matplotlib

As you show it, mass will be a string, so you'll need to convert it to
a float first, then add it to a list. You can then manipulate the
values in the list to compute your mean, or whatever, which matplotlib
can use as input to its plot() function or whichever type of plot
you're after. Alternatively, since the Python numpy module is made for
manipulating data like this, it can probably read your data in a
single function call and easily compute the things you want. However,
if you are really that new to programming, you may struggle, so I'd
suggest reading first going to scipy.org and reading up on numpy. When
you understand the basics of numpy, matplotlib's documentation should
make a lot more sense.

Gary

On Thu, Aug 25, 2011 at 6:48 AM, surfcast23 <surfcast23@...> wrote:
>
> I am fairly new to programing and have a question regarding matplotlib. I
> wrote a python script that reads in data from the outfile of another program
> then prints out the data from one column.
>
> f = open( 'myfile.txt','r')
> for line in f:
> if line != ' ':
>  line = line.strip()       # Strips end of line character
>  columns = line.split() # Splits into coloumn
>  mass = columns[8]    # Column which contains mass values
>  print(mass)
>
> What I now need to do is have matplotlib take the values printed in 'mass'
> and plot number versus mean mass. I have read the documents on the
> matplotlib website, but they don't really address how to get data from a
> script(or I just did not see it) If anyone can point me to some
> documentation that explains how I do this it would be really appreciated.
>  Thanks in advance
>
> --
> View this message in context: http://old.nabble.com/How-do-you-Plot-data-generated-by-a-python-script--tp32328822p32328822.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
>
> ------------------------------------------------------------------------------
> EMC VNX: the world's simplest storage, starting under $10K
> The only unified storage solution that offers unified management
> Up to 160% more powerful than alternatives and 25% more efficient.
> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users@...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Thank you Gary. I will definitely read the numpy doucs 

Gary Ruben-2 wrote:
> 
> As you show it, mass will be a string, so you'll need to convert it to
> a float first, then add it to a list. You can then manipulate the
> values in the list to compute your mean, or whatever, which matplotlib
> can use as input to its plot() function or whichever type of plot
> you're after. Alternatively, since the Python numpy module is made for
> manipulating data like this, it can probably read your data in a
> single function call and easily compute the things you want. However,
> if you are really that new to programming, you may struggle, so I'd
> suggest reading first going to scipy.org and reading up on numpy. When
> you understand the basics of numpy, matplotlib's documentation should
> make a lot more sense.
> 
> Gary
> 
> On Thu, Aug 25, 2011 at 6:48 AM, surfcast23 <surfcast23@...> wrote:
>>
>> I am fairly new to programing and have a question regarding matplotlib. I
>> wrote a python script that reads in data from the outfile of another
>> program
>> then prints out the data from one column.
>>
>> f = open( 'myfile.txt','r')
>> for line in f:
>> if line != ' ':
>>  line = line.strip()       # Strips end of line character
>>  columns = line.split() # Splits into coloumn
>>  mass = columns[8]    # Column which contains mass values
>>  print(mass)
>>
>> What I now need to do is have matplotlib take the values printed in
>> 'mass'
>> and plot number versus mean mass. I have read the documents on the
>> matplotlib website, but they don't really address how to get data from a
>> script(or I just did not see it) If anyone can point me to some
>> documentation that explains how I do this it would be really appreciated.
>>  Thanks in advance
>>
>> --
>> View this message in context:
>> http://old.nabble.com/How-do-you-Plot-data-generated-by-a-python-script--tp32328822p32328822.html
>> Sent from the matplotlib - users mailing list archive at Nabble.com.
>>
>>
>> ------------------------------------------------------------------------------
>> EMC VNX: the world's simplest storage, starting under $10K
>> The only unified storage solution that offers unified management
>> Up to 160% more powerful than alternatives and 25% more efficient.
>> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
>> _______________________________________________
>> Matplotlib-users mailing list
>> Matplotlib-users@...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>>
> 
> ------------------------------------------------------------------------------
> EMC VNX: the world's simplest storage, starting under $10K
> The only unified storage solution that offers unified management 
> Up to 160% more powerful than alternatives and 25% more efficient. 
> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users@...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
> 
> 

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I wasn't quite able to follow exactly what you wanted to do but maybe this
will help. I am going to generate some "data" that I think sounds a bit like
yours, write it to a file, clearly you already have this. Then I am going to
read it back in and plot it, e.g.

import matplotlib.pyplot as plt
import numpy as np

# Generate some data a little like yours, I think? 
# print it to a file, i.e. I am making your myfile.txt
numrows = 100
numcols = 8
mass = np.random.normal(0, 1, (numrows  * numcols)).reshape(numrows,
numcols)
f = open("myfile.txt", "w")
for i in xrange(numrows):
    for j in xrange(numcols):
        print >>f,  mass[i,j],
    print >> f
f.close()    

# read the file back in
mass = np.loadtxt("myfile.txt")

# plot the 8th column
fig = plt.figure()
ax = fig.add_subplot(111)
ax.plot(mass[:,7], 'r-o')
ax.set_xlabel("Time")
ax.set_ylabel("Mass")
plt.show()


I wasn't clear on the mean bit, but that is easy to do with numpy, e.g. 

mean_mass = np.mean(mass[:,8])

etc.

Numpy et al is great for stuff like this.

