matplotlib-users Mailing List for matplotlib (Page 5)

> I have a coordination system with some plotted dots connected with a
> line. Now I'd like to fill up the whole space between the line and the
> x-axis. It is the same as in a integral calculation:
> http://www.definicionabc.com/wp-content/uploads/Integral.png
> What I want to do is the same as the green color in the linked picture.

You can find an example in the matplotlib gallery
(http://matplotlib.org/gallery.html):

   http://matplotlib.org/examples/pylab_examples/fill_between_demo.html

The function you're looking for is ``fill_between``.

Cheers, Andreas.

Hi

2012/10/16 ra...@0x... <ra...@0x...>

> hi,
>
> I have a coordination system with some plotted dots connected with a
> line. Now I'd like to fill up the whole space between the line and the
> x-axis. It is the same as in a integral calculation:
> http://www.definicionabc.com/wp-content/uploads/Integral.png
> What I want to do is the same as the green color in the linked picture.
>
Give a look at fill_between. In the link you can find a demo
http://matplotlib.org/examples/pylab_examples/fill_between_demo.html
About the color, if you have the RGB color of the green you can pass it to
fill_between.

Is there a way to achieve that with matplotlib?
>
> thank you
>
Cheers


>
>
> ------------------------------------------------------------------------------
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>

hi,

I have a coordination system with some plotted dots connected with a
line. Now I'd like to fill up the whole space between the line and the
x-axis. It is the same as in a integral calculation:
http://www.definicionabc.com/wp-content/uploads/Integral.png
What I want to do is the same as the green color in the linked picture.

Is there a way to achieve that with matplotlib?

thank you

To plot a line using pyplot.plot you need an array/list of x coordinates
and an array/list of y coordinates.

So if you have:

data = [[64, 13], [66, 22], [68, 9], [70, 11], [72, 8], [74, 10], [76, 11],
            [78, 8], [80, 9], [82, 9], [84, 15], [86, 13], [88, 5], [90,
9], [92, 13],
            [94, 12], [96, 7]]

You can get a list of xs and a list of ys with:

xs, ys = zip(*data)

>From that point, it is as simple as doing:

import matplotlib.pyplot as plt
plt.plot(xs, ys)


Hope that helps,

Phil






On 16 October 2012 09:39, ra...@0x... <ra...@0x...> wrote:

> [[64, 13], [66, 22], [68, 9], [70, 11], [72, 8], [74, 10], [76, 11],
> [78, 8], [80, 9], [82, 9], [84, 15], [86, 13], [88, 5], [90, 9], [92,
> 13], [94, 12], [96, 7]]
>

Hi,

I have a 2d array like:

[[64, 13], [66, 22], [68, 9], [70, 11], [72, 8], [74, 10], [76, 11],
[78, 8], [80, 9], [82, 9], [84, 15], [86, 13], [88, 5], [90, 9], [92,
13], [94, 12], [96, 7]]

I'd like to plot a line/graph that goes through all those coordinates
specified in the array.

What I do:

for point in array:
	plot(point[0], point[1], 'bo-')

This draws the dots on the graph as desired - but it does not draw the
line between them.

Is the data format wrong?

thanks

On Tue, Oct 16, 2012 at 8:04 AM, T J <tj...@gm...> wrote:
> I'm interested in clipping the result of plt.contour (and
> plt.contourf) to a patch.  However, QuadContourSet does not have a
> set_clip_path() method.  Is there a way to do this?
>
> Here is an example plot that I have generated.
>
>    http://imgur.com/pybIf
>
> For the curious, it plots contours of a function on the 2-simplex.
> The way I've gone about computing this is, unfortunately, convoluted.
> I generate a regular grid in 2D and treat each point as a projection
> of a 3D probability vector into 2D.  Then, I invert the projection so
> that I have "distributions" and then compute the Z value for each
> point.  The contours are then calculated, but now, I need to clip
> everything outside the triangle, as only points within the triangle
> correspond to actual distributions.
>
> Is there a more direct way to calculate contours on a restricted set?
>
> Thanks.

