Re: [Matplotlib-users] IMPORTANT: Mailing lists are moving
Existing users need to resubscribe. The list is so old and full of obsolete and spammy e-mails we thought it best to start afresh. Cheers, Mike On 07/31/2015 11:22 PM, Stephen wrote: Hello Micheal, Do existing matplotlib-users subscribers need to re-subscribe on the new list , or have our emails rolled over to the new list? Steve On 01/08/15 03:07, Michael Droettboom wrote: Due to recent technical problems and changes in policy on SourceForge, we have decided to move the matplotlib mailing lists to python.org. To subscribe to the new mailing lists, please visit: * For user questions and support: https://mail.python.org/mailman/listinfo/matplotlib-users matplotlib-us...@python.org * For low-volume announcements about matplotlib releases and related events and software: https://mail.python.org/mailman/listinfo/matplotlib-announce matplotlib-annou...@python.org * For developer discussion: https://mail.python.org/mailman/listinfo/matplotlib-devel matplotlib-de...@python.org The old list will remain active in the meantime, but all new posts will auto-reply with the location of the new mailing lists. The old mailing list archives will remain available. Thanks to Ralf Hildebrandt at python.org for making this possible. Cheers, Michael Droettboom -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib + py3 + gtk3
Thanks. I'd definitely consider this a bug this. Would you mind creating an issue or pull request on github.com/matplotlib/matplotlib so it doesn't get lost? Mike On 03/01/2014 05:42 PM, Jon Roadley-Battin wrote: On 02/27/2014 06:58 PM, Jon Roadley-Battin wrote: Good evening, I am at present migrating an application of mine from py27+pygtk (with mpl) to py33+pygobject (gtk3) Unfortunately I am unable to use from matplotlib.backends.backend_gtk3agg import FigureCanvasGTK3Agg as FigureCanvas from matplotlib.backends.backend_gtk3 import NavigationToolbar2GTK3 as NavigationToolbar Which is is on the examples ( http://matplotlib.org/examples/user_interfaces/embedding_in_gtk3_panzoom.html ) but is also the logical translation from what I presently have. This falls fowl of the cairo issue What I am having to use is backend_gtk3cairo. However this is being triggered raise ValueError(The Cairo backend can not draw paths longer than 18980 points.) I am generally plotting 7 x-y plots with upto 30,000 points. Now for now I have commented this out from my local install, is there a better/preferred/recommended alternative? This was put in there because cairo had (at least at the time) a hard coded limit on path size, and getting a Python exception was IMHO preferable to segfaulting and having the process go away. Are you saying that when you comment it out, it's currently working? It may be that cairo has fixed this limit in the intervening years. Can you provide a simple, standalone example that reproduces the error? Using python33 pygi-aio-3.10.2-win32_rev18 (to provide pygobject for windows:) Using: http://matplotlib.org/examples/user_interfaces/embedding_in_gtk3_panzoom.html as the baseline provides the following error: File c:\Python33\lib\site-packages\matplotlib\backends\backend_gtk3agg.py, line 52, in on_draw_event buf, cairo.FORMAT_ARGB32, width, height) NotImplementedError: Surface.create_for_data: Not Implemented yet. This has been mentioned a few times across the ml Modifying the example to use backend_gtk3cairo from matplotlib.backends.backend_gtk3cairo import FigureCanvasGTK3Cairo as FigureCanvas from matplotlib.backends.backend_gtk3 import NavigationToolbar2GTK3 as NavigationToolbar Now the example runs and plots a nice sinewave (as expected). Modify the script to plot 7 waveforms, 100pts ## #!/usr/bin/env python3 demonstrate NavigationToolbar with GTK3 accessed via pygobject from gi.repository import Gtk from matplotlib.figure import Figure import numpy as np from matplotlib.backends.backend_gtk3cairo import FigureCanvasGTK3Cairo as FigureCanvas from matplotlib.backends.backend_gtk3 import NavigationToolbar2GTK3 as NavigationToolbar win = Gtk.Window() win.connect(delete-event, Gtk.main_quit ) win.set_default_size(400,300) win.set_title(Embedding in GTK) fig = Figure(figsize=(5,4), dpi=100) plt = fig.add_subplot(1,1,1) t = np.arange(0,2*np.pi,2*np.pi/100) a = np.sin(t + 0*(2*np.pi/7)) b = np.sin(t + 1*(2*np.pi/7)) c = np.sin(t + 2*(2*np.pi/7)) d = np.sin(t + 3*(2*np.pi/7)) e = np.sin(t + 4*(2*np.pi/7)) f = np.sin(t + 5*(2*np.pi/7)) g = np.sin(t + 6*(2*np.pi/7)) plt.plot(t,a) plt.plot(t,b) plt.plot(t,c) plt.plot(t,d) plt.plot(t,e) plt.plot(t,f) plt.plot(t,g) vbox = Gtk.VBox() win.add(vbox) # Add canvas to vbox canvas = FigureCanvas(fig) # a Gtk.DrawingArea vbox.pack_start(canvas, True, True, 0) # Create toolbar toolbar = NavigationToolbar(canvas, win) vbox.pack_start(toolbar, False, False, 0) win.show_all() Gtk.main() This works, its only 100pts for 7 scatters so nothing unexpected. Modify the arange to create a time array of 30,000 pts. t = np.arange(0,2*np.pi,2*np.pi/3) File c:\Python33\lib\site-packages\matplotlib\backends\backend_cairo.py, line 143, in draw_path raise ValueError(The Cairo backend can not draw paths longer than 18980 points.) ValueError: The Cairo backend can not draw paths longer than 18980 points. The already mentioned raise to protect against a segfault. Edit backend_cairo to comment out the check: def draw_path(self, gc, path, transform, rgbFace=None): #if len(path.vertices) 18980: #raise ValueError(The Cairo backend can not draw paths longer than 18980 points.) ctx = gc.ctx 7channel, 30,000 pts each is plotted just fine. Zoom rectangle is slow to render, but this is true for 100pts (so more a gtk3 thing than a cairo and multiple points thing) Final script: ### #!/usr/bin/env python3 demonstrate NavigationToolbar with GTK3 accessed via pygobject from gi.repository import Gtk from
Re: [Matplotlib-users] Matplotlib + py3 + gtk3 wouws
On 02/27/2014 06:58 PM, Jon Roadley-Battin wrote: Good evening, I am at present migrating an application of mine from py27+pygtk (with mpl) to py33+pygobject (gtk3) Unfortunately I am unable to use from matplotlib.backends.backend_gtk3agg import FigureCanvasGTK3Agg as FigureCanvas from matplotlib.backends.backend_gtk3 import NavigationToolbar2GTK3 as NavigationToolbar Which is is on the examples ( http://matplotlib.org/examples/user_interfaces/embedding_in_gtk3_panzoom.html ) but is also the logical translation from what I presently have. This falls fowl of the cairo issue What I am having to use is backend_gtk3cairo. However this is being triggered raise ValueError(The Cairo backend can not draw paths longer than 18980 points.) I am generally plotting 7 x-y plots with upto 30,000 points. Now for now I have commented this out from my local install, is there a better/preferred/recommended alternative? This was put in there because cairo had (at least at the time) a hard coded limit on path size, and getting a Python exception was IMHO preferable to segfaulting and having the process go away. Are you saying that when you comment it out, it's currently working? It may be that cairo has fixed this limit in the intervening years. Can you provide a simple, standalone example that reproduces the error? I have read about cairocffi but this doesn't seem conveniently possible at this moment in time (especially for windows) I'm not sure if the Python wrappers will matter, since this issue is actually in the underlying Cairo library. Equally I have seen mpl-devel mailing list entries from 4years ago stating that this check was to be removed (a cairo 1.4.10 issue) Are you referring to this thread? http://matplotlib.1069221.n5.nabble.com/Path-length-in-the-cairo-backend-td36582.html The conclusion there (if you scroll down) was that the check is still needed as of Cairo 1.8. Mike JonRB -- Flow-based real-time traffic analytics software. Cisco certified tool. Monitor traffic, SLAs, QoS, Medianet, WAAS etc. with NetFlow Analyzer Customize your own dashboards, set traffic alerts and generate reports. Network behavioral analysis security monitoring. All-in-one tool. http://pubads.g.doubleclick.net/gampad/clk?id=126839071iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Flow-based real-time traffic analytics software. Cisco certified tool. Monitor traffic, SLAs, QoS, Medianet, WAAS etc. with NetFlow Analyzer Customize your own dashboards, set traffic alerts and generate reports. Network behavioral analysis security monitoring. All-in-one tool. http://pubads.g.doubleclick.net/gampad/clk?id=126839071iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] font setting in matplotlib 1.3.1
Thanks for the report. Indeed, you are correct in that the root of this problem is that Bitstream Vera Sans does not contain these characters, yet it is being selected erroneously. It does appear that there is a bug in the font selection algorithm, that Bitstream Vera Sans gets selected as a perfect match even when it is not the first font in the requested list. Vera Sans ships with matplotlib and is the default fallback font, even though it is not installed as a system font on your computer. I have a fix here: https://github.com/matplotlib/matplotlib/pull/2771 In the meantime, the solution you arrived at is the probably the best we can do for now. Mike On 01/27/2014 11:21 AM, Phil Elson wrote: Thanks for this Vlastimil, looks like there is either a subtlety beyond my font knowledge or a bug here - mdboom, did you have any ideas? Otherwise I think we need a github issue for this. Cheers, On 4 January 2014 19:37, Vlastimil Brom vlastimil.b...@gmail.com mailto:vlastimil.b...@gmail.com wrote: Hi all, after upgrading to matplotlib 1.3.1, I noticed some display errors on the plots with regard to accented characters (such as carons etc.). As I recall, I had similar problem in the past and could work around them by modifying rcParams, however, this fix doesn't work as expected in 1.3.1. (with python 2.7.6, 32bit on Win 7, Czech - with both WXAgg and TKAgg backends). From the usual Czech diacritics ác(d(ée(ín(ór(s(t(úu*ýz( some are not displayed (d(e(n(r(t(u*) - replacement squares are shown instead. Simply prepending a suitable font at the beginning of the list rcParams['font.sans-serif'] doesn't help in 1.3.1. I eventually found out, that Bitstream Vera Sans (which is not installed on this computer) is somehow offending - as long as this item is in the list (even at the end), the mentioned characters aren't displayed. The problem can be observed in the following simple pylab script: == #! Python # -*- coding: utf-8 -*- # with implicit fonts d(e(n(r(t(u* are not displayed properly in the plot title from matplotlib import rcParams rcParams['font.family'] = 'sans-serif' if Bitstream Vera Sans in rcParams['font.sans-serif']: rcParams['font.sans-serif'].remove(Bitstream Vera Sans) # after appending the offending font even at the end of the list (by uncommenting the following line), d(e(n(r(t(u* are not displayed again # rcParams['font.sans-serif'].append(Bitstream Vera Sans) import pylab pylab.title(uabcd ác(d(ée(ín(ór(s(t(úu*ýz( äöüß ê xyz) pylab.show() == Is there something special in the resolution of the font items in rcParams? This individual issue seems to be fixed with removing the single font, but I'd like to understand this more generally, as the installed fonts on different computers differ. Thanks in advance Vlastimil Brom -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- CenturyLink Cloud: The Leader in Enterprise Cloud Services. Learn Why More Businesses Are Choosing CenturyLink Cloud For Critical Workloads, Development Environments Everything In Between. Get a Quote or Start a Free Trial Today. http://pubads.g.doubleclick.net/gampad/clk?id=119420431iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- CenturyLink Cloud: The Leader in Enterprise Cloud Services. Learn Why More Businesses Are Choosing CenturyLink Cloud For Critical Workloads, Development Environments Everything In Between. Get a Quote or Start a Free Trial Today. http://pubads.g.doubleclick.net/gampad/clk?id=119420431iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net
Re: [Matplotlib-users] axes.text() plotting text outside of axes bounds
On 01/22/2014 09:43 AM, Benjamin Root wrote:
On Wed, Jan 22, 2014 at 9:21 AM, Daryl Herzmann akrh...@gmail.com
mailto:akrh...@gmail.com wrote:
Hello,
I'm wondering why stuff plotted with ax.text() does not get
clipped by the axes bounds on the plot. Here's a simple
example, run with 1.3.1:
import matplotlib.pyplot as plt
(fig, ax) = plt.subplots(1,1)
for i in range(5):
for j in range(5):
ax.text(i,j, %sx%s % (i,j), ha='center', va='center')
ax.plot([0,8],[0,8])
ax.set_xlim(0,2.8)
ax.set_ylim(0,2.8)
fig.savefig('test.png')
and attached output. This causes me lots of grief with basemap as
well. Is there a non-brute-force trick to get these values
plotted outside the axes bounds removed?
daryl
I can't quite remember what the original issue was, but I do seem to
recall that this behavior was made intentional for some reason. I
honestly can't remember why, though, and I can't fathom what
circumstances that this would be desirable...
Often, the text is an annotation that you would not want to have clipped.
```
ax.text(i,j, %sx%s % (i,j), ha='center', va='center').set_clip_on(True)
```
will turn the clipping on for the text.
Mike
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Re: [Matplotlib-users] hexbin runtime warnings
Not sure. Can you provide a small, standalone example that reproduces the problem? Mike On 12/27/2013 12:05 PM, Neal Becker wrote: Any idea what could cause hexbin to issue runtime warnings and then draw a blank figure? /home/nbecker/.local/lib/python3.3/site-packages/matplotlib/axes.py:6524: RuntimeWarning: invalid value encountered in true_divide x = (x - xmin) / sx /home/nbecker/.local/lib/python3.3/site-packages/matplotlib/axes.py:6539: RuntimeWarning: invalid value encountered in less bdist = (d1 d2) -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Navigation Slowness in Matplotlib with Subplots
The gist here is that `subplot` doesn't really know when the new subplot exactly overlaps another -- it's essentially unaware of what's already there. We could do some deduplication there. However, it's also a completely legitimate use case to create two subplots in the same location, and then change the location of the ticks, formatting and scale on one of them and not the other. And we can't really guess which the user intends to do. Your workaround seems like a good one, in the absence of really changing the API here so matplotlib can know the user's intent. Mike On 11/26/2013 08:23 PM, John Gu wrote: Hello, I had submitted a similar issue back in October of 2011. I'm using matplotlib 1.3.1. Here's the code to produce the issue: f = figure() for i in xrange(9): subplot(3,3,i+1) f.axes[0].plot(range(100)) Now try to drag the line in the first subplot around. It's extremely slow. Now do the following: for ax in f.axes[1:]: ax.axison=False Now, when you drag the line around in the first subplot, there's a huge difference. Basically, it seems like that matplotlib is attempting to redraw a lot of unnecessary things on the figure. Is there an easy fix to this? Thanks, John -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349351iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349351iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] disabling downloads during build process
On 11/09/2013 12:34 PM, Nat Echols wrote: A few of the users of our software want to compile the entire mess from source using non-standard compilers and/or options. We try to bundle all dependencies with the package we distribute but the current version of Matplotlib is attempting to download another half-dozen or so, which I'm pretty sure is new behavior. Because these users work at a company with draconian network use policies, HTTP connections is completely blocked, and the build fails when Matplotlib can't download these dependencies. Two questions: 1) Is there a way to instruct Matplotlib not to attempt to download anything? I do not care if the build fails as a result of the missing dependencies - at least it will be obvious what is missing, and it will prevent undefined behavior on other systems. 2) Barring (1), is there a complete list of all required dependencies somewhere? The one on the website appears to be out of date, and it is not clear what is truly required versus simply nice to have. The documentation is correct, but it does not list secondary dependencies (i.e. dependencies of dependencies). Mike thanks, Nat -- November Webinars for C, C++, Fortran Developers Accelerate application performance with scalable programming models. Explore techniques for threading, error checking, porting, and tuning. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60136231iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- November Webinars for C, C++, Fortran Developers Accelerate application performance with scalable programming models. Explore techniques for threading, error checking, porting, and tuning. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60136231iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] The return of Mac OS-X installers
Courtesy of Matthew Brett, we now have Mac OS X installers again. These are designed to work with the python.org distribution, and include all dependencies. They are available here: http://matplotlib.org/downloads Please let us know how you fare! Mike -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Android is increasing in popularity, but the open development platform that developers love is also attractive to malware creators. Download this white paper to learn more about secure code signing practices that can help keep Android apps secure. http://pubads.g.doubleclick.net/gampad/clk?id=65839951iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] The return of Mac OS-X installers
Github seems to be having trouble updating the website at the moment. The direct links to the installer files are: https://downloads.sourceforge.net/project/matplotlib/matplotlib/matplotlib-1.3.1/matplotlib-1.3.1-py2.7-python.org-macosx10.6.dmg https://downloads.sourceforge.net/project/matplotlib/matplotlib/matplotlib-1.3.1/matplotlib-1.3.1-py3.3-python.org-macosx10.6.dmg Mike On 10/31/2013 04:18 PM, Michael Droettboom wrote: Courtesy of Matthew Brett, we now have Mac OS X installers again. These are designed to work with the python.org distribution, and include all dependencies. They are available here: http://matplotlib.org/downloads Please let us know how you fare! Mike -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Android is increasing in popularity, but the open development platform that developers love is also attractive to malware creators. Download this white paper to learn more about secure code signing practices that can help keep Android apps secure. http://pubads.g.doubleclick.net/gampad/clk?id=65839951iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- Android is increasing in popularity, but the open development platform that developers love is also attractive to malware creators. Download this white paper to learn more about secure code signing practices that can help keep Android apps secure. http://pubads.g.doubleclick.net/gampad/clk?id=65839951iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] 1.3 + xkcd + latex
On 10/18/2013 12:58 PM, Paulo Meira wrote:
Hi, all,
It didn't work for me with mpl 1.3 but it does with 1.3.1 (openSuse
12.3, python 2.7.3, 64-bit).
To install 1.3.1, I had to use the archive from SourceForge directly
since only 1.3.0 is listed on pypi (I used pip) -- could that be the
source of this issue for you?
That's my bad. I've updated the PyPI entry.
