=text,
flags=flags,
current_position=current_position
),
code="""
var num = cb_obj.get('value');
current_position.get('data')['num'][0] = num;
var flags_data = flags.get('data');
flags_data['flag']['is_playing'] = false;
flags.trigger('change');
current_position.trigger('change');
""" + self.js_code)
slider = Slider(start=0, end=len(self.all_bodies['rects_timesteps']) - 1,
value=0, step=1,
title="Iteration number", callback=slider_callback)
slider_id = '' + str(slider.vm_serialize()['id'])
p = figure(
plot_width=int(self.width), plot_height=int(self.height),
x_range=(0, int(self.model_size['x'])), y_range=(0, int(self.model_size['y'])),
title="Watch Here"
)
button_callback = Callback(
args=dict(
current=current_polyg,
current_circles=current_circles,
all_polyg=all_polyg,
text=text,
flags=flags,
current_position=current_position
),
code="""
console.log("Start");
var flags_data = flags.get('data');
var num = current_position.get('data')['num'][0]
var slider_id = '""" + slider_id + """'
var amount_of_iterations = """ + str(len(self.all_bodies['rects_timesteps'])) + """;
if (!flags_data['flag']['is_playing']) {
flags_data['flag']['is_playing'] = true
intervalID = setInterval(function () {
var flags_data = flags.get('data');
is_playing = flags_data['flag']['is_playing']
if (is_playing) {
""" + self.js_code + """
Bokeh.$('div #' + slider_id).val(Math.floor(num));
Bokeh.$('div #' + slider_id + ' :first-child').css('left', num / (amount_of_iterations - 1) * 100 + '%')
num += 1
}
if (num > (amount_of_iterations - 1) || !is_playing) {
current_position.get('data')['num'][0] = num
current_position.trigger('change')
flags_data['flag']['is_playing'] = is_playing = false
window.clearInterval(intervalID);
console.log("Finally")
}
}, Math.floor(1000.0 / """ + str(self.start_settings.model_settings.hz / 10.0) + """ / """ + str((float(self.max_iteration) / self.len_before_redunction)) + """));
} else {
flags_data['flag']['is_playing'] = false
}
flags.trigger('change')
return false;
""")
button = Button(label="Play", type="success", callback=button_callback)
ground = points_to_dictionary(self.start_settings.ground_settings.points,
self.local_zero_point)
p.line(ground['x'], ground['y'])
p.patches('xs', 'ys', color='color', source=current_polyg)
p.circle('x', 'y', radius='radius', color='color', source=current_circles)
p.text(1, int(self.model_size['y']) - 3, text='score', alpha=5,
text_font_size="15pt", text_baseline="middle", text_align="left",
source=text)
self.layout = vform(button, slider, p)
from bokeh.models.widgets import Paragraph
from bokeh.io import output_file, show, vform
output_file("div.html")
p = Paragraph(text="""Your text is initialized with the 'text' argument. The
remaining Paragraph arguments are 'width' and 'height'. For this example, those values
are 200 and 100 respectively.""",
width=200,
height=100)
show(vform(p))
from bokeh.models.widgets import MultiSelect
from bokeh.io import output_file, show, vform
output_file("multi_select.html")
multi_select = MultiSelect(title="Option:",
value=["foo", "quux"],
options=["foo", "bar", "baz", "quux"])
show(vform(multi_select))
from bokeh.models.widgets import Toggle
from bokeh.io import output_file, show, vform
output_file("toggle.html")
toggle = Toggle(label="Foo", type="success")
show(vform(toggle))
#for mytool in Tools:
# mytool.plot = figure_obj
#figure_obj.tools = Tools
figure_obj.line("x",
"y",
source=two[0],
line_width=2,
line_color=colour_list[3])
figure_obj.line("x",
"y",
source=two[1],
line_width=2,
line_color=colour_list[1])
text = TextInput(title="title", value='my sine wave')
radio = RadioGroup(labels=["0", "1"], active=0)
text.on_change('value',
lambda attr, old, new, radio=radio, sources=two:
update_title(new, radio, sources))
tabs.append(
Panel(child=hplot(figure_obj, vform(text, radio)), title="two by two"))
tabs = Tabs(tabs=tabs)
session = push_session(curdoc())
session.show()
session.loop_until_closed()
def nb_view_patches(Yr, A, C, b, f, d1, d2, image_neurons=None, thr=0.99):
'''
Interactive plotting utility for ipython notbook
Parameters
-----------
Yr: np.ndarray
movie
A,C,b,f: np.ndarrays
outputs of matrix factorization algorithm
d1,d2: floats
dimensions of movie (x and y)
image_neurons: np.ndarray
image to be overlaid to neurons (for instance the average)
thr: double
threshold regulating the extent of the displayed patches
'''
colormap = cm.get_cmap("jet") # choose any matplotlib colormap here
grayp = [mpl.colors.rgb2hex(m) for m in colormap(np.arange(colormap.N))]
nr, T = C.shape
nA2 = np.sum(np.array(A)**2, axis=0)
b = np.squeeze(b)
f = np.squeeze(f)
#Y_r = np.array(spdiags(1/nA2,0,nr,nr)*(A.T*np.matrix(Yr-b[:,np.newaxis]*f[np.newaxis] - A.dot(C))) + C)
Y_r = np.array(spdiags(1 / nA2, 0, nr, nr) * (A.T * np.matrix(Yr) - (A.T *
np.matrix(b[:, np.newaxis])) * np.matrix(f[np.newaxis]) - (A.T.dot(A)) * np.matrix(C)) + C)
bpl.output_notebook()
x = np.arange(T)
z = np.squeeze(np.array(Y_r[:, :].T)) / 100
k = np.reshape(np.array(A), (d1, d2, A.shape[1]), order='F')
if image_neurons is None:
image_neurons = np.nanmean(k, axis=2)
fig = plt.figure()
coors = plot_contours(coo_matrix(A), image_neurons, thr=thr)
plt.close()
# cc=coors[0]['coordinates'];
cc1 = [cor['coordinates'][:, 0] for cor in coors]
cc2 = [cor['coordinates'][:, 1] for cor in coors]
c1 = cc1[0]
c2 = cc2[0]
npoints = range(len(c1))
source = ColumnDataSource(data=dict(x=x, y=z[:, 0], z=z))
source2 = ColumnDataSource(data=dict(x=npoints, c1=c1, c2=c2, cc1=cc1, cc2=cc2))
plot = bpl.figure(plot_width=600, plot_height=300)
plot.line('x', 'y', source=source, line_width=1, line_alpha=0.6)
callback = CustomJS(args=dict(source=source, source2=source2), code="""
var data = source.get('data');
var f = cb_obj.get('value')-1
x = data['x']
y = data['y']
z = data['z']
for (i = 0; i < x.length; i++) {
y[i] = z[i][f]
}
var data2 = source2.get('data');
c1 = data2['c1'];
c2 = data2['c2'];
cc1 = data2['cc1'];
cc2 = data2['cc2'];
for (i = 0; i < c1.length; i++) {
c1[i] = cc1[f][i]
c2[i] = cc2[f][i]
}
source2.trigger('change');
source.trigger('change');
""")
slider = bokeh.models.Slider(start=1, end=Y_r.shape[