The contour functions support masked regions. I think that might be
what you're looking for. Since the region you want to mask is a
triangle, maybe even use a masked triangulated contour plot? Here's
the call signature:
http://matplotlib.org/api/pyplot_api.html#matplotlib.pyplot.tricontour

Does that help?

-- 
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom

I'm interested in clipping the result of plt.contour (and
plt.contourf) to a patch.  However, QuadContourSet does not have a
set_clip_path() method.  Is there a way to do this?

Here is an example plot that I have generated.

   http://imgur.com/pybIf

For the curious, it plots contours of a function on the 2-simplex.
The way I've gone about computing this is, unfortunately, convoluted.
I generate a regular grid in 2D and treat each point as a projection
of a 3D probability vector into 2D.  Then, I invert the projection so
that I have "distributions" and then compute the Z value for each
point.  The contours are then calculated, but now, I need to clip
everything outside the triangle, as only points within the triangle
correspond to actual distributions.

Is there a more direct way to calculate contours on a restricted set?

Thanks.

On Mon, Oct 15, 2012 at 7:22 PM, Benjamin Root <ben...@ou...> wrote:
>
>
> On Mon, Oct 15, 2012 at 2:11 PM, Damon McDougall <dam...@gm...>
> wrote:
>>
>> I tried a `python setupegg.py develop` to diagnose a bug for someone.
>> Now my mpl git repo has magically appeared at the front of my
>> sys.path. Since I cleaned out the lib/matplotlib directory, I now get
>> import errors like "No module named matplotlib._path" because it's
>> looking in my git repo for all the modules. I've spent about an hour
>> trying to figure out what else might modified my sys.path and this is
>> the conclusion I've come to. I've nuked ~/.pip and ~/.ipython to no
>> avail.
>>
>> Did setupegg modify my sys.path? If so, how do I change it back?
>>
>
> setupegg develop does not modify the sys.path (at least, not permanently --
> not sure exactly what it does deep under the hood).  What it does is adds a
> .egg-lnk file in your site-packages directory to point to your source code
> tree.  Get rid of that .egg-lnk file, and you should be good to go.
>
> Ben Root
>

That had no affect.

I figured it out. easy_install edited a file called easy_install.pth
and added a bunch of directories.

Cheers for the help.

-- 
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom

On Mon, Oct 15, 2012 at 2:11 PM, Damon McDougall
<dam...@gm...>wrote:

> I tried a `python setupegg.py develop` to diagnose a bug for someone.
> Now my mpl git repo has magically appeared at the front of my
> sys.path. Since I cleaned out the lib/matplotlib directory, I now get
> import errors like "No module named matplotlib._path" because it's
> looking in my git repo for all the modules. I've spent about an hour
> trying to figure out what else might modified my sys.path and this is
> the conclusion I've come to. I've nuked ~/.pip and ~/.ipython to no
> avail.
>
> Did setupegg modify my sys.path? If so, how do I change it back?
>
>
setupegg develop does not modify the sys.path (at least, not permanently --
not sure exactly what it does deep under the hood).  What it does is adds a
.egg-lnk file in your site-packages directory to point to your source code
tree.  Get rid of that .egg-lnk file, and you should be good to go.

Ben Root

I tried a `python setupegg.py develop` to diagnose a bug for someone.
Now my mpl git repo has magically appeared at the front of my
sys.path. Since I cleaned out the lib/matplotlib directory, I now get
import errors like "No module named matplotlib._path" because it's
looking in my git repo for all the modules. I've spent about an hour
trying to figure out what else might modified my sys.path and this is
the conclusion I've come to. I've nuked ~/.pip and ~/.ipython to no
avail.

Did setupegg modify my sys.path? If so, how do I change it back?

-- 
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom

Hello,

The CFP for SciPy India 2012, to be held in IIT Bombay from December
27-29 is open.  Please spread the word!

Scipy.in is a conference providing opportunities to spread the use of
the Python programming language in the Scientific Computing community
in India. It provides a unique opportunity to interact with the "Who's
who" of the Python for Scientific Computing fraternity and learn,
understand, participate, and contribute to Scientific Computing using
Python. Attendees of the conference and participants of the sprints
planned will be able to access and review the tools available. They
will also be able to learn domain-specific applications and how the
tools apply to a plethora of application problems.

