matplotlib-devel Mailing List for matplotlib

All,

I just submitted an update to backend_qt.py and backend_qt4.py.  Both updates remove the 'mainloop' flag from the 'show' function as
it is now handled automatically.

Essentially the qt event-loop will only be started by matplotlib if matplotlib was the one to create the qApp, if not then it is up
to the creator of the Qt qApp to start the event-loop when they are ready for it.  This allows for applications with embedded Qt
event loops to work with matplotlib.  I have run some test cases in a few different python environments (including the vanilla
python) and all seem to be working.  I have not, however tested this in the iPython environment (although I don't think that iPython
uses Qt, does it?).

Any feedback would be appreciated.

--James Evans

Aalok kapoor wrote:
> Hi all,
>
> I am using matplotlib-0.87.7, Basemap-0.9.3, Numpy-1.1 and agg backend.
> I am facing memory leak problems after running following script -
>
>
> import os, sys, time
> import cStringIO
> import Image
> import matplotlib
> matplotlib.use('Agg')
>
> import matplotlib.pylab as p
> import matplotlib.numerix as nx
> from matplotlib.toolkits.basemap import Basemap
>
> def get_image_bytes(width_fig, height_fig, str_img):
>     """Returns the bytes representing the image generated
>
>     The createImage method should be called before calling this method.
>
>     :Returns:
>         Byte data.
>     """
>     # Get the actual image data
>     f = cStringIO.StringIO()
>     dims = (width_fig, height_fig)
>     im = Image.fromstring("RGB", dims, str_img)
>     im.save(f, "JPEG")
>     return f.getvalue()
>
> def report_memory(i):
>     pid = os.getpid()
>     a2 = os.popen('ps -p %d -o rss,vsz,%%mem' % pid).readlines()
>     print i, '  ', a2[1],
>     return int(a2[1].split()[1])
>
>
>
> # take a memory snapshot on indStart and compare it with indEnd
> indStart, indEnd = 30, 150
> print '     rss   vsz    %mem'
> for i in range(indEnd):
>     p.figure(figsize=(float(640)/80.0,float(480)/80.0),
>              facecolor='w', edgecolor='w')
>     p.axes([0.0, 0.0, 1.0, 1.0])
>     map1 = Basemap(projection='cyl', lat_0=50, lon_0=-100,
>                     area_thresh=1000.)
>     # draw coastlines, country boundaries, fill continents.
>     map1.drawcoastlines(linewidth=.5)
>     map1.drawcountries()
>     map1.fillcontinents(color="#CEFFCE")
>     # draw the edge of the map projection region (the projection limb)
>     map1.drawmapboundary()
>     # compute the native map projection coordinates for cities.
>     lats, lons = ([18.728], [20.890])
>     x,y = map1(lons,lats)
>     # plot filled circles at the locations of the cities.
>     map1.plot(x,y,'bo')
>     canvas = p.get_current_fig_manager().canvas
>     agg = canvas.switch_backends \
>           (matplotlib.backends.backend_agg.FigureCanvasAgg)
>     agg.draw() # Takes ~.9 seconds
>     # get the image data
>     str_img = agg.tostring_rgb()
>     width_fig, height_fig = map(int, agg.figure.bbox.get_bounds()[2:])
>     p.cla()
>     p.close()
>     bytes = get_image_bytes(width_fig, height_fig, str_img)
>
>
>     val = report_memory(i)
>    # wait a few cycles for memory usage to stabilize
>     if i==indStart: start = val
>
> end = val
> print 'Average memory consumed per loop: %1.4fk bytes' % \
>       ((end-start)/float(indEnd-indStart))
>
>
>
>
> Here is the O/P
>
> $python memory_leak_map.py
>      rss    vsz    %mem
> 0    47272 50632  9.7
> 1    74412 77700 15.3
> 2    93960 97380 19.3
> 3    113308 116776 23.3
> 4    132824 136416 27.3
> 5    152352 155828 31.3
> 6    171860 175216 35.3
> 7    191372 194868 39.3
> 8    210872 214248 43.3
> 9    230336 233916 47.3
> 10    249732 253284 51.3
> 11    269252 272692 55.3
> 12    288680 292336 59.3
> 13    308108 311724 63.2
> 14    305160 331112 62.6
> 15    301096 350764 61.8
> 16    304884 370160 62.6
> 17    298276 389804 61.2
> 18    305876 409184 62.8
> 19    298316 428596 61.2
> 20    307856 448224 63.2
> 21    308004 467640 63.2
> 22    308844 487016 63.4
> 23    306260 506656 62.9
> 24    300612 526052 61.7
> Traceback (most recent call last):
>   File "memory_leak_map.py", line 41, in ?
>     area_thresh=1000.)
>   File 
> "/usr/local/lib/python2.4/site-packages/matplotlib/toolkits/basemap/basemap.py", 
> line 815, in __init__
>     self.riversegs = segments+segments2+segments3
> MemoryError
> Killed: 9
>
>
> Can someone please help me out solving this problem?
>
>
> Thanks
> -Aalok
>
Aaolk:  All your plots use the same map projection, yet you are 
initializing a new Basemap instance every time through the loop.  Try 
moving the line

    map1 = Basemap(projection='cyl', lat_0=50, lon_0=-100, 
area_thresh=1000.)

outside the loop.

