matplotlib-users Mailing List for matplotlib (Page 5)

Hi Ryan,
Thanks again,

Well your solution is also working.

I get very similar results with

class NiceSciFormatter(Formatter):

    def __call__(self, x, pos=None):
        a="%1.1E" % x
        a=a[:5]+a[-1]
        return a

It seems though that your solution enables more fine tuning !

Cheers,
Oz

On Thu, Sep 23, 2010 at 5:10 PM, Ryan May <rm...@gm...> wrote:

> On Thu, Sep 23, 2010 at 8:52 AM, Oz Nahum <na...@gm...> wrote:
> > Hi Ryan,
> >
> > Thanks for your answer. However, I don't understand from the existing
> > documentation how to use tickers.
> >
> > In the past I used the following method:
> > class SciFormatter(Formatter):
> >     def __call__(self, x, pos=None):
> >         return "%1.1e" % x
> >
> >
> > axs.yaxis.set_major_formatter(SciFormatter())
> >
> > This still does not allow me to get read of the zeros that matplotlib
> > coherces .
> >
> > I would like to manipulate the strings of the tick labels directly. I
> know
> > it's not ideal, but I it should work.
> >
> > If I could access the label "1.1E+01", I could tell python just to take
> > label[:-2] and glue it to  label[-1], which will give me
> > "1.1E+1"
> >
> > I would be greatful if someone showed me how to access that string.
>
> Why not just format the number yourself?
>
> import matplotlib.pyplot as plt
> import numpy as np
>
> def format(x, pos=None):
>    if x == 0.0:
>        exp = 0
>    else:
>        exp = int(np.log10(np.abs(x)))
>    mant = x / 10**exp
>    return '%.2fE%+d' % (mant, exp)
>
> f = plt.figure()
> ax = f.add_subplot(111)
> data = np.array([1,2,3,4,5]) / 100.
> ax.plot(data, np.arange(len(data)))
>
> ax.xaxis.set_major_formatter(plt.FuncFormatter(format))
>
> plt.show()
>
> Ryan
>
> --
> Ryan May
> Graduate Research Assistant
> School of Meteorology
> University of Oklahoma
>



-- 
Oz Nahum
Graduate Student
Zentrum für Angewandte Geologie
Universität Tübingen

---

Imagine there's no countries
it isn't hard to do
Nothing to kill or die for
And no religion too
Imagine all the people
Living life in peace

> On Wed, Sep 15, 2010 at 3:03 AM, David Trémouilles <dav...@gm...
> <mailto:dav...@gm...>> wrote:
>
>     Hello,
>
>       Does anybody know if matplotlib work with pyside ?
>     If it does how to use matplotib with pyside ?
>
>     Thanks,
>
>     David
>
>
> David,
>
> I am not familiar with PySide, so I looked it up.  Please correct me if
> I am wrong, but it appears to be an alternative to PyQt for licensing
> reasons, and the FAQ says that it is API compatible.  On the python side
> of matplotlib, I wonder if using PySide would be as simple as just
> replacing all of the "import PyQt" or "import PyQt4" with "import
> PySide" (and all the "from PyQt import ...").
>
> Does PySide still use the same compiled Qt libraries that PyQt uses?  If
> so, then I don't *think* you need to recompile the Qt backends, but I am
> not entirely sure.
>
> Good luck!
> Ben Root
>

Hi Ben,
I did try to roughly replace PyQt4 import by PySide import
in my installed matplotlib but pyplot.plot function led to a seg fault...
(PyQt and PySide where indeed compiled with the same Qt lib)

I'm not skilled enough to go further on...

Thanks for your help,

David

On 9/22/10 2:55 PM, Lütteke Felix wrote:
> Hello,
>
>
>
> is there a possibility to order several 3dplots, if all are plotted
> in the same figure. If  I execute the code below, the higher values
> (blue) are covered by the lower (yellow) ones, which seems quite
> unlogical to me (see attached image). Any help if greatly appreciated
> - after having searched for a solution quite a few hours...
>
>


There is no cutting up of objects and ordering them based on distance to 
the viewer, if that's what you're asking.  I see an experiment on github 
that starts to implement that sort of thing, though:

http://github.com/astraw/matplotlib/network/members

Thanks,

Jason

Wonderful !
This does indeed solve my issue.

