matplotlib-users Mailing List for matplotlib

On 8/4/06, Daniel Kornhauser <kor...@re...> wrote:
> Hi:
>
> Just stared playing with matplotlib, I want to draw a polygon on top of
> an image to select a region of interest in the image.
> Does anybody have any example or advice on how to interactively draw a
> polygon with the mouse by placing it's vertices's one click at a time ?
> Another case that I have would be just to fill a region with a thick
> line, searched for a "doodle example" or a "paint example" but could not
> find them, any advice would be appreciated too.

Look in at the widget examples.  There is a new Lasso widget for
"doodling" and a RectangleSelector.

- Charlie

On 8/4/06, R. Padraic Springuel <R.S...@um...> wrote:
> After installing matplotlib from the Window's binaries (a process which
> goes off without a hitch), I get the following error when trying to use it:
>
> Python 2.4.2 (#67, Sep 28 2005, 12:41:11) [MSC v.1310 32 bit (Intel)] on
> win32
> Type "help", "copyright", "credits" or "license" for more information.
> >>> from pylab import *
> Traceback (most recent call last):
>    File "<stdin>", line 1, in ?
>    File "C:\Python24\lib\site-packages\pylab.py", line 1, in ?
>      from matplotlib.pylab import *
>    File "C:\Python24\lib\site-packages\matplotlib\pylab.py", line 200, in ?
>      from axes import Axes, PolarAxes
>    File "C:\Python24\lib\site-packages\matplotlib\axes.py", line 15, in ?
>      from axis import XAxis, YAxis
>    File "C:\Python24\lib\site-packages\matplotlib\axis.py", line 25, in ?
>      from font_manager import FontProperties
>    File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
> 990, in
> ?
>      fontManager = FontManager()
>    File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
> 835, in
> __init__
>      rebuild()
>    File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
> 828, in
> rebuild
>      self.ttfdict = createFontDict(self.ttffiles)
>    File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
> 456, in
> createFontDict
>      warnings.warn("Cannot handle unicode filenames %s"%fpath)
>    File "C:\Python24\lib\warnings.py", line 61, in warn
>      warn_explicit(message, category, filename, lineno, module, registry)
>    File "C:\Python24\lib\warnings.py", line 120, in warn_explicit
>      showwarning(message, category, filename, lineno)
>    File "C:\Python24\lib\warnings.py", line 127, in showwarning
>      file.write(formatwarning(message, category, filename, lineno))
>    File "C:\Python24\lib\warnings.py", line 133, in formatwarning
>      s =  "%s:%s: %s: %s\n" % (filename, lineno, category.__name__, message)
> UnicodeEncodeError: 'ascii' codec can't encode character u'\xfc' in
> position 55:
>   ordinal not in range(128)
>
> Now, while I consider myself reasonably competant at sorting out errors
> in python, I haven't a clue what this one means, let alone how to fix
> it.  Does anyone know what this means or how to fix it?

A unicode character in your font path?  Weird.  Try deleting your font
cache in your ~/.matplotlib folder.  On windows it is somewhere in
your home folder.

After installing matplotlib from the Window's binaries (a process which
goes off without a hitch), I get the following error when trying to use it:

Python 2.4.2 (#67, Sep 28 2005, 12:41:11) [MSC v.1310 32 bit (Intel)] on
win32
Type "help", "copyright", "credits" or "license" for more information.
>>> from pylab import *
Traceback (most recent call last):
   File "<stdin>", line 1, in ?
   File "C:\Python24\lib\site-packages\pylab.py", line 1, in ?
     from matplotlib.pylab import *
   File "C:\Python24\lib\site-packages\matplotlib\pylab.py", line 200, in ?
     from axes import Axes, PolarAxes
   File "C:\Python24\lib\site-packages\matplotlib\axes.py", line 15, in ?
     from axis import XAxis, YAxis
   File "C:\Python24\lib\site-packages\matplotlib\axis.py", line 25, in ?
     from font_manager import FontProperties
   File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
990, in
?
     fontManager = FontManager()
   File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
835, in
__init__
     rebuild()
   File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
828, in
rebuild
     self.ttfdict = createFontDict(self.ttffiles)
   File "C:\Python24\lib\site-packages\matplotlib\font_manager.py", line
456, in
createFontDict
     warnings.warn("Cannot handle unicode filenames %s"%fpath)
   File "C:\Python24\lib\warnings.py", line 61, in warn
     warn_explicit(message, category, filename, lineno, module, registry)
   File "C:\Python24\lib\warnings.py", line 120, in warn_explicit
     showwarning(message, category, filename, lineno)
   File "C:\Python24\lib\warnings.py", line 127, in showwarning
     file.write(formatwarning(message, category, filename, lineno))
   File "C:\Python24\lib\warnings.py", line 133, in formatwarning
     s =  "%s:%s: %s: %s\n" % (filename, lineno, category.__name__, message)
UnicodeEncodeError: 'ascii' codec can't encode character u'\xfc' in
position 55:
  ordinal not in range(128)