-Jeff

-- 
Jeffrey S. Whitaker         Phone  : (303)497-6313
Meteorologist               FAX    : (303)497-6449
NOAA/OAR/PSD  R/PSD1        Email  : Jef...@no...
325 Broadway                Office : Skaggs Research Cntr 1D-124
Boulder, CO, USA 80303-3328 Web    : http://tinyurl.com/5telg

Hi all,

I am using matplotlib-0.87.7, Basemap-0.9.3, Numpy-1.1 and agg backend.
I am facing memory leak problems after running following script -


import os, sys, time
import cStringIO
import Image
import matplotlib
matplotlib.use('Agg')

import matplotlib.pylab as p
import matplotlib.numerix as nx
from matplotlib.toolkits.basemap import Basemap

def get_image_bytes(width_fig, height_fig, str_img):
    """Returns the bytes representing the image generated

    The createImage method should be called before calling this method.

    :Returns:
        Byte data.
    """
    # Get the actual image data
    f = cStringIO.StringIO()
    dims = (width_fig, height_fig)
    im = Image.fromstring("RGB", dims, str_img)
    im.save(f, "JPEG")
    return f.getvalue()

def report_memory(i):
    pid = os.getpid()
    a2 = os.popen('ps -p %d -o rss,vsz,%%mem' % pid).readlines()
    print i, '  ', a2[1],
    return int(a2[1].split()[1])



# take a memory snapshot on indStart and compare it with indEnd
indStart, indEnd = 30, 150
print '     rss   vsz    %mem'
for i in range(indEnd):
    p.figure(figsize=(float(640)/80.0,float(480)/80.0),
             facecolor='w', edgecolor='w')
    p.axes([0.0, 0.0, 1.0, 1.0])
    map1 = Basemap(projection='cyl', lat_0=50, lon_0=-100,
                    area_thresh=1000.)
    # draw coastlines, country boundaries, fill continents.
    map1.drawcoastlines(linewidth=.5)
    map1.drawcountries()
    map1.fillcontinents(color="#CEFFCE")
    # draw the edge of the map projection region (the projection limb)
    map1.drawmapboundary()
    # compute the native map projection coordinates for cities.
    lats, lons = ([18.728], [20.890])
    x,y = map1(lons,lats)
    # plot filled circles at the locations of the cities.
    map1.plot(x,y,'bo')
    canvas = p.get_current_fig_manager().canvas
    agg = canvas.switch_backends \
          (matplotlib.backends.backend_agg.FigureCanvasAgg)
    agg.draw() # Takes ~.9 seconds
    # get the image data
    str_img = agg.tostring_rgb()
    width_fig, height_fig = map(int, agg.figure.bbox.get_bounds()[2:])
    p.cla()
    p.close()
    bytes = get_image_bytes(width_fig, height_fig, str_img)


    val = report_memory(i)
   # wait a few cycles for memory usage to stabilize
    if i==indStart: start = val

end = val
print 'Average memory consumed per loop: %1.4fk bytes' % \
      ((end-start)/float(indEnd-indStart))




Here is the O/P

$python memory_leak_map.py
     rss    vsz    %mem
0    47272 50632  9.7
1    74412 77700 15.3
2    93960 97380 19.3
3    113308 116776 23.3
4    132824 136416 27.3
5    152352 155828 31.3
6    171860 175216 35.3
7    191372 194868 39.3
8    210872 214248 43.3
9    230336 233916 47.3
10    249732 253284 51.3
11    269252 272692 55.3
12    288680 292336 59.3
13    308108 311724 63.2
14    305160 331112 62.6
15    301096 350764 61.8
16    304884 370160 62.6
17    298276 389804 61.2
18    305876 409184 62.8
19    298316 428596 61.2
20    307856 448224 63.2
21    308004 467640 63.2
22    308844 487016 63.4
23    306260 506656 62.9
24    300612 526052 61.7
Traceback (most recent call last):
  File "memory_leak_map.py", line 41, in ?
    area_thresh=1000.)
  File "/usr/local/lib/python2.4/site-packages/matplotlib/toolkits/basemap/basemap.py", line 815, in __init__
    self.riversegs = segments+segments2+segments3
MemoryError
Killed: 9


Can someone please help me out solving this problem?


Thanks
-Aalok




 				
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Hi Eric,

Thanks for your reply. It made me realise a few things....
> > But when I add a colorbar it goes wrong. The colorbar is labelled with
> > the log of the values, rather
> > than values, and the colour only fills the top third of the colorbar.
>
> In the absence of additional kwargs, colorbar uses norm.vmin and
> norm.vmax to determine the limits of the colorbar, and it uses a default
> formatter.  It has no way of knowing that you have taken the log of your
> original values.
Yes of course there is in inconsistency in my LogNorm class. norm.vmax
will return the log of the maximum, when logically it should return
the max of the actual maximum. I've modified my example to take this
into account. see attached (and updated version online).


> Colorbar will need some kwargs, at the very least.  The "format" kwarg,
> for example, can be used to pass in a Formatter instance so that a label
> is 10^-3 instead of -3.
Ah I'd not discovered Formatters yet. But this does give a good solution.
If I instead do a pcolor of the log of my data, and then use a
FormatStrFormatter as you surgested:

pcolor(X,Y,log10(Z1),shading='flat')
colorbar(format=FormatStrFormatter('$10^{%d}$'))

I get exactly what I want :-) Its not the most intuitive way to do it,
but it works and I can't see any major drawbacks.