0], value=1, step=1, title="Neuron Number", callback=callback)
xr = Range1d(start=0, end=image_neurons.shape[1])
yr = Range1d(start=image_neurons.shape[0], end=0)
plot1 = bpl.figure(x_range=xr, y_range=yr, plot_width=300, plot_height=300)
plot1.image(image=[image_neurons[::-1, :]], x=0,
y=image_neurons.shape[0], dw=d2, dh=d1, palette=grayp)
plot1.patch('c1', 'c2', alpha=0.6, color='purple', line_width=2, source=source2)
layout = vform(slider, hplot(plot1, plot))
bpl.show(layout)
return Y_r
from bokeh.models.widgets import TextInput
from bokeh.io import output_file, show, vform
output_file("text_input.html")
text_input = TextInput(value="default", title="Label:")
show(vform(text_input))
x = data['x']
y = data['y']
nickname = new Array();
datetime = new Array();
fgames = new Array();
for (i = 0; i < data['dates'][f].length; i++) {
nickname.push(data['dframe'][f])
datetime.push(new Date(data['dates'][f][i]))
fgames.push(data['first_games'][f])
}
data['nick'] = nickname
data['x'] = data['dates'][f]
data['y'] = data['players'][f]
data['desc'] = data['list_uniq_heroes'][f]
var date = new Date(data['dates'][f][0]);
data['time'] = datetime
data['since'] = fgames
source.trigger('change');
""")
select = Select(title="Player:", value="None", options=[str(x)+ '\t' + dframe[0].unique()[x]
for x in range(0, len(players))], callback=select_callback)
# Задаём выходной файл:
output_file("dropdown.html", title="Зависимость числа героев от месяца")
layout = vform(select, plot1)
show(layout)
width=800)
output_file('Respiration_DataQuality_of_' + str(ids[i]) + ".html",
title="RIP_BAR_Plot")
source = ColumnDataSource(data)
columns = [
TableColumn(field="Date", title="Date"),
TableColumn(field="ACCEPTABLE", title="ACCEPTABLE(Hours)"),
TableColumn(field="UNACCEPTABLE", title="UNACCEPTABLE(Hours)"),
TableColumn(field="Total", title="Total(Hours)")
]
data_table = DataTable(source=source,
columns=columns,
width=500,
height=400)
show(hplot(bar, vform(data_table)))
dataf['ACCEPTABLE'] = dataf['ACCEPTABLE'] + data['ACCEPTABLE']
dataf['UNACCEPTABLE'] = dataf['UNACCEPTABLE'] + data['UNACCEPTABLE']
dataf['Date'] = dataf['Date'] + data['Date']
dataf['Total'] = dataf['Total'] + data['Total']
dataf['ParticipantID'] = dataf['ParticipantID'] + [
ids[i] for f in range(len(data['Total']))
]
df = pd.DataFrame(dataf)
df.to_csv('rip.csv', sep=',')
p.background_fill_color = 'black'
p.outline_line_color = None
p.grid.grid_line_color = None
# add a text renderer to out plot (no data yet)
r = p.text(x=[],
y=[],
text=[],
text_color=[],
text_font_size="20pt",
text_baseline="middle",
text_align="center")
session = push_session(curdoc())
data = dict(
dates=[date(2014, 3, i + 1) for i in range(10)],
downloads=[randint(0, 100) for i in range(10)],
)
source = ColumnDataSource(data)
columns = [
TableColumn(field="dates", title="Date", formatter=DateFormatter()),
TableColumn(field="downloads", title="Downloads"),
]
data_table = DataTable(source=source, columns=columns, width=400, height=280)
curdoc().add_root(vform(data_table))
session.show()
def plotting(self):
if self.debug:
self.debug_file = open("debug_output.txt", "w")
self.debug_file.write("Initialized plotting subroutine \n")
TOOLS="pan,wheel_zoom,box_zoom,reset,hover,previewsave"
tab_plots = []
self.all_elements = []
self.elements_comparison = []
for filename in self.filenames:
if "ITO" in filename:
tab_plots.append(self.mass_plotting(filename))
continue
data_dict = self.data_generation(filename)
self.data_test(data_dict)
name_check = data_dict["gen_info"]["DATA FILES"]
attr_id = name_check[1][4][:-3] + "_" + name_check[2][2]
self.attribute_ids.append(attr_id)
attr_extra_y_ranges = False
attr_extra_x_ranges = False
local_source_line = []
"""
create plots for each datafile and put them in a tab.
"""
y_axis_units = [x["y_unit"] for x in data_dict["data"]]
x_axis_units = [x["x_unit"] for x in data_dict["data"]]
figure_obj = figure(plot_width = 1000, plot_height = 800, y_axis_type = "log",
title = attr_id, tools = TOOLS)
#figure_obj.axes.major_label_text_font_size("12pt")
#figure_obj.major_label_text_font_size("12pt")
hover = figure_obj.select(dict(type = HoverTool))
hover.tooltips = [
("Element:", "@element"),
("(x, y):", "($x, $y)")]
self.figure_data.append((figure_obj, data_dict))
figure_obj.yaxis.axis_label = y_axis_units[0]
figure_obj.xaxis.axis_label = x_axis_units[0]
if not all(x == y_axis_units[0] for x in y_axis_units):
for unit, dataset in zip(y_axis_units, data_dict["data"]):
if not unit == y_axis_units[0]:
extra_y_ranges_exists = attr_extra_y_ranges
extra_y_ranges_exists = True
if self.debug:
self.debug_file.write("Added extra y-axis for file_id: %s, element: %s | New length %g \n"
%(attr_id, dataset["sample_element"], len(figure_obj.yaxis)))
figure_obj.extra_y_ranges = {"foo": Range1d(start = np.amin(dataset["y"]),
end = np.amax(dataset["y"]))}
figure_obj.add_layout(LogAxis(y_range_name = "foo", axis_label = unit), "right")
break
if not all(x == x_axis_units[0] for x in x_axis_units):
for unit, dataset in zip(x_axis_units, data_dict["data"]):
if not unit == x_axis_units[0]:
extra_x_ranges_exists = attr_extra_x_ranges
extra_x_ranges_exists = True
if self.debug:
self.debug_file.write("Added extra x-axis for file_id: %s, element: %s. | New length %g \n"
%(attr_id, dataset["sample_element"], len(figure_obj.yaxis)))
figure_obj.extra_x_ranges = {"bar": Range1d(start = np.amin(dataset["x"]),
end = np.amax(dataset["x"]))}
figure_obj.add_layout(LinearAxis(x_range_name = "bar", axis_label = unit), "above")
break
figure_obj.xaxis.axis_label = x_axis_units[0]
colour_list = Spectral11 + RdPu9 + Oranges9
colour_indices = [0, 2, 8, 10, 12, 14, 20, 22, 1, 3, 9, 11, 13, 15]
list_of_elements = []
source_list = []
line_list = []
for dataset, color_index in zip(data_dict["data"], colour_indices):
self.all_elements.append(dataset["sample_element"]) #strip isotope number
color = colour_list[color_index]
source = ColumnDataSource(data = dataset) #Datastructure for source of plotting
self.source_test(source)
list_of_elements.append(dataset["sample_element"])
line_glyph = figure_obj.line("x", "y", source = source,
line_width = 2,
line_color = color,