Now, while I consider myself reasonably competant at sorting out errors
in python, I haven't a clue what this one means, let alone how to fix
it.  Does anyone know what this means or how to fix it?
-- 

R. Padraic Springuel
Teaching Assistant
Department of Physics and Astronomy
University of Maine
Bennett 214
Office Hours: By Appointment only during the Summer

Hi:

Just stared playing with matplotlib, I want to draw a polygon on top of 
an image to select a region of interest in the image.
Does anybody have any example or advice on how to interactively draw a 
polygon with the mouse by placing it's vertices's one click at a time ?
Another case that I have would be just to fill a region with a thick 
line, searched for a "doodle example" or a "paint example" but could not 
find them, any advice would be appreciated too.

      

                                                                      
Daniel.

Hi all, i was wondering if any one has implemented a simplex drawring 
package for matplotlib, eg. for diagrams such as this 
http://www.santafe.edu/~dirk/ccant_wf2/img72.gif.


Thanks in advance
 - mo

On 8/4/06, Richard House <rm...@rh...> wrote:
> -----Original Message-----
> On Behalf Of Charlie Moad, Sent: 04 August 2006 14:34
> Subject: Re: [Matplotlib-users] Making the Axes Plot Area TransparentRatherthan having Color
>
> On 8/4/06, Richard House <rm...@rh...> wrote:
> > -----Original Message-----
> >  On Behalf Of Charlie Moad, Sent: 04 August 2006 13:59
> > Subject: Re: [Matplotlib-users] Making the Axes Plot Area Transparent
> > Ratherthan having Color
> >
> > On 8/4/06, Richard House <rm...@rh...> wrote:
> > > I am trying to make a transparent chart and have managed to make the frame area transparent using frameon(False). However I can't find out how to make the plot area background on the chart transparent, without using a graphics package to process the matplotlib produced image. I have searched the mailing list and documentation but haven't found any information on the subject.
> > > Can anyone offer any advice?
> >
> > gca().axesPatch.set_alpha(0.0)
> >
> > Thanks for that Charlie. It works, but removes the axes plot area border so the x and y axes have no solid line. Is there a simple way to avoid that or do I need to plot the axes as lines?
>
> I don't think I am seeing that effect.  I am attaching my output for this:
>
> figure(frameon=False)
> plot(rand(100))
> gca().axesPatch.set_alpha(0.0)
> savefig('out.png')
>
> Thanks again Charlie. Just had a few experiments. I wonder if we are dealing with difference platform/version behaviour? I was running WinXP, Python 2.4, Matplotlib 0.82 and your example code did not produce transparency for me. However the following code did but without the plot area border (example attached):
> #!/usr/bin/env python
> from pylab import *
> fig = figure()
> fig.set_frameon(False)
> plot(rand(100))
> gca().axesPatch.set_alpha(0.0)
> savefig('transparent.png')
>
> On upgrading to 0.87.3 (0.87.4 complains about numpy versions), and running this code, the png file produced does include a border, the same as in your output sample. The upgraded matplotlib also produces a plot area border in my own chart code, so the problem is solved.

Sounds like you got it working then.  Mpl 0.87.4 requires numpy-0.9.8.
 I think 0.87.3 requires 0.9.6, but I am starting to forget all the
number combinations.  Once numpy 1.0 is released, this mess should be
gone.