> I am not sure why only the top is colored in your example--it might be a
> bug or it might be an indication that additional kwargs are needed.  I
> am reasonably sure there is a simple solution, but I can't look at it
> any more right now--maybe I can get back to it this evening.

I'm pretty sure the reason only the top was coloured is to do in the
inconsistency I described above. Once I fixed that the colorbar is
fine except that it is not on a log scale. But of course it can't know
that it is suppost to be on a log scale! I tried to do:

gca().axes[1].set_ylim((1e-5,1))
gca().axes[1].set_yscale('log')

but that doesn't work. I get a load of errors :

exceptions.ValueError                                Traceback (most
recent call last)

/usr/lib/python2.4/site-packages/matplotlib/backends/backend_gtk.py in
expose_event(self, widget, event)
    282                 x, y, w, h = self.allocation
    283                 self._pixmap_prepare (w, h)
--> 284                 self._render_figure(self._pixmap, w, h)
    285                 self._need_redraw = False
    286

/usr/lib/python2.4/site-packages/matplotlib/backends/backend_gtkagg.py
in _render_figure(self, pixmap, width, height)
     71     def _render_figure(self, pixmap, width, height):
     72         if DEBUG: print 'FigureCanvasGTKAgg.render_figure'
---> 73         FigureCanvasAgg.draw(self)
     74         if DEBUG: print 'FigureCanvasGTKAgg.render_figure
pixmap', pixmap
     75         #agg_to_gtk_drawable(pixmap, self.renderer._renderer, None)

/usr/lib/python2.4/site-packages/matplotlib/backends/backend_agg.py in
draw(self)
    390
    391         renderer = self.get_renderer()
--> 392         self.figure.draw(renderer)
    393
    394     def get_renderer(self):

/usr/lib/python2.4/site-packages/matplotlib/figure.py in draw(self, renderer)
    542
    543         # render the axes
--> 544         for a in self.axes: a.draw(renderer)
    545
    546         # render the figure text

/usr/lib/python2.4/site-packages/matplotlib/axes.py in draw(self,
renderer, inframe)
   1061
   1062         for zorder, i, a in dsu:
-> 1063             a.draw(renderer)
   1064
   1065         self.transData.thaw()  # release the lazy objects

/usr/lib/python2.4/site-packages/matplotlib/patches.py in draw(self, renderer)
    163
    164         verts = self.get_verts()
--> 165         tverts = self._transform.seq_xy_tups(verts)
    166
    167         renderer.draw_polygon(gc, rgbFace, tverts)

ValueError: Domain error on nonlinear Transformation::seq_xy_tups
operator()(thisx, thisy)

As for how to solve the problem properly. Matlab allows one to set to
caxis scale to log. Maybe colorbar could detect that the norm instance
was an instance of LogNorm and scale the yaxis logarithmicly. Or would
it be better to put a scale={'log','linear'} kwarg into colorbar()?

Thanks again for your help.

cheers

JIM
---

JIM MacDonald wrote:
> Hi,
> 
> I'm trying to do a pcolor plot with a log normalised colour scale.
> Following advice from past posts
> to this list I specialised the matplotlib.colors.normalize class, and
> passed an instance of that to
> pcolor using the norm kwarg.
> 
> This works fine :-)
> 
> But when I add a colorbar it goes wrong. The colorbar is labelled with
> the log of the values, rather
> than values, and the colour only fills the top third of the colorbar.

In the absence of additional kwargs, colorbar uses norm.vmin and 
norm.vmax to determine the limits of the colorbar, and it uses a default 
formatter.  It has no way of knowing that you have taken the log of your 
original values.

> 
> Am I doing something wrong, or is this a problem with the colorbar?

Colorbar will need some kwargs, at the very least.  The "format" kwarg, 
for example, can be used to pass in a Formatter instance so that a label 
is 10^-3 instead of -3.

I am not sure why only the top is colored in your example--it might be a 
bug or it might be an indication that additional kwargs are needed.  I 
am reasonably sure there is a simple solution, but I can't look at it 
any more right now--maybe I can get back to it this evening.

Eric

> Any help would be much
> appreciated. I realise that as a work around I could do a pcolor of
> the log of my data and manually
> relabel the colorbar, but it would be nice to do it properly.
> 
> I've attached an png of the output and the code. Just in case the
> attachments get stripped they are
> also available to download from:
> http://jimmacdonald.co.uk/pcolor_log.png
> http://jimmacdonald.co.uk/pcolor_log.py
> 
> I'm running the svn version (r2898--- lastest as of yesterday) with
> numpy-1.0_rc1 on gentoo.
> 
> Keep up the good work!
> 
> Cheers,
> 
> JIM

Hi,

I'm trying to do a pcolor plot with a log normalised colour scale.
Following advice from past posts
to this list I specialised the matplotlib.colors.normalize class, and
passed an instance of that to
pcolor using the norm kwarg.

This works fine :-)

But when I add a colorbar it goes wrong. The colorbar is labelled with
the log of the values, rather
than values, and the colour only fills the top third of the colorbar.

Am I doing something wrong, or is this a problem with the colorbar?
Any help would be much
appreciated. I realise that as a work around I could do a pcolor of
the log of my data and manually
relabel the colorbar, but it would be nice to do it properly.

