matplotlib-users Mailing List for matplotlib (Page 5)

I meant to send this to the list, not just to Brent...
---------- Forwarded message ----------
From: Warren Weckesser <war...@gm...>
Date: Mon, Aug 18, 2008 at 4:03 PM
Subject: Re: [Matplotlib-users] Set MPLCONFIGDIR to something different
To: Brent Pedersen <bpe...@gm...>
Hi,
On Mon, Aug 18, 2008 at 3:55 PM, Brent Pedersen <bpe...@gm...> wrote:
> On Mon, Aug 18, 2008 at 8:25 AM, stuartornum <st...@mu...> wrote:
> >
> > Hi Jeff,
> >
> > Sorry I should have explained more. I am running a web app also I
> currently
> > working for a very large organisation so the infrastructure is quite
> > different to your average home / signle server setup.
> >
> > Thank you.<https://lists.sourceforge.net/lists/listinfo/matplotlib-users>
> >
>
> i think before importing matplotlib, you can do:
> os.environ['HOME'] = "/some/path"
>
>
I do that on my server, e.g. my python CGI scripts do
 os.environ['HOME'] = '/var/www/tmp'
before importing anything from matplotlib. Seems to work fine.
This is explained in a FAQ or doc or tutorial somewhere.
Warren

On Mon, Aug 18, 2008 at 8:25 AM, stuartornum <st...@mu...> wrote:
>
> Hi Jeff,
>
> Sorry I should have explained more. I am running a web app also I currently
> working for a very large organisation so the infrastructure is quite
> different to your average home / signle server setup.
>
> Thank you.
> --
> View this message in context: http://www.nabble.com/Set-MPLCONFIGDIR-to-something-different-tp19033822p19034026.html
> Sent from the matplotlib - users mailing list archive at Nabble.com.
>
>
> -------------------------------------------------------------------------
> This SF.Net email is sponsored by the Moblin Your Move Developer's challenge
> Build the coolest Linux based applications with Moblin SDK & win great prizes
> Grand prize is a trip for two to an Open Source event anywhere in the world
> http://moblin-contest.org/redirect.php?banner_id=100&url=/
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>
i think before importing matplotlib, you can do:
os.environ['HOME'] = "/some/path"

On Monday 18 August 2008 10:45:39 am Darren Dale wrote:
> On Monday 18 August 2008 09:48:58 am you wrote:
> > Hi,
> >
> > On Mon, Aug 18, 2008 at 2:25 PM, Darren Dale <dsd...@gm...> wrote:
> > > Could you post a *simple* script that reproduces the problem? And in
> > > the meantime, to get a figure that looks better for your publication,
> > > can you save your figure as an svg, import it into inkscape, tweak the
> > > bad placement, and then save a pdf?
> >
> > Thanks for the inkscape suggestion - I usually just use eps and pdf
> > which I find harder to edit.
> >
> > Below is the function I use to create the plot. Actually I thought it
> > happened with all legends, but I think I have just been focussing on
> > these plots for too long, because when I check now it only seems to
> > happen when I plot with this function.
> > plot_stacked(arange(1,6),arange(1,6)) should reproduce the problem.
> > Perhaps it is something to do with setting the labels to '' to delete
> > the duplicate copies I don't want?
>
> No, because you can comment out that part of the code and still get a
> problem with the "Higher Order" label.
>
> The problem is that the text placement for the "Higher Order" text label is
> being calculated with reference to the descent of "g" rather than its
> baseline (see http://en.wikipedia.org/wiki/Typeface#Font_metrics). I'm
> looking into it, I think it can be improved.
It turns out that the information needed to do a better job of placing either 
the text or the Rectangle is calculated by the renderer, long after the text 
and Rectangle positions have been chosen based on an approximation of the 
text height (among other parameters). This is not my area of expertise, I'm 
just trying to fill in while the others are busy at the Scipy conference.
There must be good reasons for organizing Legend the way it is, but maybe it 
tries to do too much too early and then never makes any refinements. Here is 
a patch that I submit only for the sake of discussion, it is an ugly 
workaround to the problem of not using the text's baseline as the common 
point of reference.
You can perhaps temporarily modify your legend.py to make a better figure, 
although maybe this patch doesnt even do what you want it to. For now, I 
think it would be better to go with inkscape to make improvements, if you 
can.
Index: lib/matplotlib/legend.py
===================================================================
--- lib/matplotlib/legend.py (revision 6035)
+++ lib/matplotlib/legend.py (working copy)
@@ -203,16 +203,31 @@
 if not len(self.legendHandles) and not len(self.texts): return
- for h in self.legendHandles:
- if h is not None:
- h.draw(renderer)
- if hasattr(h, '_legmarker'):
- h._legmarker.draw(renderer)
- if 0: bbox_artist(h, renderer)
- for t in self.texts:
- if 0: bbox_artist(t, renderer)
- t.draw(renderer)
+ for l, t in safezip(self.legendHandles, self.texts):
+ if t is not None:
+ if 0: bbox_artist(t, renderer)
+ t.draw(renderer)
+ s = t.get_text()
+ f = t.get_font_properties()
+ ismath = t.is_math_text(s)
+ w, h, d = renderer.get_text_width_height_descent(s, f, 
ismath)
+ if l is not None:
+ if isinstance(l, Rectangle):
+ try:
+ old_h = l.get_height()
+ new_h = old_h * (h-d) / h
+ old_y = l.get_y()
+ new_y = old_y + (old_h - new_h)
+ l.set_height(new_h)
+ l.set_y(new_y)
+ except NameError:
+ pass
+ l.draw(renderer)
+ if hasattr(l, '_legmarker'):
+ l._legmarker.draw(renderer)
+ if 0: bbox_artist(l, renderer)
+
 renderer.close_group('legend')
 #draw_bbox(self.save, renderer, 'g')
 #draw_bbox(self.ibox, renderer, 'r', self.get_transform())