If you are just creating graphic images you could always send the legend
to a different figure, and then print both figures to file. You could
then munge a layout together for whatever document you are creating.

On Fri, 2006-08-04 at 16:03 +0200, Christian Meesters wrote:
> Hi,
> 
> As far I understand this a plot is per default covering the more or less whole 
> space. Now, is it possible to position a legend outside of a plot, e.g. on 
> the right of the plot. "legend" offers to supply the loc-argument with a 
> tuple to do that, but that doesn't create more space and hence most legends 
> will appear truncated. The only solution I came up with is to limit the 
> plotting area (using "axes") and to position the legend manually. Is there an 
> alternative?
> 
> TIA
> Cheers
> Christian
> 
> -------------------------------------------------------------------------
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-- 
Rick Albright
Senior Quantitvative Analyst
Indie Research, LLC
254 Witherspoon Street
Princeton, NJ 08542
(609)497-1030
ral...@in...

-----Original Message-----
On Behalf Of Charlie Moad, Sent: 04 August 2006 14:34
Subject: Re: [Matplotlib-users] Making the Axes Plot Area =
TransparentRatherthan having Color

On 8/4/06, Richard House <rm...@rh...> wrote:
> -----Original Message-----
>  On Behalf Of Charlie Moad, Sent: 04 August 2006 13:59
> Subject: Re: [Matplotlib-users] Making the Axes Plot Area Transparent=20
> Ratherthan having Color
>
> On 8/4/06, Richard House <rm...@rh...> wrote:
> > I am trying to make a transparent chart and have managed to make the =
frame area transparent using frameon(False). However I can't find out =
how to make the plot area background on the chart transparent, without =
using a graphics package to process the matplotlib produced image. I =
have searched the mailing list and documentation but haven't found any =
information on the subject.
> > Can anyone offer any advice?
>
> gca().axesPatch.set_alpha(0.0)
>
> Thanks for that Charlie. It works, but removes the axes plot area =
border so the x and y axes have no solid line. Is there a simple way to =
avoid that or do I need to plot the axes as lines?

I don't think I am seeing that effect.  I am attaching my output for =
this:

figure(frameon=3DFalse)
plot(rand(100))
gca().axesPatch.set_alpha(0.0)
savefig('out.png')

Thanks again Charlie. Just had a few experiments. I wonder if we are =
dealing with difference platform/version behaviour? I was running WinXP, =
Python 2.4, Matplotlib 0.82 and your example code did not produce =
transparency for me. However the following code did but without the plot =
area border (example attached):
#!/usr/bin/env python
from pylab import *
fig =3D figure()
fig.set_frameon(False)
plot(rand(100))
gca().axesPatch.set_alpha(0.0)
savefig('transparent.png')

On upgrading to 0.87.3 (0.87.4 complains about numpy versions), and =
running this code, the png file produced does include a border, the same =
as in your output sample. The upgraded matplotlib also produces a plot =
area border in my own chart code, so the problem is solved.
Many thanks.

>>>>> "Christian" == Christian Meesters <mee...@un...> writes:

    Christian> Hi, As far I understand this a plot is per default
    Christian> covering the more or less whole space. Now, is it
    Christian> possible to position a legend outside of a plot,
    Christian> e.g. on the right of the plot. "legend" offers to
    Christian> supply the loc-argument with a tuple to do that, but
    Christian> that doesn't create more space and hence most legends
    Christian> will appear truncated. The only solution I came up with
    Christian> is to limit the plotting area (using "axes") and to
    Christian> position the legend manually. Is there an alternative?

You have to do the layout yourself -- you can also use the
"subplots_adjust" to set the bottom, top, left, right, etc of the axes
which may be easier than using "axes" itself.

We could add some auto-layout capability as we do for the colorbar...