I've attached an png of the output and the code. Just in case the
attachments get stripped they are
also available to download from:
http://jimmacdonald.co.uk/pcolor_log.png
http://jimmacdonald.co.uk/pcolor_log.py

I'm running the svn version (r2898--- lastest as of yesterday) with
numpy-1.0_rc1 on gentoo.

Keep up the good work!

Cheers,

JIM
---

hello matplotlib-community,

the x,y,z labels of Axes3D are not oriented in the same 
azimuth/elevation as the plot is and often interferes with the ticks.
is this a known problem and does anybody know how to circumvent this?

thanks a lot!
michael

-- 
Michael Held, Dipl.-Inf.
ETH Zurich
Institute of Biochemistry
HPM E17, Schafmattstrasse 18
8093 Zuerich, Switzerland
Phone: +41 44 632 3148, Fax: +41 44 632 1269
mic...@bc...

Aalok kapoor wrote:
> Hi all,
>
> I have tried to use basemap to plot world map and successfully plotted 
> points on it by giving lists of latitudes and longitudes. One problem 
> i have is i want to give different colors for different countries, 
> i.e. regarding population. For ex. for range 2-20 -- green. 20-100 -- 
> red.. etc..
> How can i give colors to different countries according to data I pass 
> to it? please help me in knowing whether it is possible or not.
>
> Thanks in advance,
> -Aalok
>
>
Aaolok:  If you have access to the individual country polygons by 
ccountry name, it's easy.  Unfortunately, the built-in country database 
is not accessible that way.  Googling 'country shapefiles' came up with 
this.

http://www.cipotato.org/DIVA/data/MoreData.htm

Using that shapefile is was pretty easy to adapt the 'fillstates.py' 
example to fill the country polygons.  Here each country is filled with 
a random color, so you can just replace the random number with a value 
from your dataset.

import pylab as p
from matplotlib.toolkits.basemap import Basemap as Basemap
from matplotlib.colors import rgb2hex
import random

# Miller projection world map.
m = Basemap(llcrnrlon=-180,llcrnrlat=-90,urcrnrlon=180,urcrnrlat=90,
            projection='mill')
# draw country boundaries.
# data from http://www.cipotato.org/DIVA/data/MoreData.htm
shp_info = m.readshapefile('world_adm0','countries',drawbounds=True)
# choose a color for each state based on population density.
colors={}
countrynames=[]
cmap = p.cm.jet # use 'jet' colormap
vmin = 0; vmax = 1000000 # set range of population
for shapedict in m.countries_info:
    countryname = shapedict['NAME']
    # set population to a random number
    # (replace with a real value)
    pop = float(random.randint(0,1000000))
    # calling colormap with value between 0 and 1 returns
    # rgba value.  Invert color range (hot colors are high
    # population), take sqrt root to spread out colors more.
    colors[countryname] = cmap(1.-p.sqrt((pop-vmin)/(vmax-vmin)))[:3]
    countrynames.append(countryname)
# cycle through country names, color each one.
for nshape,seg in enumerate(m.countries):
    xx,yy = zip(*seg)
    color = rgb2hex(colors[countrynames[nshape]])
    p.fill(xx,yy,color,edgecolor=color)
# draw meridians and parallels.
m.drawparallels(p.arange(-90,91,30),labels=[1,0,0,0])
m.drawmeridians(p.arange(-180,181,60),labels=[0,0,0,1])
p.title('Filling Country Polygons')
p.show()

HTH,

-Jeff

-- 
Jeffrey S. Whitaker         Phone : (303)497-6313
NOAA/OAR/CDC  R/PSD1        FAX   : (303)497-6449
325 Broadway                Boulder, CO, USA 80305-3328

Hi all,

I have tried to use basemap to plot world map and successfully plotted points on it by giving lists of latitudes and longitudes. One problem i have is i want to give different colors for different countries, i.e. regarding population. For ex. for range 2-20 -- green. 20-100 -- red.. etc.. 
How can i give colors to different countries according to data I pass to it? please help me in knowing whether it is possible or not.

Thanks in advance,
-Aalok

 				
---------------------------------
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 Send FREE SMS to your friend's mobile from Yahoo! Messenger Version 8. Get it NOW

>>>>> "Joachim" == Joachim Dahl <dah...@gm...> writes:

    Joachim> this doesn't: matshow(matrix([[1.0,2.0],[3.0,4.0]]) but
    Joachim> this does
    Joachim> matshow(pylab.array(matrix([[1.0,2.0],[3.0,4.0]])

These should be considered bugs -- we should do an asarray anywhere we
are expecting an array input.  I fixed matshow in svn -- let us know
if you find others, or send a patch.  They are easy to fix.

JDH

On 11/21/06, Andrew Straw <str...@as...> wrote:
>
> Joachim Dahl wrote:
> > Dear developers,
> >
> > I am a happy user of Matplotlib,  which is a wonderful library - thank
> > you!
> >
> > Would it possible to support the SciPy Array interface in more places
> > to make
> > Matplotlib less dependent on Numpy/numarray?
> I guess you mean numpy where you say scipy and Numeric where you say
> numpy?


