[Matplotlib-users] Creating custom markers as the union of complex vertices
Hi I have been looking for an elegant/simple (working!) solution to create new complex markers for matplotlib. For example, I would like to design a new marker which is the union of a set of vertices, for example (just an example), two petals which are symmetric (see verts1 and verts2) and two lines above and below (see verts3, and verts4). I would also like to have the petal possibly filled (or not) and the edgecolor of each vertices with possibly various colours (one petal is blue, the other is orange). How should I proceed? A naive way forward is to do something like (for a double petal, the left one not being filled up, the right one being filled, see the definition for verts1, verts2, verts3, verts4 below): ## Code x = rand(10) y = rand(10) verts = [verts1, verts2, verts3, verts4] fc = ['k', 'None', 'None', 'None'] ec = ['b', 'orange', 'k', 'k'] for lverts, lfc, lec in list(zip(verts, fc, ec)) : scatter(x, y, marker= (lverts, 0), facecolor=lfc, edgecolor=lec, s=1000, label='My symbol') ==> HOWEVER, since these are done in a for loop, it is not considered as a single marker when I do, for example, : legend(loc=0) QUESTION: how should I manage this? (couldn't find the answer on the net) Suggestion are most welcome! Thanks! Eric == ## Definition for the vertices if 1: # verts1: size, angrad = 10., 0. rx = 4. * size theta = np.linspace(-pi / 4., pi / 4., 151) x = rx*np.sqrt(cos(2.*theta))*cos(theta) y = rx*np.sqrt(cos(2.*theta))*sin(theta) rotx = x * cos(angrad) + y * sin(angrad) roty = -x * sin(angrad) + y * cos(angrad) verts1 = list(zip(rotx,roty)) # verts2: size, angrad = 10., np.pi rx = 4. * size theta = np.linspace(-pi / 4., pi / 4., 151) x = rx*np.sqrt(cos(2.*theta))*cos(theta) y = rx*np.sqrt(cos(2.*theta))*sin(theta) rotx = x * cos(angrad) + y * sin(angrad) roty = -x * sin(angrad) + y * cos(angrad) verts2 = list(zip(rotx,roty)) # verts3 verts3 = list(zip([0.,0.],[0,0.1])) # verts4 verts4 = list(zip([0.,0.],[-0.1,-0.03])) -- Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] four colour theorem
Dear all, I have a set of Voronoi bins, defined by nodes (x,y) and an underlying mesh of squared bins. See an example here of such Voronoi bins. http://www.google.fr/imgres?q=voronoi+binninghl=frsa=Xbiw=1280bih=665tbm=ischprmd=imvnsbtbnid=zp0RRIktKlF9pM:imgrefurl=http://www.aanda.org/articles/aa/full/2007/09/aa4621-05/aa4621-05.right.htmldocid=CeAk6FN_pZDa5Mimgurl=http://www.aanda.org/articles/aa/full/2007/09/aa4621-05/img26.gifw=532h=1087ei=ZmYiT-Z7xYDyA9ew0acMzoom=1iact=rcdur=164sig=112304340793152029504page=4tbnh=151tbnw=74start=63ndsp=25ved=1t:429,r:1,s:63tx=58ty=65 So basically each node, (x,y) would define a Voronoi bin made of a set of squared pixels. So one node would correspond to for example N squared pixels: node[i] = [(x1,y1),(x2,y2),...(xN,yN)] I want now to create an imshow like plot of these bins by using the four colour theorem, meaning that I would use 4 colours and want adjacent Voronoi bins not to have the same colour. Is there a simple way to do this in matplotlib? I couldn't find much on the web so far. thanks! Eric -- Try before you buy = See our experts in action! The most comprehensive online learning library for Microsoft developers is just $99.99! Visual Studio, SharePoint, SQL - plus HTML5, CSS3, MVC3, Metro Style Apps, more. Free future releases when you subscribe now! http://p.sf.net/sfu/learndevnow-dev2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Unknown projection '3d' even with svn version?
Ok problem(s) solved, thanks a lot for the efficient help (this also taught me how to go through the code more thoroughly) * for the record: I had a pylab.py in the site-packages directory, probably a left-over from some other installation, which was interfering with the pylab.py which should be the one under matplotlib/. I just removed it now and it works well. * and you were right, the funny try this was a left over of many tests I had done to track down the problem (mea culpa on that one) thanks again, all works beautifully (and consistently) now. cheers Eric -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Unknown projection '3d' even with svn version?
yes, it looks like this is the right file (when I look at matplotlib.__file__) Now tracing which routines are run when doing this, it looks like it looks for projection in projections/__init__.py after going through line 675 of figure.py It looks like add_subplot of plt.figure() is not compatible in my matplotlib. Eric Strange indeed. Ok, what does matplotlib.__file__ say? Does the filename match the path you are expecting? At this point, I would also try putting print statements in the register code at the end of axes3d.py to see if that code path gets executed (can't see why not). Ben Root -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Unknown projection '3d' even with svn version?
Dear Ben thanks a lot for this thoughful answer. When I use only ipython and not ipython -pylab IT WORKS!!! So this is a problem with ipython -pylab call... Any thought of why this is? I provide more info below thanks for any help there. Eric P.S.: Here is the output of my setup: In [1]: matplotlib.__file__ Out[1]: '/usr/lib64/python2.6/site-packages/matplotlib/__init__.pyc' In [6]: mpl_toolkits.mplot3d.__file__ Out[6]: '/usr/lib64/python2.6/site-packages/mpl_toolkits/mplot3d/__init__.pyc' A funny one is that I have to import mpl_toolkits first and then mplot3d, and when I do this I get: In [5]: from mpl_toolkits import mplot3d try this I am not sure the try this is meant to be there P.P.S.: Here is my detailed setup when I do ipython -pylab matplotlib data path /usr/lib64/python2.6/site-packages/matplotlib/mpl-data matplotlib version 1.0.0 verbose.level helpful interactive is False units is False platform is linux2 Your PyGtk has set_interactive(), so you can use the more stable single-threaded Gtk mode. See https://bugs.launchpad.net/ipython/+bug/270856 backend GTKAgg version 2.17.0 Python 2.6.5 (r265:79063, Jul 5 2010, 11:46:13) IPython 0.10 -- An enhanced Interactive Python. -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Unknown projection '3d' even with svn version?
