python bokeh图例超出了图的大小 [英] python bokeh legend out of the plot size

问题描述

我是python的新手，有人帮我编写了这段代码，但是我想更改一些参数:

I'm new in python, and somebody help me with this code, but I want to change some parameter:

首先从图例中找出图例的大小，有时图例变大(例如:D_0__细菌； D_1__Firmicutes； D_2__Clostridia； D_3__Clostridiales； D_4__Peptostreptococcaceae； D_5__Acetoanaerobium)，有时则很短(Acetoanaerobium)想要使图例自动修复大小(图中的图例不完整)！！

First the size of the legend out of the plot, some time the legend are to big (example: D_0__Bacteria;D_1__Firmicutes;D_2__Clostridia;D_3__Clostridiales;D_4__Peptostreptococcaceae;D_5__Acetoanaerobium), and some time it is short (Acetoanaerobium), so I just want to make the legend auto fix the size (in the figure the legend are not complete)!!!.

其次，当指针悬停在条形区域时显示的标签，显示名称和对应数据的值，(hover.tooltips = [('Taxon'，'example:Acetoanaerobium')， (值"，相应的值示例:99")])

Second, the label that appear when the pointer get hover the zone of the bar, show the name and the value of the data that correspond, (hover.tooltips = [('Taxon','example: Acetoanaerobium'),('Value','the corresponding value example: 99')])

第三位:情节的位置(图)，在中间

third: the position of the plot (figure), in the middle

#!/usr/bin/env python

import pandas as pd
from bokeh.io import show, output_file
from bokeh.models import ColumnDataSource
from bokeh.plotting import figure
from bokeh.core.properties import value
from bokeh.palettes import Spectral
from bokeh.models import HoverTool
#from bokeh.plotting import figure, output_file, show, ColumnDataSource
import itertools
import sys

data_in = sys.argv[1]
data_out = sys.argv[2]

output_file(data_out + ".html")

df = pd.read_csv(data_in, sep='\t')
df.set_index('#OTU_ID', inplace=True)

#print(df)
s_data = df.columns.values # linia de samples !!!
t_data = df.index.values    #columna de datos

#print(s_data)
#print(t_data)

# You have two rows with 'uncultured' data. I added these together.
# This may or may not be what you want.
df = df.groupby('#OTU_ID')[s_data].transform('sum')

#grouped = df.groupby(["columnA", "columnB"], as_index=False).count()

#print(grouped)

# create a color iterator
# See https://stackoverflow.com/q/39839409/50065
# choose an appropriate pallete from
# https://docs.bokeh.org/en/latest/docs/reference/palettes.html
# if you have a large number of organisms
color_iter = itertools.cycle(Spectral[5])    
colors = [next(color_iter) for organism in t_data]

# create a ColumnDataSource
data = {'xs': list(s_data)}

for organism in t_data:
    data[organism] = list(df.loc[organism])
source = ColumnDataSource(data=data)


#print(organism)
# create our plot
plotX = figure(x_range=s_data, plot_height=500, title="Relative Abundance",
           toolbar_location=None, tools="hover")

plotX.vbar_stack(t_data, x='xs', width=0.93, source=source,
            legend=[value(x) for x in t_data], color=colors)

plotX.xaxis.axis_label = 'Sample'
plotX.yaxis.axis_label = 'Percent (%)'
plotX.legend.location = "bottom_left"
plotX.legend.orientation = "vertical"

# Position the legend outside the plot area
# https://stackoverflow.com/questions/48240867/how-can-i-make-legend-outside-plot-area-with-stacked-bar
new_legend = plotX.legend[0]
plotX.legend[0].plot = None
plotX.add_layout(new_legend, 'below')

hover = plotX.select(dict(type=HoverTool))
hover.tooltips = [('Taxon','unknow_var'),('Value','unknow_var')]
# I don't know what variable to addd in unknow_var

show(plotX)

in文件是file.txt，制表符分隔的文件，例如:

the in file is a file.txt, tab delimited file like:

#OTU_ID columnA columnB columnC columnD columnN
D_0__Bacteria;D_1__Actinobacteria;D_2__Acidimicrobiia;D_3__Acidimicrobiales;D_4__uncultured;D_5__uncultured_bacterium   1   3   7   0.9 2
D_0__Bacteria;D_1__Acidobacteria;D_2__Subgroup_25;D_3__uncultured_Acidobacteria_bacterium;D_0__Bacteria;D_1__Actinobacteria;D_2__Actinobacteria;D_3__Streptomycetales;D_4__Streptomycetaceae;D_5__Kitasatospora 5   3   13  7   5
D_0__Bacteria;D_1__Firmicutes;D_2__Bacilli;D_3__Bacillales;D_4__Bacillaceae;D_5__Anoxybacillus  0.1 0.8 7   1   0.4
D_0__Bacteria;D_1__Firmicutes;D_2__Bacilli;D_3__Lactobacillales;D_4__Carnobacteriaceae;D_5__Carnobacterium  3   7   9   16  11
D_0__Bacteria;D_1__Firmicutes;D_2__Bacilli;D_3__Bacillales;D_4__Bacillaceae;D_5__Oceanobacillus 5   2   15  1   7
D_0__Bacteria;D_1__Firmicutes;D_2__Clostridia;D_3__Clostridiales;D_4__Family_XII;D_5__Fusibacter    8   9   0   11  22
D_0__Bacteria;D_1__Firmicutes;D_2__Clostridia;D_3__Clostridiales;D_4__Peptostreptococcaceae;D_5__Acetoanaerobium    99  3   12  1   3
D_4__Clostridiaceae_2;D_5__Alkaliphilus 33  45  1   0   9
D_4__Peptococcaceae;D_5__uncultured 0   3   9   10  11

在此示例中，值不是y-legend所说的％，这些值仅是示例！

in this example the value are not in % as the y-legend say, the values are just an example !!!

非常感谢！！！

推荐答案

Bokeh图例不会自动调整大小(没有选择使其自动调整大小).您需要将图例宽度设置为足够宽，以覆盖您可能拥有的任何标签.此外，由于它们是与图在同一画布上绘制的，因此您需要使图更宽，以适应在图例上设置的宽度.如果不希望中央绘图区域变大，可以在绘图上设置各种min_border，min_border_left值，以在内部绘图区域周围留出更多空间.

Bokeh legends do not auto-size (there is no option to make them do so). You will need to set the legend width to be wide enough to cover any label you might have. Additionally, since they are drawn on the same canvas as the plot, you will need to make the plot wider, to accommodate the width you set on the legend. If you don't want the central plot area to get bigger, you can set the various min_border, min_border_left values on the plot to make more space around the inner plot area.

或者，您可以考虑减小图例字体的大小，而不是调整图和图例的大小.

Alternatively, instead of resizing the plot and legend, you could consider making the legend font size smaller.

p.legend.label_text_font_size = "8px"

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