Probably - I wouldn't be the first to get the names wrong... ;)

In that case, the answer is yes:
>
> numpy.asarray( you_array_interface_supporting_object_here )
>
> I know you can convert arrays, but it would nice not to have to.  E.g.,
this works:
imshow(matrix([[1.0,2.0],[3.0,4.0]]),

this doesn't:
matshow(matrix([[1.0,2.0],[3.0,4.0]])
but this does
matshow(pylab.array(matrix([[1.0,2.0],[3.0,4.0]])

Joachim Dahl wrote:
> Dear developers,
>
> I am a happy user of Matplotlib,  which is a wonderful library - thank 
> you!
>
> Would it possible to support the SciPy Array interface in more places 
> to make
> Matplotlib less dependent on Numpy/numarray?
I guess you mean numpy where you say scipy and Numeric where you say numpy?

In that case, the answer is yes:

numpy.asarray( you_array_interface_supporting_object_here )

Dear developers,

I am a happy user of Matplotlib,  which is a wonderful library - thank you!

Would it possible to support the SciPy Array interface in more places to
make
Matplotlib less dependent on Numpy/numarray?

In Ubuntu Edgy's version of Matplotlib it's possible to use CVXOPT matrices
in some places, but not in others:
>>> from cvxopt.base import matrix
>>> import pylab, numpy
>>> pylab.imshow(matrix([[1.0,2.0],[3.0,4.0]]))
<matplotlib.image.AxesImage instance at 0xb5d560ac>
>>> pylab.matshow(matrix([[1.0,2.0],[3.0,4.0]]))
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File "/usr/lib/python2.4/site-packages/matplotlib/pylab.py", line 1431, in
matshow
    w,h = figaspect(arr)
  File "/usr/lib/python2.4/site-packages/matplotlib/figure.py", line 932, in
figaspect
    arr_ratio = float(arg)
TypeError: float() argument must be a string or a number


-Joachim

>>>>> "Norbert" == Norbert Nemec <Nor...@gm...> writes:

    Norbert> Thanks for clearing this up. Coding with three different
    Norbert> numeric libraries in mind certainly is tricky... :-(

This is another good example of the benefits of duck typing -- using
"iterable" rather than "hasattar" checks for the interface rather than
the implementation.

JDH

Thanks for clearing this up. Coding with three different numeric
libraries in mind certainly is tricky... :-(


Eric Firing wrote:
> This is fixed now in SVN.  The problem was that Numeric arrays lack a
> "len" attribute, and "hasattr(xmin, 'len')" was being used to find out
> whether xmin is a scalar or a length-2 array (xmin, xmax).  The
> solution is to do the test with "iterable(xmin)" instead.  The bug was
> introduced in 2782.
>
> Eric
>
> Edin Salkovic wrote:
>> I'm posting this because of the other thread Darren started.
>>
>> I managed to reinstall python (and the modules I use) several days ago
>> and tried again to run matplotlib with Numeric as the default backend,
>> but got the same error (the same error Darren is getting). Then I
>> installed numpy, and everything was fixed :)
>>
>> Best,
>> Edin
>>
>> On 10/22/06, Edin Salkovic <edi...@gm...> wrote:
>>> Unfortunately, I forgot to do it :(
>>>
>>> Then, just after sending the message to the list, it sprang to my
>>> mind. To make it worse, I then mistakenly entered:
>>> rm -Rf /path/to/site-packages
>>>
>>> no matplotlib at the end, and hit enter.
>>>
>>> There goes my beautiful Python install. :'(
>>>
>>> Is there some switch to setup.py to make it remove the mpl dir or does
>>> one allways have to do it by hand?
>>>
>>> Cheers,
>>> Edin
>>>
>>> On 10/22/06, Darren Dale <dd...@co...> wrote:
>>>> Did you try deleting your old mpl directory from site-packages,
>>>> remove the
>>>> build directory from you mpl sources, and rebuild from scratch?
>>>>
>>>>
>>>>
>>>> On Sunday 22 October 2006 6:59 am, Edin Salkovic wrote:
>>>>> Hi,
>>>>>
>>>>> I built and installed the latest matplotlib from SVN.
>>>>>
>>>>> When I type:
>>>>>>>> from pylab import *
>>>>>>>> plot([1,2,3])
>>>>> I get:
>>>>>
>>>>> Traceback (most recent call last):
>>>>>   File "<stdin>", line 1, in ?
>>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/pylab.py", line
>>>>> 2027, in plot
>>>>>     ret =  gca().plot(*args, **kwargs)
>>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>>> 2131, in plot    self.autoscale_view(scalex=scalex, scaley=scaley)
>>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>>> 985, in autoscale_view
>>>>>     self.set_xlim(XL)
>>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>>> 1227, in set_xlim
>>>>>     self.viewLim.intervalx().set_bounds(xmin, xmax)
>>>>> TypeError: only length-1 arrays can be converted to Python scalars.
>>>>>
>>>>> I'm using Numeric as numerix. I'm on a Ubuntu box with python 2.4.
>>>>>
>>>>> -------------------------------------------------------------------------
>>>>>
>>>>> Using Tomcat but need to do more? Need to support web services,
>>>>> security?
>>>>> Get stuff done quickly with pre-integrated technology to make your
>>>>> job
>>>>> easier Download IBM WebSphere Application Server v.1.0.1 based on
>>>>> Apache
>>>>> Geronimo
>>>>> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>>>>
>>>>> _______________________________________________
>>>>> Matplotlib-devel mailing list
>>>>> Mat...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
>>>> -- 
>>>> Darren S. Dale, Ph.D.
>>>> dd...@co...
>>>>
>>>> -------------------------------------------------------------------------
>>>>
>>>> Using Tomcat but need to do more? Need to support web services,
>>>> security?
>>>> Get stuff done quickly with pre-integrated technology to make your
>>>> job easier
>>>> Download IBM WebSphere Application Server v.1.0.1 based on Apache
>>>> Geronimo
>>>> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>>>
>>>> _______________________________________________
>>>> Matplotlib-devel mailing list
>>>> Mat...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
>>>>
>>
>> -------------------------------------------------------------------------
>>
>> Using Tomcat but need to do more? Need to support web services,
>> security?
>> Get stuff done quickly with pre-integrated technology to make your
>> job easier
>> Download IBM WebSphere Application Server v.1.0.1 based on Apache
>> Geronimo
>> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>> _______________________________________________
>> Matplotlib-devel mailing list
>> Mat...@li...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
>
>