Hi, I have just installed the svn version of matplotlib and basemap + numpy from the svn repository of http://download.opensuse.org/repositories/home:/ocefpaf/openSUSE_11.3/x86_64/ When I do: === ipython -pylab (matplotlib 1.0.0, backend GTKAgg version 2.17.0, openSuse 11.3 x86_64) import numpy as np from mpl_toolkits.mplot3d import Axes3D import matplotlib.pyplot as plt fig = plt.figure() ax = fig.add_subplot(111, projection='3d') I get a ValueError: Unknown projection '3d' I did the upgrade to the svn version because the previous one (which was already 1.0) gave me the same message... what's wrong here? (looked at the web and couldn't find out a good solution, beyond the upgrade I did) thanks in advance Eric -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Unknown projection '3d' even with svn version?
Dear Ben thanks a lot for the quick reply. I did that (and read some posts on the web) but no luck, as it says: 1.0.0 I in fact just went back to my openSuse 11.3 (Science repo) version because it went really wrong with scipy etc and I didn't want to mess up my setup. But still the same message with the Unknown projection. I have checked the axes3d.py in my mpl_toolkits and it has the name = '3d' at the beginning and the register at the end... ??? Eric Could you please execute the following: import matplotlib print matplotlib.__version__ and report back what it says? I suspect that when you installed the svn version, the original version of matplotlib is still getting loaded. The projection='3d' feature is brand new to 1.0.0. Ben Root -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] segmentation fault..
Hi I just upgraded to opensuse 11.3. And I get now: ipython -pylab: matplotlib version 1.0.0 verbose.level helpful platform is linux2 *Segmentation fault* Any clue? I am using IPython 0.10, Python 2.6.5 Eric -- 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 Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] MPL = Location of new figure on desktop
Hi I have one very nagging issue which I would like to solve with matplotlib once and for all: this may have to do with my desktop windown manager but I couldn't find much there, so any input is welcome. When I open a new figure, the figure ALWAYS comes BELOW my current xterm (using KDE 4.3) and ALWAYS in the wrong place (top left corner where I usually put other windows). I would like some smart location for that figure so I don't have systematically to get it up and move it when I open a new figure. Is this linked to matplotlib? (this is the only application which is not managed properly in this context). I am using ipython -pylab as a working context (on opensuse 11.2). thanks and cheers Eric -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] MPL = Location of new figure on desktop
Hi thanks a lot for the feedback. Just tested with Qt4Agg and the window is coming up in the right location (just below my xterm where there is still space for a new window) now, and sometimes on TOP, but also sometimes at the BOTTOM I was using WxAgg before. So it seems it is backend dependent at least with me (0.99). If this is confirmed I am ok for the moment to use Qt4Agg (if this does not impact other functionalities) as at least it seems to deal with the location in a better way. It would be better if really the link with the WM works better of course. Eric That is exactly what I am thinking now that we know that it happens even with the Qt4Agg backend. Should these hints be given by the objects in backend_bases (for a consistent behavior), or do they have to be done by the individual backends? Maybe the hints could be stored as rcParams for all backends to refer to -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] version of numpy for matplotlib: wrong test in setupext.py
Hi
I just downloaded numpy 2.0 and there is a test in the setupext.py of
matplotlib
which says:
nn = numpy.__version__.split('.')
if not (int(nn[0]) = 1 and int(nn[1]) = 1):
This clearly does NOT work for numpy 2.0.0 since nn[1] is 0
Please change this.
Eric
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[Matplotlib-users] new marker: how to make a spiral
Hi I am using verts in the matplotlib scatter function and managed to create many new symbols for scatter plots. One I cannot make is a spiral-like symbol (logarithmic spiral) because it does connect the first and last point of the verts series of x,y points I am defining. Is there a way to avoid that? (so that the spiral-curve stays open) thanks! Eric -- The Planet: dedicated and managed hosting, cloud storage, colocation Stay online with enterprise data centers and the best network in the business Choose flexible plans and management services without long-term contracts Personal 24x7 support from experience hosting pros just a phone call away. http://p.sf.net/sfu/theplanet-com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib CRASHes when saving as a postscript file
Hi thanks A LOT for taking the time to test this and for the suggestions. Yes, pcolormesh is needed (or at least I think) because in the real example (the figures I am trying to make) the pixels are rotated meaning that these are polygons which are not aligned with the axes. Imshow cannot do that as far as I can tell because it shows a rectangular grid (masked or not) aligned with the axis. It seems indeed linked with the number of plots/memory. I have tested this now and looked for when it crashes, Limiting the number of rows to 1, 2 , 3 etc. With 3 rows (9 plots) it works. But it crashes when I include 4 rows. Looking at a top and memory usage, it is clearly a pb with ghostscript when it takes over to transform it into the eps. Here is the line from the top when it crashes: PID USER PR NI VIRT RES SHR S %CPU %MEMTIME+ COMMAND 5980 emsellem 20 0 167m 88m 4352 R 100 2.3 0:54.45 gs When gs go over ~170m, it crashes. Not clue why. I have ample memory left (2Gb RAM, 2Gb Swap) and no pb of disk space. As for the workarounds: yes I did a pdf2ps already for one urgent figure I had to get. I just hoped that I wouldn't have to do that for all my figures. Never used rasterization before... (and thanks for pointing out the mistake on map3, this came after adapting the script for this post). I guess this means you transform it into a resolution dependent figure. I can try it but I am afraid this will look quite bad. cheers Eric On 09/01/10 04:25, Jae-Joon Lee wrote: I can reproduce this error with the current svn. I doubt if this is a matplotlib issue, because it works fine if the number of axes is small. To me, it seems as some memory error in the ghostscript, but my quick googling did not show any relevant information. So, I hope some postscript expert take a look at the issue. However, note that pcolormesh in backends other than agg is extremely inefficient, and I strongly discourage its use in other backends. Your current example could be much efficient if you simply can use imshow. Do you have to use pcolormesh? Your current example seems to be easily convertible to imshow, but you original example may not. In case the use of pcolormesh is not avoidable, I can think of two workarounds. 1) save as pdf first then convert to eps. Saving as pdf will take as much time as saving as ps. 2) Save as eps but rasterize the pcolormesh plots. This is my choice and saving time is also not very long. As a matter of fact, whenever pcolormesh is used, I strongly recommend to consider rasterizing it. For your current script, you may add something like below at the end of your for-loop. map1.set_zorder(0.5) map2.set_zorder(0.5) map3.set_zorder(0.5) ax1.set_rasterization_zorder(0.6) ax2.set_rasterization_zorder(0.6) ax3.set_rasterization_zorder(0.6) This code needs to be inside the for-loop so that all the pcolormesh plots get rasterized. Also, note that, in your current script, the third pcolormesh plot is assigned to map2, instead of map3, so you need to fix this first. -- = Eric Emsellem European Southern Observatory Karl-Schwarzschild Str. 2 e-mail: eemse...@eso.org 85748 Garching bei Muenchen tel: +49 (0)89 3200 6914 Germany fax: +49 (0)89 3200 6480 = -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib CRASHes when saving as a postscript file
Thinking about it: when matplotlib transfer the plot to ghostscript, is there a parameter in the call for gs which limits the memory usage??? It seems that this is discussed in some posts about gs Eric On 09/01/10 04:25, Jae-Joon Lee wrote: I can reproduce this error with the current svn. I doubt if this is a matplotlib issue, because it works fine if the number of axes is small. To me, it seems as some memory error in the ghostscript, but my quick googling did not show any relevant information. So, I hope some postscript expert take a look at the issue -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] matplotlib CRASHes when saving as a postscript file
Hi
I finally managed to write a simplified version of my python script
which crashes when trying to save the figure as a postscript file. (this
is related to a previous post). See below. The script is provided, as
well as the full error message.
