from:"Alexa Villaume"

Re: [Matplotlib-users] Axes Scaling

2012-02-17 Thread Alexa Villaume

Hi François,

Why would it be a waste to multiply the values in an array by the scaling
factors?

Can you provide an example of your code so everybody can get a better idea
of what you're doing now?

Thanks,
Alexa

On Fri, Feb 17, 2012 at 9:07 AM, Francois Lemery
francois.lem...@gmail.comwrote:

 Hi Python World!

 I currently have a 2D array: A[i][j] which I can plot very nicely
 using the contourf function.  However, in this plot, the axes span
 from (0, i) and (0, j).
 I would like to multiply each axes by a scaling constant- thereby
 turning the array element values into physical quantities (distance
 and time for example).
 Could anyone help me with this?  I've looked around, but so far the
 only solution I have found is to create a new set of arrays with these
 scaling factors included.  I can do this, but I feel as though it
 would be a waste.

 --
 Thanks!
 François


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[Matplotlib-users] Labeling Contours

2012-02-15 Thread Alexa Villaume

Hi Everybody,


I'm trying to label the contours of my contour plot following this example
-

http://matplotlib.sourceforge.net/examples/pylab_examples/contour_label_demo.html


My actual code looks like this -


import matplotlib

matplotlib.use('PDF')

from pylab import *

import numpy as np


# Define the surface of the plot

metals=np.arange(-3.0, 1.1, 0.1)

U=np.arange(-6.0, 0.25, 0.25)


# Create the arrays that the data will be stored in

o3=np.zeros([25,41])

o2=np.zeros([25,41])

c3=np.zeros([25,41])

mg2=np.zeros([25,41])

c3=np.zeros([25,41])

si2=np.zeros([25,41])

s3=np.zeros([25,41])


CS=plt.contourf(metals, U, o3, levels=[o3col-nsig*o3sig, o3col+nsig*o3sig],
alpha=0.50, colors='#f88534')

CS=plt.contourf(metals, U, o2, levels=[o2col-nsig*o2sig, o2col+nsig*o2sig],
alpha=0.50, colors='#f2f34f')

CS=plt.contourf(metals, U, c3, levels=[c3col-nsig*c3sig, c3col+nsig*c3sig],
alpha=0.50, colors='#93d3f3')

CS=plt.contourf(metals, U, mg2, levels=[mg2col-nsig*mg2sig,
mg2col+nsig*mg2sig], alpha=0.50, colors='#ff536d')

CS=plt.contourf(metals, U, s3, levels=[s3col-nsig*s3sig, s3col+nsig*s3sig],
alpha=0.50, colors='#83c460')

CS=plt.contourf(metals, U, si2, levels=[si2col-nsig*si2sig,
si2col+nsig*si2sig], alpha=0.50, colors='black')



# Trying to label the contours


fmt = {}

strs = [ 'O III', 'O II', 'C III', 'Mg II', 'S III', 'Si II']

for l,s in zip(levels, strs):

fmt[l] = s

 plt.clabel(CS,levels[::2],inline=True,fmt=fmt,fontize=14)


But I get an error that says that levels is not defined. What should I do?


Thanks!

Alexa
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Re: [Matplotlib-users] Labeling Contours

2012-02-15 Thread Alexa Villaume

Hi Eric,

Thanks for your help, I'm still really new to python and matplotlib. I've
got my labels defined but now I'm having another problem with the
formatting.

I'm doing -

CS1.level=[14.07, 14.27]

plt.clabel(CS1,CS1.level[::2],inline=True,fmt='OIII',fontize=14)


Where I get a type error that says that not all string arguments are
getting converted during formatting. This is the full error,

Traceback (most recent call last):

  File ContourAttempt.py, line 81, in module

plt.clabel(CS1,CS1.level[::2],inline=True,fmt='OIII',fontize=14) #
Something wrong with formmating

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/pyplot.py, line
2176, in clabel

ret = ax.clabel(CS, *args, **kwargs)

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/axes.py, line
7326, in clabel

return CS.clabel(*args, **kwargs)

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/contour.py,
line 217, in clabel

self.labels(inline,inline_spacing)

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/contour.py,
line 624, in labels

lw = self.get_label_width(lev, self.labelFmt, fsize)

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/contour.py,
line 284, in get_label_width

lev = self.get_text(lev, fmt)

  File /Users/alexavillaume/src/matplotlib/lib/matplotlib/contour.py,
line 344, in get_text

return fmt%lev

TypeError: not all arguments converted during string formatting



On Wed, Feb 15, 2012 at 10:34 AM, Eric Firing efir...@hawaii.edu wrote:

 On 02/15/2012 10:15 AM, Alexa Villaume wrote:
  Hi Everybody,
 
 
  I'm trying to label the contours of my contour plot following this
  example -
 
 
 http://matplotlib.sourceforge.net/examples/pylab_examples/contour_label_demo.html
 
