matplotlib-users Mailing List for matplotlib (Page 7)

Christoph Scheit ha scritto:
> Hi,
> 
> running a python-script using matplotlib I get the following error message:
> 
> sh: mc: line 1: syntax error: unexpected end of file
> sh: error importing function definition for `mc'
> sh: mc: line 1: syntax error: unexpected end of file
> sh: error importing function definition for `mc'
Your errors come from the shell interpreter. It seems that sh, and not 
python, is parsing the script.
Add the following line at the start:
#!/usr/bin/env python
and try again.
m.
-- 
Massimo Sandal
University of Bologna
Department of Biochemistry "G.Moruzzi"
snail mail:
Via Irnerio 48, 40126 Bologna, Italy
email:
mas...@un...
tel: +39-051-2094388
fax: +39-051-2094387

Martin Bures <nee...@ya...>
writes:
> MATLAB has a command, print, and it allows you to output a figure to a
> file, such as a .ps file and it has a switch '-append' so that you can
> append multiple plots to the same file.
>
> Is there a switch for the pylab command, 'savefig' to do the same
> thing?
No, at least not currently.
-- 
Jouni K. Seppänen
http://www.iki.fi/jks

I recently asked a question along the same lines...
MATLAB has a command, print, and it allows you to output a figure to a file, such as a .ps file and it has a switch '-append' so that you can append multiple plots to the same file.
Is there a switch for the pylab command, 'savefig' to do the same thing? There does not seem to be an equivalent print command.
Ryan Krauss <rya...@gm...> wrote: It is probably overkill, but I use Latex for this. You can fairly
easily have Python generate a text file that is the Latex input,
including captions for each figure. And then call latex using
os.system.
This might get you a psmerge for windows:
http://gnuwin32.sourceforge.net/packages/psutils.htm
Ryan
On 9/12/07, Manuel Metz wrote:
> On a Linux box:
> psmerge -ooutfile.ps figure1.eps figure2.eps
>
> Anyway, I guess you need an external tool to do this ...
>
> Manuel
>
> Lingyun Yang wrote:
> > Hi,
> >
> > I am using matplotlib to visualize my data, but the data sometimes have
> > several sets.
> > Can I plot each set as usual to a EPS file, and combine these EPS file into
> > a single ps file,
> > each page of this ps file is only one EPS file I got before.
> >
> >
> > Thanks.
> >
> > Lingyun
> >
> >
> >
> > ------------------------------------------------------------------------
> >
> > -------------------------------------------------------------------------
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> >
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Hi,
running a python-script using matplotlib I get the following error message:
sh: mc: line 1: syntax error: unexpected end of file
sh: error importing function definition for `mc'
sh: mc: line 1: syntax error: unexpected end of file
sh: error importing function definition for `mc'
The script starts with a simple example:
...
from pylab import *
fig = figure(1)
plot([1,2,3])
close(fig)
...
Using matplotlib from IPython works fine. The script above has been invoked
via Pydev
 Thanks in advance,
Chris
============================
M.Sc. Christoph Scheit
Institute of Fluid Mechanics
FAU Erlangen-Nuremberg
Cauerstrasse 4
D-91058 Erlangen
Phone: +49 9131 85 29508
============================

It is probably overkill, but I use Latex for this. You can fairly
easily have Python generate a text file that is the Latex input,
including captions for each figure. And then call latex using
os.system.
This might get you a psmerge for windows:
http://gnuwin32.sourceforge.net/packages/psutils.htm
Ryan
On 9/12/07, Manuel Metz <mm...@as...> wrote:
> On a Linux box:
> psmerge -ooutfile.ps figure1.eps figure2.eps
>
> Anyway, I guess you need an external tool to do this ...
>
> Manuel
>
> Lingyun Yang wrote:
> > Hi,
> >
> > I am using matplotlib to visualize my data, but the data sometimes have
> > several sets.
> > Can I plot each set as usual to a EPS file, and combine these EPS file into
> > a single ps file,
> > each page of this ps file is only one EPS file I got before.
> >
> >
> > Thanks.
> >
> > Lingyun
> >
> >
> >
> > ------------------------------------------------------------------------
> >
> > -------------------------------------------------------------------------
> > This SF.net email is sponsored by: Microsoft
> > Defy all challenges. Microsoft(R) Visual Studio 2005.
> > http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/
> >
> >
> > ------------------------------------------------------------------------
> >
> > _______________________________________________
> > Matplotlib-users mailing list
> > Mat...@li...
> > https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>
> -------------------------------------------------------------------------
> This SF.net email is sponsored by: Microsoft
> Defy all challenges. Microsoft(R) Visual Studio 2005.
> http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Sorry, I reply to myself, the fill function needs the 'facecolor' keyword.
Have a nice day
=2D-=20
Lionel Roubeyrie - lro...@li...
Charg=C3=A9 d'=C3=A9tudes et de maintenance
LIMAIR - la Surveillance de l'Air en Limousin
http://www.limair.asso.fr