Sorry for the long script, but basically I am plotting 3x7 arrays via
pcolormesh. The script looks pretty dum because it was adapted from a
more complicated one where the bins/pixels are not exactly squared and
are rotated. In the version below I have tried to remove the unncessary
complication. And I get a failure from ghostscript when I try to save it
as eps. It works when I save it as a png.
Can anyone tell me what's wrong there? Again I am using:
### On an OpenSuse 11.2, 64b
xpdf distiller (but I tried others).
matplotlib 0.99.1.1
backend WXAgg version 2.8.10.1
Python 2.6.2 (r262:71600, Oct 24 2009, 03:15:21)
IPython 0.10 -- An enhanced Interactive Python.
THANKS
Eric
##
# Script to run which crashes when saving the figure as an eps file
##
#!/usr/bin/python
import numpy as num
import pylab as pl
def pos(i,j, w, h) :
return [0.05+ j*(w+0.02), 0.99 - (i+1)*(h+0.023)+0.025, w, h]
## Opening the figure
## Figure
pl.figure(1, figsize=(5*1.2, 7*1.5))
fig = pl.gcf()
pl.clf()
## Size of figure
figH = fig.get_figheight()
figW = fig.get_figwidth()
w = 0.99 / 3. -0.03
h = 0.99 / 7 - 0.022
## List of data to plot (I take 7 times the same stuff)
listgal = [1,2,3,4,5,6,,7]
## Initialisation of start, end and step
ngal = len(listgal)
start = [-30.,-30.]
end = [30.,30.]
npix = [80,80]
x = num.linspace(start[0],end[0], npix[0])
y = num.linspace(start[1],end[1], npix[1])
step = [x[1]-x[0], y[1]-y[0]]
X,Y = num.meshgrid(x,y)
## Initialisation of data
data = num.random.random((npix[0], npix[1]))
pl.ioff()
for k in range(ngal) :
gal = listgal[k]
## Coordinates
## Grid for rotation
Xp,Yp = X - step[0]/2., Y - step[1]/2.
X1,Y1 = X+step[0]/2.,Y+step[1]/2.
X2,Y2 = X-step[0]/2.,Y+step[1]/2.
X3,Y3 = X-step[0]/2.,Y-step[1]/2.
X4,Y4 = X+step[0]/2.,Y-step[1]/2.
minXc = num.min(num.concatenate((X1,X2,X3,X4)))
maxXc = num.max(num.concatenate((X1,X2,X3,X4)))
minYc = num.min(num.concatenate((Y1,Y2,Y3,Y4)))
maxYc = num.max(num.concatenate((Y1,Y2,Y3,Y4)))
dX = maxXc - minXc
dY = maxYc - minYc
## Deriving the right aspect ratio etc
aspectIma = dX / dY
aspectFig = figW / figH
aspectWin = w / h
if (aspectIma aspectWin*aspectFig) :
maxXc = maxXc * aspectFig * aspectWin / aspectIma
minXc = minXc * aspectFig * aspectWin / aspectIma
else :
maxYc = maxYc * aspectIma / (aspectFig * aspectWin)
minYc = minYc * aspectIma / (aspectFig * aspectWin)
extentR = minXc, maxXc, minYc, maxYc
cmap = pl.cm.jet
minI, maxI = 0., 1.
cmap.set_bad('w',1.0)
j = 0
ax1 = fig.add_axes(pos(k,j, w, h))
map1 = ax1.pcolormesh(Xp,Yp,data,shading='flat',vmin=minI,vmax=maxI,
cmap=cmap)
pl.plot([0.],[0.],'k+', markersize=10, lw=3)
xticklabels = pl.getp(pl.gca(), 'xticklabels')
pl.setp(xticklabels, fontsize=8)
yticklabels = pl.getp(pl.gca(), 'yticklabels')
pl.setp(yticklabels, fontsize=8)
pl.axis(extentR)
j += 1
ax2 = fig.add_axes(pos(k,j, w, h))
map2 = ax2.pcolormesh(Xp,Yp,data,shading='flat',vmin=minI,vmax=maxI,
cmap=cmap)
pl.plot([0.],[0.],'k+', markersize=10, lw=3)
pl.axis(extentR)
ax2.set_yticks([])
xticklabels = pl.getp(pl.gca(), 'xticklabels')
pl.setp(xticklabels, fontsize=8)
pl.text(0.02,0.96, %4.0f/%4.0f%(minI,maxI),
verticalalignment='top',rotation='vertical',transform = ax2.transAxes,
fontsize=8)
j += 1
ax3 = fig.add_axes(pos(k,j, w, h))
map2 = ax3.pcolormesh(Xp,Yp,data,shading='flat',vmin=0.,vmax=1.,
cmap=cmap)
pl.plot([0.],[0.],'k+', markersize=10, lw=3)
pl.axis(extentR)
ax3.set_yticks([])
xticklabels = pl.getp(pl.gca(), 'xticklabels')
pl.setp(xticklabels, fontsize=8)
pl.text(0.02,0.96, %4.0f/%4.0f%(minI,maxI),
verticalalignment='top',rotation='vertical',transform = ax3.transAxes,
fontsize=8)
j += 1
pl.text(0.92,0.5, gal,
rotation='vertical',verticalalignment='center',transform = ax3.transAxes)
k += 1
pl.ion()
pl.show()
###
## ERROR MESSAGE WHEN DOING:
## savefig(tmp.eps)
savefig(toto.eps)
Error: /limitcheck in --def--
Operand stack:
pa_c2c --nostringval--
Execution stack:
%interp_exit .runexec2 --nostringval-- --nostringval--
--nostringval-- 2 %stopped_push --nostringval-- --nostringval--
--nostringval-- false 1 %stopped_push 1878 1 3
%oparray_pop 1877 1 3 %oparray_pop 1861 1 3 %oparray_pop
1755 1 3
[Matplotlib-users] Problems generating postscript!