 
  My actual code looks like this -
 
 
  import matplotlib
 
  matplotlib.use('PDF')
 
  frompylab import*
 
  import numpy as np
 
 
  # Define the surface of the plot
 
  metals=np.arange(-3.0, 1.1, 0.1)
 
  U=np.arange(-6.0, 0.25, 0.25)
 
 
  # Create the arrays that the data will be stored in
 
  o3=np.zeros([25,41])
 
  o2=np.zeros([25,41])
 
  c3=np.zeros([25,41])
 
  mg2=np.zeros([25,41])
 
  c3=np.zeros([25,41])
 
  si2=np.zeros([25,41])
 
  s3=np.zeros([25,41])
 
 
  CS=plt.contourf(metals, U, o3, levels=[o3col-nsig*o3sig,
  o3col+nsig*o3sig], alpha=0.50, colors='#f88534')
 
  CS=plt.contourf(metals, U, o2, levels=[o2col-nsig*o2sig,
  o2col+nsig*o2sig], alpha=0.50, colors='#f2f34f')
 
  CS=plt.contourf(metals, U, c3, levels=[c3col-nsig*c3sig,
  c3col+nsig*c3sig], alpha=0.50, colors='#93d3f3')
 
  CS=plt.contourf(metals, U, mg2, levels=[mg2col-nsig*mg2sig,
  mg2col+nsig*mg2sig], alpha=0.50, colors='#ff536d')
 
  CS=plt.contourf(metals, U, s3, levels=[s3col-nsig*s3sig,
  s3col+nsig*s3sig], alpha=0.50, colors='#83c460')
 
  CS=plt.contourf(metals, U, si2, levels=[si2col-nsig*si2sig,
  si2col+nsig*si2sig], alpha=0.50, colors='black')
 
 
 
  # Trying to label the contours
 
 
  fmt = {}
 
  strs = [ 'O III', 'O II', 'C III', 'Mg II', 'S III', 'Si II']
 
  for l,s in zip(levels, strs):
 
  fmt[l] = s
 
  plt.clabel(CS,levels[::2],inline=True,fmt=fmt,fontize=14)
 
 
  But I get an error that says that levels is not defined. What should I
 do?

 Define levels!

 In your call to clabel, you are referencing a global levels which you
 did not define; what you did define is the levels attribute of each CS
 object.  So probably what you want is something like:

 plt.clabel(CS, CS.levels[::2],inline=True,fmt=fmt,fontize=14)

 but you need one such call for each CS you create, if you want all of
 them labeled.


 Eric

 
 
  Thanks!
 
  Alexa
 
 
 
 
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Re: [Matplotlib-users] Colobar and change axis x and y labels

2012-02-15 Thread Alexa Villaume

Try using 'xticks' and 'yticks', those commands let you define the location
and label fo your tick marks.

Example -

xticks( arange(5), ('0', '100', '200', '300', '400') )


Where the argument in arange is the number of tick labels you're making

On Wed, Feb 15, 2012 at 10:56 AM, pythp...@root-1.de wrote:

 Hello,

 I don't know if I can ask questions concerning matplotlib problems
 in this email list ... just let me know that this is not the right
 place, if.

 I have an image, which I can read and put into a figure. The image
 has axis and I can even save the image. I have two issues:

 1. Since it is an 512 x 512 pixel image, the x and y axis labels
 go from 0 to 500. However, I don't want these labels, I want to
 change them to, e.g., 0 .. 3400 and 0 .. 3400. How can I do this?

 2. I tried to attach a color bar to the right of the image but without
 success. Have you a hint?

 The code can be found below, it is a rather simple one.

 Thanks in advance for any help.

 Pythphys.


 *

 import scipy
 import matplotlib.pyplot as plt
 import matplotlib.image as mpimg
 import numpy as np

 file_path  = path_to_file

 # The binary file is read
 data = scipy.fromfile(file=file_path,dtype=scipy.int16)
 data = data.byteswap()
 # The file has 512 x 512 pixel
 data.shape = 512, 512

 # The following code works fine. However, I still need:
 #
 # - Color bar (plt.color() does not work)
 # - The x and y labels are 0 ... 500 and 0 ... 500 = I want to change
 these labels. How.


 fig   = plt.figure()
 frame = plt.subplot(111)
 frame.imshow(data)
 frame.axis()
 plt.xlabel('X (nm)')
 plt.ylabel('Y (nm)')
 plt.savefig(image)


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Re: [Matplotlib-users] Fwd: Re: Colobar and change axis x and y labels

2012-02-15 Thread Alexa Villaume

You need to use the 'imshow' function to display an image in greyscale. You
have to turn your image into an array of values and then put that array
into imshow with the colormap set to grey.