stuartornum wrote:
> Hi Jeff,
>
> Sorry I should have explained more. I am running a web app also I currently
> working for a very large organisation so the infrastructure is quite
> different to your average home / signle server setup.
>
> Thank you.
> 
Stuart: I don't think setting it in your script will have any effect. 
If MPLCONFIGDIR is unset, it should still work, since mpl will look in 
the web server's home directory. If you want to set MPLCONFIGDIR, it 
has to be done in the web server environment to have any effect.
However, I'm certainly no expert on running mpl in web apps. Have you 
tried searching the list archives for "MPLCONFIGDIR", or "web app"?
-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-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

Hi Jeff,
Sorry I should have explained more. I am running a web app also I currently
working for a very large organisation so the infrastructure is quite
different to your average home / signle server setup.
Thank you.
-- 
View this message in context: http://www.nabble.com/Set-MPLCONFIGDIR-to-something-different-tp19033822p19034026.html
Sent from the matplotlib - users mailing list archive at Nabble.com.

stuartornum wrote:
> Hi,
>
> Im getting the error:
>
> <type 'exceptions.RuntimeError'>: Failed to create
> /$dirstring$/common/.matplotlib; consider setting MPLCONFIGDIR to a writable
> directory for matplotlib configuration data
>
> The problem is I do not have write access to the MatPlotLib module sourse,
> so I cannot change the MPLCONFIGDIR variable, where ever it is..!
>
> So my question is can I set MPLCONFIGDIR to say "/home/user/dirs/" in my
> script somewhere, so that I know the that directory has read/write access.
>
> Thank you for your time.
>
> Regards
> 
Stuart: Why are you setting the MPLCONFIGDIR environment variable? By 
default, the configuration file goes in $HOME/.matplotlib, which is 
usually just fine. Typically $MPLCONFIGDIR is used to override this in 
special situations, for example when running matplotlib in a web 
application.
-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-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

Hi,
Im getting the error:
<type 'exceptions.RuntimeError'>: Failed to create
/$dirstring$/common/.matplotlib; consider setting MPLCONFIGDIR to a writable
directory for matplotlib configuration data
The problem is I do not have write access to the MatPlotLib module sourse,
so I cannot change the MPLCONFIGDIR variable, where ever it is..!
So my question is can I set MPLCONFIGDIR to say "/home/user/dirs/" in my
script somewhere, so that I know the that directory has read/write access.
Thank you for your time.
Regards
-- 
View this message in context: http://www.nabble.com/Set-MPLCONFIGDIR-to-something-different-tp19033822p19033822.html
Sent from the matplotlib - users mailing list archive at Nabble.com.

On Monday 18 August 2008 09:48:58 am you wrote:
> Hi,
>
> On Mon, Aug 18, 2008 at 2:25 PM, Darren Dale <dsd...@gm...> wrote:
> > Could you post a *simple* script that reproduces the problem? And in the
> > meantime, to get a figure that looks better for your publication, can you
> > save your figure as an svg, import it into inkscape, tweak the bad
> > placement, and then save a pdf?
>
> Thanks for the inkscape suggestion - I usually just use eps and pdf
> which I find harder to edit.
>
> Below is the function I use to create the plot. Actually I thought it
> happened with all legends, but I think I have just been focussing on
> these plots for too long, because when I check now it only seems to
> happen when I plot with this function.
> plot_stacked(arange(1,6),arange(1,6)) should reproduce the problem.
> Perhaps it is something to do with setting the labels to '' to delete
> the duplicate copies I don't want?
No, because you can comment out that part of the code and still get a problem 
with the "Higher Order" label.
The problem is that the text placement for the "Higher Order" text label is 
being calculated with reference to the descent of "g" rather than its 
baseline (see http://en.wikipedia.org/wiki/Typeface#Font_metrics). I'm 
looking into it, I think it can be improved.

Bump.
________________________________
From: mat...@li... [mailto:mat...@li...] On Behalf Of Ben Axelrod
Sent: Thursday, August 14, 2008 5:54 PM
To: Matplotlib
Subject: [Matplotlib-users] Arrow Questions
I am trying to implement a dynamic graph in mpl, where users can drag around the nodes, and the edges follow the nodes like rubber bands. I have this working with regular edges, but I want to give the option of putting arrows on the edges. I am running into some issues with the Arrow classes.
With my Text, Rectangle, and Line2D objects I can get and set their locations with methods such as get_position(), get_x(), and get_xdata() respectively. But there are no such methods for any of the Arrow classes. (By the way, it seems like these sorts of things would be in the base classes, and much more standard).
What is the difference between Arrow, YAArrow, and FancyArrow anyway? (Besides drastically different scales).
Some other features of the Arrow class that I would like very much are:
* double headed arrows (one line with an arrow head on each end)
 * the ability to turn the arrow head on and off easily (Boolean parameter function)
Does anyone have any ideas on how to work around these issues?
Thanks,
-Ben