legend = dataset["sample_element"])
if self.debug:
self.debug_file.write("Create line object on figure %s at %s \n" %(id(figure_obj), id(line_glyph)))
line_list.append(line_glyph)
source_list.append(source)
local_source_line.append([[source, line] for source, line in zip(source_list, line_list)])
self.source_line.append(local_source_line)
#Calculations on the dataset
text_input_rsf = TextInput(value = "default", title = "RSF or SF (at/cm^3): ")
do_integral_button = Button(label = "Calibration integral")
smoothing_button = Button(label = "smth selct elem")
matplot_button = Button(label = "Create matplotlib fig")
text_input_sputter = TextInput(value = "default", title = "Sputter speed: number unit")
text_input_crater_depth = TextInput(value = "default", title = "Depth of crater in: number unit")
radio_group = RadioGroup(labels = list_of_elements, active=0)
text_input_xval_integral = TextInput(value = "0", title = "x-delimiter ")
text_input_dose = TextInput(value = "0", title = "Dose[cm^-2] ")
#Save files for later use
save_flexDPE_button = Button(label = "Save element for FlexPDE")
save_all_flexDPE_button = Button(label = "Save all elements for FlexPDE")
save_textfile_button = Button(label = "Sava Data in textfile")
#Pointers to methods on click / change handlers
radio_group.on_change("active", lambda attr, old, new: None)
matplot_button.on_click(lambda source_list = source_list:
self.matplotlib_export(source_list))
do_integral_button.on_click(lambda
source_list = source_list,
line_list = line_list,
source_line = self.source_line,
figure_data = self.figure_data,
data_dict = data_dict,
radio = radio_group,
x_box = text_input_xval_integral,
dose = text_input_dose,
extra_y_ranges = attr_extra_y_ranges:
self.integrate(data_dict, source_list, line_list, source_line, figure_data, radio, x_box, dose, extra_y_ranges))
smoothing_button.on_click(lambda
source_list = source_list,
radio = radio_group,
data_dict = data_dict,
x_box = text_input_xval_integral:
self.smoothing(source_list, data_dict, radio, x_box) )
save_flexDPE_button.on_click(lambda
source_list = source_list,
attrname = attr_id,
radio = radio_group:
self.write_to_flexPDE(source_list, attrname, radio))
save_all_flexDPE_button.on_click(lambda
source_list = source_list,
attrname = attr_id:
self.write_all_to_flexPDE(source_list, attrname))
save_textfile_button.on_click(lambda
data_dict = data_dict,
source_list = source_list,
attrname = attr_id,
radio = radio_group:
self.write_new_datafile(data_dict, source_list, attrname,radio))
text_input_rsf.on_change("value", lambda attr, old, new,
radio = radio_group,
data_dict = data_dict,
figure = figure_obj,
source_list = source_list,
text_input = text_input_rsf,
line_list = line_list,
which = "rsf":
self.update_data(line_list, data_dict, source_list, figure, radio, text_input, new, which))
text_input_sputter.on_change("value", lambda attr, old, new,
radio = radio_group,
data_dict = data_dict,
figure = figure_obj,
source_list = source_list,
text_input = text_input_sputter,
which = "sputter":
self.update_data(data_dict, source_list, figure, radio, text_input, new, which))
text_input_crater_depth.on_change("value", lambda attr, old, new,
radio = radio_group,
data_dict = data_dict,
source_list = source_list,
figure = figure_obj,
text_input = text_input_crater_depth,
which = "crater_depth":
self.update_data(data_dict, source_list, figure, radio, text_input, new, which))
#Initialization of actual plotting.
tab_plots.append(Panel(child = hplot(figure_obj,
vform(
vform(radio_group, save_flexDPE_button, save_all_flexDPE_button, save_textfile_button, matplot_button),
vform(text_input_rsf, smoothing_button, text_input_sputter, text_input_crater_depth)
),
vform(text_input_xval_integral, text_input_dose, do_integral_button)),
title = attr_id))
"""
Check to see if one or more element exists in the samples and creat a comparison plot for each
of those elements.
"""
for element in self.all_elements:
checkers = list(self.all_elements)
checkers.remove(element)
if element in checkers and not element in self.elements_comparison:
self.elements_comparison.append(element)
"""create plots for each element that is to be compared """
for comparison_element in self.elements_comparison:
figure_obj = figure(plot_width = 1000, plot_height = 800, y_axis_type = "log", title = comparison_element, tools = TOOLS)
#figure_obj.xaxis.major_label_text_font_size("12pt")
#figure_obj.yaxis.major_label_text_font_size("12pt")
y_axis_units = []
x_axis_units = []
comparison_datasets = []
for data_dict_iter in self.column(self.figure_data, 1):
for dataset in data_dict_iter["data"]:
if dataset["sample_element"] == comparison_element:
comparison_datasets.append(dataset)
y_axis_units.append(dataset["y_unit"])
x_axis_units.append(dataset["x_unit"])
figure_obj.xaxis.axis_label = comparison_datasets[-1]["x_unit"]
figure_obj.yaxis.axis_label = comparison_datasets[-1]["y_unit"]
if not all(x == y_axis_units[-1] for x in y_axis_units):
for unit, data in zip(y_axis_units, comparison_datasets):
if not unit == y_axis_units[-1]:
figure_obj.extra_y_ranges = {"foo": Range1d(start = np.amin(data["y"]),
end = np.amax(data["y"]))}
figure_obj.add_layout(LogAxis(y_range_name = "foo", axis_label = unit), "right")
break
if not all(x == x_axis_units[-1] for x in x_axis_units):
for unit, data in zip(x_axis_units, comparison_datasets):
if not unit == x_axis_units[-1]:
figure_obj.extra_x_ranges = {"bar": Range1d(start = np.amin(data["x"]),
end = np.amax(data["x"]))}
figure_obj.add_layout(LinearAxis(x_range_name = "bar", axis_label = unit), "above")
break
active_sources = []
for data_dict, source_line_nested, attr_id, color_index in zip(self.column(self.figure_data, 1), self.source_line, self.attribute_ids, colour_indices):
for dataset, source_lis_coup, in zip(data_dict["data"], source_line_nested[0]):
source_local = source_lis_coup[0]
active_sources.append(source_local)
self.source_test(source_local)
self.source_dataset_test(source_local, dataset)
if dataset["sample_element"] == comparison_element:
color = colour_list[color_index]
"""
Logic that ensures that plots get put with correspoinding axes.