I don't know about how to do a plane fit...

On Wed, Feb 15, 2012 at 9:18 PM, pythp...@root-1.de wrote:


 Thanks Alexa and Jerzy.

 other questions? ... Here they are:

 - changing to an image grey scale only needs ... what?

 - I need to do a 'plane fit' of the image. Does matplotlib
   have some routine for this? Or shall I use other math libs?

 Thanks again.


   Le 16/02/2012 02:20, Alexa Villaume a écrit :
   Try using 'xticks' and 'yticks', those commands let you define the
   location and label fo your tick marks.
 
   This *alone* will not do, the image might be scaled badly. Add extent.
 
   Try this:
 
   fig   = plt.figure()
   frame = plt.subplot(111)
   im=frame.imshow(data,extent=[0,3400,0,3400])
   plt.xticks([0,3400]); plt.yticks([0,3400])
   plt.xlabel('X (nm)')
   plt.ylabel('Y (nm)')
   plt.colorbar(im)
 
   plt.show()
 
   ==
 
   Jerzy Karczmarczuk
   Caen, France
 
 
 
  
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Re: [Matplotlib-users] I cannot download the matplotlib

2012-02-13 Thread Alexa Villaume

Hi Fadhah,

This is the tutorial I used to install matplotlib on my computer and it was
really easy to understand and follow the steps -

http://www.thisisthegreenroom.com/2011/installing-python-numpy-scipy-matplotlib-and-ipython-on-lion/

If that doesn't help with your problems describe what they are more
specifically and you'll be able to get better help

Cheers,
Alexa


On Sun, Feb 12, 2012 at 5:39 PM, love ali a.fa...@yahoo.com wrote:

 Dear all,

 I use the mac OS X 10.6.8 and I try to install the matplotlib but I cannot
 run it in my computer so could you please help me?


 Thanks,

 Fadhah

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Re: [Matplotlib-users] I cannot download the matplotlib

2012-02-13 Thread Alexa Villaume

Hi,

1.) For terminal just go to your finder and type in terminal in the
search bar, terminal should pop up
2.) I don't think you do, you might need to change the path variable to
point to the python you have. There are instructions for that in the
tutorial I linked to.
3.) I'm not sure what you're asking
4.) What do you mean you can't find them on your computer?
Start a terminal window and type
'python'
This should bring you to the interactive python environment.
Then type,
'import numpy'
Does it successfully import or do you get an error message?

(Also, click Reply All to keep this conversation to the list
- Alexa

On Mon, Feb 13, 2012 at 10:11 AM, a.fa...@yahoo.com wrote:

 Hi Alex , thank you so much for your help. I have some questions:

 1- where can I find the terminal in my computer
 2- I have already had python 2.6.6 so do I need to delete it and start
 again.
 3- my mac is  os x 10.6.8 so do I need to clean it while it is already do
 not have much download.
 4- I download the scipy ,numpy and i have these modules successfully
 installed but I cannot find them in my computer.


 So could you help me ?

 Many thanks,

 Fadh

 ‏من جهاز الـ iPhone الخاص بي

 في 14/02/2012، الساعة 5:04 AM، كتب Alexa Villaume alexa7...@gmail.com:

 Hi Fadhah,

 This is the tutorial I used to install matplotlib on my computer and it
 was really easy to understand and follow the steps -


 http://www.thisisthegreenroom.com/2011/installing-python-numpy-scipy-matplotlib-and-ipython-on-lion/
 http://www.thisisthegreenroom.com/2011/installing-python-numpy-scipy-matplotlib-and-ipython-on-lion/

 If that doesn't help with your problems describe what they are more
 specifically and you'll be able to get better help

 Cheers,
 Alexa


 On Sun, Feb 12, 2012 at 5:39 PM, love ali  a.fa...@yahoo.com
 a.fa...@yahoo.com wrote:

 Dear all,

 I use the mac OS X 10.6.8 and I try to install the matplotlib but I
 cannot run it in my computer so could you please help me?


 Thanks,

 Fadhah

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Re: [Matplotlib-users] Alpha keyword not working with contourf

2012-02-12 Thread Alexa Villaume

(Sorry about not replying to list before. I usually have to be pretty
vigilant about not clicking Reply-All)

I made my figure a pdf and the transparency works fine. So thanks! Just
another quick question is it the Postscript language itself that doesn't
support transparency or the way mpl handles postscript files?

On Sat, Feb 11, 2012 at 10:48 AM, Eric Firing efir...@hawaii.edu wrote:

 On 02/11/2012 10:30 AM, Alexa Villaume wrote:

 Thanks for replying Eric.


 (You're welcome. But please keep replies on the list when they are
 potentially useful to others, as yours is.)