Hi,
On Mon, Aug 18, 2008 at 2:25 PM, Darren Dale <dsd...@gm...> wrote:
> Could you post a *simple* script that reproduces the problem? And in the
> meantime, to get a figure that looks better for your publication, can you
> save your figure as an svg, import it into inkscape, tweak the bad placement,
> and then save a pdf?
Thanks for the inkscape suggestion - I usually just use eps and pdf
which I find harder to edit.
Below is the function I use to create the plot. Actually I thought it
happened with all legends, but I think I have just been focussing on
these plots for too long, because when I check now it only seems to
happen when I plot with this function.
plot_stacked(arange(1,6),arange(1,6)) should reproduce the problem.
Perhaps it is something to do with setting the labels to '' to delete
the duplicate copies I don't want?
Thanks,
Robin
def plot_stacked(*vals, **kwargs):
 fig = figure()
 sub = fig.add_subplot(111)
 ticks = kwargs.setdefault('ticks',[])
 labels = kwargs.setdefault('labels',False)
 numstacks = len(vals)
 vallength = set([len(val) for val in vals])
 if len(vallength) > 1:
 raise ValueError,'All input values should have the same length'
 vallength = vallength.pop()
 ind = 0.25 + arange(numstacks)
 width = 0.5
 bottom = zeros(numstacks)
 colorvals = arange(vallength) * (1.0/(vallength-1))
 orderlabels = ['First Order','Second Order','Third Order','Fourth Order']
 if not labels:
 labels = orderlabels[:vallength-1] + ['Higher Order']
 for i in range(vallength):
 ivals = [val[i] for val in vals]
 sub.bar(ind, ivals, width,
 bottom=bottom, color=str(colorvals[i]),label=labels[i])
 bottom += ivals
 sub.set_xlim(0,numstacks+1.5)
 sub.set_xticks(ind+width/2)
 sub.set_xticklabels(ticks)
 # remove duplicate labels
 tmplabels = []
 for rect in sub.patches:
 if rect.get_label() in tmplabels:
 rect.set_label('')
 else:
 tmplabels.append(rect.get_label())
 sub.legend()
 fig.show()
>
> Darren
>
>
> On Monday 18 August 2008 08:47:16 am Robin wrote:
>> Hi,
>>
>> I was wondering if anyone was able to help with this problem of
>> incorrect legend alignment.
>>
>> I am not sure if the original mail did not get through, perhaps
>> because of the attachent, so this time I have put the example here:
>> http://acrids.robince.net/robince/bad_legend.pdf
>>
>> Publication is now imminent and I have a horible feeling I am going to
>> have to do all the plots again in Matlab unless we can resolve this
>> problem - it currently looks very unprofessional.
>>
>> I would appreciate any pointers on where to look to try to resolve this.
>>
>> Thanks
>>
>> Robin
>>
>> On Thu, Jul 10, 2008 at 11:58 PM, Robin <ro...@gm...> wrote:
>> > Hi,
>> >
>> > I have a problem with legends where the vertical spacing is sometimes
>> > a bit funny (lines don't seem to be evenly spaced).
>> >
>> > I am now preparing some figures for publication and this is the last
>> > niggle I'd really like to resolve.
>> >
>> > Is there anything I could do to fix this?
>> >
>> > A small example is attached (I cropped it to just the legend to reduce
>> > file size).
>> >
>> > I am setting the label on the bars I am plotting and then just calling
>> > ax.legend()
>> >
>> > At the risk of putting two queries in one email the only other problem
>> > I have regularly is that small figures resize themselves when the
>> > mouse rolls over them. I am using TkAgg backend on OS X but I think it
>> > happens on other platforms as well. On mouse over the window jiggles
>> > and resizes slightly. When I am saving figures I have to be careful to
>> > call savefig from the command line without touching the window with
>> > the mouse to ensure they save as the correct size. Just wondered if it
>> > was a known issue...
>> >
>> > Apart from these minor things though matplotlib has been performing
>> > great!
>> >
>> > Thanks,
>> >
>> > Robin
>>
>> -------------------------------------------------------------------------
>> This SF.Net email is sponsored by the Moblin Your Move Developer's
>> challenge Build the coolest Linux based applications with Moblin SDK & win
>> great prizes Grand prize is a trip for two to an Open Source event anywhere
>> in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/
>> _______________________________________________
>> Matplotlib-users mailing list
>> Mat...@li...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>
>
>
> -------------------------------------------------------------------------
> This SF.Net email is sponsored by the Moblin Your Move Developer's challenge
> Build the coolest Linux based applications with Moblin SDK & win great prizes
> Grand prize is a trip for two to an Open Source event anywhere in the world
> http://moblin-contest.org/redirect.php?banner_id=100&url=/
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Hi Robin,
Could you post a *simple* script that reproduces the problem? And in the 
meantime, to get a figure that looks better for your publication, can you 
save your figure as an svg, import it into inkscape, tweak the bad placement, 
and then save a pdf?
Darren
On Monday 18 August 2008 08:47:16 am Robin wrote:
> Hi,
>
> I was wondering if anyone was able to help with this problem of
> incorrect legend alignment.
>
> I am not sure if the original mail did not get through, perhaps
> because of the attachent, so this time I have put the example here:
> http://acrids.robince.net/robince/bad_legend.pdf
>
> Publication is now imminent and I have a horible feeling I am going to
> have to do all the plots again in Matlab unless we can resolve this
> problem - it currently looks very unprofessional.
>
> I would appreciate any pointers on where to look to try to resolve this.
>
> Thanks
>
> Robin
>
> On Thu, Jul 10, 2008 at 11:58 PM, Robin <ro...@gm...> wrote:
> > Hi,
> >
> > I have a problem with legends where the vertical spacing is sometimes
> > a bit funny (lines don't seem to be evenly spaced).
> >
> > I am now preparing some figures for publication and this is the last
> > niggle I'd really like to resolve.
> >
> > Is there anything I could do to fix this?
> >
> > A small example is attached (I cropped it to just the legend to reduce
> > file size).
> >
> > I am setting the label on the bars I am plotting and then just calling
> > ax.legend()
> >
> > At the risk of putting two queries in one email the only other problem
> > I have regularly is that small figures resize themselves when the
> > mouse rolls over them. I am using TkAgg backend on OS X but I think it
> > happens on other platforms as well. On mouse over the window jiggles
> > and resizes slightly. When I am saving figures I have to be careful to
> > call savefig from the command line without touching the window with
> > the mouse to ensure they save as the correct size. Just wondered if it
> > was a known issue...
> >
> > Apart from these minor things though matplotlib has been performing
> > great!
> >
> > Thanks,
> >
> > Robin
>
> -------------------------------------------------------------------------
> This SF.Net email is sponsored by the Moblin Your Move Developer's
> challenge Build the coolest Linux based applications with Moblin SDK & win
> great prizes Grand prize is a trip for two to an Open Source event anywhere
> in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