Mike
Regards,
Paulo Meira
---
On Fri, Oct 18, 2013 at 11:51 AM, Neal Becker ndbeck...@gmail.com
mailto:ndbeck...@gmail.com wrote:
I am using mpl 1.3, python 2.7.3, 64-bit linux (fedora 19)
Andrew Dawson wrote:
For what it is worth I see behaviour identical to Neal. I'm using a
development version of matplotlib (v1.4.x, sorry I don't know
the hash of
the installed version) on 64-bit Linux (Ubuntu 12.04) and Python
2.7.3.
That probably doesn't help much, except to show that this is not
specific
to just Neal!
Andrew
On 18 October 2013 14:40, Michael Droettboom
md...@stsci.edu mailto:md...@stsci.edu wrote:
This is really puzzling. What version of matplotlib are you
running,
what platform, and what version of Python? Your example works
just fine
for me.
Mike
On 10/18/2013 08:40 AM, Neal Becker wrote:
Neal Becker wrote:
This example shows the error on my platform - the xlabel is not
rendered with
tex but instead the '$' are printed:
import numpy as np
import matplotlib.pyplot as plt
plt.xkcd()
fig = fig = plt.figure()
ax = fig.add_subplot(111)
plt.plot (np.arange (10), 2*np.arange(10))
ax.set_xlabel ('$E_{s}/N_{0}$')
plt.show()
And without plt.xkcd() the tex is rendered correctly
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Re: [Matplotlib-users] ANN: matplotlib 1.3.1
On 10/18/2013 03:18 PM, Nelle Varoquaux wrote: Hello, Congratulations for this new minor release ! Someone mentionned on python-list that it's not available on pypi. I checked, and indeed it isn't. Should we upload it there? Thanks, N Sorry about that. I just addressed that this morning. Mike On 10 October 2013 20:19, Michael Droettboom md...@stsci.edu mailto:md...@stsci.edu wrote: I'm pleased to announce the release of matplotlib version 1.3.1. This is a bugfix release. It may be downloaded from here, or installed through the package manager of your choice (when available): http://matplotlib.org/downloads The changelog is copied below: New in 1.3.1 1.3.1 is a bugfix release, primarily dealing with improved setup and handling of dependencies, and correcting and enhancing the documentation. The following changes were made in 1.3.1 since 1.3.0. Enhancements - Added a context manager for creating multi-page pdfs (see `matplotlib.backends.backend_pdf.PdfPages`). - The WebAgg backend should no have lower latency over heterogeneous Internet connections. Bug fixes ` - Histogram plots now contain the endline. - Fixes to the Molleweide projection. - Handling recent fonts from Microsoft and Macintosh-style fonts with non-ascii metadata is improved. - Hatching of fill between plots now works correctly in the PDF backend. - Tight bounding box support now works in the PGF backend. - Transparent figures now display correctly in the Qt4Agg backend. - Drawing lines from one subplot to another now works. - Unit handling on masked arrays has been improved. Setup and dependencies `` - Now works with any version of pyparsing 1.5.6 or later, without displaying hundreds of warnings. - Now works with 64-bit versions of Ghostscript on MS-Windows. - When installing from source into an environment without Numpy, Numpy will first be downloaded and built and then used to build matplotlib. - Externally installed backends are now always imported using a fully-qualified path to the module. - Works with newer version of wxPython. - Can now build with a PyCXX installed globally on the system from source. - Better detection of Gtk3 dependencies. Testing ``` - Tests should now work in non-English locales. - PEP8 conformance tests now report on locations of issues. Mike -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134071iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60135031iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] 1.3 + xkcd + latex
The built-in mathtext support does. (I can put xkcd() at the top of
the mathtext_demo.py example and all is well).
It does not work when |text.usetex| is True (when using external TeX).
But in that case, it should have thrown an exception:
|Traceback (most recent call last):
File mathtext_demo.py, line 9, in module
xkcd()
File
/home/mdboom/python/lib/python2.7/site-packages/matplotlib-1.4.x-py2.7-linux-x86_64.egg/matplotlib/pyplot.py,
line 293, in xkcd
xkcd mode is not compatible with text.usetex = True)
RuntimeError: xkcd mode is not compatible with text.usetex = True|
Mike
On 10/18/2013 07:24 AM, Neal Becker wrote:
It appears that latex doesn't work with xkcd?
I put for example:
self.ax.set_xlabel ('$E_s/N_0
)
Which go rendered with the '
signs and not as latex
And my vertical axis was labeled as:
$\mathdefault{10^{3}}$ ...
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Re: [Matplotlib-users] 1.3 + xkcd + latex
On 10/18/2013 08:20 AM, Neal Becker wrote:
Michael Droettboom wrote:
The built-in mathtext support does. (I can put xkcd() at the top of
the mathtext_demo.py example and all is well).
It does not work when |text.usetex| is True (when using external TeX).
But in that case, it should have thrown an exception:
|Traceback (most recent call last):
File mathtext_demo.py, line 9, in module
xkcd()
File
/home/mdboom/python/lib/python2.7/site-packages/matplotlib-1.4.x-py2.7-
linux-x86_64.egg/matplotlib/pyplot.py,
line 293, in xkcd
xkcd mode is not compatible with text.usetex = True)
RuntimeError: xkcd mode is not compatible with text.usetex = True|
Mike
On 10/18/2013 07:24 AM, Neal Becker wrote:
It appears that latex doesn't work with xkcd?
I put for example:
self.ax.set_xlabel ('$E_s/N_0
)
Which go rendered with the '
signs and not as latex
And my vertical axis was labeled as:
$\mathdefault{10^{3}}$ ...
Strange. I don't have anything about usetex in the script, or in my
.matplotlibrc - all it has is:
backend : Qt4Agg
mathtext.fontset: stix
Puzzling. Do you have a matplotlibrc in the current working directory?
Mike
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Re: [Matplotlib-users] 1.3 + xkcd + latex
This is really puzzling. What version of matplotlib are you running,
what platform, and what version of Python? Your example works just fine
for me.
Mike
On 10/18/2013 08:40 AM, Neal Becker wrote:
Neal Becker wrote:
This example shows the error on my platform - the xlabel is not rendered with
tex but instead the '$' are printed:
import numpy as np
import matplotlib.pyplot as plt
plt.xkcd()
fig = fig = plt.figure()
ax = fig.add_subplot(111)
plt.plot (np.arange (10), 2*np.arange(10))
ax.set_xlabel ('$E_{s}/N_{0}$')
plt.show()
And without plt.xkcd() the tex is rendered correctly
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Re: [Matplotlib-users] Memory leak when using pyplot.ion() ?
I haven't had a chance to look into where the memory is actually
leaking, ion/ioff are intended for interactive use, and here you are
saving a large number of plots to files. Why do you need ion at all?
Mike
On 10/14/2013 08:51 AM, OCuanachain, Oisin (Oisin) wrote:
Hi,
I am having problems with a script. It runs a number of iterations and
plots and saves a number of plots on each iteration. After the plots
have been saved I issue the pyplot.close('all') command so despite
many plots being created only 4 should be open at any given time which
should not cause any memory problems. When I run the script however I
see the RAM usage gradually growing without bound and eventually
causing the script to crash. Interestingly I have found if I comment
out the pyplot.ion() and pyplot.ioff() the problem vanishes. So I do
have a workaround but it would still be good to have this fixed in
case I forget about it in future and loose another weekend's work.
My OS is Windows XP Service Pack 3
Python 2.6
Matplotlib 1.0.1
The code below is a stripped down version of my script which still
exhibits the problem.
Oisín.
# -*- coding: utf-8 -*-
import sys
import time
import numpy as np
from matplotlib import pyplot
import os
# Main script body
try:
for gain in range(1,20,2):
for PortToTest in range(8):
dirname = '.\crash'
f = open(dirname + '\\results.m','w')
runname = '\P' + str(PortToTest) + str(gain) + \
'_' + time.strftime('d%dh%Hm%Ms%S')
dirname = dirname + runname
os.mkdir(dirname)
os.system('copy ' + sys.argv[0] + ' ' + dirname )
nIts = 50
# Decimate data for plotting if many iterations are run
if(nIts10):
echoPlotDec = 10
else:
echoPlotDec = 1
ResidN = np.zeros((4,2*nIts))
MaxSl= np.zeros((4,2*nIts))
MaxOld = np.zeros((4,2*nIts))
MaxNew = np.zeros((4,2*nIts))
EchoA= np.zeros((2*nIts,160))
for kk in range(2*nIts):
ResidN[0,kk] = np.random.rand(1,1)
ResidN[1,kk] = np.random.rand(1,1)
ResidN[2,kk] = np.random.rand(1,1)
ResidN[3,kk] = np.random.rand(1,1)
MaxSl[0,kk] = np.random.rand(1,1)
MaxSl[1,kk] = np.random.rand(1,1)
MaxSl[2,kk] = np.random.rand(1,1)
MaxSl[3,kk] = np.random.rand(1,1)
MaxOld[0,kk] = np.random.rand(1,1)
MaxOld[1,kk] = np.random.rand(1,1)
MaxOld[2,kk] = np.random.rand(1,1)
MaxOld[3,kk] = np.random.rand(1,1)
MaxNew[0,kk] = np.random.rand(1,1)
MaxNew[1,kk] = np.random.rand(1,1)
MaxNew[2,kk] = np.random.rand(1,1)
MaxNew[3,kk] = np.random.rand(1,1)
EchoA[kk,:] = np.random.rand(1,160)
f.close()
pyplot.ion()
pyplot.figure()
pyplot.hold(True)
LegendTexts = (A,B,C,D)
pyplot.title(R ( + runname +))
pyplot.xlabel(Index)
pyplot.ylabel(Noise (dB))
pyplot.grid(True)
pyplot.hold(True)
pyplot.plot(np.transpose(ResidN),'.-')
pyplot.legend(LegendTexts,loc=1)
pyplot.axis([0, 2*nIts, -33, -25])
pyplot.savefig(dirname + '\\results.emf',format='emf')
pyplot.figure()
pyplot.hold(True)
pyplot.title(Coefs)
pyplot.xlabel(Coef Index)
pyplot.ylabel(Coef Value)
pyplot.grid(True)
pyplot.hold(True)
pyplot.plot(np.transpose(EchoA[0:nIts-1:echoPlotDec,:]),'.-')
pyplot.plot(np.transpose(EchoA[nIts:2*nIts-1:echoPlotDec,:]),'*-')
pyplot.axis([0, 160, -0.5, 2])
pyplot.savefig(dirname + '\\CoefsA.emf',format='emf')
pyplot.figure()
pyplot.hold(True)
pyplot.title(MaxAbs, Old = '.', New = '*' )
pyplot.xlabel(Iteration)
pyplot.ylabel(o/p (LSBs))
pyplot.grid(True)
pyplot.hold(True)
pyplot.plot(np.transpose(MaxOld),'.-')
pyplot.plot(np.transpose(MaxNew),'*-')
pyplot.axis([0, 2*nIts, 32, 128])
pyplot.savefig(dirname + '\\MaxAbsA.emf',format='emf')
pyplot.figure()
pyplot.hold(True)
pyplot.title(MaxAbs)
pyplot.xlabel(Iteration)
pyplot.ylabel((LSBs))
pyplot.grid(True)
pyplot.hold(True)
pyplot.plot(np.transpose(MaxSl),'.-')
pyplot.axis([0, 2*nIts, 0, 64])
pyplot.savefig(dirname + '\\MaxAbsSl.emf',format='emf')
pyplot.close('all')
except RuntimeError, msg:
print 'Exception occurred in main script body'
print sys.stderr, msg
raise
finally:
print Test done
# Display plots
pyplot.ioff()
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Re: [Matplotlib-users] Matplotlib eating memory
Can you provide a complete, standalone example that reproduces the problem. Otherwise all I can do is guess. The usual culprit is forgetting to close figures after you're done with them. Mike On 10/10/2013 09:05 AM, Martin MOKREJŠ wrote: Hi, rendering some of my charts takes almost 50GB of RAM. I believe below is a stracktrace of one such situation when it already took 15GB. Would somebody comments on what is matplotlib doing at the very moment? Why the recursion? The charts had to have 262422 data points in a 2D scatter plot, each point has assigned its own color. They are in batches so that there are 153 distinct colors but nevertheless, I assigned to each data point a color value. There are 153 legend items also (one color won't be used). ^CTraceback (most recent call last): ... _figure.savefig(filename, dpi=100) File /usr/lib64/python2.7/site-packages/matplotlib/figure.py, line 1421, in savefig self.canvas.print_figure(*args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/backend_bases.py, line 2220, in print_figure **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py, line 505, in print_png FigureCanvasAgg.draw(self) File /usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py, line 451, in draw self.figure.draw(self.renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/figure.py, line 1034, in draw func(*args) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/axes.py, line 2086, in draw a.draw(renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 718, in draw return Collection.draw(self, renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 276, in draw offsets, transOffset, self.get_facecolor(), self.get_edgecolor(), File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 551, in get_edgecolor return self._edgecolors KeyboardInterrupt ^CError in atexit._run_exitfuncs: Traceback (most recent call last): File /usr/lib64/python2.7/atexit.py, line 24, in _run_exitfuncs func(*targs, **kargs) File /usr/lib64/python2.7/site-packages/matplotlib/_pylab_helpers.py, line 90, in destroy_all gc.collect() KeyboardInterrupt Error in sys.exitfunc: Traceback (most recent call last): File /usr/lib64/python2.7/atexit.py, line 24, in _run_exitfuncs func(*targs, **kargs) File /usr/lib64/python2.7/site-packages/matplotlib/_pylab_helpers.py, line 90, in destroy_all gc.collect() KeyboardInterrupt ^C Clues what is the code doing? I use mpl-1.3.0. Thank you, Martin -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134071iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134071iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib eating memory
On 10/10/2013 09:47 AM, Martin MOKREJŠ wrote: Benjamin Root wrote: On Thu, Oct 10, 2013 at 9:05 AM, Martin MOKREJŠ mmokr...@gmail.com mailto:mmokr...@gmail.com wrote: Hi, rendering some of my charts takes almost 50GB of RAM. I believe below is a stracktrace of one such situation when it already took 15GB. Would somebody comments on what is matplotlib doing at the very moment? Why the recursion? The charts had to have 262422 data points in a 2D scatter plot, each point has assigned its own color. They are in batches so that there are 153 distinct colors but nevertheless, I assigned to each data point a color value. There are 153 legend items also (one color won't be used). ^CTraceback (most recent call last): ... _figure.savefig(filename, dpi=100) File /usr/lib64/python2.7/site-packages/matplotlib/figure.py, line 1421, in savefig self.canvas.print_figure(*args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/backend_bases.py, line 2220, in print_figure **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py, line 505, in print_png FigureCanvasAgg.draw(self) File /usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py, line 451, in draw self.figure.draw(self.renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/figure.py, line 1034, in draw func(*args) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/axes.py, line 2086, in draw a.draw(renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 718, in draw return Collection.draw(self, renderer) File /usr/lib64/python2.7/site-packages/matplotlib/artist.py, line 54, in draw_wrapper draw(artist, renderer, *args, **kwargs) File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 276, in draw offsets, transOffset, self.get_facecolor(), self.get_edgecolor(), File /usr/lib64/python2.7/site-packages/matplotlib/collections.py, line 551, in get_edgecolor return self._edgecolors KeyboardInterrupt ^CError in atexit._run_exitfuncs: Traceback (most recent call last): File /usr/lib64/python2.7/atexit.py, line 24, in _run_exitfuncs func(*targs, **kargs) File /usr/lib64/python2.7/site-packages/matplotlib/_pylab_helpers.py, line 90, in destroy_all gc.collect() KeyboardInterrupt Error in sys.exitfunc: Traceback (most recent call last): File /usr/lib64/python2.7/atexit.py, line 24, in _run_exitfuncs func(*targs, **kargs) File /usr/lib64/python2.7/site-packages/matplotlib/_pylab_helpers.py, line 90, in destroy_all gc.collect() KeyboardInterrupt ^C Clues what is the code doing? I use mpl-1.3.0. Thank you, Martin Unfortunately, that stacktrace isn't very useful. There is no recursion there, but rather the perfectly normal drawing of the figure object that has a child axes, which has child collections which have child artist objects. Without the accompanying code, it would be difficult to determine where the memory hog is. Could there be places where gc.collect() could be introduced? Are there places where matplotlib could del() unnecessary objects right away? I think the problem is with huge lists or pythonic dicts. I could save 10GB of RAM when I converted one python dict to a bsddb3 file having just 10MB on disk. I speculate matplotlib in that code keeps the data in some huge list or more likely a dict and that is the same issue. Are you sure you cannot see where a problem is? It happens (is visible) only with huge number of dots, of course. Matplotlib generally keeps data in Numpy arrays, not lists or dictionaries (though given that matplotlib predates Numpy, there are some corner cases we've found recently where arrays are converted to lists and back unintentionally). As Ben said, the traceback looks quite normal -- and it doesn't show what any of the values are. If you can provide us with a script that reproduces this, that's the only way we can really plug in and see what might be going wrong. It doesn't have to have anything proprietary, such as your data. You can even start with one of the existing examples, if that helps. Mike _ |\/|o
Re: [Matplotlib-users] Matplotlib eating memory
Thanks. This is much more helpful.
What we need, however, is a self contained, standalone example. The
code below calls functions that are not present. See http://sscce.org/
for why this is so important. Again, I would have to guess what those
functions do -- it may be relevant, it may not. If I have something
that I can *just run* then I can use various introspection tools to see
what is going wrong.
Mike
On 10/10/2013 10:12 AM, Martin MOKREJŠ wrote:
Michael Droettboom wrote:
Can you provide a complete, standalone example that reproduces the
problem. Otherwise all I can do is guess.
The usual culprit is forgetting to close figures after you're done with
them.