Hope that helps,

Martin

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Hi Martin,

     Thank for the relpy.  What I have is a script that reads the data from
a large file then prints out the values listed in a particular column. What
I now need to do is have the information in that column plotted as the
number of rows vs. the mean value of all of the rows. What I have so far is 

import matplotlib.pyplot as plt

masses = []

f = open( 'myfile.txt','r')
f.readline()
for line in f:
 if line != ' ':      
    line = line.strip()          # Strips end of line character 
    columns = line.split()    # Splits into coloumn 
    mass = columns[8]      # Column which contains mass values
    mass = float(mass)
    masses.append(mass)
    print(mass)

plt.plot()
plt.show


I am thinking I can do something like 

'y runs fron 0 to n where n == len(masses) '
x = 'mass_avg = sum(masses)/len(masses)'

Problem is I don' tknow how to have matplotlib do it with out giving me an
error about dimentions. I would also like to do this with out having to
write and read from another file. I alos need to to be able to work on files
with ddifering numbers of rows.

Thanks





mdekauwe wrote:
> 
> I wasn't quite able to follow exactly what you wanted to do but maybe this
> will help. I am going to generate some "data" that I think sounds a bit
> like yours, write it to a file, clearly you already have this. Then I am
> going to read it back in and plot it, e.g.
> 
> import matplotlib.pyplot as plt
> import numpy as np
> 
> # Generate some data a little like yours, I think? 
> # print it to a file, i.e. I am making your myfile.txt
> numrows = 100
> numcols = 8
> mass = np.random.normal(0, 1, (numrows  * numcols)).reshape(numrows,
> numcols)
> f = open("myfile.txt", "w")
> for i in xrange(numrows):
>     for j in xrange(numcols):
>         print >>f,  mass[i,j],
>     print >> f
> f.close()    
> 
> # read the file back in
> mass = np.loadtxt("myfile.txt")
> 
> # plot the 8th column
> fig = plt.figure()
> ax = fig.add_subplot(111)
> ax.plot(mass[:,7], 'r-o')
> ax.set_xlabel("Time")
> ax.set_ylabel("Mass")
> plt.show()
> 
> 
> I wasn't clear on the mean bit, but that is easy to do with numpy, e.g. 
> 
> mean_mass = np.mean(mass[:,8])
> 
> etc.
> 
> Numpy et al is great for stuff like this.
> 
> Hope that helps,
> 
> Martin
> 
> 

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Hi,

Well the first bit about wanting a specific column and the last bit about
not wanting to print all the data in and read it back, you get that from the
example I gave you. If you paste what I wrote for you line by line it should
become clearer for you, additionally it avoids you have to write your own
parsing code.

As far as your plotting goes, unless you actually post what you are entering
in the script (exactly as you have it), then it is impossible to say. For
example

plt.plot()
plt.show

there is no way that is all you have? if it is, then of course you will get
a fail as you are asking matplotlib to plot but are not providing it with
any data to plot!

Perhaps I am being particularly dense but "What I now need to do is have the
information in that column plotted as the number of rows vs. the mean value
of all of the rows." means nothing to me. Sorry. What do you want on the X
and Y... do you mean you want to plot your individual column (8 i think you
called it) against the mean of all the other rows? If so I would expect you
would have a dimensions issue

Martin


-- 
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If I understand your question correctly, I may have a solution to your
problem. First of all, the statement below, when converted to Python
code, will generate an array of numbers the same length of your masses list.
> 'y runs fron 0 to n where n == len(masses) '
However, this statement will give you a single number:
> x = 'mass_avg = sum(masses)/len(masses)'
You will not be able to plot these two objects because of the different
sizes. If you are asking about a 'running' or cumulative mean, then you may
want to use the cumulative sum function from Numpy (cumsum). To convert this
into a cumulative average, you can do a simple division.

Below is a modification to your script that incorporates this averaging
technique. (I don't know why you want to print everything. Surely you can't
see all of the data as the file gets processed. It is also a very slow
operation... I'll just ignore those parts.)

import numpy as np
import matplotlib.pyplot as plt
f = open('myfile.txt')
f.next()    # You want to skip the first line, I guess.
mass = []
for line in f:
    # This will skip the lines that are spaces.
    if line.isspace(): continue
    # The strip function is unnecessary. The defalut for the split function
takes care of that.
    columns = line.split()
    # Don't call the float function every time. It's a waste.
    mass.append( columns[8] )
# Here we can convert the list of strings into an array of floats with the
dtype keyword.
mass = np.array( mass, dtype='float')
# Here's the cumulative average steps.
mass_sum = np.cumsum(mass)
mass_average = mass_sum/ np.arange(1, len(mass_sum) + 1)
# If you only plot one array or list of values, they are assumed to be the y
values.
# The x values in that case are the indices of the y value array.
plt.plot(mass_average)
plt.show()