Hi all,
trying to fill some shapefiles polygons, I run into trouble like you can se=
e=20
here with the fillstates.py basemap 0.9.5 example:
#####################################
|examples|[1]>run fillstates.py
(273, 5, [-179.14734000000001, 17.884813000000001, 0.0, 0.0], [179.77847,=20
71.352560643999809, 0.0, 0.0])
['PERIMETER', 'DIVISION', 'NAME', 'AREA', 'RINGNUM', 'REGION', 'LSAD', 'LSA=
D_TRANS', 'STATE', 'ST99_D00_I', 'SHAPENUM', 'ST99_D00_']
=2D------------------------------------------------------------------------=
=2D-
<type 'exceptions.ValueError'> Traceback (most recent call last)
/home/lionel/Applications/Python/Scientifique/Basemap/examples/fillstates.p=
y=20
in <module>()
 87 if statenames[nshape] not in ['District of Columbia','Puerto=20
Rico']:
 88 color =3D rgb2hex(colors[statenames[nshape]])
=2D--> 89 p.fill(xx,yy,color,edgecolor=3Dcolor)
 90 # draw meridians and parallels.
 91 m.drawparallels(nx.arange(25,65,20),labels=3D[1,0,0,0])
/usr/lib/python2.5/site-packages/matplotlib/pylab.py in fill(*args, **kwarg=
s)
 1858 hold(h)
 1859 try:
=2D> 1860 ret =3D gca().fill(*args, **kwargs)
 1861 draw_if_interactive()
 1862 except:
/usr/lib/python2.5/site-packages/matplotlib/axes.py in fill(self, *args,=20
**kwargs)
 4225
 4226 patches =3D []
=2D> 4227 for poly in self._get_patches_for_fill(*args, **kwargs):
 4228 self.add_patch( poly )
 4229 patches.append( poly )
/usr/lib/python2.5/site-packages/matplotlib/axes.py in _grab_next_args(self=
,=20
*args, **kwargs)
 426 if not is_string_like(remaining[2]):
 427 raise ValueError, 'third arg must be a format=20
string'
=2D-> 428 for seg in self._plot_3_args(remaining, **kwargs):
 429 yield seg
 430 remaining=3D[]
/usr/lib/python2.5/site-packages/matplotlib/axes.py in _plot_3_args(self,=20
tup3, **kwargs)
 374 x, y, multicol =3D self._xy_from_xy(x, y)
 375
=2D-> 376 linestyle, marker, color =3D _process_plot_format(fmt)
 377
 378 def makeline(x, y):
/usr/lib/python2.5/site-packages/matplotlib/axes.py in=20
_process_plot_format(fmt)
 151 else:
 152 err =3D 'Unrecognized character %c in format string' % c
=2D-> 153 raise ValueError, err
 154
 155 if linestyle is None and marker is None:
<type 'exceptions.ValueError'>: Unrecognized character # in format string
WARNING: Failure executing file: <fillstates.py>
########################################
The same problem occurs with another test, in this case the "Unrecognized=20
character" is "f" :-P
A solution is very welcome!
Thanks
=2D-=20
Lionel Roubeyrie - lro...@li...
Charg=C3=A9 d'=C3=A9tudes et de maintenance
LIMAIR - la Surveillance de l'Air en Limousin
http://www.limair.asso.fr