Many many thanks,

David

Le 23/09/10 17:35, Ryan May a écrit :
> On Thu, Sep 23, 2010 at 9:16 AM, David Trémouilles<dav...@gm...>  wrote:
>> OK, was able to narrow thinks down:
>> actually it looks like
>> figure.canvas.mpl_connect('pick_event', function)
>> does not connect the "function" if it is a class method (...?)
>> In attachment you will find two files illustrating this:
>> buggy_pick.py and buggy_pick2.py
>> Both work nicely with matplotlib 0.93
>> With matplotlib 1.0 buggy_pick.py does not work while buggy_pick2.py does
>> work.
>> The only difference is in the PickFig class...
>>
>> Is it really a bug or I'm doing something wrong ?
>>
>> Any workaround would be welcome.
>
> Technically, you're doing something sort of wrong, though it's very
> subtle. And it just so happens that the way the code for callbacks was
> reworked that this even showed up.
> In this code:
>
> class TestFig(MatplotlibFig):
>      def __init__(self, parent=None):
>          MatplotlibFig.__init__(self, parent)
>          PickFig(self.figure)
>
> You create a PickFig, but since you don't assign it to anything, it
> gets garbage collected and (eventually) removed from the callbacks.
> Previously, the callback registry would have a reference to the
> callbacks, which would have kept PickFig alive. This was changed to
> eliminate some resource leaks. The fix is simple, just save the
> PickFig as a member of TestFig:
>
> self.pf = PickFig(self.figure)
>
> That fixes the problem for me.
>
> Ryan
>

On Thu, Sep 23, 2010 at 9:16 AM, David Trémouilles <dav...@gm...> wrote:
> OK, was able to narrow thinks down:
> actually it looks like
> figure.canvas.mpl_connect('pick_event', function)
> does not connect the "function" if it is a class method (...?)
> In attachment you will find two files illustrating this:
> buggy_pick.py and buggy_pick2.py
> Both work nicely with matplotlib 0.93
> With matplotlib 1.0 buggy_pick.py does not work while buggy_pick2.py does
> work.
> The only difference is in the PickFig class...
>
> Is it really a bug or I'm doing something wrong ?
>
> Any workaround would be welcome.

Technically, you're doing something sort of wrong, though it's very
subtle. And it just so happens that the way the code for callbacks was
reworked that this even showed up.
In this code:

class TestFig(MatplotlibFig):
    def __init__(self, parent=None):
        MatplotlibFig.__init__(self, parent)
        PickFig(self.figure)

You create a PickFig, but since you don't assign it to anything, it
gets garbage collected and (eventually) removed from the callbacks.
Previously, the callback registry would have a reference to the
callbacks, which would have kept PickFig alive. This was changed to
eliminate some resource leaks. The fix is simple, just save the
PickFig as a member of TestFig:

self.pf = PickFig(self.figure)

That fixes the problem for me.

Ryan

-- 
Ryan May
Graduate Research Assistant
School of Meteorology
University of Oklahoma

Justin Park wrote:
> Hello,
> 
> I am using Mac 10.5.8.
> 
> I have been trying to install Matplotlib, and succeeded to do so.

How did you install it?

What python are you using?

-Chris


> But when I try to import matplotlib.pyplot, I got the following error:
> 
>>>> import matplotlib.pyplot
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File
> "/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/pyplot.py",
> line 23, in <module>
>     from matplotlib.figure import Figure, figaspect
>   File
> "/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/figure.py",
> line 16, in <module>
>     import artist
>   File
> "/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/artist.py",
> line 6, in <module>
>     from transforms import Bbox, IdentityTransform, TransformedBbox,
> TransformedPath
>   File
> "/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/transforms.py",
> line 34, in <module>
>     from matplotlib._path import affine_transform
> ImportError: No module named _path
> 
> Could you please let me know how I can fix this problem?
> I tried several ways of reinstalling it(after cleaning as described in
> many web-sites), but all the ways returned the same error.
> 
> Thanks,
> Justin.
> 
> ------------------------------------------------------------------------------
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> _______________________________________________
> Matplotlib-users mailing list
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> https://lists.sourceforge.net/lists/listinfo/matplotlib-users


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Chr...@no...