"""
if dataset["x_unit"] != x_axis_units[-1] or dataset["y_unit"] != y_axis_units[-1]:
if dataset["x_unit"] != x_axis_units[-1] and dataset["y_unit"] != y_axis_units[-1]:
name_check = data_dict["gen_info"]["DATA FILES"]
attr_id = name_check[1][4][:-3] + "_" + name_check[2][2]
figure_obj.line("x", "y", source = source_local,
line_width = 2,
line_color = color,
legend = attr_id,
x_range_name = "bar",
y_range_name = "foo")
elif dataset["x_unit"] != x_axis_units[-1]:
figure_obj.line("x", "y", source = source_local,
line_width = 2,
line_color = color,
legend = attr_id,
x_range_name = "bar")
else:
figure_obj.line("x", "y", source = source_local,
line_width = 2,
line_color = color,
legend = attr_id,
y_range_name = "foo")
else:
figure_obj.line("x", "y", source = source_local,
line_width = 2,
line_color = color,
legend = attr_id)
matplot_button = Button(label = "Create matplotlib fig")
save_all_flexDPE_button = Button(label = "Save all elements for FlexPDE")
matplot_button.on_click(lambda source_list = active_sources:
self.matplotlib_export(source_list))
save_all_flexDPE_button.on_click(lambda
source_list = active_sources,
attrname = comparison_element:
self.write_all_to_flexPDE(source_list, attrname))
tab_plots.append(Panel(child = hplot(figure_obj, vform(save_all_flexDPE_button, matplot_button)),
title = comparison_element))
tabs = Tabs(tabs = tab_plots)
#curdoc().add_root(tabs)
session = push_session(curdoc())
session.show()
session.loop_until_closed()
def individual_stock(request, stock_id):
stock1 = get_object_or_404(Stock, pk=stock_id)
# Stock Information per Stock
#update(stock1)
# Graph
# Last known weekday
current_day = weekday().isoformat()
# Retrieve live data YYYY-MM-DD
historical_price = ystockquote.get_historical_prices(stock1, '2010-01-24', current_day)
correct_order = sorted(historical_price)
stock_prices = []
dates = []
for values in correct_order:
stock_prices.append(historical_price[values]['Adj Close'])
dates.append(values)
# Convert to Float
for p in range(len(stock_prices)):
stock_prices[p] = float(stock_prices[p])
# Convert to Datetime Format
dates_objects = []
for d in dates:
dates_objects.append(datetime.strptime(d,'%Y-%m-%d'))
source = ColumnDataSource(data=dict(x=dates_objects,y=stock_prices, time=dates))
# Tools
hover = HoverTool(tooltips=[('Stock Price','@y'),('Date','@time'),], mode='vline')
crosshair = CrosshairTool(dimensions=['height'])
TOOLS = [BoxZoomTool(),hover, crosshair, PreviewSaveTool(), ResetTool()]
plot = figure(x_axis_type="datetime", responsive = True ,plot_height=250, tools = TOOLS)
plot.line('x','y',source=source)
plot.border_fill = "whitesmoke"
plot.grid.grid_line_alpha = 0.3
plot.xaxis.axis_label = 'Date'
plot.yaxis.axis_label = 'Price'
#widget
first_date = dates[0]
last_date = dates[-1]
callback = CustomJS(args=dict(x_range=plot.x_range), code="""
var start = cb_obj.get("value");
x_range.set("start", start);
x_range.set("end", start+2);
""")
slider = vform(Slider(start=0, end=100, title="Start Date", callback=callback))
#widget_script, widget_div = components(slider)
script, div = components(plot)
stock1.save()
context = {'stock':stock1,
'hprice': stock_prices,
#'widget_script': widget_script,
#'widget_div': widget_div,
'the_script': script,
'the_div':div,
'thedate': dates_objects,
'dates':dates
}
return render(request, 'stocktracker/individual.html', context)
from datetime import date
from random import randint
from bokeh.models import ColumnDataSource
from bokeh.models.widgets import DataTable, DateFormatter, TableColumn
from bokeh.io import output_file, show, vform
output_file("data_table.html")
data = dict(
dates=[date(2014, 3, i + 1) for i in range(10)],
downloads=[randint(0, 100) for i in range(10)],
)
source = ColumnDataSource(data)
columns = [
TableColumn(field="dates", title="Date", formatter=DateFormatter()),
TableColumn(field="downloads", title="Downloads"),
]
data_table = DataTable(source=source, columns=columns, width=400, height=280)
show(vform(data_table))
from bokeh.models.widgets import CheckboxButtonGroup
from bokeh.io import output_file, show, vform
output_file("checkbox_button_group.html")
checkbox_button_group = CheckboxButtonGroup(
labels=["Option 1", "Option 2", "Option 3"], active=[0, 1])
show(vform(checkbox_button_group))
# var d2 = s2.get('data');
# d2['Time'] = [];
# d2['operating'] = [];
# d2['maintenance'] = [];
# d2['repair'] = [];
# d2['total'] = [];
# for (i = 0; i < inds.length; i++) {
# d2['Time'].push(d1['Time'][inds[i]]);
# d2['operating'].push(d1['operating'][inds[i]]);
# d2['maintenance'].push(d1['maintenance'][inds[i]]);
# d2['repair'].push(d1['repair'][inds[i]]);
# d2['total'].push(d1['total'][inds[i]]);
# }
# s2.trigger('change');
#""")
#display N table
columns = [
TableColumn(field='Time', title='Time: click to update table'),
TableColumn(field='operating', title='operating'),
TableColumn(field='maintenance', title='maintenance'),
TableColumn(field='repair', title='repair'),
TableColumn(field='total', title='total'),
]
N_table = DataTable(source=s2, columns=columns, width=1000, height=300)
#export plot to html and return
plot_grid = vplot(dec_fig, earn_fig, rev_fig, motor_fig, vform(N_table))
show(plot_grid, browser=None)
from bokeh.models import Button
from bokeh.plotting import figure, gridplot
from bokeh.io import vform, output_file, show
output_file("3943.html")
w = 300
h = 150
fig1 = figure(width=w, height=h, tools=[])
fig1.circle(x=[0, 1, 3, 4], y=[10, 4, 1, 5])
fig2 = figure(width=w, height=h, tools=[])
fig2.circle(x=[0, 1, 3, 4], y=[10, 4, 1, 5])
fig3 = figure(width=w, height=h, tools=[])
fig3.circle(x=[0, 1, 3, 4], y=[10, 4, 1, 5])
fig4 = figure(width=w, height=h, tools=[])
fig4.circle(x=[0, 1, 3, 4], y=[10, 4, 1, 5])
grid = gridplot([[fig1, fig2], [fig3, fig4]])
button = Button(label="Click")
v = vform(button, grid)
show(v)
def individual_stock(request, stock_id):
stock1 = get_object_or_404(Stock, pk=stock_id)
# Stock Information per Stock
stock1.lastprice = ystockquote.get_price(stock1)
stock1.volume = ystockquote.get_volume(stock1)
price_change = ystockquote.get_change(stock1)
market_cap = ystockquote.get_market_cap(stock1)
get_high = ystockquote.get_52_week_high(stock1)
get_low = ystockquote.get_52_week_low(stock1)
pb_ratio = ystockquote.get_price_book_ratio(stock1)