Ryan


> Message: 5
> Date: Thu, 25 Aug 2011 11:15:57 -0700 (PDT)
> From: surfcast23 <surfcast23@...>
> Subject: Re: [Matplotlib-users] How do you Plot data generated by a
>        python script?
> To: matplotlib-users@...
> Message-ID: <32336570.post@...>
> Content-Type: text/plain; charset=us-ascii
>
>
> Hi Martin,
>
>     Thank for the relpy.  What I have is a script that reads the data from
> a large file then prints out the values listed in a particular column. What
> I now need to do is have the information in that column plotted as the
> number of rows vs. the mean value of all of the rows. What I have so far is
>
> import matplotlib.pyplot as plt
>
> masses = []
>
> f = open( 'myfile.txt','r')
> f.readline()
> for line in f:
>  if line != ' ':
>    line = line.strip()          # Strips end of line character
>    columns = line.split()    # Splits into coloumn
>    mass = columns[8]      # Column which contains mass values
>    mass = float(mass)
>    masses.append(mass)
>    print(mass)
>
> plt.plot()
> plt.show
>
>
> I am thinking I can do something like
>
> 'y runs fron 0 to n where n == len(masses) '
> x = 'mass_avg = sum(masses)/len(masses)'
>
> Problem is I don' tknow how to have matplotlib do it with out giving me an
> error about dimentions. I would also like to do this with out having to
> write and read from another file. I alos need to to be able to work on
> files
> with ddifering numbers of rows.
>
> Thanks
>
>
>
>
>
> mdekauwe wrote:
> >
> > I wasn't quite able to follow exactly what you wanted to do but maybe
> this
> > will help. I am going to generate some "data" that I think sounds a bit
> > like yours, write it to a file, clearly you already have this. Then I am
> > going to read it back in and plot it, e.g.
> >
> > import matplotlib.pyplot as plt
> > import numpy as np
> >
> > # Generate some data a little like yours, I think?
> > # print it to a file, i.e. I am making your myfile.txt
> > numrows = 100
> > numcols = 8
> > mass = np.random.normal(0, 1, (numrows  * numcols)).reshape(numrows,
> > numcols)
> > f = open("myfile.txt", "w")
> > for i in xrange(numrows):
> >     for j in xrange(numcols):
> >         print >>f,  mass[i,j],
> >     print >> f
> > f.close()
> >
> > # read the file back in
> > mass = np.loadtxt("myfile.txt")
> >
> > # plot the 8th column
> > fig = plt.figure()
> > ax = fig.add_subplot(111)
> > ax.plot(mass[:,7], 'r-o')
> > ax.set_xlabel("Time")
> > ax.set_ylabel("Mass")
> > plt.show()
> >
> >
> > I wasn't clear on the mean bit, but that is easy to do with numpy, e.g.
> >
> > mean_mass = np.mean(mass[:,8])
> >
> > etc.
> >
> > Numpy et al is great for stuff like this.
> >
> > Hope that helps,
> >
> > Martin
> >
> >
>
> --
> View this message in context:
> http://old.nabble.com/How-do-you-Plot-data-generated-by-a-python-script--tp32328822p32336570.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
>

Hi,

   I apologize if my explanation was less than clear. What I have is data in
a column that runs from row 1 to row 1268. In each each row there is a
number. For example

1
3
5
6
7
8
9

so I want  the y axis to run from 1 to 7 ( the number of rows) and the x
axis to be the average of the values in this case 5.57. I am having problems
with setting up the y-axis as well as the dimension   problem you addressed. 

 Is there a way I could have every value on the x axis the same? Say for the
above example have the x and y axis  be

7
6
5
4
3
2
1 
  5.75 5.57 5.57 5.75 5.57 5.57 5.75

 Which would be the number of rows vs the average value of the data in the
rows and then plot that?

Thanks again

Khary



mdekauwe wrote:
> 
> Hi,
> 
> Well the first bit about wanting a specific column and the last bit about
> not wanting to print all the data in and read it back, you get that from
> the example I gave you. If you paste what I wrote for you line by line it
> should become clearer for you, additionally it avoids you have to write
> your own parsing code.
> 
> As far as your plotting goes, unless you actually post what you are
> entering in the script (exactly as you have it), then it is impossible to
> say. For example
> 
> plt.plot()
> plt.show
> 
> there is no way that is all you have? if it is, then of course you will
> get a fail as you are asking matplotlib to plot but are not providing it
> with any data to plot!
> 
> Perhaps I am being particularly dense but "What I now need to do is have
> the information in that column plotted as the number of rows vs. the mean
> value of all of the rows." means nothing to me. Sorry. What do you want on
> the X and Y... do you mean you want to plot your individual column (8 i
> think you called it) against the mean of all the other rows? If so I would
> expect you would have a dimensions issue
> 
> Martin
> 
> 
> 

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Hi Ryan,

 I think your solution will work thank you!! I did get an error though it is

"   f.next()    # You want to skip the first line, I guess.
    AttributeError: '_io.TextIOWrapper' object has no attribute 'next' "