Hi,
I was wondering if anyone was able to help with this problem of
incorrect legend alignment.
I am not sure if the original mail did not get through, perhaps
because of the attachent, so this time I have put the example here:
http://acrids.robince.net/robince/bad_legend.pdf
Publication is now imminent and I have a horible feeling I am going to
have to do all the plots again in Matlab unless we can resolve this
problem - it currently looks very unprofessional.
I would appreciate any pointers on where to look to try to resolve this.
Thanks
Robin
On Thu, Jul 10, 2008 at 11:58 PM, Robin <ro...@gm...> wrote:
> Hi,
>
> I have a problem with legends where the vertical spacing is sometimes
> a bit funny (lines don't seem to be evenly spaced).
>
> I am now preparing some figures for publication and this is the last
> niggle I'd really like to resolve.
>
> Is there anything I could do to fix this?
>
> A small example is attached (I cropped it to just the legend to reduce
> file size).
>
> I am setting the label on the bars I am plotting and then just calling
> ax.legend()
>
> At the risk of putting two queries in one email the only other problem
> I have regularly is that small figures resize themselves when the
> mouse rolls over them. I am using TkAgg backend on OS X but I think it
> happens on other platforms as well. On mouse over the window jiggles
> and resizes slightly. When I am saving figures I have to be careful to
> call savefig from the command line without touching the window with
> the mouse to ensure they save as the correct size. Just wondered if it
> was a known issue...
>
> Apart from these minor things though matplotlib has been performing great!
>
> Thanks,
>
> Robin
>

Chris Fonnesbeck wrote:
> I'm trying to track down a function/recipe for generating a multivariate 
> scatter plot. I'm thinking of something similar to what you get in R if 
> you call plot on a multivariate data frame:
> http://mt11.quickshareit.com/share/rplotb1a70.pdf 
Yes, that would be really useful. I started something
in PyX awhile back (below, MIT license). Not beautiful, but
functions. Please post if you develop something nice.
Alan
import numpy as np
from pyx import canvas, graph
data = np.random.random((3,10))
def scatter_plot_matrix(group,figwidth=18,hsep=1,vsep=1):
 g_len = len(group)
 subplot_size = (figwidth - (g_len-1)*hsep)/g_len
 c = canvas.canvas()
 g_id = range(g_len)
 xlinks = []
 for yi in g_id[::-1]:
 for xi in g_id:
 xseries = group[xi]
 yseries = group[yi]
 if xi == 0:
 ylinkaxis = None
 else:
 ylinkaxis = graph.axis.linkedaxis(ylink.axes["y"])
 if yi == g_len-1:
 xlinkaxis = None
 else:
 xlinkaxis = graph.axis.linkedaxis(xlinks[xi].axes["x"])
 newgraph = c.insert(graph.graphxy(width=subplot_size, 
height=subplot_size,
 xpos=(subplot_size+hsep)*xi,
 ypos=(subplot_size+vsep)*(g_len-1-yi),
 x = (xlinkaxis or graph.axis.linear()),
 y = (ylinkaxis or graph.axis.linear()),
 )
 )
 newgraph.plot(graph.data.list(zip(xseries,yseries), x=1, y=2))
 if xi == 0:
 ylink = newgraph
 if yi == g_len -1:
 xlinks.append( newgraph )
 return c
test1 = scatter_plot_matrix(data)
test1.writeEPSfile("c:/temp/temp.eps")