 Here is my minimal script -

 import matplotlib

 frompylab import*

 import numpy as np

 importos


 metals=np.arange(-3.0, 1.1, 0.1)

 U=np.arange(-6.0, 0.25, 0.25)

 o3=np.zeros([25,41])


 plt.contourf(metals, U, o3, levels=[o3col-nsig*o3sig], alpha=0.20,
 colors='blue')

 plt.savefig(CoutourPlot.ps)


 The Postscript language does not support transparency, so transparency is
 lost when you use the mpl postscript backend.  The way to work around this,
 if you really need to end up with a postscript file, is to save the file as
 pdf, and then use a converter program to render that as postscript.  (It
 might be a print-to-file or save-as option on your pdf display program,
 for example.  I don't know what is typically available on a Mac, but Macs
 have long been pdf-friendly.  In general, the need for ps files has been
 diminishing.  I almost never generate them any more.)

 Eric



 It plots fine except except there is no transparency in colors of the
 contour, it's like alpha is always set to 1.0

 On Sat, Feb 11, 2012 at 8:23 AM, Eric Firing efir...@hawaii.edu
 mailto:efir...@hawaii.edu wrote:

On 02/11/2012 07:40 AM, Alexa Villaume wrote:
  Hi All,
 
  I'm just getting started with matplotlib. I'm trying to make a
contour
  plot using contourf and have the different paths colored and semi
  transparent but the alpha keyword doesn't seem to do anything. I
googled
  around and found that other people have had this same problem but I
  didn't find a solution. Here's what I'm doing -
 
  contourf(metals, U, o3, levels=[o3col-nsig*o3sig, o3col+nsig*o3sig],
  alpha=0.20, colors='magenta')
 
  contourf(metals, U, o2, levels=[o2col-nsig*o2sig, o2col+nsig*o2sig],
  alpha=0.20, colors='blue')
 
  contourf(metals, U, c3, levels=[c3col-nsig*c3sig, c3col+nsig*c3sig],
  alpha=0.20, colors='green')
 
 
  To plot them all together.
 
  For reference my machine is running Mac OS X 10.6.8 and my version
 of
  matplotlib is 1.2.x
 
  Thanks!

Please provide a minimal but complete script that illustrates the
problem; describe what it is in the output that does not match your
expectations.  e.g.,

import numpy as np
import matplotlib.pyplot as plt
z = np.arange(20).reshape(4,5)
plt.contourf(z, levels=[2,3], alpha=0.2, colors='magenta')
plt.savefig(testcontourf_**alpha.png)

which produces a pale magenta stripe, as expected, with mpl from github
master.

Eric


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[Matplotlib-users] Alpha keyword not working with contourf

2012-02-11 Thread Alexa Villaume

Hi All,

I'm just getting started with matplotlib. I'm trying to make a contour plot
using contourf and have the different paths colored and semi transparent
but the alpha keyword doesn't seem to do anything. I googled around and
found that other people have had this same problem but I didn't find a
solution. Here's what I'm doing -

contourf(metals, U, o3, levels=[o3col-nsig*o3sig, o3col+nsig*o3sig], alpha=
0.20, colors='magenta')

contourf(metals, U, o2, levels=[o2col-nsig*o2sig, o2col+nsig*o2sig], alpha=
0.20, colors='blue')

contourf(metals, U, c3, levels=[c3col-nsig*c3sig, c3col+nsig*c3sig], alpha=
0.20, colors='green')


To plot them all together.
For reference my machine is running Mac OS X 10.6.8 and my version of
matplotlib is 1.2.x

Thanks!
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[Matplotlib-users] Trouble with reading 2d array

2011-08-29 Thread Alexa Villaume

Hi there,

I have a 2d array that I'd like to contour. The plot isn't turning out right
and I think it's because the array isn't be read in correctly.

It's a 25x41 array that is in a text file. I have tried using genfromtxt and
the asciitable module to read the data in and neither gives the correct
output.

Does anyone know of any command either specific for reading in 2d arrays or
is able to handle 2d arrays?

Thanks,
Alexa
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[Matplotlib-users] Defining coordinates for contour plot

2011-08-20 Thread Alexa Villaume

Hello,

I'm trying to make a contour plot and I'm running into problems when
specifying the coordinates for the plot. I do,

#Specify coordinates of the surface
delta0=1.0
delta1=0.1
x=np.arange(0.0, 6.0, delta0)
y=np.arange(-1.0,3.0, delta1)

#Contour the arrays.
plt.contour(x, y, O3, O3Level)

And I get an error that says,

TypeError: Length of x must be number of columns in z,
and length of y must be number of rows.

I don't understand how I'm supposed to get the coordinates for the plot that
I want and make x and y the same shape as z. Any suggestions?

Thanks,
Alexa
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