Thanks, I learned that through matplotlib-1.3.0 give spit over me a warning
message some weeks
ago. Yes, i do call _figure.clear() and pylab.clf() but only after the
savefig() returns, which
is not the case here. Also use gc.collect() a lot through the code, especially
before and after
I draw every figure. That is not enough here.
from itertools import izip, imap, ifilter
import pylab
import matplotlib
# Force matplotlib not to use any X-windows backend.
matplotlib.use('Agg')
import pylab
F = pylab.gcf()
# convert the view of numpy array to tuple
#
http://matplotlib.1069221.n5.nabble.com/RendererAgg-int-width-int-height-dpi-debug-False-ValueError-width-and-height-must-each-be-below-32768-td27756.html
DefaultSize = tuple(F.get_size_inches())
def draw_hist2d_plot(filename, mydata_x, mydata_y, colors, title_data,
xlabel_data, ylabel_data, legends, legend_loc='upper right',
legend_bbox_to_anchor=(1.0, 1.0), legend_ncol=None, xmin=None, xmax=None,
ymin=None, ymax=None, fontsize=10, legend_fontsize=8, dpi=100,
tight_layout=False, legend_inside=False, objsize=0.1):
# hist2d(x, y, bins = None, range=None, weights=None, cmin=None, cmax=None
**kwargs)
if len(mydata_x) != len(mydata_y):
raise ValueError, %s: len(mydata_x) != len(mydata_y): %s != %s %
(filename, len(mydata_x), len(mydata_y))
if colors and len(mydata_x) != len(colors):
sys.stderr.write(Warning: draw_hist2d_plot(): %s: len(mydata_x) !=
len(colors): %s != %s.\n % (filename, len(mydata_x), len(colors)))
if colors and legends and len(colors) != len(legends):
sys.stderr.write(Warning: draw_hist2d_plot(): %s, len(colors) !=
len(legends): %s != %s.\n % (filename, len(colors), len(legends)))
if mydata_x and mydata_y and filename:
if legends:
if not legend_ncol:
_subfigs, _ax1_num, _ax2_num, _legend_ncol = get_ncol(legends,
fontsize=legend_fontsize)
else:
_subfigs, _ax1_num, _ax2_num, _legend_ncol = 3, 213, 313,
legend_ncol
else:
_subfigs, _ax1_num, _legend_ncol = 3, 313, 0
set_my_pylab_defaults()
pylab.clf()
_figure = pylab.figure()
_figure.clear()
_figure.set_tight_layout(True)
gc.collect()
if legends:
# do not crash on too tall figures
if 8.4 * _subfigs 200:
_figure.set_size_inches(11.2, 8.4 * (_subfigs + 1))
else:
# _figure.set_size_inches() silently accepts a large value but
later on _figure.savefig() crashes with:
# ValueError: width and height must each be below 32768
_figure.set_size_inches(11.2, 200)
sys.stderr.write(Warning: draw_hist2d_plot(): Wanted to set %s
figure height to %s but is too high, forcing %s instead. You will likely get an
incomplete image.\n % (filename, 8.4 * _subfigs, 200))
if myoptions.debug 5: print Debug: draw_hist2d_plot(): Changed %s
figure size to: %s % (filename, str(_figure.get_size_inches()))
_ax1 = _figure.add_subplot(_ax1_num)
_ax2 = _figure.add_subplot(_ax2_num)
else:
_figure.set_size_inches(11.2, 8.4 * 2)
_ax1 = _figure.gca()
if myoptions.debug 5: print Debug: draw_hist2d_plot(): Changed %s figure
size to: %s % (filename, str(_figure.get_size_inches()))
_series = []
#for _x, _y, _c, _l in izip(mydata_x, mydata_y, colors, legends):
for _x, _y, _c in izip(mydata_x, mydata_y, colors):
# _Line2D = _ax1.plot(_x, _y) # returns Line2D object
_my_PathCollection = _ax1.scatter(_x, _y, color=_c, s=objsize) # ,
label=_l) # returns PathCollection object
_series.append(_my_PathCollection)
if legends:
#for _x, _y, _c, _l in izip(mydata_x, mydata_y, colors, legends):
for _x, _y, _c in izip(mydata_x, mydata_y, colors):
_my_PathCollection = _ax1.scatter(_x, _y, color=_c, s=objsize)
# , label=_l)
_series.append(_my_PathCollection)
_ax2.legend(_series, legends, loc='upper left',
bbox_to_anchor=(0,0,1,1), borderaxespad=0., ncol=_legend_ncol, mode='expand',
fontsize
[Matplotlib-users] ANN: matplotlib 1.3.1
I'm pleased to announce the release of matplotlib version 1.3.1. This is a bugfix release. It may be downloaded from here, or installed through the package manager of your choice (when available): http://matplotlib.org/downloads The changelog is copied below: New in 1.3.1 1.3.1 is a bugfix release, primarily dealing with improved setup and handling of dependencies, and correcting and enhancing the documentation. The following changes were made in 1.3.1 since 1.3.0. Enhancements - Added a context manager for creating multi-page pdfs (see `matplotlib.backends.backend_pdf.PdfPages`). - The WebAgg backend should no have lower latency over heterogeneous Internet connections. Bug fixes ` - Histogram plots now contain the endline. - Fixes to the Molleweide projection. - Handling recent fonts from Microsoft and Macintosh-style fonts with non-ascii metadata is improved. - Hatching of fill between plots now works correctly in the PDF backend. - Tight bounding box support now works in the PGF backend. - Transparent figures now display correctly in the Qt4Agg backend. - Drawing lines from one subplot to another now works. - Unit handling on masked arrays has been improved. Setup and dependencies `` - Now works with any version of pyparsing 1.5.6 or later, without displaying hundreds of warnings. - Now works with 64-bit versions of Ghostscript on MS-Windows. - When installing from source into an environment without Numpy, Numpy will first be downloaded and built and then used to build matplotlib. - Externally installed backends are now always imported using a fully-qualified path to the module. - Works with newer version of wxPython. - Can now build with a PyCXX installed globally on the system from source. - Better detection of Gtk3 dependencies. Testing ``` - Tests should now work in non-English locales. - PEP8 conformance tests now report on locations of issues. Mike -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134071iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib installation with Python(x,y)
On 10/02/2013 05:35 AM, ajdcds wrote: I have a system that has Python(x,y)-2.6.6.2.exe installed. When running the script file.py the following error occurs: /Traceback (most recent call last): File file.py, line xx, in module import something File includes\something.py, line 31, in module import matplotlib.pyplot as plt File C:\Python26\lib\site-packages\matplotlib\pyplot.py, line 95, in module new_figure_manager, draw_if_interactive, show = pylab_setup() File C:\Python26\lib\site-packages\matplotlib\backends\__init__.py, line 25, in pylab_setup globals(),locals(),[backend_name]) File C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4agg.py, line 12, in module from backend_qt4 import QtCore, QtGui, FigureManagerQT, FigureCanvasQT,\ File C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4.py, line 18, in module import matplotlib.backends.qt4_editor.figureoptions as figureoptions File C:\Python26\lib\site-packages\matplotlib\backends\qt4_editor\figureoptions.py, line 11, in module import matplotlib.backends.qt4_editor.formlayout as formlayout File C:\Python26\lib\site-packages\matplotlib\backends\qt4_editor\formlayout.py, line 51, in module raise ImportError, Warning: formlayout requires PyQt4 v4.3 ImportError: Warning: formlayout requires PyQt4 v4.3 / I think this error message is not related with the real problem, since this is just an hardcoded string that is displayed in case the import fails (formlayout.py): /try: from PyQt4.QtGui import QFormLayout except ImportError: raise ImportError, Warning: formlayout requires PyQt4 v4.3/ If I remove this error message the new error message is that he cannot find the DLL. Can you copy-and-paste the exact error message? That will offer some clues. Mike -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134791iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib installation with Python(x,y)
It looks like the PyQt4 installation in python(x,y) is somehow broken. If you just open up the python(x, y) interpreter and type from PyQt4.QtGui import QFormLayout or from PyQt4 import QtGui what happens? If that fails too, I'd say the bug is in python(x, y) (or however PyQt4 got installled there). Mike On 10/02/2013 09:19 AM, ajdcds wrote: Hi Mike, thank you for your interest. If I replace the following statement on formlayout.py: /try: from PyQt4.QtGui import QFormLayout except ImportError: raise ImportError, Warning: formlayout requires PyQt4 v4.3/ With this one: /from PyQt4.QtGui import QFormLayout/ Then the error is the following: /Traceback (most recent call last): File file.py, line 83, in module import something File includes\something.py, line 31, in module import matplotlib.pyplot as plt File C:\Python26\lib\site-packages\matplotlib\pyplot.py, line 95, in module new_figure_manager, draw_if_interactive, show = pylab_setup() File C:\Python26\lib\site-packages\matplotlib\backends\__init__.py, line 25, in pylab_setup globals(),locals(),[backend_name]) File C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4agg.py, line 12, in module from backend_qt4 import QtCore, QtGui, FigureManagerQT, FigureCanvasQT,\ File C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4.py, line 18, in module import matplotlib.backends.qt4_editor.figureoptions as figureoptions File C:\Python26\lib\site-packages\matplotlib\backends\qt4_editor\figureoptions.py, line 11, in module import matplotlib.backends.qt4_editor.formlayout as formlayout File C:\Python26\lib\site-packages\matplotlib\backends\qt4_editor\formlayout.py, line 53, in module from PyQt4.QtGui import QFormLayout ImportError: DLL load failed: The specified procedure could not be found./ -- View this message in context: http://matplotlib.1069221.n5.nabble.com/Matplotlib-installation-with-Python-x-y-tp42149p42152.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134791iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60134791iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] change the EPS font type ... afterwards!
You could try ps2ps (which comes with ghostscript) or similar tools. Mike On 09/23/2013 06:13 PM, Grigoris Maravelias wrote: Hello to all! I have been using Matplotlib to create a series of plots and now the time to submit the paper has come! But I experience problems now with the font types of the eps images. The Type-3 fonts are not supported, and they accept only Type-1. Is there an easy way to do this ?(and of course not go through the reprocessing of all data to produce again the same plots). best Grigoris -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60133471iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- _ |\/|o _|_ _. _ | | \.__ __|__|_|_ _ _ ._ _ | ||(_| |(_|(/_| |_/|(_)(/_|_ |_|_)(_)(_)| | | http://www.droettboom.com -- October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60133471iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Performance issue when drawing a dotted Rectangle patch then zooming
On 09/04/2013 12:47 PM, Sylvain LÉVÊQUE wrote: Hello I have a performance issue when using a Rectangle patch with linestyle 'dotted'. Here is some code showing it: from matplotlib import gridspec gs = gridspec.GridSpec(1, 2) ax1 = plt.subplot(gs[0, 0]) ax2 = plt.subplot(gs[0, 1]) data = [0, 1] r1 = Rectangle([10, 0.25], 10, 0.5, facecolor='None', edgecolor='red') r2 = Rectangle([10, 0.25], 10, 0.5, facecolor='None', edgecolor='red', linestyle='dotted') ax1.add_patch(r1) ax2.add_patch(r2) ax1.plot(data) ax2.plot(data) The steps to reproduce: - %paste the code in pylab - select the zoom tool - zoom on the left plot to the left of the figure until you see the data within the [0, 1] range, and zoom some more (no performance issue) - zoom on the right plot to the left of the figure until you see the data within the [0, 1] range, the more you try zooming, the longer it takes to render - try zooming on the left plot again, performance is now poor So I understand I have three performance issues: - behaviour is different depending on linestyle Agg uses trapezoid rendering. To render a regular solid rectangle the trapezoid renderer only needs to manage 8 points. For a dotted line, it's (at least) 4 points per dot, and the number of dots goes into the thousands. These each must be stored in memory and repeatedly sorted as the shape is rendered. - performance issue on second plot impacts first plot That's not surprising. Each frame is drawn in full. - data outside of the view limits are taken into account for the rendering (performance hit even if Rectangle starts from x=10 but xlim was reduced by zooming to eg [0, 1]) Yes. Generally, it is much faster to just let the renderer perform culling outside the bounds than to do it upfront, so that's why it's done that way. However, the case of dotted lines on a solid object is a degenerate case. You could try drawing each side of the rectangle as a separate line -- this would bring the line clipping algorithm into effect. (matplotlib has a line-clipping algorithm, but it does not have a solid polygon clipping algorithm). Mike I initially observed the problem in a wx application using WxAgg, I can reproduce it in pylab with TkAgg, on two separate computers. I've tracked this down to an increasingly slow call in backend_agg.py (l.145, self._renderer.draw_path(gc, path, transform, rgbFace) in matplotlib 1.3.0). It then goes to native code, I stopped there. Python 2.7.5, matplotlib 1.3.0 (also observed on 1.2.1). (I have another issue if commenting out the two last lines and %paste-ing it to pylab, I then get an OverflowError, I don't know if this is related) Thanks for your help -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib installation issues
On 08/31/2013 12:24 PM, Goyo wrote: 2013/8/31 Dino Bektešević ljet...@gmail.com: Hello, After a little mishap from ubuntu 12.04 after which I reinstalled the OS, on this fresh install I did: sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose as per scipy stack installation instructions and everything went more or less as it should have no errors reported during installation that I saw. Keep in mind the entire install like this had ~500MB or so and I wasn't always paying attention. I ran python, and did numpy.test(), returned: Ran 3161 tests in 50.667s OK (KNOWNFAIL=3, SKIP=4) nose.result.TextTestResult run=3161 errors=0 failures=0 did scipy.test(), returned: Ran 3780 tests in 74.809s FAILED (KNOWNFAIL=11, SKIP=13, failures=2) nose.result.TextTestResult run=3780 errors=0 failures=2 I send a mail to scipy mailing list couple of days ago, but still no answer, if someone knows how bad those 2 failures are please share and then did matplotlib.test() which was disasterous: Ran 1065 tests in 284.956s FAILED (KNOWNFAIL=267, errors=772) With mpl 1.3.0 (packaged for Raring by Thomas Kluyver): Ran 1465 tests in 402.499s FAILED (KNOWNFAIL=1, SKIP=5, errors=1331) But matplotlib itself is working pretty well. The output is full with error messages like: IOError: Baseline image '/home/goyo/result_images/test_triangulation/tripcolor1-expected.svg' does not exist. It maybe that distro packages do not ship with baseline images. Looks sensible to me since there must be an awful lot of them and most users do not need them. That's correct. We could probably do a better job reporting that to the user, though. Would you mind creating an issue for that? Mike -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Build failure
It looks like a version mismatch with PyCXX. Was it recently updated or changed? What version of PyCXX do you have? What was the last version of matplotlib that worked for you? You can force matplotlib to use its local copy of PyCXX by uninstalling PyCXX, or adding the following lines to the top of PyCXX::check in setupext.py: self.__class__.found_external = False return Couldn't import. Using local copy. (But really, we should update setupext so users can specify the local override in setup.cfg). Mike On 08/30/2013 12:35 PM, Nils Wagner wrote: Hi all, I cannot build the latest matplotlib from git. The build log is attached. Nils -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Build failure
I wonder if it's commit 6b827cbf. Can you do: git checkout 6b827cbf python setup.py build # confirm it fails git checkout 6b827cbf^ python setup.py build # Does this work? Mike On 08/30/2013 01:06 PM, Nils Wagner wrote: Hi Michael, Thank you for your note. If I remember correctly I was able to build matplotlib a week ago. I am using opensuse12.3 Nils rpm -qi python-cxx Name: python-cxx Version : 6.2.3 Release : 2.2 Architecture: noarch Install Date: Sa 27 Jul 2013 15:48:45 CEST Group : Development/Languages/Python Size: 9783 License : GPL Signature : RSA/SHA1, Mo 22 Jul 2013 20:26:22 CEST, Key ID 45a1d0671abd1afb Source RPM : python-cxx-6.2.3-2.2.src.rpm Build Date : Mo 22 Jul 2013 15:27:08 CEST Build Host : swkj07 Relocations : (not relocatable) Packager: pack...@links2linux.de mailto:pack...@links2linux.de Vendor : http://packman.links2linux.de URL : http://CXX.sourceforge.net/ Summary : Write Python extensions in C++ Description : PyCXX is a set of classes to help create extensions of Python in the C language. The first part encapsulates the Python C API taking care of exceptions and ref counting. The second part supports the building of Python extension modules in C++. Distribution: Extra / openSUSE_12.3 On Fri, Aug 30, 2013 at 6:46 PM, Michael Droettboom md...@stsci.edu mailto:md...@stsci.edu wrote: It looks like a version mismatch with PyCXX. Was it recently updated or changed? What version of PyCXX do you have? What was the last version of matplotlib that worked for you? You can force matplotlib to use its local copy of PyCXX by uninstalling PyCXX, or adding the following lines to the top of PyCXX::check in setupext.py: self.__class__.found_external = False return Couldn't import. Using local copy. (But really, we should update setupext so users can specify the local override in setup.cfg). Mike On 08/30/2013 12:35 PM, Nils Wagner wrote: Hi all, I cannot build the latest matplotlib from git. The build log is attached. Nils -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] [matplotlib-devel] I have a Mac!