thank you 

Khary


rcnelson wrote:
> 
> If I understand your question correctly, I may have a solution to your
> problem. First of all, the statement below, when converted to Python
> code, will generate an array of numbers the same length of your masses
> list.
>> 'y runs fron 0 to n where n == len(masses) '
> However, this statement will give you a single number:
>> x = 'mass_avg = sum(masses)/len(masses)'
> You will not be able to plot these two objects because of the different
> sizes. If you are asking about a 'running' or cumulative mean, then you
> may
> want to use the cumulative sum function from Numpy (cumsum). To convert
> this
> into a cumulative average, you can do a simple division.
> 
> Below is a modification to your script that incorporates this averaging
> technique. (I don't know why you want to print everything. Surely you
> can't
> see all of the data as the file gets processed. It is also a very slow
> operation... I'll just ignore those parts.)
> 
> import numpy as np
> import matplotlib.pyplot as plt
> f = open('myfile.txt')
> f.next()    # You want to skip the first line, I guess.
> mass = []
> for line in f:
>     # This will skip the lines that are spaces.
>     if line.isspace(): continue
>     # The strip function is unnecessary. The defalut for the split
> function
> takes care of that.
>     columns = line.split()
>     # Don't call the float function every time. It's a waste.
>     mass.append( columns[8] )
> # Here we can convert the list of strings into an array of floats with the
> dtype keyword.
> mass = np.array( mass, dtype='float')
> # Here's the cumulative average steps.
> mass_sum = np.cumsum(mass)
> mass_average = mass_sum/ np.arange(1, len(mass_sum) + 1)
> # If you only plot one array or list of values, they are assumed to be the
> y
> values.
> # The x values in that case are the indices of the y value array.
> plt.plot(mass_average)
> plt.show()
> 
> 
> Ryan
> 
> 
>> Message: 5
>> Date: Thu, 25 Aug 2011 11:15:57 -0700 (PDT)
>> From: surfcast23 <surfcast23@...>
>> Subject: Re: [Matplotlib-users] How do you Plot data generated by a
>>        python script?
>> To: matplotlib-users@...
>> Message-ID: <32336570.post@...>
>> Content-Type: text/plain; charset=us-ascii
>>
>>
>> Hi Martin,
>>
>>     Thank for the relpy.  What I have is a script that reads the data
>> from
>> a large file then prints out the values listed in a particular column.
>> What
>> I now need to do is have the information in that column plotted as the
>> number of rows vs. the mean value of all of the rows. What I have so far
>> is
>>
>> import matplotlib.pyplot as plt
>>
>> masses = []
>>
>> f = open( 'myfile.txt','r')
>> f.readline()
>> for line in f:
>>  if line != ' ':
>>    line = line.strip()          # Strips end of line character
>>    columns = line.split()    # Splits into coloumn
>>    mass = columns[8]      # Column which contains mass values
>>    mass = float(mass)
>>    masses.append(mass)
>>    print(mass)
>>
>> plt.plot()
>> plt.show
>>
>>
>> I am thinking I can do something like
>>
>> 'y runs fron 0 to n where n == len(masses) '
>> x = 'mass_avg = sum(masses)/len(masses)'
>>
>> Problem is I don' tknow how to have matplotlib do it with out giving me
>> an
>> error about dimentions. I would also like to do this with out having to
>> write and read from another file. I alos need to to be able to work on
>> files
>> with ddifering numbers of rows.
>>
>> Thanks
>>
>>
>>
>>
>>
>> mdekauwe wrote:
>> >
>> > I wasn't quite able to follow exactly what you wanted to do but maybe
>> this
>> > will help. I am going to generate some "data" that I think sounds a bit
>> > like yours, write it to a file, clearly you already have this. Then I
>> am
>> > going to read it back in and plot it, e.g.
>> >
>> > import matplotlib.pyplot as plt
>> > import numpy as np
>> >
>> > # Generate some data a little like yours, I think?
>> > # print it to a file, i.e. I am making your myfile.txt
>> > numrows = 100
>> > numcols = 8
>> > mass = np.random.normal(0, 1, (numrows  * numcols)).reshape(numrows,
>> > numcols)
>> > f = open("myfile.txt", "w")
>> > for i in xrange(numrows):
>> >     for j in xrange(numcols):
>> >         print >>f,  mass[i,j],
>> >     print >> f
>> > f.close()
>> >
>> > # read the file back in
>> > mass = np.loadtxt("myfile.txt")
>> >
>> > # plot the 8th column
>> > fig = plt.figure()
>> > ax = fig.add_subplot(111)
>> > ax.plot(mass[:,7], 'r-o')
>> > ax.set_xlabel("Time")
>> > ax.set_ylabel("Mass")
>> > plt.show()
>> >
>> >
>> > I wasn't clear on the mean bit, but that is easy to do with numpy, e.g.
>> >
>> > mean_mass = np.mean(mass[:,8])
>> >
>> > etc.
>> >
>> > Numpy et al is great for stuff like this.
>> >
>> > Hope that helps,
>> >
>> > Martin
>> >
>> >
>>
>> --
>> View this message in context:
>> http://old.nabble.com/How-do-you-Plot-data-generated-by-a-python-script--tp32328822p32336570.html
>> Sent from the matplotlib - users mailing list archive at Nabble.com.
>>
>>
> 
> ------------------------------------------------------------------------------
> EMC VNX: the world's simplest storage, starting under $10K
> The only unified storage solution that offers unified management 
> Up to 160% more powerful than alternatives and 25% more efficient. 
> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users@...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
> 
> 

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Sent from the matplotlib - users mailing list archive at Nabble.com.

still don't quite get this, so you want for each column the average? and you
want to plot each of these averages? So a bar graph? with 8 bars?



surfcast23 wrote:
> 
> Hi,
> 
>    I apologize if my explanation was less than clear. What I have is data
> in a column that runs from row 1 to row 1268. In each each row there is a
> number. For example
> 
> 1
> 3
> 5
> 6
> 7
> 8
> 9
> 
> so I want  the y axis to run from 1 to 7 ( the number of rows) and the x
> axis to be the average of the values in this case 5.57. I am having
> problems with setting up the y-axis as well as the dimension   problem you
> addressed. 
> 
>  Is there a way I could have every value on the x axis the same? Say for
> the above example have the x and y axis  be
> 
> 7
> 6
> 5
> 4
> 3
> 2
> 1 
>   5.75 5.57 5.57 5.75 5.57 5.57 5.75
> 
>  Which would be the number of rows vs the average value of the data in the
> rows and then plot that?
> 
> Thanks again
> 
> Khary
> 
> 
> 
> mdekauwe wrote:
>> 
>> Hi,
>> 
>> Well the first bit about wanting a specific column and the last bit about
>> not wanting to print all the data in and read it back, you get that from
>> the example I gave you. If you paste what I wrote for you line by line it
>> should become clearer for you, additionally it avoids you have to write
>> your own parsing code.
>> 
>> As far as your plotting goes, unless you actually post what you are
>> entering in the script (exactly as you have it), then it is impossible to
>> say. For example
>> 
>> plt.plot()
>> plt.show
>> 
>> there is no way that is all you have? if it is, then of course you will
>> get a fail as you are asking matplotlib to plot but are not providing it
>> with any data to plot!
>> 
>> Perhaps I am being particularly dense but "What I now need to do is have
>> the information in that column plotted as the number of rows vs. the mean
>> value of all of the rows." means nothing to me. Sorry. What do you want
>> on the X and Y... do you mean you want to plot your individual column (8
>> i think you called it) against the mean of all the other rows? If so I
>> would expect you would have a dimensions issue
>> 
>> Martin
>> 
>> 
>> 
> 
> 