Hi I am having reccurrent problem generating postscript files using savefig. I am basically generating a figure with lots of small thumbnail images (loaded with mpl pcolormesh and contour) and some overimposed text. When I do: savefig(myfig.eps) it takes quite a while, and makes rather big figures ( 20 Mb). But then I cannot load that eps file anymore with any of the software I have tried (okular, display, gimp...). The file seems corrupted and when I e.g. try with display it tells me: Error: /limitcheck in --def-- Operand stack: p1c_37d --nostringval-- Execution stack: %interp_exit .runexec2 --nostringval-- --nostringval-- --nostringval-- 2 %stopped_push --nostringval-- --nostringval-- --nostringval-- false 1 %stopped_push 1878 1 3 %oparray_pop 1877 1 3 %oparray_pop --nostringval-- 1861 1 3 %oparray_pop 1755 1 3 %oparray_pop --nostringval-- %errorexec_pop .runexec2 --nostringval-- --nostringval-- --nostringval-- 2 %stopped_push --nostringval-- Dictionary stack: --dict:1172/3371(ro)(G)-- --dict:0/20(G)-- --dict:75/200(L)-- --dict:65534/65534(L)-- Current allocation mode is local Last OS error: 2 Current file position is 14073283 GPL Ghostscript 8.64: Unrecoverable error, exit code 1 Any help with this please!? THANKS! Eric # # Some info on my config here # # OS is OpenSuse 11.2 with KDE, 64b laptop matplotlib version 0.99.1.1 verbose.level helpful interactive is False units is False platform is linux2 backend WXAgg version 2.8.10.1 Python 2.6.2 (r262:71600, Oct 24 2009, 03:15:21) IPython 0.10 -- An enhanced Interactive Python. # And in my matplotlibrc: usetex False ps.papersize : A4 ps.useafm : False ps.usedistiller : None ps.distiller.res : 120 # dpi ps.fonttype : 3 -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Problem generating postscript
Hi again
regarding my last post, I still have pb generating simple eps files.
Now I turned on usetex to True and I get the message given below. If
anyone can help me with this, it would be great since I am now stuck
with this.
Reminder: the pb occurs when I save a figure (savefig) in postscript
format (.eps), after plotting a number of small thumbnail images (using
pcolormesh and contour).
cheers
Eric
===
GPL Ghostscript 8.64: Unrecoverable error, exit code 1
---
RuntimeError Traceback (most recent call last)
/home/science/ATLAS3D/python/Analysis/show_maps.py in module()
1
2
3
4
5
/usr/lib64/python2.6/site-packages/matplotlib/pyplot.pyc in
savefig(*args, **kwargs)
354 def savefig(*args, **kwargs):
355 fig = gcf()
-- 356 return fig.savefig(*args, **kwargs)
357 if Figure.savefig.__doc__ is not None:
358 savefig.__doc__ = dedent(Figure.savefig.__doc__)
/usr/lib64/python2.6/site-packages/matplotlib/figure.pyc in
savefig(self, *args, **kwargs)
1030 patch.set_alpha(0.0)
1031
- 1032 self.canvas.print_figure(*args, **kwargs)
1033
1034 if transparent:
/usr/lib64/python2.6/site-packages/matplotlib/backends/backend_wxagg.pyc
in print_figure(self, filename, *args, **kwargs)
98 def print_figure(self, filename, *args, **kwargs):
99 # Use pure Agg renderer to draw
-- 100 FigureCanvasAgg.print_figure(self, filename, *args,
**kwargs)
101 # Restore the current view; this is needed because the
102 # artist contains methods rely on particular attributes
/usr/lib64/python2.6/site-packages/matplotlib/backend_bases.pyc in
print_figure(self, filename, dpi, facecolor, edgecolor, orientation,
format, **kwargs)
1474 orientation=orientation,
1475 bbox_inches_restore=_bbox_inches_restore,
- 1476 **kwargs)
1477 finally:
1478 if bbox_inches and restore_bbox:
/usr/lib64/python2.6/site-packages/matplotlib/backend_bases.pyc in
print_eps(self, *args, **kwargs)
1327 from backends.backend_ps import FigureCanvasPS # lazy
import
1328 ps = self.switch_backends(FigureCanvasPS)
- 1329 return ps.print_eps(*args, **kwargs)
1330
1331 def print_pdf(self, *args, **kwargs):
/usr/lib64/python2.6/site-packages/matplotlib/backends/backend_ps.pyc in
print_eps(self, outfile, *args, **kwargs)
853
854 def print_eps(self, outfile, *args, **kwargs):
-- 855 return self._print_ps(outfile, 'eps', *args, **kwargs)
856
857
/usr/lib64/python2.6/site-packages/matplotlib/backends/backend_ps.pyc in
_print_ps(self, outfile, format, *args, **kwargs)
882 self._print_figure_tex(outfile, format, imagedpi,
facecolor, edgecolor,
883orientation, isLandscape,
papertype,
-- 884**kwargs)
885 else:
886 self._print_figure(outfile, format, imagedpi,
facecolor, edgecolor,
/usr/lib64/python2.6/site-packages/matplotlib/backends/backend_ps.pyc in
_print_figure_tex(self, outfile, format, dpi, facecolor, edgecolor,
orientation, isLandscape, papertype, **kwargs)
1191 elif rcParams['text.usetex']:
1192 if False: pass # for debugging
- 1193 else: gs_distill(tmpfile, isEPSF, ptype=papertype,
bbox=bbox)
1194
1195 if isinstance(outfile, file):
/usr/lib64/python2.6/site-packages/matplotlib/backends/backend_ps.pyc in
gs_distill(tmpfile, eps, ptype, bbox)
1311 fh = file(outfile)
1312 if exit_status: raise RuntimeError('ghostscript was not able
to process \
- 1313 your image.\nHere is the full report generated by
ghostscript:\n\n' + fh.read())
1314 else: verbose.report(fh.read(), 'debug')
1315 fh.close()
RuntimeError: ghostscript was not able to process your image.
Here is the full report generated by ghostscript:
GPL Ghostscript 8.64 (2009-02-03)
Copyright (C) 2009 Artifex Software, Inc. All rights reserved.
This software comes with NO WARRANTY: see the file COPYING for details.
Loading NimbusSanL-Regu font from
/usr/share/ghostscript/8.64/Resource/Font/NimbusSanL-Regu... 3968216
1927802 6785440 4864692 1 done.
Loading CenturySchL-Roma font from
/usr/share/ghostscript/8.64/Resource/Font/CenturySchL-Roma... 4008424
2092670 6785440 4877110 1 done.