JDH

Christian Meesters wrote:
> Hi,
> 
> As far I understand this a plot is per default covering the more or less whole 
> space. Now, is it possible to position a legend outside of a plot, e.g. on 
> the right of the plot. "legend" offers to supply the loc-argument with a 
> tuple to do that, but that doesn't create more space and hence most legends 
> will appear truncated. The only solution I came up with is to limit the 
> plotting area (using "axes") and to position the legend manually. Is there an 
> alternative?
> 
> TIA
> Cheers
> Christian
> 

I think you have to fiddle with the axes (see figlegend_demo.py in the
examples folder). As far as I know, there is no such thing like
gnuplot's "set key out" switch.

cheer,
steve

-- 
Random number generation is the art of producing pure gibberish as
quickly as possible.

Hi,

As far I understand this a plot is per default covering the more or less whole 
space. Now, is it possible to position a legend outside of a plot, e.g. on 
the right of the plot. "legend" offers to supply the loc-argument with a 
tuple to do that, but that doesn't create more space and hence most legends 
will appear truncated. The only solution I came up with is to limit the 
plotting area (using "axes") and to position the legend manually. Is there an 
alternative?

TIA
Cheers
Christian

On 8/4/06, Richard House <rm...@rh...> wrote:
> -----Original Message-----
>  On Behalf Of Charlie Moad, Sent: 04 August 2006 13:59
> Subject: Re: [Matplotlib-users] Making the Axes Plot Area Transparent Ratherthan having Color
>
> On 8/4/06, Richard House <rm...@rh...> wrote:
> > I am trying to make a transparent chart and have managed to make the frame area transparent using frameon(False). However I can't find out how to make the plot area background on the chart transparent, without using a graphics package to process the matplotlib produced image. I have searched the mailing list and documentation but haven't found any information on the subject.
> > Can anyone offer any advice?
>
> gca().axesPatch.set_alpha(0.0)
>
> Thanks for that Charlie. It works, but removes the axes plot area border so the x and y axes have no solid line. Is there a simple way to avoid that or do I need to plot the axes as lines?

I don't think I am seeing that effect.  I am attaching my output for this:

figure(frameon=False)
plot(rand(100))
gca().axesPatch.set_alpha(0.0)
savefig('out.png')

-----Original Message-----
 On Behalf Of Charlie Moad, Sent: 04 August 2006 13:59
Subject: Re: [Matplotlib-users] Making the Axes Plot Area Transparent =
Ratherthan having Color

On 8/4/06, Richard House <rm...@rh...> wrote:
> I am trying to make a transparent chart and have managed to make the =
frame area transparent using frameon(False). However I can't find out =
how to make the plot area background on the chart transparent, without =
using a graphics package to process the matplotlib produced image. I =
have searched the mailing list and documentation but haven't found any =
information on the subject.
> Can anyone offer any advice?

gca().axesPatch.set_alpha(0.0)

Thanks for that Charlie. It works, but removes the axes plot area border =
so the x and y axes have no solid line. Is there a simple way to avoid =
that or do I need to plot the axes as lines?

On 8/4/06, Richard House <rm...@rh...> wrote:
> I am trying to make a transparent chart and have managed to make the frame area transparent using frameon(False). However I can't find out how to make the plot area background on the chart transparent, without using a graphics package to process the matplotlib produced image. I have searched the mailing list and documentation but haven't found any information on the subject.
> Can anyone offer any advice?

gca().axesPatch.set_alpha(0.0)

I am trying to make a transparent chart and have managed to make the =
frame area transparent using frameon(False). However I can't find out =
how to make the plot area background on the chart transparent, without =
using a graphics package to process the matplotlib produced image. I =
have searched the mailing list and documentation but haven't found any =
information on the subject.
Can anyone offer any advice?
Regards,
Richard

João Fonseca <joa...@ma...> writes:

> RuntimeError: Could not load facefile /System/Library/Fonts/ 
> LucidaGrande.dfont; Unknown_File_Format. I don't think there is a  
> problem with the font file, I checked this with Font Book and  
> everything is ok.

Apparently matplotlib doesn't understand dfont files. You could get
fondu (from e.g. darwinports) and convert the file into a bunch of ttf
files and put them somewhere that matplotlib looks (I guess the
matplotlib data path would work). A workaround is to edit your
$HOME/.matplotlib/matplotlibrc to force the default sans-serif font to
be Bitstream Vera Sans (and similarly Bitstream Vera Serif for serif
and Bitstream Vera Sans Mono for monospace), which are distributed
with matplotlib. Remove the ttffont.cache file from your .matplotlib
directory if the changes don't come into effect otherwise.