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Hi,

   there is only one column. so I want a plot of y and x. With y taking
values running from 0 to n  or 7 in my example and x as the average of the
values that are contained in the rows in my example it was 5.57.



mdekauwe wrote:
> 
> still don't quite get this, so you want for each column the average? and
> you want to plot each of these averages? So a bar graph? with 8 bars?
> 
> 
> 
> surfcast23 wrote:
>> 
>> Hi,
>> 
>>    I apologize if my explanation was less than clear. What I have is data
>> in a column that runs from row 1 to row 1268. In each each row there is a
>> number. For example
>> 
>> 1
>> 3
>> 5
>> 6
>> 7
>> 8
>> 9
>> 
>> so I want  the y axis to run from 1 to 7 ( the number of rows) and the x
>> axis to be the average of the values in this case 5.57. I am having
>> problems with setting up the y-axis as well as the dimension   problem
>> you addressed. 
>> 
>>  Is there a way I could have every value on the x axis the same? Say for
>> the above example have the x and y axis  be
>> 
>> 7
>> 6
>> 5
>> 4
>> 3
>> 2
>> 1 
>>   5.75 5.57 5.57 5.75 5.57 5.57 5.75
>> 
>>  Which would be the number of rows vs the average value of the data in
>> the rows and then plot that?
>> 
>> Thanks again
>> 
>> Khary
>> 
>> 
>> 
>> mdekauwe wrote:
>>> 
>>> Hi,
>>> 
>>> Well the first bit about wanting a specific column and the last bit
>>> about not wanting to print all the data in and read it back, you get
>>> that from the example I gave you. If you paste what I wrote for you line
>>> by line it should become clearer for you, additionally it avoids you
>>> have to write your own parsing code.
>>> 
>>> As far as your plotting goes, unless you actually post what you are
>>> entering in the script (exactly as you have it), then it is impossible
>>> to say. For example
>>> 
>>> plt.plot()
>>> plt.show
>>> 
>>> there is no way that is all you have? if it is, then of course you will
>>> get a fail as you are asking matplotlib to plot but are not providing it
>>> with any data to plot!
>>> 
>>> Perhaps I am being particularly dense but "What I now need to do is have
>>> the information in that column plotted as the number of rows vs. the
>>> mean value of all of the rows." means nothing to me. Sorry. What do you
>>> want on the X and Y... do you mean you want to plot your individual
>>> column (8 i think you called it) against the mean of all the other rows?
>>> If so I would expect you would have a dimensions issue
>>> 
>>> Martin
>>> 
>>> 
>>> 
>> 
>> 
> 
> 

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Perhaps someone else can help as I feel I am being particularly dense.

for i in xrange(numcols):
    ax.plot([np.mean(mass[:,7]) for i in xrange(numcols)], 
            np.arange(numcols), label=i) 

This gives you what I think you said, but really don't think this is what
you mean as it seems a strange thing to want to do.

sorry i couldn't be of more help


surfcast23 wrote:
> 
> Hi,
> 
>    there is only one column. so I want a plot of y and x. With y taking
> values running from 0 to n  or 7 in my example and x as the average of the
> values that are contained in the rows in my example it was 5.57.
> 
> 
> 
> mdekauwe wrote:
>> 
>> still don't quite get this, so you want for each column the average? and
>> you want to plot each of these averages? So a bar graph? with 8 bars?
>> 
>> 
>> 
>> surfcast23 wrote:
>>> 
>>> Hi,
>>> 
>>>    I apologize if my explanation was less than clear. What I have is
>>> data in a column that runs from row 1 to row 1268. In each each row
>>> there is a number. For example
>>> 
>>> 1
>>> 3
>>> 5
>>> 6
>>> 7
>>> 8
>>> 9
>>> 
>>> so I want  the y axis to run from 1 to 7 ( the number of rows) and the x
>>> axis to be the average of the values in this case 5.57. I am having
>>> problems with setting up the y-axis as well as the dimension   problem
>>> you addressed. 
>>> 
>>>  Is there a way I could have every value on the x axis the same? Say for
>>> the above example have the x and y axis  be
>>> 
>>> 7
>>> 6
>>> 5
>>> 4
>>> 3
>>> 2
>>> 1 
>>>   5.75 5.57 5.57 5.75 5.57 5.57 5.75
>>> 
>>>  Which would be the number of rows vs the average value of the data in
>>> the rows and then plot that?
>>> 
>>> Thanks again
>>> 
>>> Khary
>>> 
>>> 
>>> 
>>> mdekauwe wrote:
>>>> 
>>>> Hi,
>>>> 
>>>> Well the first bit about wanting a specific column and the last bit
>>>> about not wanting to print all the data in and read it back, you get
>>>> that from the example I gave you. If you paste what I wrote for you
>>>> line by line it should become clearer for you, additionally it avoids
>>>> you have to write your own parsing code.
>>>> 
>>>> As far as your plotting goes, unless you actually post what you are
>>>> entering in the script (exactly as you have it), then it is impossible
>>>> to say. For example
>>>> 
>>>> plt.plot()
>>>> plt.show
>>>> 
>>>> there is no way that is all you have? if it is, then of course you will
>>>> get a fail as you are asking matplotlib to plot but are not providing
>>>> it with any data to plot!
>>>> 
>>>> Perhaps I am being particularly dense but "What I now need to do is
>>>> have the information in that column plotted as the number of rows vs.
>>>> the mean value of all of the rows." means nothing to me. Sorry. What do
>>>> you want on the X and Y... do you mean you want to plot your individual
>>>> column (8 i think you called it) against the mean of all the other
>>>> rows? If so I would expect you would have a dimensions issue
>>>> 
>>>> Martin
>>>> 
>>>> 
>>>> 
>>> 
>>> 
>> 
>> 
> 
> 