ebitda = ystockquote.get_ebitda(stock1)
dividend = ystockquote.get_dividend_yield(stock1)
# Graph
# Last known weekday
current_day = weekday().isoformat()
# Retrieve live data YYYY-MM-DD
historical_price = ystockquote.get_historical_prices(stock1, '2010-01-24', current_day)
correct_order = sorted(historical_price)
stock_prices = []
dates = []
for values in correct_order:
stock_prices.append(historical_price[values]['Adj Close'])
dates.append(values)
# Convert to Float
for p in range(len(stock_prices)):
stock_prices[p] = float(stock_prices[p])
# Convert to Datetime Format
dates_objects = []
for d in dates:
dates_objects.append(datetime.strptime(d,'%Y-%m-%d'))
source = ColumnDataSource(data=dict(x=dates_objects,y=stock_prices, time=dates))
# Tools
hover = HoverTool(tooltips=[('Stock Price','@y'),('time','@time'),], mode='vline')
crosshair = CrosshairTool(dimensions=['height'])
TOOLS = [hover, crosshair]
plot = figure(x_axis_type="datetime", responsive = True ,plot_height=250, tools = TOOLS, toolbar_location=None)
plot.line('x','y',source=source)
first_date = dates[0]
last_date = dates[-1]
callback = CustomJS(args=dict(x_range=plot.x_range), code="""
var start = cb_obj.get("value");
x_range.set("start", start);
x_range.set("end", start+2);
""")
slider = vform(Slider(start=0, end=100, title="Start Date", callback=callback))
widget_script, widget_div = components(slider)
script, div = components(plot)
stock1.save()
context = {'stock':stock1,
'hprice': stock_prices,
'widget_script': widget_script,
'widget_div': widget_div,
'the_script': script,
'the_div':div,
'thedate': dates_objects,
'dates':dates
}
return render(request, 'stocktracker/individual.html', context)
data['leftR'].push(end - dx);
data['topR'].push(myfunc(end));
data['rightR'].push(end);
end = end - dx;
}
source.trigger('change');
""" )
slider = Slider(start=1, end=80, value=val, step=2,
title="n", callback=callback)
grid = gridplot([[plotL,plotR],[plot,plotSum]])
grid.toolbar_location = None
layout = vform(slider,grid)
save(layout)
script, div = components(layout, CDN)
jsname = 'Riemann.js'
with open(jsname ,'w') as f:
f.write(script)
#now fix for what we want
with open(jsname ,'r') as f:
in_data = f.readlines()
song_alpha[i] = f;
voc_alpha[i]=f;
}
source_song.trigger('change');
source_voc.trigger('change');
""")
callback_size = CustomJS(args=dict(source_song=source_song,source_voc=source_voc), code="""
var song_data = source_song.get('data');
var voc_data = source_voc.get('data');
var f = cb_obj.get('value');
song_size = song_data['size'];
sorv_song = song_data['SorV'];
voc_size = voc_data['size'];
sorv_voc = voc_data['SorV'];
for (i=0;i<voc_size.length;i++){
if(sorv_song[i]==1){
song_size[i] = f;
}
if(sorv_voc[i]==1){
voc_size[i] = f;
}
}
source_song.trigger('change');
source_voc.trigger('change');
""")
##########################################################
slider_alpha = Slider(start=0.1, end=1, value=0.3, step=.1, title="fill_alpha", callback=callback_alpha)
slider_size = Slider(start=1, end=10, value=5, step=1, title="size", callback=callback_size)
show(vform(vform(slider_alpha,slider_size),hplot(p_song,p_voc)))
from bokeh.models.widgets import Slider
from bokeh.io import output_file, show, vform
output_file("slider.html")
slider = Slider(start=0, end=10, value=1, step=.1, title="Stuff")
show(vform(slider))
def plotDayOfWeekTimeline(fileName,
initData,
bokehPlaceholderId='bokehContent'):
source = ColumnDataSource(data=initData)
selectDOW = Select(title="Days:",
value="Monday",
options=[
"Sunday", "Monday", "Tuesday", "Wednesday",
"Thursday", "Friday", "Saturday"
])
selectUT = Select(title="User Type:",
value="All",
options=["All", "Subscriber", "Customer"])
model = dict(source=source, select_dow=selectDOW, select_ut=selectUT)
plot = Figure(plot_width=1200, plot_height=400, x_axis_type="datetime")
plot.line('x', 'y', source=source, line_width=3, line_alpha=0.6)
callback = CustomJS(args=model,
code="""
var dayOfWeek = select_dow.get('value')
var userType = select_ut.get('value')
var xmlhttp;
xmlhttp = new XMLHttpRequest();
xmlhttp.onreadystatechange = function() {
if (xmlhttp.readyState == XMLHttpRequest.DONE ) {
if(xmlhttp.status == 200){
var data = source.get('data');
var result = JSON.parse(xmlhttp.responseText);
var temp=[];
for(var date in result.x) {
temp.push(new Date(result.x[date]));
}
data['x'] = temp;
data['y'] = result.y;
source.trigger('change');
}
else if(xmlhttp.status == 400) {
alert(400);
}
else {
alert(xmlhttp.status);
}
}
};
var params = {dow:dayOfWeek, ut:userType};
url = "/select?" + jQuery.param( params );
xmlhttp.open("GET", url, true);
xmlhttp.send();
""")
selectDOW.callback = callback
selectUT.callback = callback
layout = vform(selectDOW, selectUT, plot)
script, div = components(layout)
html = readHtmlFile(fileName)
html = insertScriptIntoHeader(html, script)
html = appendElementContent(html, div, "div", "bokehContent")
return html
f = cb_obj.get('value')
date = sorted(data1.keys())[f-1]
r = data1[date]
data1['radius'] = r
source1.trigger('change')
data2 = source2.get('data')
r = data2[date]
data2['radius'] = r
source2.trigger('change')
slider = Slider(start=1, end=len(sorted(source1.data.keys())[:-4]), value=1, step=1, title="hour",
callback=CustomJS.from_py_func(callback),
orientation='horizontal')
layout = hplot(plot1, plot2)
layout = vform(layout, slider)
show(layout)
save(layout, 'HourlyTripsOneDay.html')
df_StartCount = df.loc[:, ['start station id', 'starttime']]
df_StartCount['started trips'] = 1
df_StartCount = df_StartCount.groupby([pd.Grouper(freq='D', key='starttime'), 'start station id']).sum()
df_StartCount = df_StartCount.unstack(level=0)['started trips'].reset_index()
df_StartCount = pd.merge(lut_Start.reset_index(), df_StartCount.fillna(0))
df_StartCount['radius'] = df_StartCount.loc[:, pd.to_datetime(df_StartCount.columns[6])]
df_StartCount.columns = df_StartCount.columns.format()
radius_factor = 3
def plotHistogram(fileName,
initData,
stations,
dateRange,
bokehPlaceholderId='bokehContent'):
data = {
'xs': [initData['bins']],
'ys': [initData['values']],
'ss': [1, 2],
'es': [3, 4]
} #ss and es are for test purposes we'll add other values of the controlles e.g. age, usertype, Gender coming fetshed from initdata
source = ColumnDataSource(data=data)
stations.insert(0, "All")