One of the goals of the conference is to combine education,
engineering, and science with computing through the medium of
Python. This conference also aims to spread the use of Python for
Scientific Computing in various fields and among different
communities.


Call for Papers
================

  We look forward to your submissions on the use of Python for
  Scientific Computing and Education. This includes pedagogy,
  exploration, modeling and analysis from both applied and
  developmental perspectives. We welcome contributions from academia
  as well as industry.

Submission of Papers
=====================

  If you wish to present your paper using this platform, please submit
  an abstract of 300 to 700 words describing the topic, including its
  relevance to scientific computing. Based on the number and quality
  of the submissions, the conference organizers will allot 10 - 30
  minutes for each accepted talk.

  In addition to these talks, there will be an open session of
  lightning talks, during which any attendee who wishes to talk on a
  pertinent topic is invited to do a presentation not exceeding five
  minutes in duration.

  If you wish to present a talk at the conference, please follow the
  guidelines below.

Submission Guidelines
======================
  - Submit your proposals at sc...@fo...
  - Submissions whose main purpose is to promote a commercial product
or service will be refused.
  - All accepted proposals must be presented at the SciPy conference
by at least one author.

Important Dates
================

  - Call for proposals start: 27th September 2012, Thursday
  - Call for proposals end: 1st November 2012, Thursday
  - List of accepted proposals will be published: 19th November 2012, Monday
  - Submission of first presentation: 10th December 2012, Monday
  - Submission of final presentation(with final changes): 20th
December 2012, Thursday

Thanks Eric-
I ran this in python 2.6, and got this error:

Traceback (most recent call last):
  File "/Users/laura/Desktop/Bohlen10_12_12.py", line 3, in <module>
    import matplotlib.pyplot as plt
ImportError: No module named matplotlib.pyplot
>>> 

So, I am installing matplotlib again.




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On 2012/10/13 6:41 PM, lulu wrote:
> oh brother -- so now I've got to deal w/ Apple...

I don't see what Apple has to do with it.

> okay thanks.
>
> here's where I am.
>
> I've downloaded matplotlib, numpy, python 2.7.3, xcode and macports to
> simply plot this oh-so-simple code!
> Which is:
>
> Curve fitting with python and pylab
> #import the lib
> from pylab import *
> # assuming this data set
> t = (0,5,10,15,20,25,30,35,40,50)
> V = (1,7,14,15,16,22,25,27,28,30)
> #show the data
> plot(t, v, linewidth=2.0)
> #assume an order
> N = ?
> #find the coefficient of the polynomial
> coeffs = polyfit(t,v,N)
> #get the polynomial output for the input
> best = polyval(coeffs, t)
> #print the coefficients
> print(coeffs)
>
> I have written it like this in python 2.6:
>
> import os,sys
> import numpy
> #import pylab
>
> t = (0,5,10,15,20,25,30,35,40,50)
> V = (1,7,14,15,16,22,25,27,28,30)
> #scipy.plot(t,v,linewidth=2.0)
>
> n = 4
> coeffs = numpy.polyfit(t,V,n)
>
> best = numpy.polyval(coeffs,t)
>
> print coeffs
> print best
>
> and when I run the program, I get this:
> [ -1.68165168e-05   1.71262071e-03  -6.39152514e-02   1.59163337e+00
>     1.04578755e+00]
> [  1.04578755   7.60964036  12.11505162  15.46811522  18.32267732
>    21.08033633  23.89044289  26.6500999   29.0041625   29.81368631]
>
> when I run in 2.7.3 it looks like this:
> import os,sys
> import numpy as np
> import pylab
>
> t = (0,5,10,15,20,25,30,35,40,50)
> V = (1,7,14,15,16,22,25,27,28,30)
> #scipy.plot(t,v,linewidth=2.0)
>
> n = 4
> coeffs = numpy.polyfit(t,V,n)
>
> best = numpy.polyval(coeffs,t)
>
> print coeffs
> print best
>
>
> And my error msg is this:
> ImportError: No module named numpy
>
> any ideas?

The problem in python 2.7 starts with the fact that numpy is evidently 
not installed for 2.7.  Each version of python has its own set of 
libraries, so installing numpy for 2.6 does nothing for 2.7, and vice-versa.