Hi,
sorry for the latency, holidays just finished :-(
Find with this message a modified version of windrose_oo, but I'm not 
very familiar with the new projections facilities, and then the code is 
buggy :
##############################
Traceback (most recent call last):
 File "windrose_oo.py", line 464, in <module>
 ax = WindroseAxes(fig, rect, axisbg='w')
 File "windrose_oo.py", line 33, in __init__
 PolarAxes.__init__(self, *args, **kwargs)
 File 
"/usr/lib/python2.5/site-packages/matplotlib/projections/polar.py", line 
171, in __init__
 Axes.__init__(self, *args, **kwargs)
 File "/usr/lib/python2.5/site-packages/matplotlib/axes.py", line 529, 
in __init__
 self.cla()
 File "windrose_oo.py", line 47, in cla
 PolarAxes.cla(self)
 File 
"/usr/lib/python2.5/site-packages/matplotlib/projections/polar.py", line 
177, in cla
 Axes.cla(self)
 File "/usr/lib/python2.5/site-packages/matplotlib/axes.py", line 771, 
in cla
 self.xaxis.cla()
AttributeError: 'NoneType' object has no attribute 'cla'
#############################
I don't understand why this problem occurs, if someone can the mistake, 
I'll appreciate :-)
Thanks
Christopher Barker a écrit :
> Lionel Roubeyrie wrote:
>> find with this message a modified version of windrose to be OO 
>> compliant. 
>
> Lionel,
>
> I've had this message of yours (from March), and finally had a chance 
> to use it.
>
> Unfortunately, it seems to use the old Transforms mechanism, so won't 
> work with the latest MPL.
>
> have you ported it over yet? Can anyone else help out with a port?
>
> Thanks,
>
> -Chris
>
>
>
>
>
-- 
Lionel Roubeyrie - lro...@li...
Chargé d'études et de maintenance
LIMAIR - la Surveillance de l'Air en Limousin
http://www.limair.asso.fr

I'm trying to track down a function/recipe for generating a multivariate 
scatter plot. I'm thinking of something similar to what you get in R if
you call plot on a multivariate data frame:
http://mt11.quickshareit.com/share/rplotb1a70.pdf
Is there anything obvious here? It seems like something that would get a
lot of use, for exploring large datasets, etc.
Thanks,
cf

Nathaniel Virgo <nathanielvirgo@...> writes:
> 
> Hi allI'm having trouble installing on OS X. The short story is it looks 
like something file is trying to build something for a ppc architecture when 
I'm on an Intel mac.Here's the long story:First I downloaded the 
matplotlib-0.99.3-py2.5-macosx-10.3.egg file 
but it complained that I didn't have numpy 1.1 as the version that comes with 
OS X is 1.0.1. 
Hi Nathaniel,
I have an installer script that gives you recent builds of numpy, scipy and
 matplotlib, all installed from egg archives. It works well with MacPython, so 
you might want to try it:
http://macinscience.com
cf

Hi,
Please do not underestimate the usefulness of this feature of Matlab. I am working on my PhD which is a long term project and requires many figures in the final dissertation. It very convenient in Matlab to be able to make small adjustment to plots you generated a year ago by simply opening the .fig file. Often, when working with my matplotlib plots, I'd have to go back and re-generate the plots, which may require a lenghty simulation or familiarising yourself with scripts you wrote a year ago.
The good pdf support in inkscape and the ability to save to svg from matplotlib somewhat alleviates this, but there are still many adjustments which require regenrating the original plot and many little errors that creep in because of incomplete support for the pdf format in inkscape.
Regards
Izak
----- Original Message ----
From: Eric Firing <ef...@ha...>
To: Elaine Angelino <ela...@gm...>
Cc: matplotlib-users <mat...@li...>
Sent: Sunday, August 17, 2008 1:22:09 AM
Subject: Re: [Matplotlib-users] saving a figure
Elaine Angelino wrote:
> hi there,
> 
> in matlab, it is possible to save a matlab .fig file that can be opened 
> directly by matlab (and which you can then interact with and edit, for 
> example change the title, etc.). is it possible to do something 
> analogous in matplotlib?
> 
> thanks very much
> 
> elaine
Elaine,
No, this is not possible in mpl. It has been requested before, and 
there has been some discussion, but I don't think it is high on anyone's 
priority list. Personally, I never used that functionality when I used 
Matlab, so I don't miss it.
Eric
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> It sounds like you have interactive mode on, in which case each pylab
> function redraws the figure.
Yes - it was that simple (and stupid); thanks for your patience. Turning off 
interactive mode and using the set_data approach leads to an execution time 
of about 0.05 seconds (~30-fold speed-up), which is _fine_.
Thanks again for yor help.
Boris