On Thu, Sep 23, 2010 at 8:52 AM, Oz Nahum <na...@gm...> wrote:
> Hi Ryan,
>
> Thanks for your answer. However, I don't understand from the existing
> documentation how to use tickers.
>
> In the past I used the following method:
> class SciFormatter(Formatter):
>     def __call__(self, x, pos=None):
>         return "%1.1e" % x
>
>
> axs.yaxis.set_major_formatter(SciFormatter())
>
> This still does not allow me to get read of the zeros that matplotlib
> coherces .
>
> I would like to manipulate the strings of the tick labels directly. I know
> it's not ideal, but I it should work.
>
> If I could access the label "1.1E+01", I could tell python just to take
> label[:-2] and glue it to  label[-1], which will give me
> "1.1E+1"
>
> I would be greatful if someone showed me how to access that string.

Why not just format the number yourself?

import matplotlib.pyplot as plt
import numpy as np

def format(x, pos=None):
    if x == 0.0:
        exp = 0
    else:
        exp = int(np.log10(np.abs(x)))
    mant = x / 10**exp
    return '%.2fE%+d' % (mant, exp)

f = plt.figure()
ax = f.add_subplot(111)
data = np.array([1,2,3,4,5]) / 100.
ax.plot(data, np.arange(len(data)))

ax.xaxis.set_major_formatter(plt.FuncFormatter(format))

plt.show()

Ryan

-- 
Ryan May
Graduate Research Assistant
School of Meteorology
University of Oklahoma

Hi Every, Hi Ryan

I finally solved this issue, which bothered me very long.

I managed to make a nicer scientific formatting on the xticks !

from pylab import *
import numpy as N


from matplotlib.ticker import Formatter,FuncFormatter
import os
#class to produce scientific format numbering
class SciFormatter(Formatter):
    def __call__(self, x, pos=None):
        return "%1.e" % x

class NiceSciFormatter(Formatter):
    def __call__(self, x, pos=None):
        a="%1.1E" % x
        a=a[:5]+a[-1]
        return a

fig=figure()
ax=fig.add_subplot(111)

y=[.0001,.0002,.0003,.0004,.0005]
x=[1,2,3,4,5]
ax.plot(x,y)

ax.yaxis.set_major_formatter(NiceSciFormatter())

show()


Cheers ,

Oz


-- 
Oz Nahum
Graduate Student
Zentrum für Angewandte Geologie
Universität Tübingen

---

Imagine there's no countries
it isn't hard to do
Nothing to kill or die for
And no religion too
Imagine all the people
Living life in peace

Hello,

I am using Mac 10.5.8.

I have been trying to install Matplotlib, and succeeded to do so.
But when I try to import matplotlib.pyplot, I got the following error:

>>> import matplotlib.pyplot
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File
"/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/pyplot.py",
line 23, in <module>
    from matplotlib.figure import Figure, figaspect
  File
"/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/figure.py",
line 16, in <module>
    import artist
  File
"/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/artist.py",
line 6, in <module>
    from transforms import Bbox, IdentityTransform, TransformedBbox,
TransformedPath
  File
"/Users/hp6/RESEARCH/TOOL/pythons/matplotlib/lib/matplotlib/transforms.py",
line 34, in <module>
    from matplotlib._path import affine_transform
ImportError: No module named _path

Could you please let me know how I can fix this problem?
I tried several ways of reinstalling it(after cleaning as described in
many web-sites), but all the ways returned the same error.

Thanks,
Justin.

OK, was able to narrow thinks down:
actually it looks like
figure.canvas.mpl_connect('pick_event', function)
does not connect the "function" if it is a class method (...?)
In attachment you will find two files illustrating this:
buggy_pick.py and buggy_pick2.py
Both work nicely with matplotlib 0.93
With matplotlib 1.0 buggy_pick.py does not work while buggy_pick2.py 
does work.
The only difference is in the PickFig class...

Is it really a bug or I'm doing something wrong ?

Any workaround would be welcome.

Thx,

David

PS. Is it better to discuss this on users or devel list ?