On a Linux box:
 psmerge -ooutfile.ps figure1.eps figure2.eps
Anyway, I guess you need an external tool to do this ...
Manuel
Lingyun Yang wrote:
> Hi,
> 
> I am using matplotlib to visualize my data, but the data sometimes have
> several sets.
> Can I plot each set as usual to a EPS file, and combine these EPS file into
> a single ps file,
> each page of this ps file is only one EPS file I got before.
> 
> 
> Thanks.
> 
> Lingyun
> 
> 
> 
> ------------------------------------------------------------------------
> 
> -------------------------------------------------------------------------
> This SF.net email is sponsored by: Microsoft
> Defy all challenges. Microsoft(R) Visual Studio 2005.
> http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/
> 
> 
> ------------------------------------------------------------------------
> 
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users

Hi,
 I am using matplotlib to visualize my data, but the data sometimes have
several sets.
Can I plot each set as usual to a EPS file, and combine these EPS file into
a single ps file,
each page of this ps file is only one EPS file I got before.
Thanks.
Lingyun

Hi,
Am I right if I presume that line No. 4 in the second listing in
http://www.scipy.org/Cookbook/Matplotlib/Show_colormaps should read
(0.5, 0.1, 0.7) in order to match the description? But then, of course
the example plot would look different.
I hesitate to change what I don't fully understand ...
Christian

On 9/11/07, Jose Gomez-Dans <jgo...@gm...> wrote:
> Hi Patrick,
>
> Thanks for your message!
>
> On 9/10/07, Patrick Bradley <pat...@gm...> wrote:
> > lg = legend()
> > lg.get_frame().set_fill(False)
>
> Mmmm, this is OK, let's say I wanted a figure with a transparent
> background. I can't find a set_fill() method for this class. I have
> tried the facecolor attribute, but no luck. I think I got this right.
> I am using the Agg backend (does this make a difference?). The files
> are RGBA pngs, but the alpha channel is always 255, so my background
> is always white, as opposed to transparent.
>
> Am I doing something wrong? I am using matplotlib 0.90.0. Here's some
> sample code
You can turn off the figure frame entirely
 fig = figure(frameon=False)
Or you can leave the frame on, but set the alpha channel
 fig = figure()
 fig.figurePatch.set_alpha(0.1)
Does that help? Note you may want to set the alpha of the axesPatch as well
 ax.axesPatch.set_alpha(0.5)
you can do the same for legends, where l is a Legend instance
 l.legendPatch.set_alpha(0.5)
JDH

Hi Patrick,
Thanks for your message!
On 9/10/07, Patrick Bradley <pat...@gm...> wrote:
> lg =3D legend()
> lg.get_frame().set_fill(False)
Mmmm, this is OK, let's say I wanted a figure with a transparent
background. I can't find a set_fill() method for this class. I have
tried the facecolor attribute, but no luck. I think I got this right.
I am using the Agg backend (does this make a difference?). The files
are RGBA pngs, but the alpha channel is always 255, so my background
is always white, as opposed to transparent.
Am I doing something wrong? I am using matplotlib 0.90.0. Here's some
sample code
import pylab
FaceColor=3D(1.0, 1.0, 1.0, 0.0 )
fig =3D pylab.figure(figsize=3D(6,1.5))
ax =3D fig.add_axes([0.05, 0.4, 0.9, 0.5])
cmap =3D mpl.cm.jet
norm =3D mpl.colors.Normalize(vmin=3D0, vmax=3D1)
cb =3D mpl.colorbar.ColorbarBase(ax, cmap=3Dcmap, \
=09=わ09=わ09=わ09=わ09=わ09=わ09norm=3Dnorm,orientation=3D'horizontal' )
cb.set_alpha(0.0)
fig.set_facecolor(FaceColor)
pylab.savefig( "fichero.png", dpi=3D72, facecolor=3DFaceColor)
cheers!
Jos=E9