>>>>> "Ted" == Ted Drain <ted...@jp...> writes:

    Ted> John et al, Ran into this bug in lines.py: The Verbose class
    Ted> in __init__.py doesn't have a method named report_error -
    Ted> just report.

Thanks Ted -- just committed the fix.

JDH

John et al,
Ran into this bug in lines.py:  The Verbose class in __init__.py doesn't 
have a method named report_error - just report.

Ted

===================================================================
--- lines.py	(revision 2870)
+++ lines.py	(working copy)
@@ -430,7 +430,7 @@
          ACCEPTS: [ '-' | '--' | '-.' | ':' | 'steps' | 'None' | ' ' | '' ]
          """
          if linestyle not in self._lineStyles:
-            verbose.report_error('Unrecognized line style 
%s,%s'%(linestyle, type(linestyle)))
+            verbose.report('Unrecognized line style %s,%s'%(linestyle, 
type(linestyle)))
          if linestyle in [' ','']:
              linestyle = 'None'
          self._linestyle = linestyle
@@ -448,7 +448,7 @@

          """
          if marker not in self._markers:
-            verbose.report_error('Unrecognized marker style %s, %s'%( 
marker, type(marker)))
+            verbose.report('Unrecognized marker style %s, %s'%( marker, 
type(marker)))
          if marker in [' ','']:
              marker = 'None'
          self._marker = marker
Ted Drain     Jet Propulsion Laboratory   ted...@jp...    

Ulf,

Thanks for the report.  I will check it out and either apply your patch 
or some other fix.

Your message along with several others that were sent days ago popped up 
just now in my inbox.  It seems like there are some strange delays in 
the sourceforge mailing list system.

Eric

Ulf Larsson wrote:
> Hi,
> 
> I have submitted a bug report
> 1591708 pylab.axis('equal') scales wrong axis
> In the attached script axis('eqaul') shrink x instead of expanding y 
> with the result that no
> datapoints are seen.
> 
> I have also submitted a simple patch
> 1591716 Expand y if data don't fit into x_lim
> It would be great if someone could take look.
> It fixes the test case, but I'm not sure if it is the right way to do it.
> 
> regards
> Ulf Larsson
> 
> _________________________________________________________________
> FREE pop-up blocking with the new MSN Toolbar - get it now! 
> http://toolbar.msn.click-url.com/go/onm00200415ave/direct/01/
> 
> 
> ------------------------------------------------------------------------
> 
> import pylab
> 
> x_data =  [6.8538697159586812, 
>            6.8906683229002512, 
>            6.8495854795623092, 
>            6.887510586105912, 
>            6.8464139392062178, 
>            6.8830008172676411, 
>            6.8424628962958414, 
>            6.8810049485591289]
> 
> y_data =  [5.6629566741871935, 
>            5.6584471730561399, 
>            5.6629080444545945, 
>            5.6581494452612304, 
>            5.6630169070389558, 
>            5.659139916088753, 
>            5.6629980013160068, 
>            5.6581262160214072]
> 
> pylab.figure()
> pylab.plot(x_data, y_data, '+')
> pylab.grid(1)
> pylab.axis('equal')
> pylab.show()
> 
> 
> 
> ------------------------------------------------------------------------
> 
> -------------------------------------------------------------------------
> Using Tomcat but need to do more? Need to support web services, security?
> Get stuff done quickly with pre-integrated technology to make your job easier
> Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
> 
> 
> ------------------------------------------------------------------------
> 
> _______________________________________________
> Matplotlib-devel mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel

John,

It seems that ScalarMappable in cm.py, Artist in artist.py, and Button 
in widgets.py all have quite similar observer functionality, with some 
variable and method names in common and some not.  None of this 
functionality seems to be used very extensively (a conclusion based only 
on a little grepping), but it is very important where it is needed.

I made a quick fix to colorbar so that its alpha would track that of a 
ContourSet to which it is attached, in response to a bug report, but I 
think more extensive change is needed to make the colorbar track 
everything that it should, and I think this would be facilitated by 
abstracting the notifier/observer functionality into a very small mixin 
class (probably called Notifier).  Ideally this would make the 
fuctionality less confusing (to me, at least) and easier to use in general.

It is likely that I am missing something--maybe a lot of things--so I 
wanted to get your thoughts before proceeding.

Thanks.

Eric

This is fixed now in SVN.  The problem was that Numeric arrays lack a 
"len" attribute, and "hasattr(xmin, 'len')" was being used to find out 
whether xmin is a scalar or a length-2 array (xmin, xmax).  The solution 
is to do the test with "iterable(xmin)" instead.  The bug was introduced 
in 2782.