This comes up every so often, and there really should be more 
instructions on the website; suffice it to say, it's trying to 
resolve dependencies that are actually satisfied by the package yoiu 
downloaded (it is a "fat" binary, universal - both PPC and Intel) but 
distutils is being somewhat obtuse for an unknown (to me) reason.
That said, the build on the matplotlib website is self-sufficient save 
for numpy, use the -N flag to easy_install (and don't forget to run it 
with sudo). This should take care of things.
Cheers,
David
On 16-Aug-08, at 8:36 AM, Nathaniel Virgo wrote:
> Hi all
>
> I'm having trouble installing on OS X. The short story is it looks 
> like something file is trying to build something for a ppc 
> architecture when I'm on an Intel mac.
>
> Here's the long story:
>
> First I downloaded the matplotlib-0.99.3-py2.5-macosx-10.3.egg file 
> but it complained that I didn't have numpy 1.1 as the version that 
> comes with OS X is 1.0.1. So I tried matplotlib-0.91.4-py2.5- 
> macosx-10.3.egg but that complained about not being able to download 
> the matplotlib package.
>
> So then I installed MacPython from the python website, and installed 
> NumPy from the SciPy website (both of which use standard OS X 
> installation tools), and installed the easy_install script (because 
> the one that comes with OS X looks at the built-in python libs not 
> the ones I just installed). Now running
>
> /Library/Frameworks/Python.framework/Versions/2.5/bin/easy_install ~/ 
> Downloads/matplotlib-0.98.3-py2.5-macosx-10.3.egg
>
> gives a bunch of errors. Full output is below. The line "ld: in / 
> opt/local/lib/libJPEG.dylib, file is not of required architecture 
> for architecture ppc" looks suspicious to me, since I'm on an Intel 
> Mac.
>
> Am I doing something wrong or is this a problem with the egg file? 
> Does anyone have instructions for installing matplotlib successfully 
> on an Intel Mac? I'm pretty new to python so please forgive me if 
> I'm doing something silly.
>
> Nathaniel
>
>
> Processing matplotlib-0.98.3-py2.5-macosx-10.3.egg
> removing '/Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/site-packages/matplotlib-0.98.3-py2.5- 
> macosx-10.3.egg' (and everything under it)
> creating /Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/site-packages/matplotlib-0.98.3-py2.5-macosx-10.3.egg
> Extracting matplotlib-0.98.3-py2.5-macosx-10.3.egg to /Library/ 
> Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages
> matplotlib 0.98.3 is already the active version in easy-install.pth
>
> Installed /Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/site-packages/matplotlib-0.98.3-py2.5-macosx-10.3.egg
> Processing dependencies for matplotlib==0.98.3
> Searching for matplotlib==0.98.3
> Reading http://pypi.python.org/simple/matplotlib/
> Reading http://matplotlib.sourceforge.net
> Reading https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194
> Reading https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474
> Reading http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474
> Reading http://sourceforge.net/project/showfiles.php?group_id=80706
> Best match: matplotlib 0.98.3
> Downloading http://downloads.sourceforge.net/matplotlib/matplotlib-0.98.3.tar.gz?modtime=1217773039&big_mirror=0
> Processing matplotlib-0.98.3.tar.gz
> Running matplotlib-0.98.3/setup.py -q bdist_egg --dist-dir /var/ 
> folders/-o/-oFJ5-G6HuK5pe-MeCIFOE+++TQ/-Tmp-/easy_install-5GMKQj/ 
> matplotlib-0.98.3/egg-dist-tmp-xTqKsx
> = 
> = 
> = 
> = 
> = 
> = 
> ======================================================================
> BUILDING MATPLOTLIB
> matplotlib: 0.98.3
> python: 2.5.2 (r252:60911, Feb 22 2008, 07:57:53) 
> [GCC
> 4.0.1 (Apple Computer, Inc. build 5363)]
> platform: darwin
>
> REQUIRED DEPENDENCIES
> numpy: 1.1.1
> freetype2: 9.16.3
>
> OPTIONAL BACKEND DEPENDENCIES
> libpng: 1.2.25
> Tkinter: Tkinter: 50704, Tk: 8.4, Tcl: 8.4
> wxPython: no
> * wxPython not found
> Gtk+: no
> * Building for Gtk+ requires pygtk; you must 
> be able
> * to "import gtk" in your build/install 
> environment
> Qt: no
> Qt4: no
> Cairo: no
>
> OPTIONAL DATE/TIMEZONE DEPENDENCIES
> datetime: present, version unknown
> dateutil: matplotlib will provide
> pytz: matplotlib will provide
>
> OPTIONAL USETEX DEPENDENCIES
> dvipng: 1.9
> ghostscript: 8.61
> latex: 3.141592
>
> EXPERIMENTAL CONFIG PACKAGE DEPENDENCIES
> configobj: matplotlib will provide
> enthought.traits: no
>
> [Edit setup.cfg to suppress the above messages]
> = 
> = 
> = 
> = 
> = 
> = 
> ======================================================================
> warning: no files found matching 'NUMARRAY_ISSUES'
> warning: no files found matching 'MANIFEST'
> warning: no files found matching 'matplotlibrc'
> warning: no files found matching 'makeswig.py'
> warning: no files found matching 'examples/data/*'
> warning: no files found matching 'lib/mpl_toolkits'
> warning: no files found matching '*' under directory 'examples'
> warning: no files found matching '*' under directory 'swig'
> In file included from /usr/include/math.h:26,
> from /Library/Frameworks/Python.framework/Versions/ 
> 2.5/include/python2.5/pyport.h:231,
> from /Library/Frameworks/Python.framework/Versions/ 
> 2.5/include/python2.5/Python.h:57,
> from ./CXX/WrapPython.h:42,
> from CXX/cxxextensions.c:38:
> /usr/include/architecture/ppc/math.h:675: warning: conflicting types 
> for built-in function 'scalb'
> ld: warning in /opt/local/lib/libfreetype.dylib, file is not of 
> required architecture
> ld: warning in /opt/local/lib/libz.dylib, file is not of required 
> architecture
> ld: in /opt/local/lib/libJPEG.dylib, file is not of required 
> architecture for architecture ppc
> collect2: ld returned 1 exit status
> ld: warning, duplicate dylib /opt/local/lib/libz.1.dylib
> lipo: can't open input file: /var/folders/-o/-oFJ5-G6HuK5pe-MeCIFOE++ 
> +TQ/-Tmp-//ccBp4SVz.out (No such file or directory)
> error: Setup script exited with error: command 'g++' failed with 
> exit status 1
> Exception exceptions.OSError: (2, 'No such file or directory', 'src/ 
> image.cpp') in <bound method CleanUpFile.__del__ of 
> <setupext.CleanUpFile instance at 0x1b3ffa8>> ignored
> Exception exceptions.OSError: (2, 'No such file or directory', 'src/ 
> path.cpp') in <bound method CleanUpFile.__del__ of 
> <setupext.CleanUpFile instance at 0x1b3f828>> ignored
> Exception exceptions.OSError: (2, 'No such file or directory', 'src/ 
> backend_agg.cpp') in <bound method CleanUpFile.__del__ of 
> <setupext.CleanUpFile instance at 0x1b3fb70>> ignored
>
>
>
> -------------------------------------------------------------------------
> This SF.Net email is sponsored by the Moblin Your Move Developer's 
> challenge
> Build the coolest Linux based applications with Moblin SDK & win 
> great prizes
> Grand prize is a trip for two to an Open Source event anywhere in 
> the world
> http://moblin-contest.org/redirect.php?banner_id=100&url=/_______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