BTW: I've got uploading of test results to S3 working on the main matplotlib repository. It would be cool to do that here, too, but I believe the encrypted keys are specific to the github repo. We can coordinate off-line once the repo is transferred about how to do this. Mike On 08/29/2013 01:01 PM, Matt Terry wrote: (Replying to the list, rather than just George) On Aug 29, 2013 8:18 AM, Matt Terry matt.te...@gmail.com mailto:matt.te...@gmail.com wrote: I have 15/17 variants working. each pulling binaries/source from some combination of macports/brew/python.org/pip http://python.org/pip on python 2.6, 2.7, 3.2, and 3.3. https://travis-ci.org/mrterry/mpl_on_travis_mac/builds/10733852 I need to add python27 and python33 variants that install XQuartz. Other than that, are there any builds that should be added? For reference, python.org http://python.org 27 / pip numpy python.org http://python.org 27 / numpy dmg python.org http://python.org 33 / pip numpy (no official python3 numpy installer) (all built with static versions of libpng/freetype) system python + brew dependencies system python + brew dependencies* brew python27 brew python27* brew python33 brew python33* macports py26 macports py27 macports py32 macports py33 macports py26* macports py27* macports py32* macports py33* * = virtual envs. python c dependencies installed from package manager; macports, numpy from macports. --with-site-packages I'm having a strange installation issue involving dateutil on python 3.3 (only). It is a bytes vs unicode (fight!) that manifests on installation. I can't reproduce the issue on my machine, but it may have something to do with dateutil v2.1. Anyone seen something like this? installing dateutil via macports cleans up the issue (it installs 2.0, i think). -matt On Thu, Aug 29, 2013 at 4:47 AM, George Nurser gnur...@gmail.com mailto:gnur...@gmail.com wrote: It might be useful to see how macports does it -- their builds have always worked for me. George Nurser. On 23 August 2013 18:53, Chris Barker - NOAA Federal chris.bar...@noaa.gov mailto:chris.bar...@noaa.gov wrote: On Fri, Aug 23, 2013 at 8:14 AM, Matt Terry matt.te...@gmail.com mailto:matt.te...@gmail.com wrote: I'm banging away at installing MPL on top of python.org http://python.org's python. This is why binary installers are good idea! the libfreetype/freetype issue. yeah, that's kind of uglyand where is doesn't just work for me... 1) install libpng[1] and freetype[2] from source libpng and freetype are different, though install from source may be the way to go: libpng is there, but is not properly installed, I'm not sure it's got the header for the same version as the lib, and libpng-config is either not there or not for the right version or somethign ugly. It look, form messages at build time, that someone has hacked some code into the MPL build that figures all that out, but for other stuff I'm doing, I just punt and build libpng -- that's pretty straighforward, at least. But teh solution in the MPL code now seems to work. 2) install XQuartz[3] and twiddle /opt/X11, /usr/X11 (per Russell's directions[4]) so MPL finds XQuartz's libpng/freetype I _think_ that OS-X now ships with X11, which has freetype (though installed weirdly once again...) we certainly should NOT expect people to install anything big to build MPL, and binaries should not depend on anything not shipped by Apple by default. According to Russell, you do need to install something, so I think that's out. 4) create the MPL binary installer and use that That's what most people should do -- but one of us needs to build it. Option 1 seems simple-est, but installing freetype requires more than ./configure make sudo make install. darn. But hopefully we can figure it out. Option 4: This would require some input from whoever (Gohlke?, Owen?) makes the binary installers. I think Russell has been doing it for MPL lately. My thoughts: We want to support two user-bases: 1) folks that don't mind a little command line work, and probably need other scientific libs, etc anyway, an want an MPL that runs on their machine: - these folks should use homebrew or macports to build the dependencies (or even hand-compile them). Ideally we have setup.py that will find those libs, and test to see that the builds work once in a while. 2) folks that just want to use it and/or want a binary they can re-distribute via py2app, etc. - for these folks, we need to provide binaries. These binaries should: 1) Match the python.org http://python.org python builds. (probably only the Intel ones now...) 2) statically link the non-sytem libs This has been done for a while, off and on, most recently by Russell, AFAIK. But this is not a problem unique to MPL. All sorts of python packages need this, and only some of the package
Re: [Matplotlib-users] [matplotlib-devel] I have a Mac!
Very impressive! This is really great. That does sure look like a dateutil bug. Maybe we try reporting it over there? As for transferring the repository... I've added you as a developer in the matplotlib organization, so you can work over there. And it looks like you are the only one who can do the transfer, see here: https://help.github.com/articles/how-to-transfer-a-repository I'll ping Travis again about how multi-OS testing might work, because it would be *absolutely killer* to get this going on matplotlib PRs. Mike On 08/29/2013 01:01 PM, Matt Terry wrote: (Replying to the list, rather than just George) On Aug 29, 2013 8:18 AM, Matt Terry matt.te...@gmail.com mailto:matt.te...@gmail.com wrote: I have 15/17 variants working. each pulling binaries/source from some combination of macports/brew/python.org/pip http://python.org/pip on python 2.6, 2.7, 3.2, and 3.3. https://travis-ci.org/mrterry/mpl_on_travis_mac/builds/10733852 I need to add python27 and python33 variants that install XQuartz. Other than that, are there any builds that should be added? For reference, python.org http://python.org 27 / pip numpy python.org http://python.org 27 / numpy dmg python.org http://python.org 33 / pip numpy (no official python3 numpy installer) (all built with static versions of libpng/freetype) system python + brew dependencies system python + brew dependencies* brew python27 brew python27* brew python33 brew python33* macports py26 macports py27 macports py32 macports py33 macports py26* macports py27* macports py32* macports py33* * = virtual envs. python c dependencies installed from package manager; macports, numpy from macports. --with-site-packages I'm having a strange installation issue involving dateutil on python 3.3 (only). It is a bytes vs unicode (fight!) that manifests on installation. I can't reproduce the issue on my machine, but it may have something to do with dateutil v2.1. Anyone seen something like this? installing dateutil via macports cleans up the issue (it installs 2.0, i think). -matt On Thu, Aug 29, 2013 at 4:47 AM, George Nurser gnur...@gmail.com mailto:gnur...@gmail.com wrote: It might be useful to see how macports does it -- their builds have always worked for me. George Nurser. On 23 August 2013 18:53, Chris Barker - NOAA Federal chris.bar...@noaa.gov mailto:chris.bar...@noaa.gov wrote: On Fri, Aug 23, 2013 at 8:14 AM, Matt Terry matt.te...@gmail.com mailto:matt.te...@gmail.com wrote: I'm banging away at installing MPL on top of python.org http://python.org's python. This is why binary installers are good idea! the libfreetype/freetype issue. yeah, that's kind of uglyand where is doesn't just work for me... 1) install libpng[1] and freetype[2] from source libpng and freetype are different, though install from source may be the way to go: libpng is there, but is not properly installed, I'm not sure it's got the header for the same version as the lib, and libpng-config is either not there or not for the right version or somethign ugly. It look, form messages at build time, that someone has hacked some code into the MPL build that figures all that out, but for other stuff I'm doing, I just punt and build libpng -- that's pretty straighforward, at least. But teh solution in the MPL code now seems to work. 2) install XQuartz[3] and twiddle /opt/X11, /usr/X11 (per Russell's directions[4]) so MPL finds XQuartz's libpng/freetype I _think_ that OS-X now ships with X11, which has freetype (though installed weirdly once again...) we certainly should NOT expect people to install anything big to build MPL, and binaries should not depend on anything not shipped by Apple by default. According to Russell, you do need to install something, so I think that's out. 4) create the MPL binary installer and use that That's what most people should do -- but one of us needs to build it. Option 1 seems simple-est, but installing freetype requires more than ./configure make sudo make install. darn. But hopefully we can figure it out. Option 4: This would require some input from whoever (Gohlke?, Owen?) makes the binary installers. I think Russell has been doing it for MPL lately. My thoughts: We want to support two user-bases: 1) folks that don't mind a little command line work, and probably need other scientific libs, etc anyway, an want an MPL that runs on their machine: - these folks should use homebrew or macports to build the dependencies (or even hand-compile them). Ideally we have setup.py that will find those libs, and test to see that the builds work once in a while. 2) folks that just want to use it and/or want a binary they can re-distribute via py2app, etc. - for these folks, we need to provide binaries. These binaries should: 1) Match the python.org http://python.org python builds. (probably only the
Re: [Matplotlib-users] plotting large images
On 08/27/2013 09:49 AM, Chris Beaumont wrote: I've been burned by this before as well. MPL stores some intermediate data products (for example, scaled RGB copies) at full resolution, even though the final rendered image is downsampled depending on screen resolution. I've used some hacky tricks to get around this, which mostly involve downsampling the image on the fly based on screen resolution. One such effort is at https://github.com/ChrisBeaumont/mpl-modest-image. It looks like this wouldn't be too hard to include in matplotlib. I don't think we'd want to change the current behavior, because sometimes its tradeoff curve makes sense, but in other cases, the modest image approach also makes sense. It's just a matter of coming up with an API to switch between the two behaviors. Pull request? Cheers, Mike If you are loading your arrays from disk, you can also use memory-mapped arrays -- this prevents you from loading all the data into RAM, and further cuts down on the footprint. cheers, chris On Tue, Aug 27, 2013 at 6:49 AM, S(te(pán Turek stepan.tu...@seznam.cz mailto:stepan.tu...@seznam.cz wrote: You could look at whether or not you actually need 64-bit precision. Often times, 8-bit precision per color channel is justifiable, even in grayscale. My advice is to play with the dtype of your array or, as you mentioned, resample. thanks, this helped me significantly, uint8 precision is enough. Also, is it needed to keep all images? It sounds to me like your application will become very resource hungry if you're going to be displaying several of these 2D images over each other (and if you don't use transparency, you won't get any benefit at all from plotting them together). Yes, I need them all . To avoid it I am thinking about merging them into one image and then plot it. Stepan -- Introducing Performance Central, a new site from SourceForge and AppDynamics. Performance Central is your source for news, insights, analysis and resources for efficient Application Performance Management. Visit us today! http://pubads.g.doubleclick.net/gampad/clk?id=48897511iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Introducing Performance Central, a new site from SourceForge and AppDynamics. Performance Central is your source for news, insights, analysis and resources for efficient Application Performance Management. Visit us today! http://pubads.g.doubleclick.net/gampad/clk?id=48897511iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Learn the latest--Visual Studio 2012, SharePoint 2013, SQL 2012, more! Discover the easy way to master current and previous Microsoft technologies and advance your career. Get an incredible 1,500+ hours of step-by-step tutorial videos with LearnDevNow. Subscribe today and save! http://pubads.g.doubleclick.net/gampad/clk?id=58040911iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] I have a Mac!
Thanks to the gracious donation from Hans Petter Langtangen and the Center for Biomedical Computing at Simula (http://home.simula.no/~hpl), I now have a new Mac Mini sitting at my desk. This should allow me to keep on top of changes that affect the Mac builds and to better track down Mac-only issues. Stay tuned over the next few weeks and months as we will most likely be using some more of these funds to pay for hosted continuous integration services (as discussed yesterday in our MEP19 Google Hangout). Cheers, Mike -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] [matplotlib-devel] I have a Mac!
We actually discussed this very issue yesterday in our Google hangout about continuous integration. We're probably going to need to script a full setup from a clean Mac + XCode to a working matplotlib development environment in order to make that happen, and obviously that will be shared with the world. Things are even more complex on Windows, and I'd like to do that there, too. So stay tuned. Mike On 08/16/2013 10:02 AM, Paul Hobson wrote: Mike, That's great news. Is there any chance we can look forward to official instructions for setting up a Mac to develop matplotlib? I gave up a long time ago and started piecing to together my meager PRs in a linux VM. -paul On Fri, Aug 16, 2013 at 6:52 AM, Michael Droettboom md...@stsci.edu mailto:md...@stsci.edu wrote: Thanks to the gracious donation from Hans Petter Langtangen and the Center for Biomedical Computing at Simula (http://home.simula.no/~hpl http://home.simula.no/%7Ehpl), I now have a new Mac Mini sitting at my desk. This should allow me to keep on top of changes that affect the Mac builds and to better track down Mac-only issues. Stay tuned over the next few weeks and months as we will most likely be using some more of these funds to pay for hosted continuous integration services (as discussed yesterday in our MEP19 Google Hangout). Cheers, Mike -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-devel mailing list matplotlib-de...@lists.sourceforge.net mailto:matplotlib-de...@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-devel -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] [matplotlib-devel] I have a Mac!
I've been in touch with the Travis-CI guys about this a little bit. They restrict each project to a single OS partly to reduce resource consumption, but they said they might reconsider for paying customers (which we may want to become). Mike On 08/16/2013 04:17 PM, Matt Terry wrote: I was looking into the TravisCI Mac testing environment. Right now, you can only run tests on a single os. You also trigger a Mac build by declaring your language to be objective-c. There are probably more q quirks, but that's what I've found thus far. -matt On Aug 16, 2013 12:45 PM, Matthew Brett matthew.br...@gmail.com mailto:matthew.br...@gmail.com wrote: Hi, On Fri, Aug 16, 2013 at 10:36 AM, Kevin Hunter Kesling kmhun...@ncsu.edu mailto:kmhun...@ncsu.edu wrote: At 12:11pm -0400 Fri, 16 Aug 2013, Matthew Brett wrote: We've got 5 macs running OSX 10.4 through 10.8 for us, you'd be welcome to remote access to those, and we'd be happy to run builds for you. Paul Ivanov has or will have access to the buildbot master and all the slaves. We also have an XP and Windows 7 64 bit machine you are welcome to use. Bless you for supporting OS X prior to 10.6! My family still has a quite functional OS X 10.5 machine that we should update but can't for various (less than stellar, but unfortunately real) reasons. I'm chagrined that Apple et al. no longer supports 10.5. I'm sure others feel similarly about their 10.4- machines. On the other hand, no one would blame a development team that decided not to support what even Apple does not support. :) - we just happened to have them lying around. Actually, the 10.5 machine is PPC and catches endian errors fairly often, but I'm sure we'll retire the 10.4 machine fairly soon. Cheers, Matthew -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Is anyone producing matplotlib daily builds?
As I'm researching what we may want to do for better continuous integration, I'm remembering that at least one person, Thomas Kluyver, is producing daily automated builds (for Ubuntu) here: https://launchpad.net/~takluyver/+archive/matplotlib-daily https://launchpad.net/%7Etakluyver/+archive/matplotlib-daily Is anyone else out there doing anything similar for other Linux distros or other platforms? a) I'd like to list these things on the main website, and b) I'd like to look at how these kinds of things might make sense as part of a broader CI strategy. Cheers, Mike -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Calling to those embedding matplotlib in applications
I'm considering changing the behavior of the rcParam |interactive| (which also can be set through |matplotlib.interactive()| and |pyplot.ion()| and |pyplot.ioff()|). Currently, when setting |interactive| to |True|, running any sort of matplotlib plot as a script will fail to display a window. This can be very surprising if a user turns on |interactive| because they prefer its behavior in IPython, but are then surprised that none of their scripts continue to work. I propose to fix this by turning on |interactive| only when running at an interactive console. See the pull request http://github.com/matplotlib/matplotlib/pull/2286 for an implementation. I'm trying to rule out any negative impact of this change, and I would appreciate any feedback if this change will have a negative impact on your application. Mike -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] pip install 0SX 10.7
It should look in /usr/include and /usr/local/include by default. Is it in either place? On 08/06/2013 10:16 PM, Matthew Brett wrote: Hi, Continuing my adventures with setuptools I'm installing matplotlib into a clean + numpy virtualenv with python.org 2.7 I have CC=clang in order to involve some header problems with the default gcc compiler. numpy compiles and installs OK. pip install matplotlib errors with: clang -fno-strict-aliasing -fno-common -dynamic -isysroot /Developer/SDKs/MacOSX10.6.sdk -arch i386 -arch x86_64 -g -O2 -DNDEBUG -g -O3 -DPY_ARRAY_UNIQUE_SYMBOL=MPL_matplotlib_ft2font_ARRAY_API -DPYCXX_ISO_CPP_LIB=1 -I/usr/local/include -I/usr/include -I/usr/X11/include -I. -I/Users/mb312/.virtualenvs/py27-mpl/lib/python2.7/site-packages/numpy/core/include -I/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c src/ft2font.cpp -o build/temp.macosx-10.6-intel-2.7/src/ft2font.o In file included from src/ft2font.cpp:3: In file included from src/ft2font.h:16: /usr/X11/include/ft2build.h:56:10: fatal error: 'freetype/config/ftheader.h' file not found #include freetype/config/ftheader.h ^ 1 error generated. error: command 'clang' failed with exit status 1 I guess I need freetype installed in /usr/local separately? Thanks for your help, Matthew -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] wrong link at http://matplotlib.org?
Hmm... It takes me to the matplotlib project page on sourceforge, which I think is as close to a direct permalink as we can get. Not sure why it takes you somewhere else. Did you get redirected? Mike On 08/07/2013 11:47 AM, keith.bri...@bt.com wrote: The link join the matplotlib mailing lists actually goes to the sourceforge download page. Keith -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] pip install 0SX 10.7
On 08/07/2013 01:24 PM, Matthew Brett wrote: Hi, On Wed, Aug 7, 2013 at 4:50 AM, Michael Droettboom md...@stsci.edu wrote: It should look in /usr/include and /usr/local/include by default. Is it in either place? There are no freetype* files in either place, no. How would they get there (other than an explicit install)? I think the usual advice here is to install the freetype development packages with MacPorts or homebrew -- but this is probably where I should step back at let one of the Mac OS-X folks speak up. Mike -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] corrupt fonts problem
You can set the rcParam verbose.level to debug-annoying. Then, when it runs through all of your fonts, it should be clear which one caused the problem. Note that I'm in the process of rewriting large parts of the font infrastructure as part of MEP14, so these sorts of things should hopefully be less common in the future. Mike On 08/07/2013 11:56 AM, vwf wrote: Hello, Matplotlib does not like one (or more) of my fonts. Since I own a considerable set it is very hard to find out which one violates the requirements. Is it possible to let matplotlib which font is the problem? Thanks -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] 1.3.0 and py2exe regression
I have little to no experience with py2exe, so I don't know how much I
can help there.
However, between 1.2.1 and 1.3.0, mpl_toolkits was changed to a
namespace package, which allowed basemap to install into it despite it
coming from matplotlib (and being installed with setuptools). I don't
know if that has any bearing on py2exe.
Mike
On 08/06/2013 07:19 AM, ruidc wrote:
we have some code that was working fine with matplotlib 1.2.1 using:
from mpl_toolkits.axes_grid import make_axes_locatable, axes_size
now trying to freeze with py2exe (both 0.6.9 and Christoph Gohlke's
0.6.10dev)
results in ImportError: No module named mpl_toolkits
when preparing the actual executable.
running from mpl_toolkits.axes_grid import make_axes_locatable, axes_size
itself in python works fine.
I've built a machine afresh and am getting this. Also, it seems to build
fine on win amd64 - but as that is my main development machine, there may be
some polution there
options={'py2exe': {'packages' : ['matplotlib', 'mpl_toolkits', ...
I've tried various different permutations of the above in includes with no
success.
Can anybody suggest why this is failing in 1.3.0 when it is working in 1.2.1
?