Eric

Edin Salkovic wrote:
> I'm posting this because of the other thread Darren started.
> 
> I managed to reinstall python (and the modules I use) several days ago
> and tried again to run matplotlib with Numeric as the default backend,
> but got the same error (the same error Darren is getting). Then I
> installed numpy, and everything was fixed :)
> 
> Best,
> Edin
> 
> On 10/22/06, Edin Salkovic <edi...@gm...> wrote:
>> Unfortunately, I forgot to do it :(
>>
>> Then, just after sending the message to the list, it sprang to my
>> mind. To make it worse, I then mistakenly entered:
>> rm -Rf /path/to/site-packages
>>
>> no matplotlib at the end, and hit enter.
>>
>> There goes my beautiful Python install. :'(
>>
>> Is there some switch to setup.py to make it remove the mpl dir or does
>> one allways have to do it by hand?
>>
>> Cheers,
>> Edin
>>
>> On 10/22/06, Darren Dale <dd...@co...> wrote:
>>> Did you try deleting your old mpl directory from site-packages, remove the
>>> build directory from you mpl sources, and rebuild from scratch?
>>>
>>>
>>>
>>> On Sunday 22 October 2006 6:59 am, Edin Salkovic wrote:
>>>> Hi,
>>>>
>>>> I built and installed the latest matplotlib from SVN.
>>>>
>>>> When I type:
>>>>>>> from pylab import *
>>>>>>> plot([1,2,3])
>>>> I get:
>>>>
>>>> Traceback (most recent call last):
>>>>   File "<stdin>", line 1, in ?
>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/pylab.py", line
>>>> 2027, in plot
>>>>     ret =  gca().plot(*args, **kwargs)
>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>> 2131, in plot    self.autoscale_view(scalex=scalex, scaley=scaley)
>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>> 985, in autoscale_view
>>>>     self.set_xlim(XL)
>>>>   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
>>>> 1227, in set_xlim
>>>>     self.viewLim.intervalx().set_bounds(xmin, xmax)
>>>> TypeError: only length-1 arrays can be converted to Python scalars.
>>>>
>>>> I'm using Numeric as numerix. I'm on a Ubuntu box with python 2.4.
>>>>
>>>> -------------------------------------------------------------------------
>>>> Using Tomcat but need to do more? Need to support web services, security?
>>>> Get stuff done quickly with pre-integrated technology to make your job
>>>> easier Download IBM WebSphere Application Server v.1.0.1 based on Apache
>>>> Geronimo
>>>> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>>> _______________________________________________
>>>> Matplotlib-devel mailing list
>>>> Mat...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
>>> --
>>> Darren S. Dale, Ph.D.
>>> dd...@co...
>>>
>>> -------------------------------------------------------------------------
>>> Using Tomcat but need to do more? Need to support web services, security?
>>> Get stuff done quickly with pre-integrated technology to make your job easier
>>> Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
>>> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
>>> _______________________________________________
>>> Matplotlib-devel mailing list
>>> Mat...@li...
>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
>>>
> 
> -------------------------------------------------------------------------
> Using Tomcat but need to do more? Need to support web services, security?
> Get stuff done quickly with pre-integrated technology to make your job easier
> Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
> http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
> _______________________________________________
> Matplotlib-devel mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-devel

I'm posting this because of the other thread Darren started.

I managed to reinstall python (and the modules I use) several days ago
and tried again to run matplotlib with Numeric as the default backend,
but got the same error (the same error Darren is getting). Then I
installed numpy, and everything was fixed :)

Best,
Edin

On 10/22/06, Edin Salkovic <edi...@gm...> wrote:
> Unfortunately, I forgot to do it :(
>
> Then, just after sending the message to the list, it sprang to my
> mind. To make it worse, I then mistakenly entered:
> rm -Rf /path/to/site-packages
>
> no matplotlib at the end, and hit enter.
>
> There goes my beautiful Python install. :'(
>
> Is there some switch to setup.py to make it remove the mpl dir or does
> one allways have to do it by hand?
>
> Cheers,
> Edin
>
> On 10/22/06, Darren Dale <dd...@co...> wrote:
> > Did you try deleting your old mpl directory from site-packages, remove the
> > build directory from you mpl sources, and rebuild from scratch?
> >
> >
> >
> > On Sunday 22 October 2006 6:59 am, Edin Salkovic wrote:
> > > Hi,
> > >
> > > I built and installed the latest matplotlib from SVN.
> > >
> > > When I type:
> > > >>> from pylab import *
> > > >>> plot([1,2,3])
> > >
> > > I get:
> > >
> > > Traceback (most recent call last):
> > >   File "<stdin>", line 1, in ?
> > >   File "/usr/lib/python2.4/site-packages/matplotlib/pylab.py", line
> > > 2027, in plot
> > >     ret =  gca().plot(*args, **kwargs)
> > >   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
> > > 2131, in plot    self.autoscale_view(scalex=scalex, scaley=scaley)
> > >   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
> > > 985, in autoscale_view
> > >     self.set_xlim(XL)
> > >   File "/usr/lib/python2.4/site-packages/matplotlib/axes.py", line
> > > 1227, in set_xlim
> > >     self.viewLim.intervalx().set_bounds(xmin, xmax)
> > > TypeError: only length-1 arrays can be converted to Python scalars.
> > >
> > > I'm using Numeric as numerix. I'm on a Ubuntu box with python 2.4.
> > >
> > > -------------------------------------------------------------------------
> > > Using Tomcat but need to do more? Need to support web services, security?
> > > Get stuff done quickly with pre-integrated technology to make your job
> > > easier Download IBM WebSphere Application Server v.1.0.1 based on Apache
> > > Geronimo
> > > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
> > > _______________________________________________
> > > Matplotlib-devel mailing list
> > > Mat...@li...
> > > https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
> >
> > --
> > Darren S. Dale, Ph.D.
> > dd...@co...
> >
> > -------------------------------------------------------------------------
> > Using Tomcat but need to do more? Need to support web services, security?
> > Get stuff done quickly with pre-integrated technology to make your job easier
> > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
> > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
> > _______________________________________________
> > Matplotlib-devel mailing list
> > Mat...@li...
> > https://lists.sourceforge.net/lists/listinfo/matplotlib-devel
> >
>