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No problem thanks for helping

mdekauwe wrote:
> 
> Perhaps someone else can help as I feel I am being particularly dense.
> 
> for i in xrange(numcols):
>     ax.plot([np.mean(mass[:,7]) for i in xrange(numcols)], 
>             np.arange(numcols), label=i) 
> 
> This gives you what I think you said, but really don't think this is what
> you mean as it seems a strange thing to want to do.
> 
> sorry i couldn't be of more help
> 
> 
> surfcast23 wrote:
>> 
>> Hi,
>> 
>>    there is only one column. so I want a plot of y and x. With y taking
>> values running from 0 to n  or 7 in my example and x as the average of
>> the values that are contained in the rows in my example it was 5.57.
>> 
>> 
>> 
>> mdekauwe wrote:
>>> 
>>> still don't quite get this, so you want for each column the average? and
>>> you want to plot each of these averages? So a bar graph? with 8 bars?
>>> 
>>> 
>>> 
>>> surfcast23 wrote:
>>>> 
>>>> Hi,
>>>> 
>>>>    I apologize if my explanation was less than clear. What I have is
>>>> data in a column that runs from row 1 to row 1268. In each each row
>>>> there is a number. For example
>>>> 
>>>> 1
>>>> 3
>>>> 5
>>>> 6
>>>> 7
>>>> 8
>>>> 9
>>>> 
>>>> so I want  the y axis to run from 1 to 7 ( the number of rows) and the
>>>> x axis to be the average of the values in this case 5.57. I am having
>>>> problems with setting up the y-axis as well as the dimension   problem
>>>> you addressed. 
>>>> 
>>>>  Is there a way I could have every value on the x axis the same? Say
>>>> for the above example have the x and y axis  be
>>>> 
>>>> 7
>>>> 6
>>>> 5
>>>> 4
>>>> 3
>>>> 2
>>>> 1 
>>>>   5.75 5.57 5.57 5.75 5.57 5.57 5.75
>>>> 
>>>>  Which would be the number of rows vs the average value of the data in
>>>> the rows and then plot that?
>>>> 
>>>> Thanks again
>>>> 
>>>> Khary
>>>> 
>>>> 
>>>> 
>>>> mdekauwe wrote:
>>>>> 
>>>>> Hi,
>>>>> 
>>>>> Well the first bit about wanting a specific column and the last bit
>>>>> about not wanting to print all the data in and read it back, you get
>>>>> that from the example I gave you. If you paste what I wrote for you
>>>>> line by line it should become clearer for you, additionally it avoids
>>>>> you have to write your own parsing code.
>>>>> 
>>>>> As far as your plotting goes, unless you actually post what you are
>>>>> entering in the script (exactly as you have it), then it is impossible
>>>>> to say. For example
>>>>> 
>>>>> plt.plot()
>>>>> plt.show
>>>>> 
>>>>> there is no way that is all you have? if it is, then of course you
>>>>> will get a fail as you are asking matplotlib to plot but are not
>>>>> providing it with any data to plot!
>>>>> 
>>>>> Perhaps I am being particularly dense but "What I now need to do is
>>>>> have the information in that column plotted as the number of rows vs.
>>>>> the mean value of all of the rows." means nothing to me. Sorry. What
>>>>> do you want on the X and Y... do you mean you want to plot your
>>>>> individual column (8 i think you called it) against the mean of all
>>>>> the other rows? If so I would expect you would have a dimensions issue
>>>>> 
>>>>> Martin
>>>>> 
>>>>> 
>>>>> 
>>>> 
>>>> 
>>> 
>>> 
>> 
>> 
> 
> 

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On Thu, Aug 25, 2011 at 10:01 PM, surfcast23 <surfcast23@...> wrote:
>
> Hi,
>
>   there is only one column. so I want a plot of y and x. With y taking
> values running from 0 to n  or 7 in my example and x as the average of the
> values that are contained in the rows in my example it was 5.57.

It seems to me that, as described, you want a plot that in which all
the bars are the same height (or width if it is a sideways bar chart),
in this case, 5.57.  That makes no sense.

What information is this plot is intended to provide the viewer?

Sorry everyone I totally missed something very important. What I need to do
is first bin the masses(which I don't know how to do). 

Chelonian wrote:
> 
> On Thu, Aug 25, 2011 at 10:01 PM, surfcast23 <surfcast23@...> wrote:
>>
>> Hi,
>>
>>   there is only one column. so I want a plot of y and x. With y taking
>> values running from 0 to n  or 7 in my example and x as the average of
>> the
>> values that are contained in the rows in my example it was 5.57.
> 
> It seems to me that, as described, you want a plot that in which all
> the bars are the same height (or width if it is a sideways bar chart),
> in this case, 5.57.  That makes no sense.
> 
> What information is this plot is intended to provide the viewer?
> 
> ------------------------------------------------------------------------------
> EMC VNX: the world's simplest storage, starting under $10K
> The only unified storage solution that offers unified management 
> Up to 160% more powerful than alternatives and 25% more efficient. 
> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users@...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
> 
> 

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You could always just save it as a list and then plot from there?