The subsystem that searches for fonts and the subsystem that uses
fonts should be synchronized to accept the same fonts; preferably by
improving the latter, but it would help to make the former as
selective as the latter.

-- 
Jouni

This seems to have worked. Thanks a lot!

Jo=E3o

On 4 Aug 2006, at 13:11, Charlie Moad wrote:

> On 8/4/06, Jo=E3o Fonseca <joa...@ma...> wrote:
>> I have compiled version 0.87.4 of matplotlib successfully but
>> whenever I try to plot anything I get the following font error:
>>
>> RuntimeError: Could not load facefile /System/Library/Fonts/
>> LucidaGrande.dfont; Unknown_File_Format. I don't think there is a
>> problem with the font file, I checked this with Font Book and
>> everything is ok.
>>
>> If I use axis('off') to turn off the axis, plots work fine but there
>> is obviously something wrong and I can't quite work it out.
>>
>> Can anyone help?
>
> Try deleting your ~/.matplotlib folder to clear you font cache.
>
> - Charlie

On 8/4/06, Jo=E3o Fonseca <joa...@ma...> wrote:
> I have compiled version 0.87.4 of matplotlib successfully but
> whenever I try to plot anything I get the following font error:
>
> RuntimeError: Could not load facefile /System/Library/Fonts/
> LucidaGrande.dfont; Unknown_File_Format. I don't think there is a
> problem with the font file, I checked this with Font Book and
> everything is ok.
>
> If I use axis('off') to turn off the axis, plots work fine but there
> is obviously something wrong and I can't quite work it out.
>
> Can anyone help?

Try deleting your ~/.matplotlib folder to clear you font cache.

- Charlie

I have compiled version 0.87.4 of matplotlib successfully but  
whenever I try to plot anything I get the following font error:

RuntimeError: Could not load facefile /System/Library/Fonts/ 
LucidaGrande.dfont; Unknown_File_Format. I don't think there is a  
problem with the font file, I checked this with Font Book and  
everything is ok.

If I use axis('off') to turn off the axis, plots work fine but there  
is obviously something wrong and I can't quite work it out.

Can anyone help?

I compiled matplotlib with freetype2 from fink (2.1.3-22) after  
unsuccessfully trying to compile it with 2.2.
I am compiling matplotlib because I needed scipy, for which I  
couldn't find a binary that would work on my MacBook. That meant I  
had to compile my own numpy, which in turn broke matplotlib.

Thanks,

Joao

Hi

I installed numpy-1.0b1 and scipy-0.5 (from source), and ran the test suites- 
both work fine.  I also have Numeric and numarray installed.  

Im now trying to install matplotlib-0.87.4, but get this error when doing 
"python setup.py build"   Why would it find the version of numpy to be 0?:  


import core -> failed: module compiled against version 90504 of C-API but this 
version of numpy is 0
import lib -> failed: No module named oldnumeric
import linalg -> failed: module compiled against version 90504 of C-API but 
this version of numpy is 0
import dft -> failed: module compiled against version 90504 of C-API but this 
version of numpy is 0
import random -> failed: numpy.dtype does not appear to be the correct type 
object
Segmentation fault

On 8/3/06, PGM <pgm...@gm...> wrote:
> But Greg, if it's only for that, try to put an empty label in front of the
> others:
> figure.gca().set_yticklabels(('', 'Tom', 'Dick', 'Harry', 'Slim', 'Jim'))
> That might do the trick

No, that didn't work.  Did the barh just not work well in my version?

On Thursday 03 August 2006 20:41, Gregory Pi=F1ero wrote:
> Another question, why are there only four bars showing up when I have
> 5 values and 5 labels?

???
On my machine, (matplotlib.__version__ =3D '0.87.4'), the script you posted=
=20
around 5PM (EST) works OK, five bars, five labels nicely placed (once=20
prepended with a fake one )...

Another question, why are there only four bars showing up when I have
5 values and 5 labels?