Error: /limitcheck in --def--
Operand stack:
p1c_37d --nostringval--
Execution stack:
%interp_exit .runexec2 --nostringval-- --nostringval--
--nostringval-- 2 %stopped_push --nostringval-- --nostringval--
--nostringval-- false 1 %stopped_push 1878 1 3
%oparray_pop 1877 1 3
[Matplotlib-users] Colours of histograms?
Hi how do I specify the colour of the bars in an histogram done with more than one set of data? Example: x1 = random(1000) x2 = random(1000) hist([x1,x2], c=['r','b']) does not work... I have tried with rgba sequences but no luck there. The help of hist color: matplotlib color arg or sequence of rgba tuples so I guess we can specify the individual colours of each set of bars (one colour per dataset) no? thanks. Eric -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Problem generating postscript
Hi thanks a lot for the quick tip. But no xpdf does not do it (I had tried it). Just to be consistent below is an account of my config (may not help much). I'll tried to write some simple script to reproduce the bug and post it but I am afraid this won't be very simple on my side. cheers Eric == # OS is OpenSuse 11.2 with KDE, 64b laptop matplotlib version 0.99.1.1 verbose.level helpful interactive is False units is False platform is linux2 backend WXAgg version 2.8.10.1 Python 2.6.2 (r262:71600, Oct 24 2009, 03:15:21) IPython 0.10 -- An enhanced Interactive Python. # And in my matplotlibrc: usetex False ## tried usetex True too ps.papersize : A4 ps.useafm : False ps.usedistiller : None ## I tried all possible distiller... didn't change the pb. ps.distiller.res : 120 # dpi ps.fonttype : 3 == On 30/12/09 20:35, Jae-Joon Lee wrote: This is a kind of bug that is quite hard to trace unless we can reproduce the error. As far as I know, there has been a report that matplotlib does not work well with GPL Ghostscript 8.63. And I'm not sure if it is related. http://old.nabble.com/Segmentation-fault-with-EPS-output-on-matplotlib-%3D0.98.5.2-to25257581.html#a25334270 So, see if using xpdf as a distiller works. -- = Eric Emsellem European Southern Observatory Karl-Schwarzschild Str. 2 e-mail: eemse...@eso.org 85748 Garching bei Muenchen tel: +49 (0)89 3200 6914 Germany fax: +49 (0)89 3200 6480 = -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colours of histograms?
great. Thanks! I had a look at the thumbnails but didn't find the one you point out. (And the doc is confusing) Thanks! and yes, very weird behaviour when the two arrays have the same length... Eric On 30/12/09 19:53, Jae-Joon Lee wrote: x1 = random(1000) x2 = random(1000) n, bins, patches = hist(np.array([x1, x2]).transpose()) plt.setp(patches[0], color=r) plt.setp(patches[1], color=b) also see http://matplotlib.sourceforge.net/examples/pylab_examples/hist_colormapped.html -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Error when running code on remote machine: how can I overpass this?
Hi, I am trying to run a relatively large code, which includes some calls to and import from pylab/matplotlib, on a remote machine: the part of the code I am running is NOT performing any plot so there is no direct access to a display. Unfortunately it still crashes with something like: --- 40 cursors.MOVE : gdk.Cursor(gdk.FLEUR), 41 cursors.HAND : gdk.Cursor(gdk.HAND2), 42 cursors.POINTER : gdk.Cursor(gdk.LEFT_PTR), RuntimeError: could not create GdkCursor object when it tries to reach the display when importing pylab I guess. I am now doing this from my laptop from a non-fixed IP and there is no easy way for me to forward the display (loging e.g. with ssh -X), or to just isolate the pylab part of the code (lots of files, lots of lines, etc). I am desperately trying to run this long calculation on that remote machine (and do it while my laptop is off, using screen) because I need a lot of memory and CPU How can I overpass this easily (just allowing for the code not to crash with that initialisation and go on with the rest) ??? thanks for any input there Eric running: matplotlib version 0.98.3 Python 2.5.1 (r251:54863, Aug 1 2008, 00:35:20) via IPython 0.9.1 -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] pylab or not... crashes or not
I am indeed using ipython 0.8.1. Will try to upgrade and see how it goes. Indeed this looks like the deadlocks people mentioned, within, as Xavier emphasised, no way to CTRL-C it to kill it. thanks for the tips Eric Yannick Copin wrote: Salut Eric, Date: Mon, 01 Dec 2008 20:08:00 +0100 From: Eric Emsellem [EMAIL PROTECTED] Subject: [Matplotlib-users] pylab or not... crashes or not - when I start a session with ipython -pylab I often get crashes with my session. When I mean often, it means really often like once everything 1/2h or so. A crash means that the command I just sent gets stuck and the only way for me to get it back is to kill the PID of the ipython process... [...] IPython 0.8.1 -- An enhanced Interactive Python. I would say the pb is actually coming from ipython. I experienced it while using ipython-0.8.1, but I guess it disappeared starting with ipython-0.8.3 (see http://ipython.scipy.org/moin/WhatsNew083: Multithreaded shells (used e.g. by matplotlib interaction) have been improved, reducing the possibility of corner case deadlocks.). I'm now using 0.8.4 and I don't remember I ever had this pb again. See you! (and congrats ;-) ) - 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=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] pylab or not... crashes or not
running the last ipython version now (0.9.1), and it does not help (got stuck the same way). The difference now is that ipython provides a message: Warning: Timeout for mainloop thread exceeded switching to nonthreaded mode (until mainloop wakes up again) It seems that ipython developers did catch the issue and made this message to be delivered so that at least you can go on working with your session. However, I cannot do anything with matplotlib after that message is given, and I have to get out of the session and start again if I want to plot something... This seems therefore linked to matplotlib and not ipython.. Just that now ipython does not get stuck anymore but provide a message regarding the thread issue. (Not very useful in this context for me unfortunately) See the ipython scipy thread in fact : http://lists.ipython.scipy.org/pipermail/ipython-user/2008-July/005628.html So as far as I can tell this is a matplotlib bug and noone so far encountering this problem has a really good idea why it occurs. Indeed the problem occurs *only* when I launch matplotlib commands (after some time in my ipython session). Really annoying but as mentioned before, I cannot get a set of commands which consistenly break the session, so... Eric Yannick Copin wrote: I would say the pb is actually coming from ipython. I experienced it while using ipython-0.8.1, but I guess it disappeared starting with ipython-0.8.3 (see http://ipython.scipy.org/moin/WhatsNew083: Multithreaded shells (used e.g. by matplotlib interaction) have been improved, reducing the possibility of corner case deadlocks.). I'm now using 0.8.4 and I don't remember I ever had this pb again. - 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=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] pylab or not... crashes or not
Hi this may be a known problem (didn't find anything on this issue) but here it is: - when I start a session with ipython -pylab I often get crashes with my session. When I mean often, it means really often like once everything 1/2h or so. A crash means that the command I just sent gets stuck and the only way for me to get it back is to kill the PID of the ipython process... The problem is that it is almost impossible to reproduce a systematic behaviour there so I cannot really send you a list of commands which results in a crash. It just happens (often). However, after someone suggested it, I now enter Ipython by a simple ipython and do immediately from pylab import *. And then I have NO crashes whatsoever. any suggestion there? Is that normal? thanks Eric P.S.: OpenSuse 11.0 or 10.3 (two machines showing similar behaviour) matplotlib version 0.98.3 verbose.level helpful interactive is True units is True platform is linux2 backend GTKAgg version 2.10.6 Python 2.5.1 (r251:54863, Aug 1 2008, 00:35:20) IPython 0.8.1 -- An enhanced Interactive Python. - 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=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Plotting issue with mpl = getting stuck
Hi, thanks for the input. In fact this happens on a dual core machine. As for the Ipython version etc it is written at the end of my original email. I'll try to see with the Ipython forum maybe. Not sure where it comes from, which is the difficult part (mpl, ipython, or...?) I'll also try to isolate some simple functions which does this... But this may be hard to do. thanks Eric - This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse012070mrt/direct/01/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] set_extent for contours?
