matplotlib-users Mailing List for matplotlib

On 07/02/2011 02:37 AM, Xavier Gnata wrote:
> Hi,
>
> I'm use to compile the mpl git tree but I get an error with the current one:
>
>
> running build_ext
> building 'matplotlib.backends._tkagg' extension
> C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2
> -Wall -fPIC
>
> compile options: '-DPY_ARRAY_UNIQUE_SYMBOL=MPL_ARRAY_API
> -DPYCXX_ISO_CPP_LIB=1 -I/usr/include/tcl8.5
>    -I/usr/include/tcl8.5 -I/usr/local/include -I/usr/include -I.
> -I/usr/local/lib/python2.7/dist-packages/numpy/core/include -Isrc
> -Iagg24/include -I.
> -I/usr/local/lib/python2.7/dist-packages/numpy/core/include
> -I/usr/include/freetype2 -I/usr/local/include -I/usr/include -I.
> -I/usr/include/python2.7 -c'
> gcc: CXX/cxxextensions.c
> gcc: no input files
> sh: -I/usr/include/tcl8.5: not found
> gcc: no input files
> sh: -I/usr/include/tcl8.5: not found
> error: Command "gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv
> -O2 -Wall -fPIC -DPY_ARRAY_UNIQUE_SYMBOL=MPL_ARRAY_API
> -DPYCXX_ISO_CPP_LIB=1 -I/usr/include/tcl8.5
>    -I/usr/include/tcl8.5 -I/usr/local/include -I/usr/include -I.
> -I/usr/local/lib/python2.7/dist-packages/numpy/core/include -Isrc
> -Iagg24/include -I.
> -I/usr/local/lib/python2.7/dist-packages/numpy/core/include
> -I/usr/include/freetype2 -I/usr/local/include -I/usr/include -I.
> -I/usr/include/python2.7 -c CXX/cxxextensions.c -o
> build/temp.linux-x86_64-2.7/CXX/cxxextensions.o" failed with exit status 127
>
> Is it a known issue?

This is now fixed by 984d83ed9 in v1.0.x-maint and master.

Eric

>
> Xavier

On Fri, Jul 1, 2011 at 10:02 PM, JonBL <jc....@bi...> wrote:

>
> I've used Add/Remove Software to install
> python-matplotlib-0.98.5.2-2.fc10(i386) and
> python-matplotlib-tk-0.98.5.2-2.fc10(i386) on my fedora 10 box, plus 11
> dependencies, including Tkinter. Some matplotlib examples, eg
> pylab_examples
> Examples/arctest.py works nicely, but many do not as presented.
>
> Example api Examples/barchart_demo raises the following traceback when
> executed as-is:
>
> [jon@einstein matplotlib-examples]$ ./barchart.py
> Traceback (most recent call last):
>  File "./barchart.py", line 18, in <module>
>    error_kw=dict(elinewidth=6, ecolor='pink'))
>  File "/usr/lib/python2.5/site-packages/matplotlib/pyplot.py", line 1656,
> in bar
>    ret =  gca().bar(*args, **kwargs)
>  File "/usr/lib/python2.5/site-packages/matplotlib/axes.py", line 4075, in
> bar
>    r.update(kwargs)
>  File "/usr/lib/python2.5/site-packages/matplotlib/artist.py", line 548, in
> update
>    raise AttributeError('Unknown property %s'%k)
> AttributeError: Unknown property error_kw
>
> (I've copied the example code into script barchart.py, and run it from
> there.)
>
> The problem line is:
>
> rects1 = plt.bar(ind, menMeans, width,
>                    color='r',
>                    yerr=menStd,
>                    error_kw=dict(elinewidth=6, ecolor='pink'))
>
> If I replace this with:
>
> rects1 = plt.bar(ind, menMeans, width,
>                    color='r',
>                    yerr=menStd)
>
> and do the same thing for the rects2 statement, the demonstration then
> presents the bar chart.
>
> The problem seems to lie somewhere with the error_kw arg being passed to
> method plt.bar. Is there something else I need to do to get the provided
> examples to work as coded?
>
> TIA,
>  Jon
>

Jon,

The examples on the website are for version 1.0.1, which is a couple of
years older than version 0.98.  Many examples utilizes new features that
have since been added to matplotlib.