Le 23/09/10 15:42, Ryan May a écrit :
> On Thu, Sep 23, 2010 at 3:20 AM, David Trémouilles<dav...@gm...>  wrote:
>> Hello,
>>
>>   I've just updated matplotlib to 1.0 svn version from 0.93.
>> My pyqt4 app use the pick event. Cliking on a point in the graph
>> triggers an event but with matplotlib 1.0 it does not anymore while
>> it was working fine with 0.93.
>> Any idea/help on where I should look for ?
>
> Not without a better idea of what you're doing. I *can* say that both
> picking examples work fine for me with the Qt4Agg backend. Can you
> create a complete, minimal example that replicates the problem you're
> seeing? Without that, I'd just be guessing blindly.
>
> Ryan
>

Hi Ryan,

Thanks for your answer. However, I don't understand from the existing
documentation how to use tickers.

In the past I used the following method:
class SciFormatter(Formatter):
    def __call__(self, x, pos=None):
        return "%1.1e" % x


axs.yaxis.set_major_formatter(SciFormatter())

This still does not allow me to get read of the zeros that matplotlib
coherces .

I would like to manipulate the strings of the tick labels directly. I know
it's not ideal, but I it should work.

If I could access the label "1.1E+01", I could tell python just to take
label[:-2] and glue it to  label[-1], which will give me
"1.1E+1"

I would be greatful if someone showed me how to access that string.


Cheers,
Oz


On Thu, Sep 23, 2010 at 3:37 PM, Ryan May <rm...@gm...> wrote:

> On Thu, Sep 23, 2010 at 3:49 AM, Oz Nahum <na...@gm...> wrote:
> > Hi Everyone,
> >
> > I don't like the default scientific formatting in matplotlib, IMHO the
> > format of having a zero after the exponent is a waste of space in my
> opinion
> > ...
> > What I mean is that mpl is writing zero as:
> > 0.0e+00 or 1.2e-03. IMHO it would suffice just to do 0.0 and 1.2e-3,
> which
> > take less space and looks better (again, imho).
>
> <SNIP>
>
> >
> > As can be seen, the text string is empty before calling show, which is
> > forcing me to show the image . Is there a way to access these labales
> with
> > out calling show() ?
>
> What you want is to set a custom formatter:
>
> http://matplotlib.sourceforge.net/api/ticker_api.html
>
> import matplotlib.pyplot as plt
> f = plt.figure()
> ax = f.add_subplot(111)
> ax.plot([1,2,3,4,5])
> # Formats ticks on the xaxis with the %.2g format string
> ax.xaxis.set_major_formatter(plt.FormatStrFormatter('%.2g'))
> plt.show()
>
> If you can't get what you want using a format string, you can write a
> function that does what you want can create a formatter from that
> using FuncFormatter.
>
> Ryan
>
> --
> Ryan May
> Graduate Research Assistant
> School of Meteorology
> University of Oklahoma
>



-- 
Oz Nahum
Graduate Student
Zentrum für Angewandte Geologie
Universität Tübingen

---

Imagine there's no countries
it isn't hard to do
Nothing to kill or die for
And no religion too
Imagine all the people
Living life in peace

On Thu, Sep 23, 2010 at 3:20 AM, David Trémouilles <dav...@gm...> wrote:
> Hello,
>
>  I've just updated matplotlib to 1.0 svn version from 0.93.
> My pyqt4 app use the pick event. Cliking on a point in the graph
> triggers an event but with matplotlib 1.0 it does not anymore while
> it was working fine with 0.93.
> Any idea/help on where I should look for ?

Not without a better idea of what you're doing. I *can* say that both
picking examples work fine for me with the Qt4Agg backend. Can you
create a complete, minimal example that replicates the problem you're
seeing? Without that, I'd just be guessing blindly.

Ryan

-- 
Ryan May
Graduate Research Assistant
School of Meteorology
University of Oklahoma

On Thu, Sep 23, 2010 at 3:49 AM, Oz Nahum <na...@gm...> wrote:
> Hi Everyone,
>
> I don't like the default scientific formatting in matplotlib, IMHO the
> format of having a zero after the exponent is a waste of space in my opinion
> ...
> What I mean is that mpl is writing zero as:
> 0.0e+00 or 1.2e-03. IMHO it would suffice just to do 0.0 and 1.2e-3, which
> take less space and looks better (again, imho).

<SNIP>

>
> As can be seen, the text string is empty before calling show, which is
> forcing me to show the image . Is there a way to access these labales with
> out calling show() ?