The average calculation is a bit redundant though, I'm sure theres a better
way of doing it

import pylab
import numpy
>>f = open( 'myfile.txt','r')
mass_store =[]
>>for line in f:
>>if line != ' ':
>> line = line.strip()       # Strips end of line character
>> columns = line.split() # Splits into coloumn
>> mass = columns[8]    # Column which contains mass values
>> print(mass)
     mass_store.append(mass)
>>
pylab.plot(range(len(mass_store)),mass_store)
pylab.plot(range(len(mass_store)),[numpy.mean(mass_store)]*len(mass_store))
pylab.show() (or pylab.savefig('location.png') to save )

Jonny

On 24 August 2011 19:46, surfcast23 <surfcast23@...> wrote:

>
> I am fairly new to programing and have a question regarding matplotlib. I
> wrote a python script that reads in data from the outfile of another
> program
> then prints out the data from one column.
>
> f = open( 'myfile.txt','r')
> for line in f:
> if line != ' ':
>  line = line.strip()       # Strips end of line character
>  columns = line.split() # Splits into coloumn
>  mass = columns[8]    # Column which contains mass values
>  print(mass)
>
> What I now need to do is have matplotlib take the values printed in 'mass'
> and plot the sum of the values over the average of the values. I have read
> the documents on the matplotlib website, but they are don't really address
> how to get data from a script(or I just did not see it). If anyone can
> point
> me to some documentation that explains how I do this it would be really
> appreciated.
>  Thanks in advance
>
> --
> View this message in context:
> http://old.nabble.com/How-do-you-Plot-data-generated-by-a-python-script--tp32328822p32328822.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
>
>
> ------------------------------------------------------------------------------
> EMC VNX: the world's simplest storage, starting under $10K
> The only unified storage solution that offers unified management
> Up to 160% more powerful than alternatives and 25% more efficient.
> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users@...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Can you describe what you want to do? So you now want a histogram?


surfcast23 wrote:
> 
> Sorry everyone I totally missed something very important. What I need to
> do is first bin the masses(which I don't know how to do). 
> 
> Chelonian wrote:
>> 
>> On Thu, Aug 25, 2011 at 10:01 PM, surfcast23 <surfcast23@...>
>> wrote:
>>>
>>> Hi,
>>>
>>>   there is only one column. so I want a plot of y and x. With y taking
>>> values running from 0 to n  or 7 in my example and x as the average of
>>> the
>>> values that are contained in the rows in my example it was 5.57.
>> 
>> It seems to me that, as described, you want a plot that in which all
>> the bars are the same height (or width if it is a sideways bar chart),
>> in this case, 5.57.  That makes no sense.
>> 
>> What information is this plot is intended to provide the viewer?
>> 
>> ------------------------------------------------------------------------------
>> EMC VNX: the world's simplest storage, starting under $10K
>> The only unified storage solution that offers unified management 
>> Up to 160% more powerful than alternatives and 25% more efficient. 
>> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
>> _______________________________________________
>> Matplotlib-users mailing list
>> Matplotlib-users@...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>> 
>> 
> 
> 

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Hi Martin,
 
  Sorry I am just responding. I have been busy getting ready for the
semester. What I need to do is first sort the values contained in the column
and assign them to bins. I then have to plot the number of bins by the mean
value in each bin. 



mdekauwe wrote:
> 
> Can you describe what you want to do? So you now want a histogram?
> 
> 
> surfcast23 wrote:
>> 
>> Sorry everyone I totally missed something very important. What I need to
>> do is first bin the masses(which I don't know how to do). 
>> 
>> Chelonian wrote:
>>> 
>>> On Thu, Aug 25, 2011 at 10:01 PM, surfcast23 <surfcast23@...>
>>> wrote:
>>>>
>>>> Hi,
>>>>
>>>>   there is only one column. so I want a plot of y and x. With y taking
>>>> values running from 0 to n  or 7 in my example and x as the average of
>>>> the
>>>> values that are contained in the rows in my example it was 5.57.
>>> 
>>> It seems to me that, as described, you want a plot that in which all
>>> the bars are the same height (or width if it is a sideways bar chart),
>>> in this case, 5.57.  That makes no sense.
>>> 
>>> What information is this plot is intended to provide the viewer?
>>> 
>>> ------------------------------------------------------------------------------
>>> EMC VNX: the world's simplest storage, starting under $10K
>>> The only unified storage solution that offers unified management 
>>> Up to 160% more powerful than alternatives and 25% more efficient. 
>>> Guaranteed. http://p.sf.net/sfu/emc-vnx-dev2dev
>>> _______________________________________________
>>> Matplotlib-users mailing list
>>> Matplotlib-users@...
>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>>> 
>>> 
>> 
>> 
> 
> 

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So you do want a histogram then? I assume you have all of this sorted then,
the histogram function is very good.

Cheers,

Martin
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On Sat, Sep 3, 2011 at 7:32 PM, mdekauwe <mdekauwe@...> wrote:
>
> So you do want a histogram then? I assume you have all of this sorted then,
> the histogram function is very good.

I don't think he's describing a histogram, because he is not plotting
frequency of observations on the y axis, but data values (means of
each bin).  I think what surfcast23 wants is just a bar graph.

So, surfcast23, I'd suggest you break it down into your two steps.
First, how will you average your values by bin?  You can probably
figure that out by writing it out on paper in pseudo-code and then
just putting it in Python. Then you'll have a list of means, and you
will pass that to the bar function in matplotlib, something like:

from pylab import *
ax = subplot(111)
x = arange(4)
your_list_of_means = [4,5,7,11] #computed earlier
bar(x, your_list_of_means)
xticks( x + 0.5,  ('Bin1', 'Bin2', 'Bin3', 'Bin4') )
show()

Che

surfcast23 wrote:

> 
> I am fairly new to programing and have a question regarding matplotlib. I
> wrote a python script that reads in data from the outfile of another program
> then prints out the data from one column.
> 
> f = open( 'myfile.txt','r')
> for line in f:
> if line != ' ':
>  line = line.strip()       # Strips end of line character
>  columns = line.split() # Splits into coloumn
>  mass = columns[8]    # Column which contains mass values
>  print(mass)
> 
> What I now need to do is have matplotlib take the values printed in 'mass'
> and plot number versus mean mass. I have read the documents on the
> matplotlib website, but they don't really address how to get data from a
> script(or I just did not see it) If anyone can point me to some
> documentation that explains how I do this it would be really appreciated.
>  Thanks in advance
> 

What I always do, is in my script I pickle the parameters used to run the 
script, and the results.  Usually I save a pair of dicts, one of the parameters, 
and one of the results.

