Hello I am attempting to write a program that allows the plotting of the graph from various data sets from a excel database.(The x axis is a fixed set of values while the data values from other columns can be selected). However, the graph that is plotted only contains the axes of the graph, while the data points are completely missing. The code I have used is as such:
import xlrd
import matplotlib.pyplot as plt
from matplotlib.figure import *
loc = ("C:\\Users\\yeoho\\DCO_Raw_Data.xlsx")
wb = xlrd.open_workbook(loc)
sheet = wb.sheet_by_index(0)
sheet.cell_value(0,0)
x = [[sheet.cell_value(r,0)]for r in range(6,sheet.nrows)]
checkOn = True
while checkOn:
FileName = [[sheet.cell_value(0,c)]for c in range(1,13)]
print(FileName)
print("Enter the Integer (1-n) corresponding to the file name that you would like to plot")
z = int(input())
y = [[sheet.cell_value(r,z)]for r in range(6,sheet.nrows)]
fig = plt.figure()
ax = fig.add_subplot(111)
assert len(x) == len(y)
for i in range(len(x)):
plt.plot(x[i],y[i],color='black')
plt.show()
break
The code in lines 16-21 were taken from another stackoverflow page. How to plot two lists of tuples with Matplotlib
The original code did not have a color parameter but I have found out that that is not the source of the issue.
I am unsure of what the issue here is. Thank you for taking your time to read this and I hope you can help me with this issue.
Related
I have the following dataset that was randomly generated through a simulation I am building:
https://drive.google.com/drive/folders/1JF5QrliE9s8VPMaGc8Z-mwpFhNWkeYtk?usp=sharing
For debugging purposes, I would like to be able to view this data in a series of small multiples. Like this:
I am attempting to do this using matplotlib and pandas. Here is my code for that:
import pandas as pd
import matplotlib.pyplot as plt
from matplotlib.backends.backend_pdf import PdfPages
def graph_file(f: str):
"""
Graphs a single file of data
and exports it as a pdf of separate charts.
"""
data = pd.read_csv(f)
header = data.columns
fname = f[:-4] + '.pdf'
with PdfPages(fname) as pdf:
n = len(header)
time: str = header[0]
# Multiple charts on one page
fig = plt.figure()
for i in range(1, n):
y: str = header[i]
ax = fig.add_subplot()
data.plot(x=time, y=y)
pdf.savefig(bbox_inches='tight')
When I open up the .csv file and try to run the function using a Jupyter notebook, I get the same deprecation warning over and over again:
<ipython-input-5-0563709f3c08>:24: MatplotlibDeprecationWarning: Adding an axes using the same arguments as a previous axes currently reuses the earlier instance. In a future version, a new instance will always be created and returned. Meanwhile, this warning can be suppressed, and the future behavior ensured, by passing a unique label to each axes instance.
ax = fig.add_subplot()
The resulting pdf file does not contain a single page with multiple graphs (which is what I want like in the first image) but just a single page with a single graph:
What exactly am I doing wrong? I greatly appreciate any feedback you can give.
Here is a solution that should meet your needs. It reads the csv file into a dataframe and iterates through the columns of the dataframe to plot corresponding subplots.
import pandas as pd
import matplotlib.pyplot as plt
from matplotlib.backends.backend_pdf import PdfPages
def graph_file(f: str):
df = pd.read_csv(f)
fig, axs = plt.subplots(nrows=3, ncols=3)
fig.set_size_inches(20, 10)
fig.subplots_adjust(wspace=0.5)
fig.subplots_adjust(hspace=0.5)
fname = f[:-4] + '.pdf'
with PdfPages(fname) as pdf:
for col, ax in zip(df.columns[1:], axs.flatten()):
ax.plot(df['time (days)'], df[col])
ax.set(xlabel='time (days)', ylabel=col)
ax.tick_params(axis='x', labelrotation=30)
pdf.savefig(bbox_inches='tight')
plt.show()
I am quite new to python so please bear with me.
My code is below:
import pandas as pd
import numpy as np
from scipy import stats
import matplotlib.pyplot as plt
df = pd.read_csv(r"/Users/aaronhuang/Desktop/ffp/exfileCLEAN2.csv", skiprows=[1])
magnitudes = df['Magnitude '].values
times = df['Time '].values
zscores = np.abs(stats.zscore(magnitudes, ddof=1))
outlier_indicies = np.argwhere(zscores > 3).flatten()
print(times[outlier_indicies])
window = 10
num = 1
x = times[outlier_indicies[num]-window:outlier_indicies[num]+window+1]
y = magnitudes[outlier_indicies[num]-window:outlier_indicies[num]+window+1]
plt.plot(x, y)
plt.xlabel('Time (units)')
plt.ylabel('Magnitude (units)')
plt.show()
fig = plt.figure()
fig.savefig("/Users/aaronhuang/Downloads")
Is there a way I can print all the graphs separately once?. Deleting num has not worked.
Thank you in advance.
You can put the plots inside a for loop, and repeat as many times as you like, with different variables for each step if needed. Most software will show the plots either in multiple plot windows, or output them in a long strip you can scroll through. If you use Spyder however, they will play back to back, with each plot being a frame.
Also, if you want to print multiple plots, you have to put the plt.show() inside the loop as well, putting it after the loop will show all the values on a single plot.
For example:
import matplotlib.pyplot as plt
x_values = [1,2,3,4,5,6,7]
for x in x_values:
y = x**2
plt.plot(x,y,"o")
plt.axis([0,50, 0,50])
plt.show()
I'm trying to generate some diagrams from an .h5 file but I don't know how to do it.
I'm using pytables, numpy and matplotlib.
The hdf5 files I use contains 2 sets of data, 2 differents curves.