What you want is to set a custom formatter:

http://matplotlib.sourceforge.net/api/ticker_api.html

import matplotlib.pyplot as plt
f = plt.figure()
ax = f.add_subplot(111)
ax.plot([1,2,3,4,5])
# Formats ticks on the xaxis with the %.2g format string
ax.xaxis.set_major_formatter(plt.FormatStrFormatter('%.2g'))
plt.show()

If you can't get what you want using a format string, you can write a
function that does what you want can create a formatter from that
using FuncFormatter.

Ryan

-- 
Ryan May
Graduate Research Assistant
School of Meteorology
University of Oklahoma

Hi David,

I'm using the pick event in wx (matplotlib 1.0) without any issues.  Could
you please post some sample code?  Have you tried to see if
legend.draggable() works? If so, the pick event is likely not an issue.

-Aman

On Thu, Sep 23, 2010 at 4:20 AM, David Trémouilles <dav...@gm...>wrote:

> Hello,
>
>  I've just updated matplotlib to 1.0 svn version from 0.93.
> My pyqt4 app use the pick event. Cliking on a point in the graph
> triggers an event but with matplotlib 1.0 it does not anymore while
> it was working fine with 0.93.
> Any idea/help on where I should look for ?
>
> Thanks in advance,
>
> David
>
>
> ------------------------------------------------------------------------------
> Start uncovering the many advantages of virtual appliances
> and start using them to simplify application deployment and
> accelerate your shift to cloud computing.
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> _______________________________________________
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> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

On Wed, Sep 22, 2010 at 8:31 PM, C M <cmp...@gm...> wrote:

> Until a more permanent solution is figured out, can anyone recommend
> any workarounds, even if they are a little clunky?  I'm embedding mpl
> plots in wxPython and am also finding this issue suboptimal.

Change your subplots adjust parameters to make the default bottom,
left, wspace and hspace wider.  This will reduce the chance of
overlaps.

http://matplotlib.sourceforge.net/search.html?q=subplots_adjust

The defaults can be changed in your rc file

  http://matplotlib.sourceforge.net/users/customizing.html

See also these recipes on the FAQ to automatically choose boundaries

  http://matplotlib.sourceforge.net/faq/howto_faq.html#move-the-edge-of-an-axes-to-make-room-for-tick-labels

  http://matplotlib.sourceforge.net/faq/howto_faq.html#automatically-make-room-for-tick-labels

Automatic layout to avoid overlap is not an easy problem -- Michael
Droetboom worked on it for a while but didn't get to a satisfactory
point.  So far our philosophy has been : make it easy to customize
rather than do it automatically.  I realize this is not always a good
approach, especially in automated figure generators where you don't
have access to the data ahead of time.

JDH

Hi Everyone,

I don't like the default scientific formatting in matplotlib, IMHO the
format of having a zero after the exponent is a waste of space in my opinion
...
What I mean is that mpl is writing zero as:
0.0e+00 or 1.2e-03. IMHO it would suffice just to do 0.0 and 1.2e-3, which
take less space and looks better (again, imho).

In any case, I would like to access the strings of the yticklables in my
plots and I discovered I can do the following:

setp(axs[2].set_yticklabels(['0.0','2.0E-4','4.0E-4','6.0E-4','8.0E-4','1.0E-3','1.2E-3']))

Which works, but forces me to first look at the output and the redraw
everything with manually feeding the values.
if there is a way to loop on this text values before plotting I will be
happy to know.

I tried doing this:
In [1]: from pylab import *

In [2]: f=figure()

In [3]: ax=f.add_subplot()

In [4]: ax.plot([1,2,3,4,5])
---------------------------------------------------------------------------
AttributeError                            Traceback (most recent call last)

/home/oz/<ipython console> in <module>()

AttributeError: 'NoneType' object has no attribute 'plot'

In [5]: ax=f.add_subplot(111)

In [6]: ax.plot([1,2,3,4,5])
Out[6]: [<matplotlib.lines.Line2D object at 0x95ecdcc>]

In [7]: a=ax.get_xticklabels()

In [8]: a[0].get_text()
Out[8]: ''

In [9]: draw()

In [10]: a[0].get_text()
In [10]: a[0].get_text()
Out[10]: ''

In [11]: show()
....
KeyboardInterrupt:

In [12]: a[0].get_text()
Out[12]: u'0.0

As can be seen, the text string is empty before calling show, which is
forcing me to show the image . Is there a way to access these labales with
out calling show() ?