I'm playing with subplots_adjust, and I'm not comfortable with
parameters wspace and hspace.

Reading the doc, and the code, I've understood that:
- left, bottom, right and top can be considered as a "percentage" of
figure's width and height
- wspace and hspace can be considered as a "percentage" of subplots's
width and height

In other words, left/bottom/right/top and wspace/hspace are not given
in the same "unit": the former is given in "figure unit" whereas the
latter is given in "subplot unit".

I find these convention difficult to use when you try, for example, to have:
wspace = left margin + right margin
hspace = top margin + bottom margin

Here is some Python code to be clear:

left_margin, bottom_margin, right_margin, top_margin = 0.06, 0.06, 0, 0.1
pylab.subplots_adjust(
    left=left_margin,
    bottom=bottom_margin,
    right=1-right_margin,
    top=1-top_margin,
    wspace=left_margin+right_margin,
    hspace=bottom_margin+top_margin
)

I tried, but it doesn't work as intended because i guessed wspace and
hspace are a ratio of figure's size, but it seems they are a ratio of
subplot's size, aren't they?

Is it a design choice or just a matter of fact? Do you want to keep it
that way or do you agree to change it?

For example, with R (where I came from), figure's margin and subplot's
margin are expressed in the same unit: inches or "lines" (a unit
corresponding to the height of a line... very useful).

Nicolas Grilly

Let me correct that, I only see this problem with Numeric. numarray and numpy 
appear to be fine.

On Friday 10 November 2006 13:23, Darren Dale wrote:
> Can anyone reproduce this error? I am using up-to-date svn matplotlib, with
> either numpy or numeric:
>
> plot([1,2])
>
> ---------------------------------------------------------------------------
> exceptions.TypeError                                 Traceback (most recent
> call last)
>
> /home/darren/<ipython console>
>
> /usr/lib64/python2.4/site-packages/matplotlib/pylab.py in plot(*args,
> **kwargs)
>    3087         hold(h)
>    3088     try:
> -> 3089         ret =  gca().plot(*args, **kwargs)
>    3090         draw_if_interactive()
>    3091     except:
>
> /usr/lib64/python2.4/site-packages/matplotlib/axes.py in plot(self, *args,
> **kwargs)
>    2137         lines = [line for line in lines] # consume the generator
>    2138
> -> 2139         self.autoscale_view(scalex=scalex, scaley=scaley)
>    2140         return lines
>    2141
>
> /usr/lib64/python2.4/site-packages/matplotlib/axes.py in
> autoscale_view(self, tight, scalex, scaley)
>     991             if xl[1] < xl[0]:
>     992                 XL = XL[::-1]
> --> 993             self.set_xlim(XL)
>     994         if scaley:
>     995             yl = self.get_ylim()
>
> /usr/lib64/python2.4/site-packages/matplotlib/axes.py in set_xlim(self,
> xmin, xmax, emit)
>    1233             xmax += 1e-38
>    1234
> -> 1235         self.viewLim.intervalx().set_bounds(xmin, xmax)
>    1236         if emit: self._send_xlim_event()
>    1237         return xmin, xmax
>
> TypeError: only length-1 arrays can be converted to Python scalars.

>>>>> "Nicolas" == Nicolas Grilly <nic...@ga...> writes:

    Nicolas> I guess there is a very little error in documentation of
    Nicolas> pylab.subplots_adjust.

    Nicolas> The order of the arguments in the current doc is:
    Nicolas> subplots_adjust(left=None, right=None, bottom=None,
    Nicolas> top=None, wspace=0.2, hspace=0.2)

    Nicolas> The correct order of the arguments seems to be:
    Nicolas> subplots_adjust(left=None, bottom=None, right=None,
    Nicolas> top=None, wspace=0.2, hspace=0.2)

    Nicolas> Is it correct?

Yep that's right, thanks.  I always use the kwarg version and hadn't
noticed the docstring bug.

JDH

I guess there is a very little error in documentation of
pylab.subplots_adjust.

The order of the arguments in the current doc is:
    subplots_adjust(left=None, right=None, bottom=None, top=None, wspace=0.2,
hspace=0.2)

The correct order of the arguments seems to be:
    subplots_adjust(left=None, bottom=None, right=None, top=None, wspace=0.2,
hspace=0.2)

Is it correct?

Thanks,

Nicolas

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