My goal is to get diagrams like this one.
This is what I managed to do for the moment:
import tables as tb
import numpy as np
import matplotlib.pyplot as plt
h5file = tb.openFile(args['FILE'], "a")
for group in h5file.walkGroups("/"):
for array in h5file.walkNodes("/","Array"):
if(isinstance(array.atom.dflt, int)):
tab = np.array(array.read())
x = tab[0]
y = tab[1]
plt.plot(x, y)
plt.show()
x and y values are good but I don't know how to use them, so the result is wrong. I get a triangle instead of what I want ^^
Thank you for your help
EDIT
I solved my problem.
Here is the code :
fig = plt.figure()
tableau = np.array(array.read())
x = tableau[0]
y = tableau[1]
ax1 = fig.add_subplot(211)
ax2 = fig.add_subplot(212)
ax1.plot(x)
ax2.plot(y)
plt.title(array.name)
plt.show()
I am pretty new to python and coding in general. I have this code so far.
import numpy as np
import matplotlib.pyplot as plt
data = np.loadtxt('data.csv', delimiter=',', skiprows=1)
mSec = data[:,0]
Airspeed = data[:,10]
AS_Cmd = data[:,25]
airspeed = data[:,3]
plt.rc('xtick', labelsize=25) #increase xaxis tick size
plt.rc('ytick', labelsize=25) #increase yaxis tick size
fig, ax = plt.subplots(figsize=(40,40), edgecolor='b')
ax.patch.set_facecolor('white')
ax.plot(mSec, Airspeed, label='Ground speed [m/s]')
ax.plot(mSec, AS_Cmd, label='Voltage [V]')
plt.legend(loc='best',prop={'size':20})
fig.savefig('trans2.png', dpi=(200), bbox_inches='tight') #borderless on save
However, I don't want to individually read every data column there is. I want to be able to load a csv file and have it read out all column names, then asks the users what you want for your x-axis and y-axis and plots that graph. The csv file format is:
time(s),speed(mph),heading,bvoltage(v)
20,30,50,10
25,45,50,10
30,50,55,9
Here is my attempt at the code but I am missing a lot of information:
import numpy as np
import matplotlib.pyplot as plt
data = np.loadtxt('data.csv', delimiter=',')
## names = where I will store the column names
white True:
## display names to user
print ('Pick your x-axis')
xaxis = input()
print ('Pick your y-axis')
yaxis1 = input()
print('pick a 2nd y-axis or enter none')
yaxis2 = input()
if input()= 'none'
break;
else continue
#plot xaxis vs yaxis vs 2nd yaxis
I understand the loop is not correct. I don't want anyone to correct me on that I will figure it out myself, however, I would like a way to access those values from the CSV file so that I can use it in that method.
Using pandas you can do:
import pandas as pd
data = pd.read_csv("yourFile.csv", delimiter=",")
and plot columns with names ColName1, ColName2 against each other with:
data.plot(x='Col1', y='Col2')
If you have a first line in the csv file with the desired names of the columns, pandas will pick those automatically, otherwise you can play with the header argument of read_csv.
http://pandas.pydata.org/pandas-docs/stable/generated/pandas.read_csv.html
If you don't mind using/installing another module then pandas should do it.
I have lot of binary and ascii files in one folder. I am reading them using glob module. Doing processing of the binary data so that I can plot them. And finally, I am trying to plot simplified binary data in one subplot and normal ascii file in another subplot. The problem I am facing is that it can generate plots for the corresponding binary files. But for the ascii files it just simply override the previous files and always generates the same plot. Here is the simplied version of the code for an example-
import glob
import numpy as np
from struct import unpack
import matplotlib.pyplot as plt
chi = sorted(glob.glob('C:/Users/Desktop/bin/*.chi'))
for index,fh in enumerate(chi):
data = np.genfromtxt(fh, dtype = float)
x = [row[0] for row in data]
y = [row[1] for row in data]
binary = sorted(glob.glob('C:/Users/Desktop/bin/*.bin'))
for count,FILE in enumerate(binary):
F = open(FILE,'rb')
B = unpack('f'*1023183, F.read(4*1023183))
A = np.array(B).reshape(1043, 981)
F.close()
#a = something column 1 # some further processing
#b = something column 2 # and generates 1D data
fig = plt.figure(figsize=(11, 8.0))
ax1 =fig.add_subplot(211,axisbg='w')
ax1.plot(a,b)
ax2 =fig.add_subplot(212, axisbg ='w')
ax2.plot(x,y)
plt.show()
Can somebody please explain why the files are replacing each other during plotting only for one set of data where the other set is plotting correctly?
the structures of the loops is not correct in your example, you must have the plot command inside the loop over the ascii file, else only the last one is plotted. This should work:
try it like this:
import glob
import numpy as np
from struct import unpack
import matplotlib.pyplot as plt
fig = plt.figure(figsize=(11, 8.0))
chi = sorted(glob.glob('C:/Users/Desktop/bin/*.chi'))
for index,fh in enumerate(chi):
data = np.genfromtxt(fh, dtype = float)
x = [row[0] for row in data]
y = [row[1] for row in data]
ax1 =fig.add_subplot(211, axisbg ='w')
ax1.plot(x,y)
binary = sorted(glob.glob('C:/Users/Desktop/bin/*.bin'))
for count,FILE in enumerate(binary):
F = open(FILE,'rb')
B = unpack('f'*1023183, F.read(4*1023183))
A = np.array(B).reshape(1043, 981)
F.close()
#a = something column 1 # some further processing
#b = something column 2 # and generates 1D data
ax2 =fig.add_subplot(212,axisbg='w')
ax2.plot(a,b)
plt.show()