selectSS = Select(title="Start Station:", value="All", options=stations)
selectES = Select(title="End Station:", value="All", options=stations)
selectUT = Select(title="User Type:",
value="All",
options=["All", "Subscriber", "Customer"])
selectGender = Select(title="Gender:",
value="All",
options=["All", "Male", "Female"])
sliderAge = Slider(start=8, end=100, value=30, step=5, title="Age")
startDP = DatePicker(title="Start Date:",
min_date=dateRange[0],
max_date=dateRange[1],
value=dateRange[0])
endDP = DatePicker(title="End Date:",
min_date=dateRange[0],
max_date=dateRange[1],
value=dateRange[1])
binSize = TextInput(value="15", title="Bin Size (Days):")
AddButton = Toggle(label="Add", type="success")
DeleteButton = Toggle(label="delete", type="success")
columns = [
TableColumn(field="ss", title="Start Station"),
TableColumn(field="es", title="End Station")
] # add other columns contains values of other controllers
data_table = DataTable(source=source,
columns=columns,
width=650,
height=300)
model = dict(source=source,
selectSS=selectSS,
selectES=selectES,
startDP=startDP,
endDP=endDP,
binSize=binSize,
selectUT=selectUT,
selectGender=selectGender,
sliderAge=sliderAge)
plot = Figure(plot_width=650, plot_height=400, x_axis_type="datetime")
plot.multi_line('xs',
'ys',
source=source,
line_width='width',
line_alpha=0.6,
line_color='color')
callback = CustomJS(args=model,
code="""
//alert("callback");
var startStation = selectSS.get('value');
var endStation = selectES.get('value');
var startDate = startDP.get('value');
if ( typeof(startDate) !== "number")
startDate = startDate.getTime();
var endDate = endDP.get('value');
if ( typeof(endDate) !== "number")
endDate = endDate.getTime();
var binSize = binSize.get('value');
//alert(startStation + " " + endStation + " " + startDate + " " + endDate + " " + binSize);
var xmlhttp;
xmlhttp = new XMLHttpRequest();
xmlhttp.onreadystatechange = function() {
if (xmlhttp.readyState == XMLHttpRequest.DONE ) {
if(xmlhttp.status == 200){
var data = source.get('data');
var result = JSON.parse(xmlhttp.responseText);
var temp=[];
for(var date in result.x) {
temp.push(new Date(result.x[date]));
}
data['xs'].push(temp);
data['ys'].push(result.y);
source.trigger('change');
}
else if(xmlhttp.status == 400) {
alert(400);
}
else {
alert(xmlhttp.status);
}
}
};
var params = {ss:startStation, es:endStation, sd:startDate, ed:endDate, bs: binSize};
url = "/histogram?" + jQuery.param( params );
xmlhttp.open("GET", url, true);
xmlhttp.send();
""")
AddButton.callback = callback
#DeleteButton.on_click(callback1)
layout1 = vform(startDP, endDP, binSize)
layout2 = vform(plot, DeleteButton, data_table)
layout3 = vform(selectSS, selectES, selectUT, selectGender, sliderAge,
AddButton)
layout = hplot(layout1, layout2, layout3)
script, div = components(layout)
html = readHtmlFile(fileName)
html = insertScriptIntoHeader(html, script)
html = appendElementContent(html, div, "div", "bokehContent")
return html
for (i = 0; i < x.length; i++) {
y[i] = B + A*Math.sin(k*x[i]+phi);
}
source.trigger('change');
""")
amp_slider = Slider(start=0.1, end=10, value=1, step=.1,
title="Amplitude", callback=callback)
callback.args["amp"] = amp_slider
freq_slider = Slider(start=0.1, end=10, value=1, step=.1,
title="Frequency", callback=callback)
callback.args["freq"] = freq_slider
phase_slider = Slider(start=0, end=6.4, value=0, step=.1,
title="Phase", callback=callback)
callback.args["phase"] = phase_slider
offset_slider = Slider(start=-5, end=5, value=0, step=.1,
title="Offset", callback=callback)
callback.args["offset"] = offset_slider
layout = hplot(
plot,
vform(amp_slider, freq_slider, phase_slider, offset_slider),
)
output_file("slider.html", title="slider.py example")
show(layout)
def get_spectral_network_bokeh_plot(
spectral_network_data,
plot_range=None,
plot_joints=False,
plot_data_points=False,
plot_on_cylinder=False,
plot_two_way_streets=False,
soliton_trees=None,
no_unstable_streets=False,
soliton_tree_data=None,
plot_width=800,
plot_height=800,
notebook=False,
slide=False,
logger_name=None,
marked_points=[],
without_errors=False,
download=False,
#downsample=True,
downsample=False,
downsample_ratio=None,
):
logger = logging.getLogger(logger_name)
# Determine if the data set corresponds to a multi-parameter
# configuration.
if type(spectral_network_data.sw_data) is list:
multi_parameter = True
else:
multi_parameter = False
if without_errors is True:
spectral_networks = [
sn for sn in spectral_network_data.spectral_networks
if len(sn.errors) == 0
]
else:
spectral_networks = spectral_network_data.spectral_networks
if soliton_trees is None:
soliton_trees = spectral_network_data.soliton_trees
if (len(spectral_networks) == 0
and (soliton_trees is None or len(soliton_trees) == 0)):
raise RuntimeError('get_spectral_network_bokeh_plot(): '
'No spectral network to plot.')
sw_data = spectral_network_data.sw_data
plot_x_range, plot_y_range = plot_range
y_min, y_max = plot_y_range
# Setup tools.
hover = HoverTool(tooltips=[
('name', '@label'),
('root', '@root'),
])
# Prepare a bokeh Figure.
bokeh_figure = figure(
tools='reset,box_zoom,pan,wheel_zoom,save,tap',
plot_width=plot_width,
plot_height=plot_height,
title=None,
x_range=plot_x_range,
y_range=plot_y_range,
)
bokeh_figure.add_tools(hover)
bokeh_figure.grid.grid_line_color = None
# Data source for marked points, which are drawn for an illustration.
mpds = ColumnDataSource({
'x': [],
'y': [],
'color': [],
'label': [],
'root': []
})
for mp in marked_points:
z, color = mp
mpds.data['x'].append(z.real)
mpds.data['y'].append(z.imag)
mpds.data['color'].append(color)
mpds.data['label'].append('')
mpds.data['root'].append('')
bokeh_figure.circle(
x='x',
y='y',
size=5,
color='color',
source=mpds,
)
# Data source for punctures.
if multi_parameter is False:
puncts = sw_data.regular_punctures + sw_data.irregular_punctures
else:
puncts = sw_data[0].regular_punctures + sw_data[0].irregular_punctures
ppds = ColumnDataSource({'x': [], 'y': [], 'label': [], 'root': []})
for pp in puncts:
if pp.z == oo:
continue
ppds.data['x'].append(pp.z.real)
ppds.data['y'].append(pp.z.imag)
ppds.data['label'].append(str(pp.label))
ppds.data['root'].append('')
bokeh_figure.circle(
'x',
'y',
size=10,
color="#e6550D",
fill_color=None,
line_width=3,
source=ppds,
)