> What I'm looking for is a visual.

With python 2.6, you may be almost there.  Try running this in python 2.6:

import numpy as np
import matplotlib.pyplot as plt

t = (0,5,10,15,20,25,30,35,40,50)
V = (1,7,14,15,16,22,25,27,28,30)
plt.plot(t, V, linewidth=2.0)

n = 4
coeffs = np.polyfit(t,V,n)

best = np.polyval(coeffs,t)

print coeffs
print best
plt.show()


Eric

oh brother -- so now I've got to deal w/ Apple...
okay thanks.

here's where I am.

I've downloaded matplotlib, numpy, python 2.7.3, xcode and macports to
simply plot this oh-so-simple code!
Which is:

Curve fitting with python and pylab
#import the lib
from pylab import *
# assuming this data set
t = (0,5,10,15,20,25,30,35,40,50)
V = (1,7,14,15,16,22,25,27,28,30)
#show the data
plot(t, v, linewidth=2.0)
#assume an order
N = ?
#find the coefficient of the polynomial
coeffs = polyfit(t,v,N)
#get the polynomial output for the input
best = polyval(coeffs, t)
#print the coefficients
print(coeffs)

I have written it like this in python 2.6:

import os,sys
import numpy 
#import pylab

t = (0,5,10,15,20,25,30,35,40,50)
V = (1,7,14,15,16,22,25,27,28,30)
#scipy.plot(t,v,linewidth=2.0)

n = 4
coeffs = numpy.polyfit(t,V,n)

best = numpy.polyval(coeffs,t)

print coeffs
print best

and when I run the program, I get this:
[ -1.68165168e-05   1.71262071e-03  -6.39152514e-02   1.59163337e+00
   1.04578755e+00]
[  1.04578755   7.60964036  12.11505162  15.46811522  18.32267732
  21.08033633  23.89044289  26.6500999   29.0041625   29.81368631]

when I run in 2.7.3 it looks like this:
import os,sys
import numpy as np
import pylab

t = (0,5,10,15,20,25,30,35,40,50)
V = (1,7,14,15,16,22,25,27,28,30)
#scipy.plot(t,v,linewidth=2.0)

n = 4
coeffs = numpy.polyfit(t,V,n)

best = numpy.polyval(coeffs,t)

print coeffs
print best


And my error msg is this:
ImportError: No module named numpy

any ideas?
What I'm looking for is a visual.





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On 2012/10/13 6:11 PM, lulu wrote:
> okay - thanks...
> so I did THAT - but am prompted for a password.
> I assumed the password would be my administrator, but it isn't.....
> Where would I find that?

Sudo is prompting you for your user password.  Depending on how your 
machine was set up, you might not have permission to use sudo.  Sudo is 
a mechanism for allowing users to do things that would otherwise require 
the highest level of permissions.

Eric

>
> btw - thank you ALL for all the help!
>
>
>
> --
> View this message in context: http://matplotlib.1069221.n5.nabble.com/installating-matplotlib-in-mac-10-7-4-for-python-2-6-tp39436p39446.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
> ------------------------------------------------------------------------------
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> Deploy New Relic app performance management and know exactly
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> _______________________________________________
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> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

okay - thanks...
so I did THAT - but am prompted for a password.
I assumed the password would be my administrator, but it isn't.....
Where would I find that?

btw - thank you ALL for all the help!



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On 2012/10/13 6:03 PM, lulu wrote:
> Okay --
> I opened terminal, typed 'python' to being, then typed:

There's the problem: don't type "python" to begin, just type the lines 
below directly in the terminal window.

Eric

> sudo port install py26-python
> sudo port install py26-matplotlib
>
> I recieved syntax errors:
>
>>>> sudo port install py26-python
>    File "<stdin>", line 1
>      sudo port install py26-python
>              ^
> SyntaxError: invalid syntax
>>>> sudo port install py26-matplotlib
>    File "<stdin>", line 1
>      sudo port install py26-matplotlib
>
>
>
> --
> View this message in context: http://matplotlib.1069221.n5.nabble.com/installating-matplotlib-in-mac-10-7-4-for-python-2-6-tp39436p39444.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
> ------------------------------------------------------------------------------
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> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
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> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Okay --
I opened terminal, typed 'python' to being, then typed:
sudo port install py26-python 
sudo port install py26-matplotlib

I recieved syntax errors:

>>> sudo port install py26-python 
  File "<stdin>", line 1
    sudo port install py26-python 
            ^
SyntaxError: invalid syntax
>>> sudo port install py26-matplotlib
  File "<stdin>", line 1
    sudo port install py26-matplotlib



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No. Not in the python shell. In the regular shell.