Hi, is there a plan (or an existing command) to have set_extent working for contours, as was recently done for imshow? I know that contour has different inputs since you can specify X,Y, the data coordinates. However, I would like to do something like: ... co = contour(data, extent=(0.,2.,0.,2.)) ... co.set_extent((-1.,1.,-1.,1.)) ... without being forced to redraw everything. Any suggestion? thanks! Eric - This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now http://get.splunk.com/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] stuck after a mpl_connect - how to disconnect and go on
Hi thanks a lot for this feedback! Your example is quite nice indeed. However there is something I may not have fully understand. If I use the example you sketch, I of course need to call the displayer class (right?), by doing something like: test = displayer() However, then I hit the same problem again: I would need to define ALL the commands I wish to go through WITHIN the displayer class (and more precisely into the show_next function), because any command put after the test = displayer() would be executed anyway without waiting that I finally hit the right mouse button. Or is there something I didn't catch which would allow me to go around this? (what my program is supposed to do at the end is to go through a series of (3xdataframes), and for each dataframe in turn, use the offset trick, then reinitialise everything and start with the next series... This seems to imply that I need to specify the full set of commands within the displayer class show_next function) thanks again Eric - This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now http://get.splunk.com/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] stuck after a mpl_connect - how to disconnect and go on
Hi
sorry to post this again but all my attempts to solve the matplotlib
problem below failed and I desperately need this to progress.
I would like to use mpl_connect and disconnect to examine a series of 2d
arrays in turn (with a for loop), one after the other:
== at each iteration I'd like to be able to use the left mouse button
to evaluate the sum of all x,y coordinates I select by (right) clicking
somewhere in the present array, and then switch to the next 2d data
array after I hit the right mouse button (button==3). I have no clue how
to do this and the program I wrote so far is just hanging there and does
nothing. Didn't see anything like this in the archive.
Any way to get out of this? Thanks for your help.
Eric
#=
# stupid simple code just to illustrate the kind of things I would like to
achieve
# This does not work and just hang there...
#=
import numpy as num
class offset:
def __init__(self) :
self.xc = 0.
self.yc = 0.
self.stay = 1
def on_click(self, event) :
if event.button == 1:
if event.inaxes is not None:
self.xc += event.xdata
self.yc += event.ydata
elif event.button == 3:
self.stay = 0
data1 = num.random.rand(10,10)
data2 = num.random.rand(10,10)
data3 = num.random.rand(10,10)
alldata = [data1, data2, data3]
for i in range(len(alldata)) :
imshow(alldata[i])
newoffset = offset()
binding = connect('button_press_event', newoffset.on_click)
while newoffset.stay :
pass
disconnect(binding)
print newoffset.xc, newoffset.yc
-
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[Matplotlib-users] Gnome problem when plotting with mpl
Hi, a problem that I have since some time now using mpl: everytime I start plotting, I get something like: (python:6374): GnomePrintCupsPlugin-WARNING **: iconv does not support ppd character encoding: ISOLatin1, trying CSISOLatin1 I know this is not really a mpl problem, but if anybody has a clue, it is welcome! cheers Eric matplotlib version 0.87.7 verbose.level helpful interactive is False platform is linux2 numerix numpy 1.0.2.dev3534 font search path ['/usr/local/lib/python2.4/site-packages/matplotlib/mpl-data'] backend WXAgg version 2.6.2.1 Python 2.4.2 (#1, May 2 2006, 08:13:46) on Suse 10.1. - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] where is twiny ??
Hi, I would need the equivalent of twinx, but for other axis, so a twiny function. Shouldn't it be in mpl already? thanks for your help, Eric - Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier. Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnkkid=120709bid=263057dat=121642 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] x=, y=, z=??
Dear all, I am coming back to an issue for which I didn't get a direct answer (except for a very nice module from Angus McMorland!): - at the moment different backends in mpl automatically provides, when an image (or a plot) is displayed with e.g. imshow (plot), the coordinates x and y directly in the toolbar. - When it is indeed an image wich is displayed, it would, in my opinion makes a LOT of sense to also display the z coordinate, namely the 'intensity' value of the pixel of the image on which the cursor is standing. The questions are then: does this also make sense to you, and if yes, would it be possible for someone to implement it as an intrinsic feature of mpl backends? (I am not competent to answer the feasibility part here, although the module Angus nicely provided on the list is an excellent example, even if it adds one more layer which may be avoidable). thanks for any input here! cheers Eric - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] a memory + CPU problem when using mpl_connect?
Hi,
thanks for this useful and quick answer. I am (always) using GTKAgg
(hope it is a good choice). I understand the 40 Mb part then, but not
the 150-200 Mb... (this happens when I move the cursor within the figure
window only and things get worse when I reload the data with a new imshow).
Two things from what you say:
* first : should I do something before redoing another imshow? (when I
cycle many times through the 3 commands, connect, disconnect, imshow,
the mouse event updating gets really slow, and in fact it seems only the
imshow really makes things worse..). Maybe I need to flush the old
data/image/imshow ?
* second: I tried to understand what you mentioned in your email about
the blit thing. I understand the principle, reading the wiki, and
going into mpl examples, but I didnt manage to implement it in practice
(see my pathetic attempt below). I guess the main reason is that I am
not sure what should be the background in the case of a figtext...
(not ax.bbox I guess but then what?)