Also, as a side note, Fedora 10 has stopped receiving updates of any kind
about 2 years ago.  This also means security updates.

Ben Root

On 1 July 2011 14:35, Francois Lemery <fra...@gm...> wrote:
> Hello,
>
> I am interested in producing a 4 dimensional plot to represent some data.
>
> I picture this as looking like a normal 3d scatter plot with datapoints
> varying in a color scale which depends on a fourth column of data.
>
> Could anyone help me with this- I have searched google and the matplotlib
> website and have only found some documentation for a MatLab solution bywhich
> I am not interested.
>
> Thank you kindly!
> -Francois

How about this?

from mpl_toolkits.mplot3d import Axes3D
import matplotlib.pyplot as plt
import numpy as np

fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')

x = np.random.standard_normal(100)
y = np.random.standard_normal(100)
z = np.random.standard_normal(100)
c = np.random.standard_normal(100)

ax.scatter(x, y, z, c=c, cmap=plt.hot())
plt.show()

Angus.
-- 
AJC McMorland
Post-doctoral research fellow
Neurobiology, University of Pittsburgh

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Hi,

I'm use to compile the mpl git tree but I get an error with the current one:


running build_ext
building 'matplotlib.backends._tkagg' extension
C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 
-Wall -fPIC

compile options: '-DPY_ARRAY_UNIQUE_SYMBOL=MPL_ARRAY_API 
-DPYCXX_ISO_CPP_LIB=1 -I/usr/include/tcl8.5
  -I/usr/include/tcl8.5 -I/usr/local/include -I/usr/include -I. 
-I/usr/local/lib/python2.7/dist-packages/numpy/core/include -Isrc 
-Iagg24/include -I. 
-I/usr/local/lib/python2.7/dist-packages/numpy/core/include 
-I/usr/include/freetype2 -I/usr/local/include -I/usr/include -I. 
-I/usr/include/python2.7 -c'
gcc: CXX/cxxextensions.c
gcc: no input files
sh: -I/usr/include/tcl8.5: not found
gcc: no input files
sh: -I/usr/include/tcl8.5: not found
error: Command "gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv 
-O2 -Wall -fPIC -DPY_ARRAY_UNIQUE_SYMBOL=MPL_ARRAY_API 
-DPYCXX_ISO_CPP_LIB=1 -I/usr/include/tcl8.5
  -I/usr/include/tcl8.5 -I/usr/local/include -I/usr/include -I. 
-I/usr/local/lib/python2.7/dist-packages/numpy/core/include -Isrc 
-Iagg24/include -I. 
-I/usr/local/lib/python2.7/dist-packages/numpy/core/include 
-I/usr/include/freetype2 -I/usr/local/include -I/usr/include -I. 
-I/usr/include/python2.7 -c CXX/cxxextensions.c -o 
build/temp.linux-x86_64-2.7/CXX/cxxextensions.o" failed with exit status 127

Is it a known issue?

Xavier

Dear Chris,

> - can the native macos backend be used for animation?

Yes.

> What's the
> equivalent of gobject.idle_add or gobject.timeout_add?

If you use the recent backend-independent animation code, you won't need those. See examples/animation/simple_anim.py on github for an example (this code is not yet in an official release). However, blitting won't work, so you'll need to switch that off.

> Anything special needed for the blitting approach to work?

Currently it won't work with the MacOSX backend. For blitting to work with the MacOSX backend, we won't just need changes to the backend code (which is relatively straightforward) but also to the upstream lib/matplotlib/animation.py code. We will need to rethink the logic of blitting with animation, in particular when to store the figure to be blitted, and when to do the actual blitting. In the current version of lib/matplotlib/animation.py, the figure to be blitted gets stored after the figure is modified but before the screen is updated. With the other backends, this results in the unmodified figure being stored; with the MacOSX backend, this results in the modified figure being stored, so if you then blit it you will see an incorrect background.

--Michiel.