On 10/13/12 11:43 PM, lulu wrote:
> okay - that sounds easy enough.
> I am working in the python shell -- just type these lines at the top of my
> code?
>
>
>
> --
> View this message in context: http://matplotlib.1069221.n5.nabble.com/installating-matplotlib-in-mac-10-7-4-for-python-2-6-tp39436p39442.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
> ------------------------------------------------------------------------------
> Don't let slow site performance ruin your business. Deploy New Relic APM
> Deploy New Relic app performance management and know exactly
> what is happening inside your Ruby, Python, PHP, Java, and .NET app
> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
> http://p.sf.net/sfu/newrelic-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

okay - that sounds easy enough.
I am working in the python shell -- just type these lines at the top of my
code?



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in the terminal type:

sudo port install py26-python
sudo port install py26-matplotlib

and there you are!

On Sun, Oct 14, 2012 at 5:37 AM, lulu <lau...@me...> wrote:
> Okay -- that's good to know.
> I've just installed macports, but am not sure how to go about using
> matplotlib in my python 2.6 - or even 2.7 at this point becuase I installed
> that version too.
> I also installed xcode....
>
> geez - this is getting soooo confusing!
>
>
>
> --
> View this message in context: http://matplotlib.1069221.n5.nabble.com/installating-matplotlib-in-mac-10-7-4-for-python-2-6-tp39436p39440.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
> ------------------------------------------------------------------------------
> Don't let slow site performance ruin your business. Deploy New Relic APM
> Deploy New Relic app performance management and know exactly
> what is happening inside your Ruby, Python, PHP, Java, and .NET app
> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
> http://p.sf.net/sfu/newrelic-dev2dev
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

Okay -- that's good to know.
I've just installed macports, but am not sure how to go about using
matplotlib in my python 2.6 - or even 2.7 at this point becuase I installed
that version too.
I also installed xcode....

geez - this is getting soooo confusing!



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On Sun, Oct 14, 2012 at 3:42 AM, Paul Tremblay <pau...@gm...> wrote:
> You don't want to install for python 2.6. Python 2.6 is out of date at
> this point.

I disagree. Most of the tools and libraries for 2.6 are available for
2.7 and viceversa (they are quite similar), but not all of them. In
fact, in my experience, I have found more compatibility for 2.6 than
for 2.7.

In most practical scenarios, they will be just the same, but if all
your work has been developed in 2.6 and you are not aware of the
changes introduced by 2.7, it may be unwise to switch uncarefully
(even though the Python deprecation policy is supposed to minimise
this kind of problems).


Lulu, if you just want something that works, you can use macports
(macports.org), and install everything from there. Easy and fail
proof.

I've installed from the http://matplotlib.org site.
I have also looked on other discussions, and am finding that I need to
install Xcode, which I am trying to do now.

the work I have made on python 2.6 - will this be transferrable to 2.7?

Honestly, I am just trying to plot a very simple x/y program.

Thanks



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On 10/13/12 8:55 PM, lulu wrote:
> I have tried to install matplotlib but received an error msg that I need
> python 2.7.
> I installed 2.7, then installed matplotlib for appropriate os, but recieved
> error msg when I ran my program.  Then, searching, I am seeing there are
> some that have installed matplotlib for mac osx and python 2.6
>
> Can someone direct me to a useful link to learn more, or does someone have
> info about this, like what I am overlooking or missing?
> thanks,
> lulu
>
>
>
>
Where are you downloading the installation from? It sounds like the 
problem lies with the installation.

You don't want to install for python 2.6. Python 2.6 is out of date at 
this point.

If you have xcode tools installed, you could install from source, but 
that requires a bit more work.

Paul