Regards,
RuiDC
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Re: [Matplotlib-users] ANN: matplotlib 1.3.0 released
On 08/06/2013 08:39 AM, Rita wrote: Yes, I mean a self-built package. When linking I think setupext.py is using /usr/lib and /usr/local/lib first, instead it should use PKG_CONFIG_PATH and then /usr/lib and then /usr/local/lib. Basically, the ordering or linking matters. I hope that helps. This isnt a big deal but just though I put out the solution. I don't think PKG_CONFIG_PATH is supposed to have anything to do with linking directories. PKG_CONFIG_PATH tells pkg-config where to look for .pc files, which *in turn*, by querying pkg-config, may contain information about link directories. So when you say it should prepend PKG_CONFIG_PATH, do you mean it should prepend what pkg-config returns? I think that probably what it should be doing, and it's a bonafide bug that it is not. Any chance you can share the linker command line that you think is wrong, and how it needs to be re-ordered? Mike On Mon, Aug 5, 2013 at 10:29 AM, Michael Droettboom md...@stsci.edu mailto:md...@stsci.edu wrote: On 08/03/2013 07:50 AM, Rita wrote: Same problem in Linux also. Here is what I did to fix it: Remove the freetype/fontconfig rpm from my local install (yum remove) and then place the proper PKG_CONFIG_PATH to point to my remote freetype/fontconfig. By remote, you mean self-built, rather than from a package? The problem is there is a bug with setupext.py. We ought to prepend PKG_CONFIG_PATH in the gcc compile statement. I hope this helps. Can you elaborate? The setupext.py just calls whatever pkg-config is first on the PATH, which should then in turn obey PKG_CONFIG_PATH. If the user needs a custom PKG_CONFIG_PATH, it is generally the resposibility of the user to set it correctly -- and matplotlib's build system should (and does) use it. Or maybe I'm just misunderstanding what you're suggesting. Cheers, Mike On Fri, Aug 2, 2013 at 6:53 AM, Andrew Jaffe a.h.ja...@gmail.com mailto:a.h.ja...@gmail.com wrote: Hi, On 01/08/2013 19:06, Michael Droettboom wrote: On behalf of a veritable army of super coders, I'm pleased to announce the release of matplotlib 1.3.0. Two issues on OSX 10.8.4. I had been previously using the dmg installer. Lacking that, I tried easy-install and pip install, both of which gave me the following problems: - I needed to set CC=clang - When attempting to load matplotlib, I got the following error: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/font_manager.py in module() 51 import matplotlib 52 from matplotlib import afm --- 53 from matplotlib import ft2font 54 from matplotlib import rcParams, get_cachedir 55 from matplotlib.cbook import is_string_like ImportError: dlopen(/Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so, 2): Symbol not found: _FT_Attach_File Referenced from: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so Expected in: flat namespace in /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so This is a freetype problem, probably an incompatible version somewhere. Ideas? Andrew -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- --- Get your facts first, then you can distort them as you please.-- -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net
Re: [Matplotlib-users] ANN: matplotlib 1.3.0 released
On 08/03/2013 07:50 AM, Rita wrote: Same problem in Linux also. Here is what I did to fix it: Remove the freetype/fontconfig rpm from my local install (yum remove) and then place the proper PKG_CONFIG_PATH to point to my remote freetype/fontconfig. By remote, you mean self-built, rather than from a package? The problem is there is a bug with setupext.py. We ought to prepend PKG_CONFIG_PATH in the gcc compile statement. I hope this helps. Can you elaborate? The setupext.py just calls whatever pkg-config is first on the PATH, which should then in turn obey PKG_CONFIG_PATH. If the user needs a custom PKG_CONFIG_PATH, it is generally the resposibility of the user to set it correctly -- and matplotlib's build system should (and does) use it. Or maybe I'm just misunderstanding what you're suggesting. Cheers, Mike On Fri, Aug 2, 2013 at 6:53 AM, Andrew Jaffe a.h.ja...@gmail.com mailto:a.h.ja...@gmail.com wrote: Hi, On 01/08/2013 19:06, Michael Droettboom wrote: On behalf of a veritable army of super coders, I'm pleased to announce the release of matplotlib 1.3.0. Two issues on OSX 10.8.4. I had been previously using the dmg installer. Lacking that, I tried easy-install and pip install, both of which gave me the following problems: - I needed to set CC=clang - When attempting to load matplotlib, I got the following error: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/font_manager.py in module() 51 import matplotlib 52 from matplotlib import afm --- 53 from matplotlib import ft2font 54 from matplotlib import rcParams, get_cachedir 55 from matplotlib.cbook import is_string_like ImportError: dlopen(/Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so, 2): Symbol not found: _FT_Attach_File Referenced from: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so Expected in: flat namespace in /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so This is a freetype problem, probably an incompatible version somewhere. Ideas? Andrew -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- --- Get your facts first, then you can distort them as you please.-- -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Rendering SciPy docstrings as markup text within matplotlib
docutils is the library that supports the format (restructuredtext) that
these docstrings are written in. It *may* (I haven't looked) contain
functionality to render as clean plain text.
Mike
On 08/05/2013 09:57 AM, federico vaggi wrote:
Hi,
SciPy (and NumPy) docstrings are written with a special kind of mark up:
For example, the docstring for the russellrao distance function looks
like this:
'\nComputes the Russell-Rao dissimilarity between two boolean 1-D
arrays.\n\nThe Russell-Rao dissimilarity between two boolean 1-D
arrays, `u` and\n`v`, is defined as\n\n.. math::\n\n
\\frac{n - c_{TT}}\n {n}\n\nwhere :math:`c_{ij}` is the number of
occurrences of\n:math:`\\mathtt{u[k]} = i` and
:math:`\\mathtt{v[k]} = j` for\n:math:`k n`.\n\nParameters\n
--\nu : (N,) array_like, bool\nInput array.\n
v : (N,) array_like, bool\nInput array.\n\nReturns\n
---\nrussellrao : double\nThe Russell-Rao
dissimilarity between vectors `u` and `v`.\n\n'
What's the most efficient way to turn this into a format where you can
format it nicely as a matplotlib text object?
I tried:
fig = plt.figure()
ax = fig.add_subplot(111)
props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
textstr = dist_fcn.__doc__
textstr = textstr.replace('math:',' ')
textstr = textstr.replace('`', '$')
textstr = textstr.replace('\n\n where', '$\n\n where')
ax.text(0.05, 0.95, textstr, transform=ax.transAxes, fontsize=14,
verticalalignment='top', bbox=props)
Which does an 'ok' job, at best, since fractions aren't converted
properly. Is there a way to do it nicely short of using some
horrendous regular expressions?
Federico
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Re: [Matplotlib-users] Bug in Custom Dash List
The problem is that a 0-length dash or space is undefined. In Agg, it causes an infinite loop (presumably because the line cursor never moves). Saving it to a PDF file and opening it in Acrobat Reader reveals a blank page (presumably because it's doing something smarter, but also basically throwing up its hands). In SVG, you get a solid line, which may or may not be the right behavior. Given that a value of 0 doesn't make much sense anyway, I thought it best to just disallow it. Jeffrey: Do you have a good need for this? Here's the original PR: https://github.com/matplotlib/matplotlib/pull/1999 Mike On 08/05/2013 01:36 PM, Benjamin Root wrote: @mdboom, from git blame, this looks to be specifically introduced by you via |7e7b5320 https://github.com/matplotlib/matplotlib/commit/7e7b532057c08541489203697987a924e56a7aeb on May 15th, and you even added some tests for handling path clipping. Perhaps the choice of = should have been just ?| -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] ANN: matplotlib 1.3.0 released
Can you provide the output of the build? On 08/02/2013 06:53 AM, Andrew Jaffe wrote: Hi, On 01/08/2013 19:06, Michael Droettboom wrote: On behalf of a veritable army of super coders, I'm pleased to announce the release of matplotlib 1.3.0. Two issues on OSX 10.8.4. I had been previously using the dmg installer. Lacking that, I tried easy-install and pip install, both of which gave me the following problems: - I needed to set CC=clang - When attempting to load matplotlib, I got the following error: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/font_manager.py in module() 51 import matplotlib 52 from matplotlib import afm --- 53 from matplotlib import ft2font 54 from matplotlib import rcParams, get_cachedir 55 from matplotlib.cbook import is_string_like ImportError: dlopen(/Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so, 2): Symbol not found: _FT_Attach_File Referenced from: /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so Expected in: flat namespace in /Volumes/Data/Users/jaffe/Library/Python/2.7/lib/python/site-packages/matplotlib/ft2font.so This is a freetype problem, probably an incompatible version somewhere. Ideas? Andrew -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] ANN: matplotlib 1.3.0 released
On behalf of a veritable army of super coders, I'm pleased to announce the release of matplotlib 1.3.0. Downloads Downloads are available here: http://matplotlib.org/downloads.htmlhttp://matplotlib.org/downloads.html as well as through |pip|. Check with your distro for when matplotlib 1.3.0 will become packaged for your environment. (Note: Mac .dmg installers are still forthcoming due to some issues with the new installation approach.) Important known issues matplotlib no longer ships with its Python dependencies, including dateutil, pytz, pyparsing and six. When installing from source or |pip|, |pip| will install these for you automatically. When installing from packages (on Linux distributions, MacPorts, homebrew etc.) these dependencies should also be handled automatically. The Windows binary installers do not include or install these dependencies. You may need to remove any old matplotlib installations before installing 1.3.0 to ensure matplotlib has access to the latest versions of these dependencies. The following backends have been removed: QtAgg (Qt version 3.x only), FlktAgg and Emf. For a complete list of removed features, see http://matplotlib.org/api/api_changes.html#changes-in-1-3http://matplotlib.org/api/api_changes.html#changes-in-1-3 What's new * xkcd-style sketch plotting * webagg backend for displaying and interacting with plots in a web browser * event plots * triangular grid interpolation * control of baselines in stackplot * many improvements to text and color handling For a complete list of what's new, see http://matplotlib.org/users/whats_new.html#new-in-matplotlib-1-3http://matplotlib.org/users/whats_new.html#new-in-matplotlib-1-3 Have fun, and enjoy matplotlib! Michael Droettboom -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] MEP19: Continuous integration virtual meeting
(Apologies for cross-posting). matplotlib has a dire need to improve its continuous integration testing. I've drafted MEP19 and solicited comments, but there hasn't been a lot of feedback thus far. As an alternative to mailing list discussion, where this sort of upfront planning can sometimes be difficult, I'm considering holding a Google Hangout in the next few weeks on the subject. It's ok to participate even if you don't have the time to work on matplotlib -- I would also like feedback from advice from those that have configured similar systems for other projects. matplotlib's needs are somewhat more complex in terms of dependencies, cpu, ram and storage, so we're pushing things pretty far here. If there's enough people with an interest in participating in the discussion, I'll send around a Doodle poll to find a good time. Mike -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] ANN: matplotlib 1.3.0 released
Choose it as a backend. See here: http://matplotlib.org/faq/usage_faq.html#what-is-a-backend Then when you call plt.show(), it will fire up the webserver and launch a browser window. Mike On 08/01/2013 03:03 PM, K.-Michael Aye wrote: Very nice, congrats! I was looking for some example to setup webagg but can't seem to find any? Is there anything written down about it? Cheers, Michael On 2013-08-01 18:06:35 +, Michael Droettboom said: On behalf of a veritable army of super coders, I'm pleased to announce the release of matplotlib 1.3.0. Downloads Downloads are available here: http://matplotlib.org/downloads.html as well as through pip. Check with your distro for when matplotlib 1.3.0 will become packaged for your environment. (Note: Mac .dmg installers are still forthcoming due to some issues with the new installation approach.) Important known issues matplotlib no longer ships with its Python dependencies, including dateutil, pytz, pyparsing and six. When installing from source or pip, pip will install these for you automatically. When installing from packages (on Linux distributions, MacPorts, homebrew etc.) these dependencies should also be handled automatically. The Windows binary installers do not include or install these dependencies. You may need to remove any old matplotlib installations before installing 1.3.0 to ensure matplotlib has access to the latest versions of these dependencies. The following backends have been removed: QtAgg (Qt version 3.x only), FlktAgg and Emf. For a complete list of removed features, see http://matplotlib.org/api/api_changes.html#changes-in-1-3 What's new * xkcd-style sketch plotting * webagg backend for displaying and interacting with plots in a web browser * event plots * triangular grid interpolation * control of baselines in stackplot * many improvements to text and color handling For a complete list of what's new, see http://matplotlib.org/users/whats_new.html#new-in-matplotlib-1-3 Have fun, and enjoy matplotlib! Michael Droettboom ___ NumPy-Discussion mailing list numpy-discuss...@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Pdf File sizes on newer versions of matplotlib is a lot larger
On 07/30/2013 04:20 PM, Jeffrey Spencer wrote:
Michael,
Thanks that is very informative. Answers most of the problems I was
having and read MEP14 which looks really useful
That being said does the ps backend subset the fonts or use
collections for drawing (is the collections feature global or just in
the pdf backend)?
The ps backend has the same behavior as pdf on both counts. TTF fonts
are subsetted, but the fonts that come from TeX come to use as Type1
fonts, which matplotlib currently does not know how to subset. It also
handles collections in the same way (by creating a stamp and reusing it).
I usually use .eps output and convert to pdf using epstopdf unless the
figure has an alpha channel because always results in a much smaller
file (60kB roughly for this file or plain figure around 10kB) than
direct pdf output with the output looking the same. I pretty much
always have usetex=True so maybe the pdf file is always embedding the
full fonts.
Yes, when usetex=True, matplotlib does not do any font subsetting (in
any backend). To get around this limitation, one can use the
`pdftocairo` tool (part of poppler utils), to convert from pdf to a pdf
with subsetted fonts. With your example, I was able to get the pdf down
to ~80k. With MEP14, we would basically move such functionality into
matplotlib itself, but that's sort of a long term, semi-back-burner
project so it could be a while.
It's possible that epstopdf is doing some font subsetting of its own.
But as you point out, Postscript (as a specification) doesn't support
alpha, so it's not useful when you need alpha.
Also, does the Cairo backend support usetex=True or subsetting? I know
I had read it did not support usetex but that was maybe 2 years ago or
so. The x,y,z axis look correct with cairo but the IPA Fonts don't
render properly. The legend font says it is size 12 but if you zoom in
extremely close you can see they are the correct fonts just way to
small. The file size is around 60kB as well so I am guessing it
supports subsetting of fonts.
Cairo does support font subsetting, but the matplotlib Cairo backend has
no support for usetex. I'm surprised this worked for you at all. When
I run your example with the Cairo backend, the IPA characters appear as
raw TeX source code, i.e. \textipa{i}, which is what I would expect
given that the regular font renderer doesn't understand that syntax.
The pgf backend would also subset fonts if output to .pdf I'm assuming
because that is the default with pdftex? It results in similar size
files to the .eps output for this file (roughly 60kB also).
Yes.
The IPA font uses the package (\usepackage{tipa}) and therefore that
is why I think these look differently. That package draws these fonts
with its' font libraries instead of whatever is selected as the text
font. Maybe I'm wrong about this but that is my understanding because
even in normal latex code the fonts look different than the standard text.
That is correct. The default font for usetex=True is Computer Modern,
whereas it is Bitstream Vera Sans in the default font rendering. I was
referring to the difference between 1.2 and 1.4 which was using TeX
fonts in both cases, but due to a bug in 1.3/1.4 was rendering the IPA
in serif when you had requested sans-serif.
Mike
Cheers,
Jeff
On Wed, Jul 31, 2013 at 4:43 AM, Michael Droettboom md...@stsci.edu
mailto:md...@stsci.edu wrote:
There are two different things going on here.
Between 1.2.1 and now, there was a bugfix to the font selection
routine that inadvertently introduced a bug selecting fonts in the
usetex backend. You may notice that on master, the IPA font
selected is different. The file size difference can be attributed
to the slightly larger font size of the one it selected vs. the
one it should have. Note that when usetex is True, the fonts are
not subsetted, so you always get the full font embedded in the
file (MEP14 work will fix this in the future).
See b5c340 for the bug that introduced the commit, and
https://github.com/matplotlib/matplotlib/pull/2260 for the fix
(which should make it into 1.3.0 final).
Between 1.1.1 and 1.2.1 a change was made in how collections are
handled. Previously, each path was redrawn individually. In 1.2,
if a path is reused multiple times, a stamp is created and then
it is used multiple times. In principle, this generally reduces
file sizes by a large amount. However, in the case of this figure
with the 3D spheres, each path is used only once, so rather than
getting the file size savings of that approach, we only get the
overhead. The backend could be smarter by not doing this when the
path is only used a small number of times. Such a fix would be
welcome, but is probably too large/risky to try to get into the
current release cycle. It will have to wait for 1.3.1
Cheers,
Mike
Re: [Matplotlib-users] Pdf File sizes on newer versions of matplotlib is a lot larger
On 07/31/2013 10:38 AM, Jeffrey Spencer wrote:
Michael,
Pdftocairo is a good tool to know so thanks for that tip.
I still think currently it is a regression with the current 'stamp'
method to use it on all accounts. I understand in a complicated figure
with a bunch of subplots that this would be beneficial and create
smaller code. I don't see how in single figures this would often
result in reduced files sizes.
The case where it has an enormous impact is when the same shape is used
multiple times. For example in a scatter, hexbin or pcolor plot.
I usually output single figures with one plot and I don't think one of
them that I am currently working on was smaller in 1.4.x. They all
resulted in reduced file sizes with mpl 1.1.1. This figure of 3d
spheres resulted in 60kb instead of roughly 80kb after running
pdftocairo. Anyway, you said in coming versions a threshold should be
set before stamping of objects occurs so a fix is on the way eventually.
Yes, but it's too complex of a fix to throw in quickly. I think the
overall benefit of stamping is preferable to not doing it at all at this
point.
Mike
Thanks for all the help,
Jeff
On Wed, Jul 31, 2013 at 11:31 PM, Michael Droettboom md...@stsci.edu
mailto:md...@stsci.edu wrote:
On 07/30/2013 04:20 PM, Jeffrey Spencer wrote:
Michael,
Thanks that is very informative. Answers most of the problems I
was having and read MEP14 which looks really useful
That being said does the ps backend subset the fonts or use
collections for drawing (is the collections feature global or
just in the pdf backend)?
The ps backend has the same behavior as pdf on both counts. TTF
fonts are subsetted, but the fonts that come from TeX come to use
as Type1 fonts, which matplotlib currently does not know how to
subset. It also handles collections in the same way (by creating
a stamp and reusing it).
I usually use .eps output and convert to pdf using epstopdf
unless the figure has an alpha channel because always results in
a much smaller file (60kB roughly for this file or plain figure
around 10kB) than direct pdf output with the output looking the
same. I pretty much always have usetex=True so maybe the pdf file
is always embedding the full fonts.