Any help is welcome (or a hint, since doing it myself is I guess the
best way to learn ...)
thanks again
Eric
#===
# This script is not working... something I didn't understand in
blitting
#===
import numpy as num
import matplotlib as mpl
import matplotlib.pylab as plab
data = num.random.rand(200,200)
xy = [num.arange(0.,20,.1), num.arange(0.,20,.1)]
fig = plab.figure()
canvas = fig.canvas
im = plab.imshow(data, extent=[0.,20.,0.,20.])
ftext = plab.figtext(0.9,0.9,, animated=True)
ax = plab.gca()
background = canvas.copy_from_bbox(ax.bbox)
def whichpix_inframe(coord) :
indw = num.zeros(2, num.int32)
if len(coord) == 2 :
indw[0] = num.sort(xy[0]).searchsorted(coord[0])
indw[1] = num.sort(xy[1]).searchsorted(coord[1])
return indw
def mouse_move(event) :
if event.inaxes :
canvas.restore_region(background)
ftext.set_text(str(data[tuple(whichpix_inframe([event.xdata,
event.ydata]))]))
ax.draw_artist(ftext)
canvas.blit(ax.bbox)
# canvas.draw()
id = canvas.mpl_connect('motion_notify_event', mouse_move)
canvas.mpl_disconnect(id)
John Hunter wrote:
Eric 2/ When I now use the mouse_move event, it can go up to 150
Eric Mb of memory usage!! Again: is that normal?
In your example code below, I notice you are drawing on every mouse
motion. I believe there is a Tkinter specific leak in TkAgg if memory
serves, but it's outside of mpl. What backend are you using? Does
the problem go away with a different backend?
...
The basic idea is to capture the background as a pixel buffer,
identify the rectangle region you want to draw the text into, draw the
background, update the text, redraw only the text rectangle etc
See
http://www.scipy.org/Cookbook/Matplotlib/Animation
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[Matplotlib-users] (default) tracing intensity in imshow, figimage etc
Hi again, thinking about the module I am writing which will include a move mouse event to get the intensity of the pixel in an imshow provided in the figure I am wondering: - would it make any sense to DIRECTLY include such a facility (intensity of pixel provided for an imshow, figimage...) NEXT to the coordinates x Y which are already there (in the lower right) in mpl figures To me (at least) it would make a LOT of sense, since x,y are already provided for any plot, or imshow-like commands. The third axis (intensity) would then only appear when there is a third dimension is available of course (imshow, etc). I can imagine that such a facility could be turned on or off (I guess...). no? Eric - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] a memory + CPU problem when using mpl_connect?
great! but one question though: I need to put the text with figtext and thus use figure coordinates (instead of pixel coord). So how would I replace the : matplotlib.transforms.lbwh_to_bbox ? thanks Eric John Hunter wrote def ondraw(event): l,b,w,h = t.get_window_extent(event.renderer).get_bounds() figw, figh = fig.figwidth.get(), fig.figheight.get() # expand the rectangle to account for larger text; coords are pixel space ondraw.bbox = matplotlib.transforms.lbwh_to_bbox( l-10, b-10, w+200, h+20) ondraw.background = fig.canvas.copy_from_bbox(ondraw.bbox) ondraw.background = None ondraw.bbox = None - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] a memory + CPU problem when using mpl_connect?
sorry for all this. I guess I don't fully understand the bbox thing Anyway it works great except for 2 things: ** now the x,y coordinates in the toolbar are VERY SLOWLY updated... In fact as the mouse moves, the coordinates do not show up and are only updated when it is stopped. ** my text does not appear fully (some part is blanked, and changing the bbox does not seem to do much) Eric John Hunter wrote: "Eric" == Eric Emsellem [EMAIL PROTECTED] writes: Eric great! but one question though: I need to put the text with Eric figtext and thus use figure coordinates (instead of pixel Eric coord). So how would I replace the : Eric matplotlib.transforms.lbwh_to_bbox It shouldn't matter which way you create the text instance. JDH -- ==== Eric Emsellem [EMAIL PROTECTED] Centre de Recherche Astrophysique de Lyon 9 av. Charles-Andretel: +33 (0)4 78 86 83 84 69561 Saint-Genis Laval Cedex fax: +33 (0)4 78 86 83 86 Francehttp://www-obs.univ-lyon1.fr/eric.emsellem - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] \n not working in text ?
hi,
I am trying to have text written on 2 lines, but everything is written
on a single line. Is that normal?
here is an example:
plot(arange(10))
ylabel('this is vertical \n test')
text(0.5,0.5,this is a test \n but does not work)
thanks
Eric
===
Suse 10.1
matplotlib version 0.87.7
numerix numpy 1.0.2.dev3491
Python 2.4.2 (#1, May 2 2006, 08:13:46)
IPython 0.7.4.svn.r2010 -- An enhanced Interactive Python.
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Re: [Matplotlib-users] \n not working in text ?
ok thanks for the check. Since it seems like a personal setting pb, I
have now restarted from a clean matplotlibrc and set up my prefered option.
It now works (no clue why it didn't...)
sorry for the trouble and thanks for doing that test.
cheers
Eric
Eric Firing wrote:
It works on my machine (linux) with svn, but I don't see anything
about this in CHANGELOG.
Eric
Eric Emsellem wrote:
hi,
I am trying to have text written on 2 lines, but everything is written
on a single line. Is that normal?
here is an example:
plot(arange(10))
ylabel('this is vertical \n test')
text(0.5,0.5,this is a test \n but does not work)
thanks
Eric
===
Suse 10.1
matplotlib version 0.87.7
numerix numpy 1.0.2.dev3491
Python 2.4.2 (#1, May 2 2006, 08:13:46)
IPython 0.7.4.svn.r2010 -- An enhanced Interactive Python.
-
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[Matplotlib-users] Transparency disappears when saving a figure in Postscript
Hi,
below is a simple script illustration what I wish to do:
== use new symbols (here ellipses for example) and plot a number of
points with 'scatter', allowing transparency (alpha=0.2) to see when two
data points overlap.
For some reason this works: 1/ on the figure 2/ when saving as .png
but it does NOT work when saving as a Postscript file.