Daniel Fish wrote:
> If not already addressed:
It has been addressed in svn.
Eric
> 
> In order for pylab.hlines to handle scalar xmin and xmax args, the following
> code should be inserted at line 2328 in axes.py
> 
> if len(xmin)==1:
> xmin = xmin*ones(y.shape, typecode(y))
> if len(xmax)==1:
> xmax = xmax*ones(y.shape, typecode(y))
> 
> Analogous code is already in place for VLINES, but not for HLINES.
> 
> Thanks,
> 
> Daniel Fish
> 
> 
> 
> -------------------------------------------------------------------------
> This SF.net email is sponsored by: Microsoft
> Defy all challenges. Microsoft(R) Visual Studio 2005.
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> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
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Hi Jose,
lg = legend()
lg.get_frame().set_fill(False)
works for me. Let me know if this fixes it.
Yours,
Patrick
On 9/10/07, Jose Gomez-Dans <jgo...@gm...> wrote:
>
> Hi,
>
> On 9/5/07, Patrick Bradley <pat...@gm...> wrote:
> > lg = legend()
> > lg.get_frame().set_facecolor('black')
>
> Does anyone know how to set this background to transparent? I think I
> sent a message to the list a few days ago, but I think it never made
> it...
>
> Cheers!
> Jose
>

Hi,
On 9/5/07, Patrick Bradley <pat...@gm...> wrote:
> lg = legend()
> lg.get_frame().set_facecolor('black')
Does anyone know how to set this background to transparent? I think I
sent a message to the list a few days ago, but I think it never made
it...
Cheers!
Jose

Hi,
I have a small script which reads a csv file with several
columns and puts it into an scipay array, which
I can plot using matplotlib. It works fine, but just with
explicitly setting the number of columns:
 res=loglog(array_mapped[:,0],array_mapped[:,1], 'b',
 array_mapped[:,0],array_mapped[:,2], 'g',
 array_mapped[:,0],array_mapped[:,3], 'r',
 array_mapped[:,0],array_mapped[:,4], 'y',
 array_mapped[:,0],array_mapped[:,5], 'k',
 array_mapped[:,0],array_mapped[:,6], '-bo',
linewidth = 2)
Is there a way to define the number of columns, which I want
to plot? Or even better, can I apply an sys.argv to
define the plotted columns, e.g.
"python csvplot.py all": which plots all columns with its
value for the y-coordinate and the line-number as x-coordinate
"python csvplot.py all1": which does the same as above, but
using column 1 as abscissae
"python csvplot.py 1 2 5": which plots columns 2 and 5
against column 1...
Would be nice, if anybody has an idea, how to achieve this!?
Regards!
Fabian

Hi,
in Matlab, it is possible to set the figure window title by using:
figure('Name','Simulation Plot Window')
You can even disable the numbering (i.e. the "Figure 1:" tag in the title)
by using:
figure('Name','Simulation Plot Window','NumberTitle','off')
Is there some way of doing a similar thing with matplotlib/pylab?
The reason I need this is that I use a python script to do plots. I call
this script several times to create several plots, and each plot ends up
with the same title (Figure 1). As I cannot create all the plots from a
single script call, I am stuck with these identical window titles.
Any help would be greatly appreciated!
Cheers,
Angel

For all those who want to submit publications to the IEEE and who are 
using matplotlib with the "usetex" option,
The IEEE require all fonts to be embedded (see 
http://216.228.1.34/pdfexpress/frhelpnologin.asp and 
http://ras.papercept.net/conferences/support/pdftips.php). Matplotlib 
unfortunately does not embed all the fonts into it's EPS figures.
The quick way to get matplotlib to embed all fonts into the EPS figures 
(instead of using PNGs) is to:
1) open "backend_ps.py" and "texmanager.py"
2) search for "dvips -q"
3) and add "-j0 -Ppdf -Pdownload35 -G0" just after the "-q" (see 
http://mpa.itc.it/markus/highres_pdf.html)
PJR

If not already addressed:
In order for pylab.hlines to handle scalar xmin and xmax args, the following
code should be inserted at line 2328 in axes.py
 if len(xmin)==1:
 xmin = xmin*ones(y.shape, typecode(y))
 if len(xmax)==1:
 xmax = xmax*ones(y.shape, typecode(y))
Analogous code is already in place for VLINES, but not for HLINES.
Thanks,
Daniel Fish