Yes, when usetex=True, matplotlib does not do any font subsetting
(in any backend). To get around this limitation, one can use the
`pdftocairo` tool (part of poppler utils), to convert from pdf to
a pdf with subsetted fonts. With your example, I was able to get
the pdf down to ~80k. With MEP14, we would basically move such
functionality into matplotlib itself, but that's sort of a long
term, semi-back-burner project so it could be a while.
It's possible that epstopdf is doing some font subsetting of its
own. But as you point out, Postscript (as a specification)
doesn't support alpha, so it's not useful when you need alpha.
Also, does the Cairo backend support usetex=True or subsetting? I
know I had read it did not support usetex but that was maybe 2
years ago or so. The x,y,z axis look correct with cairo but the
IPA Fonts don't render properly. The legend font says it is size
12 but if you zoom in extremely close you can see they are the
correct fonts just way to small. The file size is around 60kB as
well so I am guessing it supports subsetting of fonts.
Cairo does support font subsetting, but the matplotlib Cairo
backend has no support for usetex. I'm surprised this worked for
you at all. When I run your example with the Cairo backend, the
IPA characters appear as raw TeX source code, i.e. \textipa{i},
which is what I would expect given that the regular font renderer
doesn't understand that syntax.
The pgf backend would also subset fonts if output to .pdf I'm
assuming because that is the default with pdftex? It results in
similar size files to the .eps output for this file (roughly 60kB
also).
Yes.
The IPA font uses the package (\usepackage{tipa}) and therefore
that is why I think these look differently. That package draws
these fonts with its' font libraries instead of whatever is
selected as the text font. Maybe I'm wrong about this but that is
my understanding because even in normal latex code the fonts look
different than the standard text.
That is correct. The default font for usetex=True is Computer
Modern, whereas it is Bitstream Vera Sans in the default font
rendering. I was referring to the difference between 1.2 and 1.4
which was using TeX fonts in both cases, but due to a bug in
1.3/1.4 was rendering the IPA in serif when you had requested
sans-serif.
Mike
Cheers,
Jeff
On Wed, Jul 31, 2013 at 4:43 AM, Michael Droettboom
md...@stsci.edu mailto:md...@stsci.edu wrote:
There are two different things
Re: [Matplotlib-users] Pdf File sizes on newer versions of matplotlib is a lot larger
On 07/30/2013 09:23 AM, Jouni K. Seppänen wrote: Jeffrey Spencer jeffspenc...@gmail.com writes: I have three different versions of matplotlib that all output different file sizes with matplotlib 1.1.1 providing the smallest. This is for the same exact script. I can post the script if that helps. MPL 1.4.x: 539.32kb, Ubuntu 12.10 MPL 1.1.1: 172.56kb Ubuntu 12.10 MPL 1.2.1: 475.9kb, Ubuntu 13.04 Yes, it would be interesting to know what the plotting commands are. Just as a guess, since all the sizes are a few hundred kilobytes, it could be a difference in e.g. font embedding - many TrueType fonts are of comparable size. In addition to your plot script, any matplotlibrc customizations that you may have in effect would be helpful. Mike -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Pdf File sizes on newer versions of matplotlib is a lot larger
There are two different things going on here. Between 1.2.1 and now, there was a bugfix to the font selection routine that inadvertently introduced a bug selecting fonts in the usetex backend. You may notice that on master, the IPA font selected is different. The file size difference can be attributed to the slightly larger font size of the one it selected vs. the one it should have. Note that when usetex is True, the fonts are not subsetted, so you always get the full font embedded in the file (MEP14 work will fix this in the future). See b5c340 for the bug that introduced the commit, and https://github.com/matplotlib/matplotlib/pull/2260 for the fix (which should make it into 1.3.0 final). Between 1.1.1 and 1.2.1 a change was made in how collections are handled. Previously, each path was redrawn individually. In 1.2, if a path is reused multiple times, a stamp is created and then it is used multiple times. In principle, this generally reduces file sizes by a large amount. However, in the case of this figure with the 3D spheres, each path is used only once, so rather than getting the file size savings of that approach, we only get the overhead. The backend could be smarter by not doing this when the path is only used a small number of times. Such a fix would be welcome, but is probably too large/risky to try to get into the current release cycle. It will have to wait for 1.3.1 Cheers, Mike On 07/30/2013 12:24 PM, Jeffrey Spencer wrote: K, I have just made the script self-contained but it loads external data so I have attached that as well. If you want me to just separate out the plotting commands let me know. I have also attached my matplotlib rc file which is the same on all three systems. All the modifications to the matplotlibrc file are copied to the top and in the first 30 lines or so. Of note, the smallest file sizes for pdf are using the pgf backend around 60kb. Not sure if that helps at all. It is also around the same size if I export to .eps and then convert to pdf. About 60kb. The problem with eps in these 3d figures though is the back wall I think has an alpha channel because just becomes a solid wall in the output. No lines through it like the other two walls. On Tue, Jul 30, 2013 at 11:23 PM, Jouni K. Seppänen j...@iki.fi mailto:j...@iki.fi wrote: Jeffrey Spencer jeffspenc...@gmail.com mailto:jeffspenc...@gmail.com writes: I have three different versions of matplotlib that all output different file sizes with matplotlib 1.1.1 providing the smallest. This is for the same exact script. I can post the script if that helps. MPL 1.4.x: 539.32kb, Ubuntu 12.10 MPL 1.1.1: 172.56kb Ubuntu 12.10 MPL 1.2.1: 475.9kb, Ubuntu 13.04 Yes, it would be interesting to know what the plotting commands are. Just as a guess, since all the sizes are a few hundred kilobytes, it could be a difference in e.g. font embedding - many TrueType fonts are of comparable size. -- Jouni K. Seppänen http://www.iki.fi/jks -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get your SQL database under version control now! Version control is standard for application code, but databases havent caught up. So what steps can you take to put your SQL databases under version control? Why should you start doing it? Read more to find out. http://pubads.g.doubleclick.net/gampad/clk?id=49501711iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Results of matplotlib user survey 2013
We have had 508 responses to the matplotlib user survey. Quite a nice turnout! You can view the results here: https://docs.google.com/spreadsheet/viewanalytics?key=0AjrPjlTMRTwTdHpQS25pcTZIRWdqX0pNckNSU01sMHcgridId=0#chart and from there, you can access the complete raw results. I will be doing more analysis of the results over the coming days and weeks, including dedup'ing some of the responses and converting some of the free-form responses into github issues etc. Volunteers to help with this are of course welcome! Cheers, Mike -- See everything from the browser to the database with AppDynamics Get end-to-end visibility with application monitoring from AppDynamics Isolate bottlenecks and diagnose root cause in seconds. Start your free trial of AppDynamics Pro today! http://pubads.g.doubleclick.net/gampad/clk?id=48808831iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Results of matplotlib user survey 2013
Apologies: I didn't realize the link to the raw results only exists for users with edit permissions. The public URL for the raw results is: https://docs.google.com/spreadsheet/ccc?key=0AjrPjlTMRTwTdHpQS25pcTZIRWdqX0pNckNSU01sMHcusp=sharing Mike On 07/18/2013 09:42 AM, Michael Droettboom wrote: We have had 508 responses to the matplotlib user survey. Quite a nice turnout! You can view the results here: https://docs.google.com/spreadsheet/viewanalytics?key=0AjrPjlTMRTwTdHpQS25pcTZIRWdqX0pNckNSU01sMHcgridId=0#chart and from there, you can access the complete raw results. I will be doing more analysis of the results over the coming days and weeks, including dedup'ing some of the responses and converting some of the free-form responses into github issues etc. Volunteers to help with this are of course welcome! Cheers, Mike -- See everything from the browser to the database with AppDynamics Get end-to-end visibility with application monitoring from AppDynamics Isolate bottlenecks and diagnose root cause in seconds. Start your free trial of AppDynamics Pro today! http://pubads.g.doubleclick.net/gampad/clk?id=48808831iu=/4140/ostg.clktrk___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Smooth animations
There is nothing available to push points -- matplotlib uses Numpy arrays internally for the data, and they can not be (efficiently) resized. I would try implementing this before assuming it's too slow. Mike On 07/05/2013 12:02 PM, v0idnull wrote: Yes, but this is where I am failing. I don't have the code with me right now but I can explain it: I get a new number every 2000 milliseconds, and I want to update the graph say, every 50 milliseconds, and keep a minute of history visible in the graph. So that's 30 x-axis ticks. But if I want to draw this out smoothly, I need 40 more ticks per update interval. I have five lines I want to show, so every 50ms, 600 points need to be plotted out. Now, my proof of concept code is just working with arrays in a sort of FIFO queue, I haven't actually tried to plug those arrays into matplotlib, but it seems like replotting 600 points is a lot of work. Maybe I am over reacting? Or is there some feature of matplotlib that allows me to push data onto a plot instead of replotting all points? I dunno, I'm not confident in my approach. I seek inspiration. thanks, --alex This means that every 50ms, 600 points need to be updated. On 13-07-04 05:11 PM, Michael Droettboom wrote: I see -- you want to basically interpolate between points? I don't think there's anything built in to matplotlib to do that, but you could always do that interpolation outside and just update the graph more often. Mike On 07/04/2013 04:28 PM, v0idnull wrote: eh Let me explain my problem in a different way: Every two seconds I get a value from a service. Let's say I over 8 seconds I get 1, 5, 10, 5 as values. So if my application updates the graph every two seconds, this will look choppy and ugly. This is because every two seconds, an entire line is added onto the graph between the two points. Imagine if I could control the drawing of said line though. If I could draw the individual pixels of the line every couple of ticks instead of just dumping a line in every two seconds, I will end up with a nice smooth animation. It may not be 100% real time anymore, but my focus on this personal project of mine is vanity, not practicality ;) I hope this better explains what I am trying to accomplish... Thanks, --alex On 13-07-04 04:09 PM, Michael Droettboom wrote: Have you looked at the simple_anim.py example -- other than the networking piece, it seems to do what you describe, and it's pretty fast. Maybe start from that and make changes until it gets slow in order to determine where the slowness comes from...? Mike On 07/03/2013 09:19 PM, v0idnull wrote: I am receiving a number from a server every two seconds. I would like to plot this number.out over time for the past say... 30 polls. Would it be possible to use... Anything, to produce a smooth animation of the plot line getting drawn? As it stands now the animation is well... Quite choppy. ;) I'm using pygame currently to render my graphs on this full screen application I'm making just for my self. I am not bound to it though if there are better linux-only things out there. Thanks in advance, --alex -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev !DSPAM:51d5d60416102691037314! ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users !DSPAM:51d5d60416102691037314! -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users !DSPAM:51d5e4c116101841011479! -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev !DSPAM:51d5e4c116101841011479! ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users !DSPAM:51d5e4c116101841011479! -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev
Re: [Matplotlib-users] [Patch] Patch for fontmanager crash
This patch doesn't make a whole lot of sense to me. get_name should work just fine if self._family is None, and indeed it does in my own testing: ``` from matplotlib import font_manager f = font_manager.FontProperties(None) print f._family print f.get_family() print f.get_name() ``` So I'd much prefer to get to the bottom of the root cause of this problem than patch it unnecessarily in this way. Any idea what that is? Mike On 07/08/2013 10:57 AM, Nicolas Mailhot wrote: Hi, In matplotlib 1.2.1, the get_name function is not garding against none self (unlike other functions); Unfortunately it seems I have a workload that makes matplotlib call get_name with None (wasn't the case in 1.2.0). I couldn't isolate the exact trigger, when I reduce the volume of data processed the problem goes away so I have to simple shareable reproducer. Anyway, the following patch makes it all work for me, could it (or something similar) be merged? diff -uNr matplotlib-1.2.1.orig/lib/matplotlib/font_manager.py matplotlib-1.2.1/lib/matplotlib/font_manager.py --- matplotlib-1.2.1.orig/lib/matplotlib/font_manager.py2013-03-26 14:04:37.0 +0100 +++ matplotlib-1.2.1/lib/matplotlib/font_manager.py 2013-07-08 14:49:37.791845661 +0200 @@ -721,6 +721,8 @@ Return the name of the font that best matches the font properties. +if self._family is None: + return rcParams['font.family'] return ft2font.FT2Font(str(findfont(self))).family_name def get_style(self): Regards, -- See everything from the browser to the database with AppDynamics Get end-to-end visibility with application monitoring from AppDynamics Isolate bottlenecks and diagnose root cause in seconds. Start your free trial of AppDynamics Pro today! http://pubads.g.doubleclick.net/gampad/clk?id=48808831iu=/4140/ostg.clktrk ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Smooth animations
Have you looked at the simple_anim.py example -- other than the networking piece, it seems to do what you describe, and it's pretty fast. Maybe start from that and make changes until it gets slow in order to determine where the slowness comes from...? Mike On 07/03/2013 09:19 PM, v0idnull wrote: I am receiving a number from a server every two seconds. I would like to plot this number.out over time for the past say... 30 polls. Would it be possible to use... Anything, to produce a smooth animation of the plot line getting drawn? As it stands now the animation is well... Quite choppy. ;) I'm using pygame currently to render my graphs on this full screen application I'm making just for my self. I am not bound to it though if there are better linux-only things out there. Thanks in advance, --alex -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Smooth animations
I see -- you want to basically interpolate between points? I don't think there's anything built in to matplotlib to do that, but you could always do that interpolation outside and just update the graph more often. Mike On 07/04/2013 04:28 PM, v0idnull wrote: eh Let me explain my problem in a different way: Every two seconds I get a value from a service. Let's say I over 8 seconds I get 1, 5, 10, 5 as values. So if my application updates the graph every two seconds, this will look choppy and ugly. This is because every two seconds, an entire line is added onto the graph between the two points. Imagine if I could control the drawing of said line though. If I could draw the individual pixels of the line every couple of ticks instead of just dumping a line in every two seconds, I will end up with a nice smooth animation. It may not be 100% real time anymore, but my focus on this personal project of mine is vanity, not practicality ;) I hope this better explains what I am trying to accomplish... Thanks, --alex On 13-07-04 04:09 PM, Michael Droettboom wrote: Have you looked at the simple_anim.py example -- other than the networking piece, it seems to do what you describe, and it's pretty fast. Maybe start from that and make changes until it gets slow in order to determine where the slowness comes from...? Mike On 07/03/2013 09:19 PM, v0idnull wrote: I am receiving a number from a server every two seconds. I would like to plot this number.out over time for the past say... 30 polls. Would it be possible to use... Anything, to produce a smooth animation of the plot line getting drawn? As it stands now the animation is well... Quite choppy. ;) I'm using pygame currently to render my graphs on this full screen application I'm making just for my self. I am not bound to it though if there are better linux-only things out there. Thanks in advance, --alex -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users !DSPAM:51d5d60416102691037314! -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev !DSPAM:51d5d60416102691037314! ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users !DSPAM:51d5d60416102691037314! -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Reports from SciPy 2013
On 07/02/2013 10:04 AM, Jason Grout wrote: On 7/1/13 9:33 AM, Michael Droettboom wrote: SciPy 2013 was a great success. I didn't get good headcount at the matplotlib BOF, but it was a good number, and we had 15 participants at various points during the sprints. It was nice to see the diversity of experience with matplotlib at the sprints, and I hope we oldtimers were helpful to the newtimers getting started so they can continue to contribute in the future. It was also great to put some faces to many of the talented names I've been seeing on github and the mailing list lately. On a slightly different, but related topic: is there any chance the entries (or at least the winning entries) to the plotting contest could be posted online? My understanding is that they will be posted soon, along with the slides and other materials from the other papers. For the impatient, they are in this git repo: https://github.com/scipy/scipy2013_talks Mike -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] matplotlib user survey 2013
[Apologies for cross-posting] The matplotlib developers want to hear from you! We are conducting a user survey to determine how and where matplotlib is being used in order to focus its further development. This should only take a couple of minutes. To fill it out, visit: https://docs.google.com/spreadsheet/viewform?fromEmail=trueformkey=dHpQS25pcTZIRWdqX0pNckNSU01sMHc6MQ https://docs.google.com/spreadsheet/viewform?fromEmail=trueformkey=dHpQS25pcTZIRWdqX0pNckNSU01sMHc6MQ Please forward to your colleagues, particularly those who don't read these mailing lists. Cheers, Michael Droettboom, and the matplotlib team -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] Matplotlib Sprints
For those not in Austin who are interested in following along with the matplotlib sprint at Scipy, feel free to visit here: https://etherpad.mozilla.org/MatplotlibSprint Mike -- This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] EPS backend
On 06/07/2013 05:07 AM, Yoshi Rokuko wrote:
I'm having problems recently with printing EPS figures created by
matplotlib. To me this is strange because printing postscript should
just work in my opinion.
My most recent example is a Basemap thing with AxesGrid. Basically the
idea was to have six maps nicely arranged on a DIN A4 paper for
printout. The EPS looked nice on my notebook but printing them on our
freshly leased printers at the institute failed in the middle of the
fifth map (six maps in total). I have Ghostscript 9.07 and it turned out
that this EPS stopped working with just one earlier version (a college
with Ghostscript 9.06 could not open the EPS or more correct Ghostview
failed in the middle of map number five).
I expect such a Ghostscript version thing to be the problem also with
the printer. If that is the case don't you think that's ridiculous?
Isn't at least some legacy support wanted?
Yes -- legacy support is of course intended... matplotlib has been
going for over 10 years, after all, and we're very conservative about
intentionally breaking legacy systems.
Have you tried setting ps.usedistiller to False, or xpdf? There have
been problems using Ghostscript as a distiller with recent versions of
Ghostscript.
We'll need a minimal example, or at least a copy of the PS file to
investigate this further, however. Also, what platform, version of
matplotlib and Python are you using?