Then to plot, just unpickle them and have at it.

Thanks for everyone responses and help
  
Che,

 You are correct on what I have to do. The problem is that I have a data set
with ~1250 so I cant' do the sorting or finding the mean by hand. I guess
what I need to to is to write a script that will sort the values, bin them,
and keep track of the number of values in each bin. Then find the mean value
in each bin. Then the scrip has to take the number of values in each bin and
plot that versus the mean of each bin. I apologies for the lack of clarity
in my earlier posts. It was unclear to me what exactly had to be done until
this weekend. 

 
 

Chelonian wrote:
> 
> On Sat, Sep 3, 2011 at 7:32 PM, mdekauwe <mdekauwe@...> wrote:
>>
>> So you do want a histogram then? I assume you have all of this sorted
>> then,
>> the histogram function is very good.
> 
> I don't think he's describing a histogram, because he is not plotting
> frequency of observations on the y axis, but data values (means of
> each bin).  I think what surfcast23 wants is just a bar graph.
> 
> So, surfcast23, I'd suggest you break it down into your two steps.
> First, how will you average your values by bin?  You can probably
> figure that out by writing it out on paper in pseudo-code and then
> just putting it in Python. Then you'll have a list of means, and you
> will pass that to the bar function in matplotlib, something like:
> 
> from pylab import *
> ax = subplot(111)
> x = arange(4)
> your_list_of_means = [4,5,7,11] #computed earlier
> bar(x, your_list_of_means)
> xticks( x + 0.5,  ('Bin1', 'Bin2', 'Bin3', 'Bin4') )
> show()
> 
> Che
> 
> ------------------------------------------------------------------------------
> Special Offer -- Download ArcSight Logger for FREE!
> Finally, a world-class log management solution at an even better 
> price-free! And you'll get a free "Love Thy Logs" t-shirt when you
> download Logger. Secure your free ArcSight Logger TODAY!
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> 
> 

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On Tue, Sep 6, 2011 at 12:01 PM, surfcast23 <surfcast23@...> wrote:

>
> Thanks for everyone responses and help
>
> Che,
>
>  You are correct on what I have to do. The problem is that I have a data
> set
> with ~1250 so I cant' do the sorting or finding the mean by hand. I guess
> what I need to to is to write a script that will sort the values, bin them,
> and keep track of the number of values in each bin. Then find the mean
> value
> in each bin. Then the scrip has to take the number of values in each bin
> and
> plot that versus the mean of each bin. I apologies for the lack of clarity
> in my earlier posts. It was unclear to me what exactly had to be done until
> this weekend.
>
>
>
I think you really need to read up on the NumPy documentation.  There are
functions that will do this for you.  NumPy can load/save data, sort them,
bin them, find means and standard deviations, etc...  You don't need to
re-invent the wheel.

Plus, you keep on talking about having a script for each part.  While it is
great that you like modularity, Python does support the use of functions,
and I would encourage you to use them.

Cheers,
Ben Root

>> The problem is that I have a data set
>> with ~1250 so I cant' do the sorting or finding the mean by hand.

That's not a problem--that's programming!  Even if you had a data set
with five items you should be in the mind set that "by hand" is an
18th century approach.  This will drive further progress in your
coding abilities.

> I think you really need to read up on the NumPy documentation.  There are
> functions that will do this for you.  NumPy can load/save data, sort them,
> bin them, find means and standard deviations, etc...  You don't need to
> re-invent the wheel.

Ben, that's a good idea.  The only thing here, though, is that
probably the OP would be well served in practicing Python basics and
learning how to think up procedures, write them down, and then put
them into Python code.  Re-inventing the wheel, *at least to learn*
could really be useful here.  I've also found that sometimes it is
easier to just reinvent a wheel than learn a library's API, at least
to get started.  Considering his task requires mostly just creating
lists based on conditionals and then doing some 5th grade math, he
might want to try it himself before he uses NumPy.  But of course he
can get there either way.

Che

Benjamin Root-2 wrote:
> 
> On Tue, Sep 6, 2011 at 12:01 PM, surfcast23 <surfcast23@...> wrote:
> 
>>
>> Thanks for everyone responses and help
>>
>> Che,
>>
>>  You are correct on what I have to do. The problem is that I have a data
>> set
>> with ~1250 so I cant' do the sorting or finding the mean by hand. I guess
>> what I need to to is to write a script that will sort the values, bin
>> them,
>> and keep track of the number of values in each bin. Then find the mean
>> value
>> in each bin. Then the scrip has to take the number of values in each bin
>> and
>> plot that versus the mean of each bin. I apologies for the lack of
>> clarity
>> in my earlier posts. It was unclear to me what exactly had to be done
>> until
>> this weekend.
>>
>>
>>
> I think you really need to read up on the NumPy documentation.  There are
> functions that will do this for you.  NumPy can load/save data, sort them,
> bin them, find means and standard deviations, etc...  You don't need to
> re-invent the wheel.
> 
> Plus, you keep on talking about having a script for each part.  While it
> is
> great that you like modularity, Python does support the use of functions,
> and I would encourage you to use them.
> 
> Cheers,
> Ben Root
> 
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Hi Ben,

  I will read up the numpy docs when I get some time. I am only writing one
script that will do everything sorry if I gave the impression of having
multiple scripts. 

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