# Data source for branch points & cuts.
if multi_parameter is False:
bpds = ColumnDataSource({'x': [], 'y': [], 'label': [], 'root': []})
for bp in sw_data.branch_points:
if bp.z == oo:
continue
bpds.data['x'].append(bp.z.real)
bpds.data['y'].append(bp.z.imag)
bpds.data['label'].append(str(bp.label))
positive_roots = bp.positive_roots
if len(positive_roots) > 0:
root_label = ''
for root in positive_roots:
root_label += str(root.tolist()) + ', '
bpds.data['root'].append(root_label[:-2])
else:
bpds.data['root'].append('')
bokeh_figure.x(
'x',
'y',
size=10,
color="#e6550D",
line_width=3,
source=bpds,
)
bcds = ColumnDataSource({'xs': [], 'ys': []})
try:
branch_cut_rotation = sw_data.branch_cut_rotation
except AttributeError:
branch_cut_rotation = None
if branch_cut_rotation is not None:
for bl in sw_data.branch_points + sw_data.irregular_singularities:
y_r = (2j * y_max) * complex(sw_data.branch_cut_rotation)
bcds.data['xs'].append([bl.z.real, bl.z.real + y_r.real])
bcds.data['ys'].append([bl.z.imag, bl.z.imag + y_r.imag])
bokeh_figure.multi_line(
xs='xs',
ys='ys',
line_width=2,
color='gray',
line_dash='dashed',
source=bcds,
)
# XXX: Need to clean up copy-and-pasted codes.
else:
bpds = []
bcds = []
for swd in sw_data:
bpds_i = ColumnDataSource({
'x': [],
'y': [],
'label': [],
'root': []
})
for bp in swd.branch_points:
if bp.z == oo:
continue
bpds_i.data['x'].append(bp.z.real)
bpds_i.data['y'].append(bp.z.imag)
bpds_i.data['label'].append(str(bp.label))
root_label = ''
for root in bp.positive_roots:
root_label += str(root.tolist()) + ', '
bpds_i.data['root'].append(root_label[:-2])
bpds.append(bpds_i)
bcds_i = ColumnDataSource({'xs': [], 'ys': []})
for bl in swd.branch_points + swd.irregular_singularities:
y_r = (2j * y_max) * complex(swd.branch_cut_rotation)
bcds_i.data['xs'].append([bl.z.real, bl.z.real + y_r.real])
bcds_i.data['ys'].append([bl.z.imag, bl.z.imag + y_r.imag])
bcds.append(bcds_i)
# In this case the branch points and cuts will be
# drawn differently for each spectral network.
# Each call of the slider will deal with them.
# Data source for the current plot
cds = ColumnDataSource({
'xs': [],
'ys': [],
'ranges': [],
'color': [],
'alpha': [],
'arrow_x': [],
'arrow_y': [],
'arrow_angle': [],
'label': [],
'root': [],
})
# Data source for plotting data points
dpds = ColumnDataSource({
'x': [],
'y': [],
})
# Data source for phases
pds = ColumnDataSource({
'phase': [],
})
# for sn in spectral_networks:
# # sn_phase = '{:.3f}'.format(sn.phase / pi)
# sn_phase = '{:.3f}'.format(sn.phase)
# pds.data['phase'].append(sn_phase)
# Data source containing all the spectral networks
snds = ColumnDataSource({
'spectral_networks': [],
})
if soliton_trees is not None and len(soliton_trees) > 0:
# snds['spectral_networks'] is a 1-dim array,
# of soliton trees.
for tree in soliton_trees:
if no_unstable_streets and tree.stability != 1:
continue
elif tree.stability == 1 or tree.stability is None:
s_wall_color = '#0000FF'
elif tree.stability == 0:
s_wall_color = '#00FF00'
elif tree.stability > 1:
s_wall_color = '#FF0000'
tree_data = get_s_wall_plot_data(
tree.streets,
sw_data,
logger_name,
tree.phase,
s_wall_color=s_wall_color,
downsample=downsample,
downsample_ratio=downsample_ratio,
)
snds.data['spectral_networks'].append(tree_data)
pds.data['phase'].append('{:.3f}'.format(tree.phase))
init_data = snds.data['spectral_networks'][0]
elif plot_two_way_streets:
if soliton_tree_data is not None:
# snds['spectral_networks'] is a 2-dim array,
# where the first index chooses a spectral network
# and the second index chooses a soliton tree
# of the two-way streets of the spectral network.
for i, soliton_trees in enumerate(soliton_tree_data):
data_entry = []
theta_i = spectral_networks[i].phase
if len(soliton_trees) == 0:
# Fill with empty data.
empty_data = get_s_wall_plot_data(
[],
sw_data,
logger_name,
theta_i,
downsample=downsample,
downsample_ratio=downsample_ratio,
)
data_entry.append(empty_data)
else:
for tree in soliton_trees:
tree_data = get_s_wall_plot_data(
tree.streets,
sw_data,
logger_name,
theta_i,
downsample=downsample,
downsample_ratio=downsample_ratio,
)
# The first data contains all the soliton trees
# of the two-way streets in a spectral network.
if len(data_entry) == 0:
data_entry.append(deepcopy(tree_data))
else:
for key in tree_data.keys():
data_entry[0][key] += tree_data[key]
data_entry.append(tree_data)
snds.data['spectral_networks'].append(data_entry)
pds.data['phase'].append('{:.3f}'.format(theta_i))
init_data = snds.data['spectral_networks'][0][0]
else:
logger.warning('No data to plot.')
else:
# snds['spectral_networks'] is a 1-dim array,
# of spectral network data.
for sn in spectral_networks:
skip_plotting = False
for error in sn.errors:
error_type, error_msg = error
if error_type == 'Unknown':
skip_plotting = True
if skip_plotting is True:
continue
sn_data = get_s_wall_plot_data(
sn.s_walls,
sw_data,
logger_name,
sn.phase,
downsample=downsample,
downsample_ratio=downsample_ratio,
)
snds.data['spectral_networks'].append(sn_data)
pds.data['phase'].append('{:.3f}'.format(sn.phase))
init_data = snds.data['spectral_networks'][0]
# Initialization of the current plot data source.
for key in cds.data.keys():
cds.data[key] = init_data[key]
bokeh_figure.scatter(
x='x',
y='y',
alpha=0.5,
source=dpds,
)
bokeh_figure.multi_line(
xs='xs',
ys='ys',
color='color',
alpha='alpha',
line_width=1.5,
source=cds,
)
bokeh_figure.triangle(
x='arrow_x',
y='arrow_y',
angle='arrow_angle',
color='color',
alpha='alpha',
size=8,
source=cds,
)
bokeh_obj = {}
notebook_vform_elements = []
# XXX: Where is a good place to put the following?
custom_js_code = ''
if notebook is True or slide is True:
with open('static/bokeh_callbacks.js', 'r') as fp:
custom_js_code += fp.read()
custom_js_code += '\n'
# Data source for plot ranges
if download is False and notebook is False and slide is False:
range_callback = CustomJS(
args={
'x_range': bokeh_figure.x_range,
'y_range': bokeh_figure.y_range
},
code=(custom_js_code + 'update_plot_range(x_range, y_range);'),
)