Mike
I don't have a minimal example yet, but I could try to create one next
week if the need is there. The above mentioned thing was something
along the lines of:
...
import matplotlib.pyplot as pl
from mpl_toolkits.basemap import Basemap
from mpl_toolkits.axes_grid1 import AxesGrid
# loading data
...
fig = pl.figure(1, (16,19))
grid = AxesGrid(fig, 111,
nrows_ncols = (3, 2),
axes_pad = 0.3,
cbar_location = 'top',
cbar_mode = 'each',
cbar_size = '3%',
cbar_pad = '1%',
)
for i in range(6):
bmap = Basemap(projection='aeqd', ..., ax=grid[i])
...
pl.savefig('sixer.eps', bbox_inches='tight')
Best regards, Yoshi
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Re: [Matplotlib-users] matshow unequal element sizes
By default (when interpolation=nearest) matplotlib is performing nearest neighbor interpolation on the image to the request PDF dpi before storing it in the file. This results in rows and columns of unequal size because the ratio from the original image to the destination resolution is likely not integral. You can set interpolation=none, which will pass the original image as-is on to the file, but then we can't control the interpolation mode (since there's no way to tell the PDF viewer what sort of interpolation to perform), so that (usually) will result in bicubic interpolation, which is probably not what you want. Mike On 06/06/2013 05:52 AM, Michiel de Hoon wrote: Hi all, I am trying to draw a heatmap using matshow, which I then save as a PDF. If I then zoom in in the PDF, I notice that different rows have different sizes, and different columns have different sizes. It seems that some rows/columns have twice the height/width as other rows/columns. Attached is a screenshot of part of the PDF after zooming in. Is there some way to force all rows / columns to have the same height/width? Best, -Michiel. -- How ServiceNow helps IT people transform IT departments: 1. A cloud service to automate IT design, transition and operations 2. Dashboards that offer high-level views of enterprise services 3. A single system of record for all IT processes http://p.sf.net/sfu/servicenow-d2d-j ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- How ServiceNow helps IT people transform IT departments: 1. A cloud service to automate IT design, transition and operations 2. Dashboards that offer high-level views of enterprise services 3. A single system of record for all IT processes http://p.sf.net/sfu/servicenow-d2d-j___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Font issue while trying to save PS/EPS/SVG but not PDF
Which version of Windows are you on? Apparently, the Segoe UI font is
different on Windows 7 and 8 and I'd like to download and test with the
correct one.
Mike
On 05/28/2013 06:12 AM, klo uo wrote:
As suggested by Phil, I'm reposting github issue #2067 on this list.
I use MPL 1.2.1 on Windows with Python 2.7.5. In my matplotlibrc I've
set sans-serif font to Segoe UI.
Now, if I try to save a plot to PDF, MPL saves it fine, but if I try
PS or EPS or SVG it fails, because of the font set. (If I don't change
the font everything is fine)
Here is PDF info from mutool:
PDF-1.4
Info object (27 0 R):
/CreationDate (D:20130528120149+02'00')
/Producer (matplotlib pdf backend)
/Creator (matplotlib 1.2.1, http://matplotlib.sf.net)
Pages: 1
Retrieving info from pages 1-1...
Mediaboxes (1):
1 ( 10 0 R): [ 0 0 576 432 ]
Fonts (1):
1 ( 10 0 R): Type3 'SegoeUI' (14 0 R)
So I wonder how can MPL output PDF, but can't output PS/EPS, let aside SVG?
And here is full trace from IPython:
KeyError Traceback (most recent call last)
ipython-input-63-6bec7f50eb05 in module()
1 savefig('test.eps')
C:\Python27\lib\site-packages\matplotlib\pyplot.pyc in savefig(*args,
**kwargs)
470 def savefig(*args, **kwargs):
471 fig = gcf()
-- 472 return fig.savefig(*args, **kwargs)
473
474 @docstring.copy_dedent(Figure.ginput)
C:\Python27\lib\site-packages\matplotlib\figure.pyc in savefig(self,
*args, **kwargs)
1368 kwargs.setdefault('edgecolor',
rcParams['savefig.edgecolor'])
1369
- 1370 self.canvas.print_figure(*args, **kwargs)
1371
1372 if transparent:
C:\Python27\lib\site-packages\matplotlib\backend_bases.pyc in
print_figure(self, filename, dpi, facecolor, edgecolor, orientation,
format, **kwargs)
2094 orientation=orientation,
2095 bbox_inches_restore=_bbox_inches_restore,
- 2096 **kwargs)
2097 finally:
2098 if bbox_inches and restore_bbox:
C:\Python27\lib\site-packages\matplotlib\backend_bases.pyc in
print_eps(self, *args, **kwargs)
1841 from backends.backend_ps import FigureCanvasPS # lazy import
1842 ps = self.switch_backends(FigureCanvasPS)
- 1843 return ps.print_eps(*args, **kwargs)
1844
1845 def print_pdf(self, *args, **kwargs):
C:\Python27\lib\site-packages\matplotlib\backends\backend_ps.pyc in
print_eps(self, outfile, *args, **kwargs)
972
973 def print_eps(self, outfile, *args, **kwargs):
-- 974 return self._print_ps(outfile, 'eps', *args, **kwargs)
975
976
C:\Python27\lib\site-packages\matplotlib\backends\backend_ps.pyc in
_print_ps(self, outfile, format, *args, **kwargs)
1005 self._print_figure(outfile, format, imagedpi,
facecolor, edgecolor,
1006orientation, isLandscape, papertype,
- 1007**kwargs)
1008
1009 def _print_figure(self, outfile, format, dpi=72,
facecolor='w', edgecolor='w',
C:\Python27\lib\site-packages\matplotlib\backends\backend_ps.pyc in
_print_figure(self, outfile, format, dpi, facecolor, edgecolor,
orientation, isLandscape, papertype, **kwargs)
1098 bbox_inches_restore=_bbox_inches_restore)
1099
- 1100 self.figure.draw(renderer)
1101
1102 if dryrun: # return immediately if dryrun (tightbbox=True)
C:\Python27\lib\site-packages\matplotlib\artist.pyc in
draw_wrapper(artist, renderer, *args, **kwargs)
52 def draw_wrapper(artist, renderer, *args, **kwargs):
53 before(artist, renderer)
--- 54 draw(artist, renderer, *args, **kwargs)
55 after(artist, renderer)
56
C:\Python27\lib\site-packages\matplotlib\figure.pyc in draw(self, renderer)
1004 dsu.sort(key=itemgetter(0))
1005 for zorder, a, func, args in dsu:
- 1006 func(*args)
1007
1008 renderer.close_group('figure')
C:\Python27\lib\site-packages\matplotlib\artist.pyc in
draw_wrapper(artist, renderer, *args, **kwargs)
52 def draw_wrapper(artist, renderer, *args, **kwargs):
53 before(artist, renderer)
--- 54 draw(artist, renderer, *args, **kwargs)
55 after(artist, renderer)
56
C:\Python27\lib\site-packages\matplotlib\axes.pyc in draw(self,
renderer, inframe)
2084
2085 for zorder, a in dsu:
- 2086 a.draw(renderer)
2087
2088 renderer.close_group('axes')
C:\Python27\lib\site-packages\matplotlib\artist.pyc in
Re: [Matplotlib-users] missing ticks on inverted log axis
On 05/20/2013 06:42 PM, gaspra wrote: Michael Droettboom-3 wrote I have created https://github.com/matplotlib/matplotlib/issues/2025 to track this. Hi Michael, thanks. I am somewhat convinced the problem is related to matplotlib 1.3.x, not the Tk library. I tried on Linux that uses Tk8.5 and I got the missing ticks for inverted log axes as well. So the TkAgg backend only works properly with matplotlib 1.2.0. I further tested macports python, matplotlib 1.3.x and system Tk 8.5 on Mac. I did so by uninstalling macports version of Tk/Tcl (8.6). The ticks are also missing. Additional test on gtkagg backend shows the same thing: matplotlib 1.2.0 works perfectly fine with gtkagg, while matplotlib 1.3.x has the missing ticks. Probably you have a better sense on what is going on? The issue I filed was related to the build problem you reported -- that building matplotlib with a MacPorts python is trying to use the system (framework) Tcl/Tk. That's completely independent of the other problem related to ticks, which should not be affected by the backend at all. In my quick skimming of this thread, I thought that that issue was resolved, but apparently not. I'll look into that further and file a separate issue for that if need be. Mike -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_may ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] missing ticks on inverted log axis
I have opened an issue (with a fix) here: https://github.com/matplotlib/matplotlib/pull/2036 Gregorio: Could you please confirm that the patch there addresses your original problem? Mike On 05/21/2013 08:54 AM, Michael Droettboom wrote: On 05/20/2013 06:42 PM, gaspra wrote: Michael Droettboom-3 wrote I have created https://github.com/matplotlib/matplotlib/issues/2025 to track this. Hi Michael, thanks. I am somewhat convinced the problem is related to matplotlib 1.3.x, not the Tk library. I tried on Linux that uses Tk8.5 and I got the missing ticks for inverted log axes as well. So the TkAgg backend only works properly with matplotlib 1.2.0. I further tested macports python, matplotlib 1.3.x and system Tk 8.5 on Mac. I did so by uninstalling macports version of Tk/Tcl (8.6). The ticks are also missing. Additional test on gtkagg backend shows the same thing: matplotlib 1.2.0 works perfectly fine with gtkagg, while matplotlib 1.3.x has the missing ticks. Probably you have a better sense on what is going on? The issue I filed was related to the build problem you reported -- that building matplotlib with a MacPorts python is trying to use the system (framework) Tcl/Tk. That's completely independent of the other problem related to ticks, which should not be affected by the backend at all. In my quick skimming of this thread, I thought that that issue was resolved, but apparently not. I'll look into that further and file a separate issue for that if need be. Mike -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_may ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_may___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] missing ticks on inverted log axis
I have created https://github.com/matplotlib/matplotlib/issues/2025 to
track this.
On 05/19/2013 05:18 PM, gaspra wrote:
Michael Droettboom-3 wrote
If you use the macports version of Python, this shouldn't be a problem.
I think the problem is (perhaps) that you're trying to use the system
Python with packages from MacPorts?
Yes, I can confirm the system Python doesn't work with TkAgg and
matplotlib 1.3.x. The problem with matplotlib 1.3.x and Macports Python
is that the Tk/Tcl library used in setupext.py is hardwired to system Tk/Tcl
for Mac platform. Here is the piece of code from setupext.py:
elif sys.platform == 'darwin':
# this config section lifted directly from Imaging - thanks to
# the effbot!
# First test for a MacOSX/darwin framework install
from os.path import join, exists
framework_dirs = [
join(os.getenv('HOME'), '/Library/Frameworks'),
'/Library/Frameworks',
'/System/Library/Frameworks/',
]
Therefore matplotlib 1.3.x is compiled with system Tk/Tcl regardless which
python is used (macports or system). I have tried to hardwire the macports
Tk dynamic library but there are errors when importing matplotlib in python.
It would be great if the devs can modify the setupext.py to use macports
Tk/Tcl
libraries properly, e.g., enabling a choice for using system or macports
Tk/Tcl
libraries.
Michael Droettboom-3 wrote
I really need the tri package in matplotlib 1.3.x. Is there anyway I
can
manually replace the tri package in matplotlib 1.2.0 (installed by
macports) with the one in matplotlib 1.3.x (downloaded from the latest
master in github repository?
Possible, but probably not straightforward. I would try to tackle the
environmental problem above first.
I guess I will just modify the codes in tri package so I can use them as
standalone modules.
Thanks.
Yuan
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Re: [Matplotlib-users] missing ticks on inverted log axis
On 05/18/2013 04:17 AM, gaspra wrote: I find the issue came from the matplotlib backend. The problem is gone when using TkAgg backend. However, TkAgg doesn't work with matplotlib 1.3.x, which has some conflict of Tk dynamic library due to different Tk version, i.e., macports uses Tk8.6 and Mac OSX 10.8.3 uses Tk8.5. If you use the macports version of Python, this shouldn't be a problem. I think the problem is (perhaps) that you're trying to use the system Python with packages from MacPorts? I really need the tri package in matplotlib 1.3.x. Is there anyway I can manually replace the tri package in matplotlib 1.2.0 (installed by macports) with the one in matplotlib 1.3.x (downloaded from the latest master in github repository? Possible, but probably not straightforward. I would try to tackle the environmental problem above first. Mike Thanks. -- View this message in context: http://matplotlib.1069221.n5.nabble.com/missing-ticks-on-inverted-log-axis-tp41063p41084.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- AlienVault Unified Security Management (USM) platform delivers complete security visibility with the essential security capabilities. Easily and efficiently configure, manage, and operate all of your security controls from a single console and one unified framework. Download a free trial. http://p.sf.net/sfu/alienvault_d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- AlienVault Unified Security Management (USM) platform delivers complete security visibility with the essential security capabilities. Easily and efficiently configure, manage, and operate all of your security controls from a single console and one unified framework. Download a free trial. http://p.sf.net/sfu/alienvault_d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] problem with a umlaut
I've created an issue in the tracker for this: https://github.com/matplotlib/matplotlib/issues/2016 Mike On 05/15/2013 06:26 PM, Christoph Gohlke wrote: On 5/15/2013 1:55 PM, Ojala Janne wrote: Which backend are you using? I can't reproduce. Does https://github.com/matplotlib/matplotlib/blob/master/examples/text_labels_and_annotations/unicode_demo.py https://github.com/matplotlib/matplotlib/blob/master/examples/text_labels_and_annotations/unicode_demo.py work for you? The bug only happens if I try to save the figure as EPS. So I suppose that then means its a cairo back end (happens also if I force cairo). So that means as written the code works fine but if i try to make publishable quality output by saving as EPS (a raster image is not suitable), it crashes. But it again works if I add any character thats so weird that ist on a n extended unicode block then all characters seem to be handled correctly. Even the ones that previously crashed. I can reproduce the crash on Python 2.7, 32 and 64 bit. Python 2.6 and 3.3 appear to work. The call stack is attached. The crash is in ttfont_add_glyph_dependencies() at https://github.com/matplotlib/matplotlib/blob/v1.2.x/ttconv/pprdrv_tt2.cpp#L703 Christoph -- AlienVault Unified Security Management (USM) platform delivers complete security visibility with the essential security capabilities. Easily and efficiently configure, manage, and operate all of your security controls from a single console and one unified framework. Download a free trial. http://p.sf.net/sfu/alienvault_d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- AlienVault Unified Security Management (USM) platform delivers complete security visibility with the essential security capabilities. Easily and efficiently configure, manage, and operate all of your security controls from a single console and one unified framework. Download a free trial. http://p.sf.net/sfu/alienvault_d2d___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] QT backend bug
Yeah -- I can confirm this. I'm not sure what the most desired behavior is, but I think it's worth opening a discussion in a Github issue. Mike On 05/09/2013 08:44 PM, K.-Michael Aye wrote: If someone confirms this, I'd be happy to put it into github, but I thought I send it here first, to see if this is another PEBKAC. Michael On 2013-05-10 00:39:48 +, K.-Michael Aye said: Problem: New y-axis max value set by edit-curve interface is forgotten after zoom-in-zoom-out cycle. Reproduction steps: * change y-axis max to a larger value than used by the default layouter with the edit-curve interface (click on the green hook) * Click Ok * Zoom into the plot * click the 'Back' button and see the max on y-axis going back to the default value. I would understand if the Home button goes to the default layout, although that's debatable, but the back button really should go to the previous layout, not the default layout values. Michael -- Learn Graph Databases - Download FREE O'Reilly Book Graph Databases is the definitive new guide to graph databases and their applications. This 200-page book is written by three acclaimed leaders in the field. The early access version is available now. Download your free book today! http://p.sf.net/sfu/neotech_d2d_may -- Learn Graph Databases - Download FREE O'Reilly Book Graph Databases is the definitive new guide to graph databases and their applications. This 200-page book is written by three acclaimed leaders in the field. The early access version is available now. Download your free book today! http://p.sf.net/sfu/neotech_d2d_may ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Learn Graph Databases - Download FREE O'Reilly Book Graph Databases is the definitive new guide to graph databases and their applications. This 200-page book is written by three acclaimed leaders in the field. The early access version is available now. Download your free book today! http://p.sf.net/sfu/neotech_d2d_may ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] How to make matplotlib use my own libpng over the systemwide
On 05/03/2013 02:41 PM, Ondřej Čertík wrote: Hi, As part of building matplotlib for the one python based distribution [1], I want to always link against our own version of libpng, even if there is some other systemwide version available. I am on linux (Ubuntu). Currently, here is what I am doing: CFLAGS=-I$PNG/include -I$FREETYPE/include -I$FREETYPE/include/freetype2 LDFLAGS=-L$FREETYPE/lib -L$PNG/lib -Wl,-rpath=$PNG/lib $PYTHON/bin/python setup.py build $PYTHON/bin/python setup.py install This *should* work. Can you provide a full build log of a clean build? Mike -- Introducing AppDynamics Lite, a free troubleshooting tool for Java/.NET Get 100% visibility into your production application - at no cost. Code-level diagnostics for performance bottlenecks with 2% overhead Download for free and get started troubleshooting in minutes. http://p.sf.net/sfu/appdyn_d2d_ap1 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] How to make matplotlib use my own libpng over the systemwide
My understanding is that distutils builds up the commandline arguments for gcc in this order: 1) From Python's Makefile. 2) From environment variables 3) From whatever was added by the setup.py script It looks like you have some extra stuff in (1), namely -L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu You can find the Python Makefile that is being used to source this information here: from distutils import sysconfig sysconfig.get_makefile_filename() You can edit that file, though obviously that's a bit of a hack. I've run into this problem before, and there doesn't seem to be any good way around it -- i.e. there doesn't seem to be a way to insert local environment variables in front of the global Python configuration. Reason number #47 why distutils is a poor build system for C/C++ code. Mike On 05/06/2013 05:03 PM, Ondřej Čertík wrote: On Mon, May 6, 2013 at 7:18 AM, Michael Droettboom md...@stsci.edu wrote: On 05/03/2013 02:41 PM, Ondřej Čertík wrote: Hi, As part of building matplotlib for the one python based distribution [1], I want to always link against our own version of libpng, even if there is some other systemwide version available. I am on linux (Ubuntu). Currently, here is what I am doing: CFLAGS=-I$PNG/include -I$FREETYPE/include -I$FREETYPE/include/freetype2 LDFLAGS=-L$FREETYPE/lib -L$PNG/lib -Wl,-rpath=$PNG/lib $PYTHON/bin/python setup.py build $PYTHON/bin/python setup.py install This *should* work. Can you provide a full build log of a clean build? Sure: https://gist.github.com/certik/5528134 The build was produced by the build.sh script, also in the gist. On the line 48 (https://gist.github.com/certik/5528134#file-mpl_log-txt-L48) you can see where our own PNG lib is: [matplotlib] lrwxrwxrwx 1 ondrej cnls 11 May 3 11:48 /auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/png/qhle/lib/libpng.so - libpng16.so [matplotlib] lrwxrwxrwx 1 ondrej cnls 18 May 3 11:48 /auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/png/qhle/lib/libpng16.so - libpng16.so.16.2.0 as printed by the line 5 in build.sh: echo Our PNG library: ls -l $PNG/lib/libpng*.so The actual mpl build starts at the line 52 (https://gist.github.com/certik/5528134#file-mpl_log-txt-L52). As you can see, it found the systemwide PNG lib: [matplotlib] OPTIONAL BACKEND DEPENDENCIES [matplotlib] libpng: 1.2.46 and just to verify this, at the line 2636 (https://gist.github.com/certik/5528134#file-mpl_log-txt-L2636) I print: echo The linked PNG library: ldd $PYTHON/lib/python2.7/site-packages/matplotlib/_png.so which gives: [matplotlib] The linked PNG library: [matplotlib] linux-vdso.so.1 = (0x7fffd8bc1000) [matplotlib] libpng12.so.0 = /lib/x86_64-linux-gnu/libpng12.so.0 (0x7f1fd0c0a000) [matplotlib] libstdc++.so.6 = /usr/lib/x86_64-linux-gnu/libstdc++.so.6 (0x7f1fd090a000) [matplotlib] libgcc_s.so.1 = /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x7f1fd06f3000) [matplotlib] libpthread.so.0 = /lib/x86_64-linux-gnu/libpthread.so.0 (0x7f1fd04d6000) [matplotlib] libc.so.6 = /lib/x86_64-linux-gnu/libc.so.6 (0x7f1fd0117000) [matplotlib] libz.so.1 = /lib/x86_64-linux-gnu/libz.so.1 (0x7f1fcfeff000) [matplotlib] libm.so.6 = /lib/x86_64-linux-gnu/libm.so.6 (0x7f1fcfc03000) [matplotlib] /lib64/ld-linux-x86-64.so.2 (0x7f1fd107e000) So the systemwide png /lib/x86_64-linux-gnu/libpng12.so.0 is linked instead: ondrej@kittiwake:~$ ls -l /lib/x86_64-linux-gnu/libpng12.so.0 lrwxrwxrwx 1 root root 18 Apr 5 2012 /lib/x86_64-linux-gnu/libpng12.so.0 - libpng12.so.0.46.0 as you can see, it is exactly the one as advertised by the mpl build info above. So the mpl build seems consistent, and the bug is that it finds the systemwide version before our own version. Ondrej -- Learn Graph Databases - Download FREE O'Reilly Book Graph Databases is the definitive new guide to graph databases and their applications. This 200-page book is written by three acclaimed leaders in the field. The early access version is available now. Download your free book today! http://p.sf.net/sfu/neotech_d2d_may___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] How to make matplotlib use my own libpng over the systemwide
Well, we could try a different approach. matplotlib will use pkg-config
to find its dependencies, if available.