Thanks in advance,


-- 
Oz Nahum
Graduate Student
Zentrum für Angewandte Geologie
Universität Tübingen

---

Imagine there's no countries
it isn't hard to do
Nothing to kill or die for
And no religion too
Imagine all the people
Living life in peace

Hello,

  I've just updated matplotlib to 1.0 svn version from 0.93.
My pyqt4 app use the pick event. Cliking on a point in the graph
triggers an event but with matplotlib 1.0 it does not anymore while
it was working fine with 0.93.
Any idea/help on where I should look for ?

Thanks in advance,

David

OK, I spoke a little too soon last time.  I reinstalled it tonight and looked a little closer.  Essentially all of the regular files under
.../site-packages/matplotlib/... and its subdirectories have permissions similar to
-rw--w----
not just the mpl-data subdir, and I guess they should be something like
-rw-r--r--

Also, I looked into why I couldn't chmod; apparently our "labadmin" account wasn't given permission to chmod or chown anybody else's files, so I need to talk to our IT guy about that.
peter

 Ben wrote:
>This might actually be the closest explanation and diagnosis that I have seen on this issue.  However, I >am curious why the labadmin account could not chmod those files?  Also, how do the permissions of >those files compare to the permissions of everything else?  Why is it that the behavior is different for >those files compared to the python modules themselves?
>Ben Root

On Wed, Sep 22, 2010 at 6:16 PM, Eric Firing <ef...@ha...> wrote:
> On 09/22/2010 10:11 AM, Russell Owen wrote:
>> On Sep 22, 2010, at 11:16 AM, Benjamin Root wrote:
>>
>>> On Wed, Sep 22, 2010 at 12:04 PM, Russell E. Owen <ro...@uw...
>>> <mailto:ro...@uw...>> wrote:
>>>
>>>     In article <4C9...@gm...
>>>     <mailto:4C9...@gm...>>,
>>>     Alan G Isaac <ala...@gm... <mailto:ala...@gm...>>
>>>     wrote:
>>>
>>>     >
>>>     http://matplotlib.sourceforge.net/examples/pylab_examples/accented_text.html
>>>
>>>     It's realistic, and that has a lot to be said for it.
>>>
>>>     One of my problems with matplotlib is that it is far too willing to
>>>     truncate axis labels and related information. I'd be much happier
>>>     with a
>>>     layout model that always showed the axis labels in full.
>>>
>>>
>>> Ditto on this. In addition, it would be useful to prevent axes labels
>>> from spilling over into another axes' area.
>>
>> I submitted bug report #3073546 on the issue of axis labels getting
>> truncated.
>> https://sourceforge.net/tracker/?func=detail&atid=560720&aid=3073546&group_id=80706
>> <https://sourceforge.net/tracker/?func=detail&atid=560720&aid=3073546&group_id=80706>
>>
>> You might want to add your suggestion about axis labels or submit a new
>> ticket.
>
> The problem is not a bug; it is inherent in the fundamental design.
> Therefore I moved the ticket over to feature requests.  I want to keep
> the bugs list for real bugs that we can realistically expect to solve
> fairly quickly.
>
> I don't know whether Andrew Straw's wx sizer-inspired code (mplsizer
> toolkit) solves the problem or not.  My impression is that it does
> not--I think it is working with the Axes positions, not with axis and
> tick labels, which are what cause most of the difficulties.
>
> Eric

Until a more permanent solution is figured out, can anyone recommend
any workarounds, even if they are a little clunky?  I'm embedding mpl
plots in wxPython and am also finding this issue suboptimal.