bokeh_figure.x_range.callback = range_callback
bokeh_figure.y_range.callback = range_callback
# 'Redraw arrows' button.
redraw_arrows_button = Button(
label='Redraw arrows',
callback=CustomJS(
args={
'cds': cds,
'x_range': bokeh_figure.x_range,
'y_range': bokeh_figure.y_range
},
code=(custom_js_code + 'redraw_arrows(cds, x_range, y_range);'),
),
)
bokeh_obj['redraw_arrows_button'] = redraw_arrows_button
notebook_vform_elements.append(redraw_arrows_button)
# 'Show data points' button
show_data_points_button = Button(label='Show data points', )
show_data_points_button.callback = CustomJS(
args={
'cds': cds,
'dpds': dpds,
'hover': hover
},
code=(custom_js_code + 'show_data_points(cds, dpds, hover);'),
)
bokeh_obj['show_data_points_button'] = show_data_points_button
notebook_vform_elements.append(show_data_points_button)
# 'Hide data points' button
hide_data_points_button = Button(label='Hide data points', )
hide_data_points_button.callback = CustomJS(
args={
'cds': cds,
'dpds': dpds,
'hover': hover
},
code=(custom_js_code + 'hide_data_points(cds, dpds, hover);'),
)
bokeh_obj['hide_data_points_button'] = hide_data_points_button
notebook_vform_elements.append(hide_data_points_button)
# Prev/Next soliton tree button
tree_idx_ds = ColumnDataSource({'j': ['0']})
sn_idx_ds = ColumnDataSource({'i': ['0']})
plot_options_ds = ColumnDataSource({
'notebook': [notebook],
'show_trees': [plot_two_way_streets]
})
if plot_two_way_streets and soliton_tree_data is not None:
prev_soliton_tree_button = Button(label='<', )
prev_soliton_tree_button.callback = CustomJS(
args={
'cds': cds,
'snds': snds,
'sn_idx_ds': sn_idx_ds,
'tree_idx_ds': tree_idx_ds,
'plot_options_ds': plot_options_ds,
},
code=(custom_js_code +
'show_prev_soliton_tree(cds, snds, sn_idx_ds, tree_idx_ds, '
'plot_options_ds);'),
)
bokeh_obj['prev_soliton_tree_button'] = prev_soliton_tree_button
notebook_vform_elements.append(prev_soliton_tree_button)
next_soliton_tree_button = Button(label='>', )
next_soliton_tree_button.callback = CustomJS(
args={
'cds': cds,
'snds': snds,
'sn_idx_ds': sn_idx_ds,
'tree_idx_ds': tree_idx_ds,
'plot_options_ds': plot_options_ds,
},
code=(custom_js_code +
'show_next_soliton_tree(cds, snds, sn_idx_ds, tree_idx_ds, '
'plot_options_ds);'),
)
bokeh_obj['next_soliton_tree_button'] = next_soliton_tree_button
notebook_vform_elements.append(next_soliton_tree_button)
# Slider
if (plot_two_way_streets and soliton_trees is not None
and len(soliton_trees) > 0):
slider_title = 'soliton tree #'
else:
slider_title = 'spectral network #'
num_of_plots = len(snds.data['spectral_networks'])
if num_of_plots > 1:
if multi_parameter is False:
sn_slider = Slider(
start=0,
end=num_of_plots - 1,
value=0,
step=1,
title=slider_title,
)
sn_slider.callback = CustomJS(
args={
'cds': cds,
'snds': snds,
'sn_idx_ds': sn_idx_ds,
'dpds': dpds,
'pds': pds,
'hover': hover,
'plot_options': plot_options_ds,
'tree_idx_ds': tree_idx_ds
},
code=(custom_js_code +
'sn_slider(cb_obj, cds, snds, sn_idx_ds, dpds, pds, '
'hover, plot_options, tree_idx_ds);'),
)
plot = vform(
bokeh_figure,
sn_slider,
width=plot_width,
)
notebook_vform_elements = ([bokeh_figure, sn_slider] +
notebook_vform_elements)
else:
# TODO: implement new js routine for sn_slider when
# there are multiple parameters.
# Need to draw branch points and cuts for each value of the
# parameters.
sn_slider = Slider(start=0,
end=num_of_plots - 1,
value=0,
step=1,
title="spectral network #")
sn_slider.callback = CustomJS(
args={
'cds': cds,
'snds': snds,
'sn_idx_ds': sn_idx_ds,
'dpds': dpds,
'pds': pds,
'hover': hover,
'plot_options': plot_options_ds,
'tree_idx_ds': tree_idx_ds
},
code=(custom_js_code +
'sn_slider(cb_obj, cds, snds, sn_idx_ds, dpds, pds, '
'hover, plot_options, tree_idx_ds);'),
)
plot = vform(
bokeh_figure,
sn_slider,
width=plot_width,
)
notebook_vform_elements = ([bokeh_figure, sn_slider] +
notebook_vform_elements)
else:
plot = bokeh_figure
notebook_vform_elements = ([bokeh_figure] + notebook_vform_elements)
bokeh_obj['plot'] = plot
if notebook is True:
# TODO: Include phase text input
return vform(*notebook_vform_elements, width=plot_width)
elif slide is True:
return plot
else:
return bokeh.embed.components(bokeh_obj)
from bokeh.models.widgets import Select
from bokeh.io import output_file, show, vform
output_file("select.html")
select = Select(title="Option:", value="foo", options=["foo", "bar", "baz", "quux"])
show(vform(select))
from bokeh.models.widgets import Button
from bokeh.io import output_file, show, vform
output_file("button.html")
button = Button(label="Foo", type="success")
show(vform(button))
p4.xaxis.minor_tick_line_color = None
p4.line(temp_graph['date_t'], temp_graph['adv_less_current'], color='red', line_width=3, legend="Advance less current")
p4.legend.location = "bottom_left"
# put all the plots in a grid layout
p = gridplot([[p1, p2], [p3, p4]])
# show the results
#show(p)
########## BUILD FIGURES ################
source = ColumnDataSource(temp_graph)
columns = [
TableColumn(field='code', title = "BEA - Code", width = temp_graph['code'].map(len).max()),
TableColumn(field='description', title = "Description", width = temp_graph['description'].map(len).max()),
TableColumn(field='ADVANCE', title = "Advanced Est", width = 5),
TableColumn(field='SECOND', title = "Second Est", width = 5),
TableColumn(field='THIRD', title = "Third Est", width = 5),
TableColumn(field='adv_less_third', title = "Revision (advance est less third est)", width = 10),
TableColumn(field='abs_two_year', title = "Revision (absolute avg(2-year))", width = 10)
]
data_table = DataTable(source=source, columns=columns, width=1000, height=1000)
layout = vform(p, data_table)
#show(layout)
save(layout)
color_range1 = p2.rect(x='x', y='y', width=1, height=10, color='crcolor', source=crsource)
# set up hover tool to show color hex code and sample swatch
hover = p2.select(dict(type=HoverTool))
hover.tooltips = [
('color', '$color[hex, rgb, swatch]:crcolor'),
('RGB levels', '@RGBs')
]
# get rid of axis details for cleaner look
p1.ygrid.grid_line_color = None
p1.xgrid.grid_line_color = None
p1.axis.axis_line_color = None
p1.axis.major_label_text_color = None
p1.axis.major_tick_line_color = None
p1.axis.minor_tick_line_color = None
p2.ygrid.grid_line_color = None
p2.xgrid.grid_line_color = None
p2.axis.axis_line_color = None
p2.axis.major_label_text_color = None
p2.axis.major_tick_line_color = None
p2.axis.minor_tick_line_color = None
layout = bkplt.hplot(
vform(red_slider, green_slider, blue_slider),
vform(p1, p2)
)
bkplt.output_file("colorSliders.html")
bkplt.show(layout)