Is there an easy solution for this? (I am using GTKAgg, mpl 0.87.5)
(doing a convert afterwards works but this is not very practical here)
thanks in advance
Eric
P.S.: for the example above, just using standard circles would have the
same effect
#===
import numpy as num
rx, ry = 1.8, 1.
area = rx * ry * num.pi
theta = num.arange(0, 2*num.pi+0.01, 0.1)
verts = zip(rx/area*num.cos(theta), ry/area*num.sin(theta))
clf()
x = [0,0.1,0.2, 0.5]
y = [0.,0.1,0.,0.2]
scatter(x,y, c='0.8', edgecolor='k', faceted=True, s=300, marker=None,
verts=verts, alpha=0.2)
## saving as a png
savefig('tmp.png')
## the figure shows the transparency well
## now saving as a postscript
savefig('tmp.ps')
## == the symbols overlap but the transparency is gone
--
Eric Emsellem [EMAIL PROTECTED]
Centre de Recherche Astrophysique de Lyon
9 av. Charles-Andretel: +33 (0)4 78 86 83 84
69561 Saint-Genis Laval Cedex fax: +33 (0)4 78 86 83 86
Francehttp://www-obs.univ-lyon1.fr/eric.emsellem
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[Matplotlib-users] crashes when using savefig for eps files
Hi,
I have a problem saving eps files in certain conditions. Unfortunately I
am unable to find a simple example which may be very illustrative here
to show you when it works and when it does not.
I include the error message below and so the question is: does anybody
have a hint of why the savefig fails and crashes?
(I tried to close('all'), rcdefaults, etc).
thanks for any input,
Eric
=
savefig('toto.eps')
Your figure is too big to fit on a4 paper. b4 paper will be used to
prevent clipping.
AFPL Ghostscript 8.51: Unrecoverable error, exit code 1
---
exceptions.NameError Traceback (most
recent call last)
/home/science/Sauron/AnalysisKin/Paper7/ipython console
/usr/local/lib/python2.4/site-packages/matplotlib/pylab.py in
savefig(*args, **kwargs)
809 def savefig(*args, **kwargs):
810 fig = gcf()
-- 811 return fig.savefig(*args, **kwargs)
812 if Figure.savefig.__doc__ is not None:
813 savefig.__doc__ = _shift_string(Figure.savefig.__doc__)
/usr/local/lib/python2.4/site-packages/matplotlib/figure.py in
savefig(self, *args, **kwargs)
673 kwargs[key] = rcParams['savefig.%s'%key]
674
-- 675 self.canvas.print_figure(*args, **kwargs)
676
677 def colorbar(self, mappable, cax=None, **kw):
/usr/local/lib/python2.4/site-packages/matplotlib/backends/backend_gtkagg.py
in print_figure(self, filename, dpi, facecolor, edgecolor, orientation,
**kwargs)
112 try:
113 agg.print_figure(filename, dpi, facecolor,
edgecolor,
-- 114 orientation, **kwargs)
115 except IOError, msg:
116 error_msg_gtk('Failed to save\nError message:
%s'%(msg,), self)
/usr/local/lib/python2.4/site-packages/matplotlib/backends/backend_agg.py
in print_figure(self, filename, dpi, facecolor, edgecolor, orientation,
**kwargs)
486 ps = self.switch_backends(FigureCanvasPS)
487 ps.print_figure(filename, dpi, facecolor, edgecolor,
-- 488 orientation, **kwargs)
489 elif ext.find('pdf')=0:
490 from backend_pdf import FigureCanvasPdf
/usr/local/lib/python2.4/site-packages/matplotlib/backends/backend_ps.py
in print_figure(self, outfile, dpi, facecolor, edgecolor, orientation,
papertype)
999 # Let's keep the usetex stuff seperate from the
generic postscript
1000 self._print_figure_tex(outfile, dpi, facecolor,
edgecolor,
- 1001orientation, papertype)
1002 else:
1003 if isinstance(outfile, file):
/usr/local/lib/python2.4/site-packages/matplotlib/backends/backend_ps.py
in _print_figure_tex(self, outfile, dpi, facecolor, edgecolor,
orientation, papertype)
1233 elif rcParams['text.usetex']:
1234 if False: pass # for debugging
- 1235 else: gs_distill(tmpfile, ext=='.eps',
ptype=papertype, bbox=bbox)
1236
1237 if isinstance(outfile, file):
/usr/local/lib/python2.4/site-packages/matplotlib/backends/backend_ps.py
in gs_distill(tmpfile, eps, ptype, bbox)
1331 exit_status = os.system(command)
1332 fh = file(outfile)
- 1333 if exit_status: raise RuntimeError('ghostscript was not able
to process \
1334 your image.\nHere is the full report generated by ghostscript: \
1335 \n\n'% dvifile + fh.read())
NameError: global name 'dvifile' is not defined
--
Eric Emsellem [EMAIL PROTECTED]
Centre de Recherche Astrophysique de Lyon
9 av. Charles-Andretel: +33 (0)4 78 86 83 84
69561 Saint-Genis Laval Cedex fax: +33 (0)4 78 86 83 86
Francehttp://www-obs.univ-lyon1.fr/eric.emsellem
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[Matplotlib-users] bug importing numpy with matplotlib.numerix
Hi, I have a problem when importing numpy from matplotlib.numerix: When I do: import matplotlib import matplotlib.numerix as num # numpy from num import median, std I get: exceptions.ImportError Traceback (most recent call last) ImportError: No module named num It seems that it does not import numpy but something else. (for example num.std does not exist). How do I solve that? (I saw a thread which seems to indicate that it was solved recently, but I have recent versions of everything : matplotlib version 0.87.5 platform is linux2 numerix numpy 1.0rc1.dev3157 backend GTKAgg version 2.8.2 Python 2.4.2 (#1, May 2 2006, 08:13:46) IPython 0.7.3.svn -- An enhanced Interactive Python. What could I do there? Note that in the help of matplotlib.numerix, numpy is only indicated in Option 0. (see below) thanks for any help there. Eric == when I do: help num == I get: Help on package matplotlib.numerix in matplotlib: NAME matplotlib.numerix - numerix imports either Numeric or numarray based on various selectors. FILE /usr/local/lib/python2.4/site/packages/matplotlib/numerix/__init__.py DESCRIPTION 0. If the value --numpy,--numarray or --Numeric is specified on the command line, then numerix imports the specified array package. 1. The value of numerix in matplotlibrc: either Numeric or numarray 2. If none of the above is done, the default array package is Numeric. Because the matplotlibrc always provides *some* value for numerix (it has it's own system of default values), this default is most likely never used. To summarize: the commandline is examined first, the rc file second, and the default array package is Numeric. - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys -- and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] bug in saving figure with dashed lines
Hi, I just produced a plot with a curve dashed line: when saving it into a png file it works fine. But when saving it in a postscript the dashed line looks solid on most of the plot. This happens if there are too many points in the line: x = arange(0,1.,0.0001) y = sqrt(x) plot(x,y,'k--') ## Png file is ok savefig(toto.png) ## Eps file is NOT ok savefig(toto.eps) Any cure to that behaviour? Thanks!!! Eric - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys -- and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