Elaine Angelino wrote:
> hi there,
> 
> in matlab, it is possible to save a matlab .fig file that can be opened 
> directly by matlab (and which you can then interact with and edit, for 
> example change the title, etc.). is it possible to do something 
> analogous in matplotlib?
> 
> thanks very much
> 
> elaine
Elaine,
No, this is not possible in mpl. It has been requested before, and 
there has been some discussion, but I don't think it is high on anyone's 
priority list. Personally, I never used that functionality when I used 
Matlab, so I don't miss it.
Eric

Hi all
I'm having trouble installing on OS X. The short story is it looks like
something file is trying to build something for a ppc architecture when I'm
on an Intel mac.
Here's the long story:
First I downloaded the matplotlib-0.99.3-py2.5-macosx-10.3.egg file but it
complained that I didn't have numpy 1.1 as the version that comes with OS X
is 1.0.1. So I tried matplotlib-0.91.4-py2.5-macosx-10.3.egg but that
complained about not being able to download the matplotlib package.
So then I installed MacPython from the python website, and installed NumPy
from the SciPy website (both of which use standard OS X installation tools),
and installed the easy_install script (because the one that comes with OS X
looks at the built-in python libs not the ones I just installed). Now
running
/Library/Frameworks/Python.framework/Versions/2.5/bin/easy_install
~/Downloads/matplotlib-0.98.3-py2.5-macosx-10.3.egg
gives a bunch of errors. Full output is below. The line "ld: in
/opt/local/lib/libJPEG.dylib, file is not of required architecture for
architecture ppc" looks suspicious to me, since I'm on an Intel Mac.
Am I doing something wrong or is this a problem with the egg file? Does
anyone have instructions for installing matplotlib successfully on an Intel
Mac? I'm pretty new to python so please forgive me if I'm doing something
silly.
Nathaniel
Processing matplotlib-0.98.3-py2.5-macosx-10.3.egg
removing
'/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib-0.98.3-py2.5-macosx-10.3.egg'
(and everything under it)
creating
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib-0.98.3-py2.5-macosx-10.3.egg
Extracting matplotlib-0.98.3-py2.5-macosx-10.3.egg to
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages
matplotlib 0.98.3 is already the active version in easy-install.pth
Installed
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib-0.98.3-py2.5-macosx-10.3.egg
Processing dependencies for matplotlib==0.98.3
Searching for matplotlib==0.98.3
Reading http://pypi.python.org/simple/matplotlib/
Reading http://matplotlib.sourceforge.net
Reading
https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194
Reading
https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474
Reading
http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474
Reading http://sourceforge.net/project/showfiles.php?group_id=80706
Best match: matplotlib 0.98.3
Downloading
http://downloads.sourceforge.net/matplotlib/matplotlib-0.98.3.tar.gz?modtime=1217773039&big_mirror=0
Processing matplotlib-0.98.3.tar.gz
Running matplotlib-0.98.3/setup.py -q bdist_egg --dist-dir
/var/folders/-o/-oFJ5-G6HuK5pe-MeCIFOE+++TQ/-Tmp-/easy_install-5GMKQj/matplotlib-0.98.3/egg-dist-tmp-xTqKsx
============================================================================
BUILDING MATPLOTLIB
 matplotlib: 0.98.3
 python: 2.5.2 (r252:60911, Feb 22 2008, 07:57:53) [GCC
 4.0.1 (Apple Computer, Inc. build 5363)]
 platform: darwin
REQUIRED DEPENDENCIES
 numpy: 1.1.1
 freetype2: 9.16.3
OPTIONAL BACKEND DEPENDENCIES
 libpng: 1.2.25
 Tkinter: Tkinter: 50704, Tk: 8.4, Tcl: 8.4
 wxPython: no
 * wxPython not found
 Gtk+: no
 * Building for Gtk+ requires pygtk; you must be able
 * to "import gtk" in your build/install environment
 Qt: no
 Qt4: no
 Cairo: no
OPTIONAL DATE/TIMEZONE DEPENDENCIES
 datetime: present, version unknown
 dateutil: matplotlib will provide
 pytz: matplotlib will provide
OPTIONAL USETEX DEPENDENCIES
 dvipng: 1.9
 ghostscript: 8.61
 latex: 3.141592
EXPERIMENTAL CONFIG PACKAGE DEPENDENCIES
 configobj: matplotlib will provide
 enthought.traits: no
[Edit setup.cfg to suppress the above messages]
============================================================================
warning: no files found matching 'NUMARRAY_ISSUES'
warning: no files found matching 'MANIFEST'
warning: no files found matching 'matplotlibrc'
warning: no files found matching 'makeswig.py'
warning: no files found matching 'examples/data/*'
warning: no files found matching 'lib/mpl_toolkits'
warning: no files found matching '*' under directory 'examples'
warning: no files found matching '*' under directory 'swig'
In file included from /usr/include/math.h:26,
 from
/Library/Frameworks/Python.framework/Versions/2.5/include/python2.5/pyport.h:231,
 from
/Library/Frameworks/Python.framework/Versions/2.5/include/python2.5/Python.h:57,
 from ./CXX/WrapPython.h:42,
 from CXX/cxxextensions.c:38:
/usr/include/architecture/ppc/math.h:675: warning: conflicting types for
built-in function 'scalb'
ld: warning in /opt/local/lib/libfreetype.dylib, file is not of required
architecture
ld: warning in /opt/local/lib/libz.dylib, file is not of required
architecture
ld: in /opt/local/lib/libJPEG.dylib, file is not of required architecture
for architecture ppc
collect2: ld returned 1 exit status
ld: warning, duplicate dylib /opt/local/lib/libz.1.dylib
lipo: can't open input file:
/var/folders/-o/-oFJ5-G6HuK5pe-MeCIFOE+++TQ/-Tmp-//ccBp4SVz.out (No such
file or directory)
error: Setup script exited with error: command 'g++' failed with exit status
1
Exception exceptions.OSError: (2, 'No such file or directory',
'src/image.cpp') in <bound method CleanUpFile.__del__ of
<setupext.CleanUpFile instance at 0x1b3ffa8>> ignored
Exception exceptions.OSError: (2, 'No such file or directory',
'src/path.cpp') in <bound method CleanUpFile.__del__ of
<setupext.CleanUpFile instance at 0x1b3f828>> ignored
Exception exceptions.OSError: (2, 'No such file or directory',
'src/backend_agg.cpp') in <bound method CleanUpFile.__del__ of
<setupext.CleanUpFile instance at 0x1b3fb70>> ignored