Che

On Wed, Sep 22, 2010 at 7:00 PM, Peter Hoekje <ph...@bw...> wrote:

>  I had this same problem.  Installed
>
> matplotlib-1.0.0-python.org-py2.6-macosx10.4.dmg  on 15 Sept 2010
>
> from matplotlib.sourceforge.net  on OSX 10.6.1 and python 2.6 from
> python.org,  and got same error when trying to plot(something).  It turns
> out that all the image files (for buttons on the plot window, etc) in that
> directory have permissions similar to
>
> -rw--w----  instead of  -rwxr-xr-x.
>
> In our case, the lab administrator account (say, “labadmin”) has
> administrator privileges and was used to give permission to run the
> installer.  However, the files end up being owned by “macadmin”, and
> labadmin isn’t able to chmod or chown them.   Otherwise, it would have
> been an easy problem to solve.
>
> I just checked the bug tracker and didn’t see this error listed.
>
>
>
> peter
>
> This might actually be the closest explanation and diagnosis that I have
seen on this issue.  However, I am curious why the labadmin account could
not chmod those files?  Also, how do the permissions of those files compare
to the permissions of everything else?  Why is it that the behavior is
different for those files compared to the python modules themselves?

Ben Root

I had this same problem.  Installed
matplotlib-1.0.0-python.org-py2.6-macosx10.4.dmg  on 15 Sept 2010
from matplotlib.sourceforge.net  on OSX 10.6.1 and python 2.6 from python.org,  and got same error when trying to plot(something).  It turns out that all the image files (for buttons on the plot window, etc) in that directory have permissions similar to
-rw--w----  instead of  -rwxr-xr-x.
In our case, the lab administrator account (say, "labadmin") has administrator privileges and was used to give permission to run the installer.  However, the files end up being owned by "macadmin", and labadmin isn't able to chmod or chown them.   Otherwise, it would have been an easy problem to solve.
I just checked the bug tracker and didn't see this error listed.

peter


>2010/9/15 tom <tom.christie@...>:
>
>> Jeremy Conlin <jlconlin@...> writes:
>>> I recently installed MPL on two Macs, one running 10.6 and another
>>> running 10.5.  When I try to plot, I get the following error:
>>>
>>> TclError: couldn't open
>>>
>> "/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/
>> site-packages/matplotlib/mpl-data/images/home.ppm":
>>> permission denied
>>>
>>> After checking, it's true that only the owner has read permissions.
>>> This is easy enough on my end, but I wonder if there is a problem with
>>> the distributed installer that should have the correct permissions for
>>> these images.
>>>
>>> Has anyone else seen this problem or is it just me?
>>>
>>> Jeremy
>> I'm having the exact same problem. I recently installed python 2.6 on 2
>> different macs, one using OS X 10.5 and one using 10.6.  One is a powerPC and
>> one's intel, but I get the same error.
>...
>
>Ok, so it seems to be the installer, who's doing the Mac installers usually?
>
>Friedrich

On 09/22/2010 10:11 AM, Russell Owen wrote:
> On Sep 22, 2010, at 11:16 AM, Benjamin Root wrote:
>
>> On Wed, Sep 22, 2010 at 12:04 PM, Russell E. Owen <ro...@uw...
>> <mailto:ro...@uw...>> wrote:
>>
>>     In article <4C9...@gm...
>>     <mailto:4C9...@gm...>>,
>>     Alan G Isaac <ala...@gm... <mailto:ala...@gm...>>
>>     wrote:
>>
>>     >
>>     http://matplotlib.sourceforge.net/examples/pylab_examples/accented_text.html
>>
>>     It's realistic, and that has a lot to be said for it.
>>
>>     One of my problems with matplotlib is that it is far too willing to
>>     truncate axis labels and related information. I'd be much happier
>>     with a
>>     layout model that always showed the axis labels in full.
>>
>>
>> Ditto on this. In addition, it would be useful to prevent axes labels
>> from spilling over into another axes' area.
>
> I submitted bug report #3073546 on the issue of axis labels getting
> truncated.
> https://sourceforge.net/tracker/?func=detail&atid=560720&aid=3073546&group_id=80706
> <https://sourceforge.net/tracker/?func=detail&atid=560720&aid=3073546&group_id=80706>
>
> You might want to add your suggestion about axis labels or submit a new
> ticket.

The problem is not a bug; it is inherent in the fundamental design. 
Therefore I moved the ticket over to feature requests.  I want to keep 
the bugs list for real bugs that we can realistically expect to solve 
fairly quickly.

I don't know whether Andrew Straw's wx sizer-inspired code (mplsizer 
toolkit) solves the problem or not.  My impression is that it does 
not--I think it is working with the Axes positions, not with axis and 
tick labels, which are what cause most of the difficulties.