On 9/7/07, killian koepsell <koe...@gm...> wrote:
> hi,
>
>
> i am looking for help in using matplotlib inside a graphical IDE in mac osx
> and preferabley even ipython with matplotlib inside an IDE. i am used to
> interact with the python interpreter (inside ipython, even inside
> ipython-inside-emacs) while several plot windows are open, but i don't have
> any success using a graphical IDE.
>
>
> i tried free IDEs (eric3, eric4) and commercial ones (komodo, wing ide) but
> all had the same problem: the debugger was blocked as long as the matplotlib
> window was open. i focussed on QtAgg since eric uses Qt, but i also tried
> TkAgg.
>
>
> does anyone have a suggestion what i might be doing wrong?
All I can say is that pure ipython is very likely to NOT work at all.
It makes too many assumptions about being in a terminal/readline to
work inside a random GUI. We do have in SVN (saw branch) a prototype
WX client that will allow this, but it's still a looong way from being
done.
For GTK, some people did hack something out:
http://ipython.scipy.org/moin/Cookbook/EmbeddingInGTK
that works. I suppose you might be able to implement something
similar in some other GUI, but I've never tried.
By all means please post a similar page on the wiki if you do
something along these lines and succeed!
best,
f

Angus McMorland wrote:
> Hi devs,
> 
> This is a quick report of a bug in 0.90.1 (via debian testing
> package). Sorry, I'm not sure if this is still present in svn, and I'm
> keen to keep to the debian packages for now, so if it is already fixed
> then feel free to ignore.
It must have been fixed in svn. I don't see it with the test you provided.
Eric
> 
> Bug is repeatably demonstrated by:
> 
> import pylab as p, numpy as n
> p.figure()
> p.errorbar(n.arange(10), n.random.random(10), n.random.random(10))
> p.legend()
> p.clf()
> 
> finishing with
> 
> AttributeError: LineCollection instance has no attribute 'get_xdata'
> 
> Neither legend or errorbar calls on their own block clf like this.
> 
> Cheers,
> 
> A.

Hi devs,
This is a quick report of a bug in 0.90.1 (via debian testing
package). Sorry, I'm not sure if this is still present in svn, and I'm
keen to keep to the debian packages for now, so if it is already fixed
then feel free to ignore.
Bug is repeatably demonstrated by:
import pylab as p, numpy as n
p.figure()
p.errorbar(n.arange(10), n.random.random(10), n.random.random(10))
p.legend()
p.clf()
finishing with
AttributeError: LineCollection instance has no attribute 'get_xdata'
Neither legend or errorbar calls on their own block clf like this.
Cheers,
A.
-- 
AJC McMorland, PhD Student
Physiology, University of Auckland

hi,
i am looking for help in using matplotlib inside a graphical IDE in mac osx
and preferabley even ipython with matplotlib inside an IDE. i am used to
interact with the python interpreter (inside ipython, even inside
ipython-inside-emacs) while several plot windows are open, but i don't have
any success using a graphical IDE.
i tried free IDEs (eric3, eric4) and commercial ones (komodo, wing ide) but
all had the same problem: the debugger was blocked as long as the matplotlib
window was open. i focussed on QtAgg since eric uses Qt, but i also tried
TkAgg.
does anyone have a suggestion what i might be doing wrong?
thanks,
 kilian

On 9/7/07, Matthieu Brucher <mat...@gm...> wrote:
> That means too that having a plot on 2/3 of the screen is not possible, I
> suppose ?
To do that you need to use the axes command (a subplot is just a
special case of an axes on a regular grid). For example, you could do
(the arguments are left, bottom, width, height)
axes([0.1, 0.7, 0.4, 0.25])
axes([0.55, 0.7, 0.4, 0.25])
axes([0.1, 0.1, 0.85, 0.55])
or some variant like that..

>
> Only if this subplots overlap -- in this case they do not. When a
> previous subplot is overlapped by a new subplot, the old one is
> erased.
>
That means too that having a plot on 2/3 of the screen is not possible, I
suppose ?
Matthieu