I don't know fedora, but is there a numpy-dev package or something 
similar? You'll need it to install numpy's header files.
Zainal Abidin wrote:
> Hi All,
> I have an error during basemap-0.9.9 installation
>
> src/_geos.c:28:31: error: numpy/arrayobject.h: No such file or directory
> and so on ..
>
> I'm using fedora 8
> numpy 1.1.0
> scipy 0.6.0
> shapelib 1.2.10
> pyshapelib 0.3
>
> help me please, is there n\any I should do?
>
> -- 
> Zainal Abidin, S.Si
>
> Sub Bidang Informasi Meteorologi Publik
> Badan Meteorologi dan Geofisika
> Jl. Angkasa I No. 2
> Jakarta - Indonesia
> Visit Indonesia Year 2008 - Celebrating 100 Years of National Awakening
> ------------------------------------------------------------------------
>
> -------------------------------------------------------------------------
> This SF.Net email is sponsored by the Moblin Your Move Developer's challenge
> Build the coolest Linux based applications with Moblin SDK & win great prizes
> Grand prize is a trip for two to an Open Source event anywhere in the world
> http://moblin-contest.org/redirect.php?banner_id=100&url=/
> ------------------------------------------------------------------------
>
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
> 

Hi All,
I have an error during basemap-0.9.9 installation
src/_geos.c:28:31: error: numpy/arrayobject.h: No such file or directory
and so on ..
I'm using fedora 8
numpy 1.1.0
scipy 0.6.0
shapelib 1.2.10
pyshapelib 0.3
help me please, is there n\any I should do?
-- 
Zainal Abidin, S.Si
Sub Bidang Informasi Meteorologi Publik
Badan Meteorologi dan Geofisika
Jl. Angkasa I No. 2
Jakarta - Indonesia
Visit Indonesia Year 2008 - Celebrating 100 Years of National Awakening

hi there,
in matlab, it is possible to save a matlab .fig file that can be opened
directly by matlab (and which you can then interact with and edit, for
example change the title, etc.). is it possible to do something analogous in
matplotlib?
thanks very much
elaine

Hi
I have a script to plot and save a sequence of png images which I am using
to prepare animations. This works fine, but I got the following error when
preparing a particularly large number of files:
--- record: 1015
--- record: 1016
/usr/lib/python2.5/site-packages/matplotlib/backends/backend_gtk.py:990:
GtkWarning: Failed to read filechooser settings from
"/home/emason/.config/gtk-2.0/gtkfilechooser.ini": Too many open files
Traceback (most recent call last):
 File "fig_bry_paper_anim_vort.py", line 245, in <module>
 File "/usr/lib/python2.5/site-packages/matplotlib/pyplot.py", line 271, in
savefig
 File "/usr/lib/python2.5/site-packages/matplotlib/figure.py", line 932, in
savefig
 File "/usr/lib/python2.5/site-packages/matplotlib/backend_bases.py", line
1085, in print_figure
 File
"/usr/lib/python2.5/site-packages/matplotlib/backends/backend_gtkagg.py",
line 103, in print_png
 File
"/usr/lib/python2.5/site-packages/matplotlib/backends/backend_agg.py", line
303, in print_png
RuntimeError: Could not open file
/home/emason/Pictures/movies/cb_3km_emb_vort_1016.png
The script is simple, below I show a pared down version of the loop where
the figures are created and saved (but not shown):
for cind in Cind:
 P.figure(1)
 P.pcolor(plon, plat, pF[cind])
 P.colorbar()
 P.savefig(fname[cind], dpi=150)
 P.close(1)
Does anybody know why I get this error, and can anything be done about it?
Thanks, Evan