> 
> - What needs to be done to get WXAgg blitting? I have code
> like this:
> ...
> matplotlib.use('WXAgg')
> ...
> def update():
>     ...
>     # restore, blit etc
>     wx.WakeUpIdle()
> 
> ...
> wx.EVT_IDLE(wx.GetApp(), update)
> ...
> 
> On Linux this draws the first screen and pauses. If I move
> the mouse
> around I see the updates. As soon as I stop, so do the
> updates. What
> am I missing? (BTW I get the same behaviour from
> animation_blit_wx.py
> from the examples page). This is 1.0.1 on Linux, although
> I'm still
> using 0.99.1 as well.
> 
> thanks for any help,
> 
> cheers, chris
> 
> 
> 
> 
> 
> -- 
> Chris Higgins, Omnisense Ltd, 3rd Floor, St. Andrews
> House,
> 59 St Andrews Street, Cambridge, CB2 3BZ
> Office: +44 (0) 1223 651394
> Mobile: +44 (0) 780 490 8562
> Skype: chiggins99
> http://www.omnisense.co.uk
> 
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> Registered number: 6779286.
> Registered office: St. Andrews House, 59 St Andrews Street,
> Cambridge, CB2 3BZ
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> 

I've used Add/Remove Software to install
python-matplotlib-0.98.5.2-2.fc10(i386) and
python-matplotlib-tk-0.98.5.2-2.fc10(i386) on my fedora 10 box, plus 11
dependencies, including Tkinter. Some matplotlib examples, eg pylab_examples
Examples/arctest.py works nicely, but many do not as presented.

Example api Examples/barchart_demo raises the following traceback when
executed as-is:

[jon@einstein matplotlib-examples]$ ./barchart.py
Traceback (most recent call last):
  File "./barchart.py", line 18, in <module>
    error_kw=dict(elinewidth=6, ecolor='pink'))
  File "/usr/lib/python2.5/site-packages/matplotlib/pyplot.py", line 1656,
in bar
    ret =  gca().bar(*args, **kwargs)
  File "/usr/lib/python2.5/site-packages/matplotlib/axes.py", line 4075, in
bar
    r.update(kwargs)
  File "/usr/lib/python2.5/site-packages/matplotlib/artist.py", line 548, in
update
    raise AttributeError('Unknown property %s'%k)
AttributeError: Unknown property error_kw

(I've copied the example code into script barchart.py, and run it from
there.) 

The problem line is:

rects1 = plt.bar(ind, menMeans, width,
                    color='r',
                    yerr=menStd,
                    error_kw=dict(elinewidth=6, ecolor='pink'))

If I replace this with:

rects1 = plt.bar(ind, menMeans, width,
                    color='r',
                    yerr=menStd)

and do the same thing for the rects2 statement, the demonstration then
presents the bar chart.

The problem seems to lie somewhere with the error_kw arg being passed to
method plt.bar. Is there something else I need to do to get the provided
examples to work as coded?

TIA,
  Jon
-- 
View this message in context: http://old.nabble.com/Exceptions-on-Some-Demos-tp31977899p31977899.html
Sent from the matplotlib - users mailing list archive at Nabble.com.

On 07/01/2011 11:34 AM, Brian Blais wrote:
> I was playing with interpolation, and this little script does something weird with interpolation.  for N<30000 everything is ok.  after 30000 it is white...it draws the image, but then every point from 30000 on is white (so with N=60000 the plot is half white).  matplotlib 1.01 from enthought distribution 7.  am I doing something wrong?  seems to only affect interpolation nearest.
>

You are not doing anything wrong; this looks like a limitation in Agg, 
pertaining only to the horizontal, not the vertical.  I suspect 
something is being done with a signed 2-byte integer limit.  As a 
workaround, subsample your array when the x-dimension gets too big. 
Probably we should modify mpl to do that automatically so that we don't 
hit this limit.

Eric


>
> 		thanks!
>
> 			bb
>
> from pylab import *
>
> N=50000
>
> im=randn(20,N)
> figure(1)
>
> subplot(2,1,1)
> imshow(im,
>      aspect='auto',
>      )
>
> subplot(2,1,2)
> imshow(im,
>      cmap=cm.hot,
>      aspect='auto',
>      interpolation='nearest',
>      )
>
> draw()
>
>
>