Eric

>
> Regards,
>
> -- Russell
>
>
>
> ------------------------------------------------------------------------------
> Start uncovering the many advantages of virtual appliances
> and start using them to simplify application deployment and
> accelerate your shift to cloud computing.
> http://p.sf.net/sfu/novell-sfdev2dev
>
>
>
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

On Wed, Sep 22, 2010 at 3:13 PM, Jason Grout <jas...@cr...>wrote:

>   On 09/22/2010 08:59 AM, John Hunter wrote:
> > On Wed, Sep 22, 2010 at 8:45 AM, Bala subramanian
> > <bal...@gm...>  wrote:
> >> Friends,
> >> I have mentioned in my research manuscript that plots were generated by
> >> 'matplotlib package'. I dnt find the related reference of mpl. Kindly
> tell
> >> me how can i site mpl.
> > You can certainly reference the website, but if you want to refer to a
> > published paper, I suggest
> >
> > Matplotlib: A 2D Graphics Environment
> > Source: Computing in Science and Engineering archive
> > Volume 9 ,  Issue 3  (May 2007)
> > Pages: 90-95
> > Year of Publication: 2007
> > ISSN:1521-9615
> > Author:John D. Hunter
> > Publisher     : IEEE Educational Activities Department  Piscataway, NJ,
> USA
> >
> > and/or the conference abstract at
> > http://adsabs.harvard.edu/abs/2005ASPC..347...91B
>
> Could this be put up on the website somewhere in a easily-found place?
> Maybe a short sentence and link in the bar on the right under "Other
> stuff"?  Something like "To cite matplotlib in a paper, use <a
> href='link to wiki page with that citation, preferably in several
> formats like bibtex'> this reference</a>." or something.
>
> Thanks,
>
> Jason
>
>
+1...

This would help by providing a consistent way of citing matplotlib.  Without
this, different authors may reference matplotlib different ways, thereby
diluting the impact of the above reference.  Plus, it always annoyed me to
try and figure out how to cite things like matplotlib or various data
sources.

Ben Root

  On 09/22/2010 08:59 AM, John Hunter wrote:
> On Wed, Sep 22, 2010 at 8:45 AM, Bala subramanian
> <bal...@gm...>  wrote:
>> Friends,
>> I have mentioned in my research manuscript that plots were generated by
>> 'matplotlib package'. I dnt find the related reference of mpl. Kindly tell
>> me how can i site mpl.
> You can certainly reference the website, but if you want to refer to a
> published paper, I suggest
>
> Matplotlib: A 2D Graphics Environment
> Source: Computing in Science and Engineering archive
> Volume 9 ,  Issue 3  (May 2007)
> Pages: 90-95
> Year of Publication: 2007
> ISSN:1521-9615
> Author:John D. Hunter 	
> Publisher 	: IEEE Educational Activities Department  Piscataway, NJ, USA
>
> and/or the conference abstract at
> http://adsabs.harvard.edu/abs/2005ASPC..347...91B

Could this be put up on the website somewhere in a easily-found place?  
Maybe a short sentence and link in the bar on the right under "Other 
stuff"?  Something like "To cite matplotlib in a paper, use <a 
href='link to wiki page with that citation, preferably in several 
formats like bibtex'> this reference</a>." or something.

Thanks,

Jason

On Sep 22, 2010, at 11:16 AM, Benjamin Root wrote:

> On Wed, Sep 22, 2010 at 12:04 PM, Russell E. Owen <ro...@uw...>  
> wrote:
> In article <4C9...@gm...>,
>  Alan G Isaac <ala...@gm...>
>  wrote:
>
> > http://matplotlib.sourceforge.net/examples/pylab_examples/accented_text.html
>
> It's realistic, and that has a lot to be said for it.
>
> One of my problems with matplotlib is that it is far too willing to
> truncate axis labels and related information. I'd be much happier  
> with a
> layout model that always showed the axis labels in full.
>
> Ditto on this.  In addition, it would be useful to prevent axes  
> labels from spilling over into another axes' area.

I submitted bug report #3073546 on the issue of axis labels getting  
truncated.
https://sourceforge.net/tracker/?func=detail&atid=560720&aid=3073546&group_id=80706

You might want to add your suggestion about axis labels or submit a  
new ticket.

Regards,

-- Russell