If you can get your local libpng to include a libpng.pc (i.e. a
pkg-config information file) and then add your local pkg-config path
(probably
/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/profile/eoul/lib/pkgconfig)
to the PKG_CONFIG_PATH environment variable, it should pick up the right
name for the library as well. If you get that working, you may be able
to avoid setting CFLAGS and LDFLAGS explicitly and the Makefile
modifications.
Mike
On 05/06/2013 06:53 PM, Ondřej Čertík wrote:
On Mon, May 6, 2013 at 3:53 PM, Michael Droettboom md...@stsci.edu wrote:
My understanding is that distutils builds up the commandline arguments for
gcc in this order:
1) From Python's Makefile.
2) From environment variables
3) From whatever was added by the setup.py script
It looks like you have some extra stuff in (1), namely
-L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu
You can find the Python Makefile that is being used to source this
information here:
from distutils import sysconfig
sysconfig.get_makefile_filename()
This gives:
In [1]: from distutils import sysconfig
In [2]: sysconfig.get_makefile_filename()
Out[2]:
'/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/profile/eoul/lib/python2.7/config/Makefile'
You can edit that file, though obviously that's a bit of a hack.
It contains the lines:
CPPFLAGS= -I. -IInclude -I$(srcdir)/Include -I/usr/include/x86_64-linux-gnu
LDFLAGS=-L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu
So indeed this is causing it. I think this comes from building our own
Python, which I do with:
--
#!/bin/bash
set -e
export arch=$(dpkg-architecture -qDEB_HOST_MULTIARCH)
export LDFLAGS=-L/usr/lib/$arch -L/lib/$arch
export CFLAGS=-I/usr/include/$arch
export CPPFLAGS=-I/usr/include/$arch
# Fix for #21:
export HAS_HG=no
./configure --prefix=${PYTHONHPC_PREFIX}
---
And this is a bit of a hack too, Ubuntu specific etc. I think I should
start fixing things here.
It just wouldn't occur to me, that remains of how I built Python would
bite me later when building
matplotlib.
So to test if modifying the Python makefile fixes it, I did:
--- Makefile.old2013-05-06 16:26:25.426440205 -0600
+++ Makefile2013-05-06 16:27:05.282439550 -0600
@@ -73,8 +73,8 @@
# Both CPPFLAGS and LDFLAGS need to contain the shell's value for setup.py
to
# be able to build extension modules using the directories specified in the
# environment variables
-CPPFLAGS=-I. -IInclude -I$(srcdir)/Include
-I/usr/include/x86_64-linux-gnu
-LDFLAGS=-L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu
+CPPFLAGS=-I. -IInclude -I$(srcdir)/Include
+LDFLAGS=
LDLAST=
SGI_ABI=
CCSHARED=-fPIC
but mpl build system still shows the system one. The _png.so is built with:
[matplotlib] g++ -pthread -shared
-L/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/freetype/lfqj/lib
-L/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/png/qhle/lib
-Wl,-rpath=/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/png/qhle/lib
-I/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/png/qhle/include
-I/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/freetype/lfqj/include
-I/auto/nest/nest/u/ondrej/repos/python-hpcmp2/opt/freetype/lfqj/include/freetype2
build/temp.linux-x86_64-2.7/src/_png.o
build/temp.linux-x86_64-2.7/src/mplutils.o
build/temp.linux-x86_64-2.7/CXX/IndirectPythonInterface.o
build/temp.linux-x86_64-2.7/CXX/cxxsupport.o
build/temp.linux-x86_64-2.7/CXX/cxx_extensions.o
build/temp.linux-x86_64-2.7/CXX/cxxextensions.o -L/usr/local/lib
-L/usr/lib -lpng12 -lz -lstdc++ -lm -o
build/lib.linux-x86_64-2.7/matplotlib/_png.so
Which in my opinion looks good -- my own version of PNG is offered
first on the gcc command line. But the -lpng12 part spoils it --- that
forces gcc to use the systemone, because my own version is newer.
So I think that part of the problem gets fixed by modifying the Python
Makefile, but the other part of the problem is how to force distutils
to look for my PNG version before the systemwide. Any ideas?
Maybe it is something that is added by the mpl setup.py script.
I've run into this problem before, and there doesn't seem to be any good way
around it -- i.e. there doesn't seem to be a way to insert local environment
variables in front of the global Python configuration. Reason number #47
why distutils is a poor build system for C/C++ code.
This is amazingly broken.
Ondrej
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Re: [Matplotlib-users] wxPython Phoenix - backend_wxagg
Would you mind submitting this as a pull request? Mike On 04/27/2013 06:23 PM, Werner F. Bruhin wrote: Hi Michael, On 26/04/2013 14:40, Michael Droettboom wrote: On 04/26/2013 02:57 AM, Werner F. Bruhin wrote: Hi, Anyone can provide some info on what agg.buffer_rgba returns and maybe even some suggestion on how to resolve this issue in the wxagg backend. It returns a Python buffer object on Python 2, though on Python 3 it is a memoryview, since buffer was deprecated. Perhaps wx is also doing something different depending on the version of Python. As of Phoenix 2.9.5.81-r73873 matplot works with Phoenix, here is Robin Dunn's comment to the change he did on Phoenix with regards to the buffer handling. Quote The new buffer APIs go as far back as 2.6, IIRC, and the memoryview and bytearray object types are available in 2.7 in addition to 3.x and that I what I'm using in Phoenix. I would have expected MPL to do so also since numpy is an integral part of MPL and the new buffer interface was basically designed for and by numpy... Anyway, while double checking all this I realized that it would not be hard for me to accept old or new buffer objects for source buffers (I'll still use memoryviews or bytearrays when on the producer side of things) so try again after the next snapshot build. My unittests with array.arrrays started working after the change so I expect that MPL's rgba buffer should work too. EndQuote Enclosed is the patch for backend_wx.py and for embedding_in_wx5.py which I used for testing, in the later I use wxversion.select to force selection of a particular version - I think the distribution should still just use ensureMinimal. FYI, documentation for wxPython Phoenix are here: http://wxpython.org/Phoenix/docs/html/index.html And snapshots can be found here: http://wxpython.org/Phoenix/snapshot-builds/ I tested only on Python 2.7.2 on Windows 7. Werner -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite It's a free troubleshooting tool designed for production Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://p.sf.net/sfu/appdyn_d2d_ap2___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] wxPython Phoenix - backend_wxagg
FWIW: Matplotlib uses the older buffer interface because that is what the older version of wx used (as well as other GUI toolkits). It would be nice to move to the new memoryview objects, but all of the GUI frameworks will need to move in tandem... Mike On 04/27/2013 06:23 PM, Werner F. Bruhin wrote: Hi Michael, On 26/04/2013 14:40, Michael Droettboom wrote: On 04/26/2013 02:57 AM, Werner F. Bruhin wrote: Hi, Anyone can provide some info on what agg.buffer_rgba returns and maybe even some suggestion on how to resolve this issue in the wxagg backend. It returns a Python buffer object on Python 2, though on Python 3 it is a memoryview, since buffer was deprecated. Perhaps wx is also doing something different depending on the version of Python. As of Phoenix 2.9.5.81-r73873 matplot works with Phoenix, here is Robin Dunn's comment to the change he did on Phoenix with regards to the buffer handling. Quote The new buffer APIs go as far back as 2.6, IIRC, and the memoryview and bytearray object types are available in 2.7 in addition to 3.x and that I what I'm using in Phoenix. I would have expected MPL to do so also since numpy is an integral part of MPL and the new buffer interface was basically designed for and by numpy... Anyway, while double checking all this I realized that it would not be hard for me to accept old or new buffer objects for source buffers (I'll still use memoryviews or bytearrays when on the producer side of things) so try again after the next snapshot build. My unittests with array.arrrays started working after the change so I expect that MPL's rgba buffer should work too. EndQuote Enclosed is the patch for backend_wx.py and for embedding_in_wx5.py which I used for testing, in the later I use wxversion.select to force selection of a particular version - I think the distribution should still just use ensureMinimal. FYI, documentation for wxPython Phoenix are here: http://wxpython.org/Phoenix/docs/html/index.html And snapshots can be found here: http://wxpython.org/Phoenix/snapshot-builds/ I tested only on Python 2.7.2 on Windows 7. Werner -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get 100% visibility into Java/.NET code with AppDynamics Lite It's a free troubleshooting tool designed for production Get down to code-level detail for bottlenecks, with 2% overhead. Download for free and get started troubleshooting in minutes. http://p.sf.net/sfu/appdyn_d2d_ap2___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Problems with sans-serif fonts and tick labels with TeX
On 05/02/2013 03:16 PM, Paul Hobson wrote:
On Thu, May 2, 2013 at 11:19 AM, Michael Droettboom md...@stsci.edu
mailto:md...@stsci.edu wrote:
I think the confusion here stems from the fact that you're mixing
TeX and non-TeX font commands.
This turns on TeX mode, so all of the text is rendered with an
external TeX installation:
rc('text', usetex=True)
In this line, setting it to sans-serif will get passed along to
TeX, but a specific ttf font name can not be used by TeX, so the
second part (involving Helvetica) is ignored. And setting the
default body text in TeX does not (by default) change the math
font. This is (unfortunately standard TeX behavior).
rc('font',**{'family':'sans-serif','sans-serif':['Helvetica']})
This affects the font set used by matplotlib's internal mathtext
renderer, and has no effect on TeX:
rc('mathtext', fontset='stixsans')
The solution I use when I want all sans-serif out of TeX is to use
the cmbright package, which can be turned on by adding:
rc('text.latex', preamble=r'\usepackage{cmbright}')
That may require installing the cmbright LaTeX package if you
don't already have it.
I know all this stuff is confusing, but providing a flat interface
over both the internal text rendering and the TeX rendering isn't
really possible -- they have different views of the world -- and
I'm actually not sure it's desirable. Though I wonder if we
couldn't make it more obvious (somehow) when the user is mixing
configuration that applies to the different contexts.
Mike
Mike,
Thanks for the guidance. I know this stuff is complicated and the work
everyone has put into it to make it work is fantastic.
I now see that this was more of TeX issue than an MPL configuration
issue. Your help prompted me to find this solution (similar to yours):
mpl.rcParams['text.latex.preamble'] = [
r'\usepackage{siunitx}', # i need upright \micro symbols, but
you need...
r'\sisetup{detect-all}', # ...this to force siunitx to
actually use your fonts
r'\usepackage{helvet}',# set the normal font here
r'\usepackage{sansmath}', # load up the sansmath so that math
- helvet
r'\sansmath'] # - tricky! -- gotta actually tell tex to use!
Wow. That's some serious TeX voodoo magic! Want to work that into an
example that we could include in the docs?
Cheers,
Mike
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Re: [Matplotlib-users] Problems with sans-serif fonts and tick labels with TeX
I think the confusion here stems from the fact that you're mixing TeX
and non-TeX font commands.
This turns on TeX mode, so all of the text is rendered with an external
TeX installation:
rc('text', usetex=True)
In this line, setting it to sans-serif will get passed along to TeX, but
a specific ttf font name can not be used by TeX, so the second part
(involving Helvetica) is ignored. And setting the default body text in
TeX does not (by default) change the math font. This is (unfortunately
standard TeX behavior).
rc('font',**{'family':'sans-serif','sans-serif':['Helvetica']})
This affects the font set used by matplotlib's internal mathtext
renderer, and has no effect on TeX:
rc('mathtext', fontset='stixsans')
The solution I use when I want all sans-serif out of TeX is to use the
cmbright package, which can be turned on by adding:
rc('text.latex', preamble=r'\usepackage{cmbright}')
That may require installing the cmbright LaTeX package if you don't
already have it.
I know all this stuff is confusing, but providing a flat interface over
both the internal text rendering and the TeX rendering isn't really
possible -- they have different views of the world -- and I'm actually
not sure it's desirable. Though I wonder if we couldn't make it more
obvious (somehow) when the user is mixing configuration that applies to
the different contexts.
Mike
On 05/02/2013 11:58 AM, Paul Hobson wrote:
Hey folks,
I'm having trouble getting a consistent sans-serif font in my figures:
https://gist.github.com/phobson/5503195 (see attached output)
This is pretty much the same issue as this Stack Overflow post:
http://stackoverflow.com/questions/12322738/how-do-i-change-the-axis-tick-font-in-a-matplotlib-plot-when-rendering-using-lat
But, the end result I'm looking for is to process the whole figure
through latex and have sans-serif fonts everywhere, even in math text.
The accepted solution on SO is to manually set the font properties of
the ticks for the figure prior to saving.
Is there a configuration-based work around for this? I'd like to avoid
having to pick through everywhere that I call fig.savefig and manually
set tick font properties if possible.
Thanks,
-Paul
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Re: [Matplotlib-users] wxPython Phoenix - backend_wxagg
On 04/26/2013 02:57 AM, Werner F. Bruhin wrote: Hi, Anyone can provide some info on what agg.buffer_rgba returns and maybe even some suggestion on how to resolve this issue in the wxagg backend. It returns a Python buffer object on Python 2, though on Python 3 it is a memoryview, since buffer was deprecated. Perhaps wx is also doing something different depending on the version of Python. Thanks Werner P.S. The archive on Sourceforge for this list stops in June 2012, noticed this as I wanted to check if there are answers I didn't get for some reason. http://sourceforge.net/mailarchive/forum.php?forum_name=matplotlib-users Yeah -- I've reported that to sourceforge many times. Not sure what the issue is. Personally, I use gmane when I need to search the archive and it works rather well. Mike On 20/04/2013 08:58, Werner F. Bruhin wrote: Hi, I am trying to get matplotlib 1.2.0 to work with wxPython Phoenix - will provide a patch when it is working. Made the changes to backend_wx* for things like EmptyImage/EmptyBitmap and Toolbar but I am stuck on the following. if bbox is None: # agg = rgba buffer - bitmap if 'phoenix' in wx.PlatformInfo: return wx.Bitmap.FromBufferRGBA(int(agg.width), int(agg.height), memoryview(agg.buffer_rgba())) else: return wx.BitmapFromBufferRGBA(int(agg.width), int(agg.height), agg.buffer_rgba()) else: # agg = rgba buffer - bitmap = clipped bitmap return _WX28_clipped_agg_as_bitmap(agg, bbox) TypeError: cannot make memory view because object does not have the buffer interface File h:\devProjectsT\aaTests\matplotlib\wxembedding-5.py, line 63, in module demo() File h:\devProjectsT\aaTests\matplotlib\wxembedding-5.py, line 60, in demo app.MainLoop() File c:\Python27\Lib\site-packages\wx-2.9.6-msw-phoenix\wx\core.py, line 1841, in MainLoop rv = wx.PyApp.MainLoop(self) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wx.py, line 1209, in _onPaint self.draw(drawDC=drawDC) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wxagg.py, line 61, in draw self.bitmap = _convert_agg_to_wx_bitmap(self.get_renderer(), None) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wxagg.py, line 173, in _convert_agg_to_wx_bitmap memoryview(agg.buffer_rgba())) I tried using memoryview based on a suggestion by Robin Dunn, and based on the following info I see in the debugger that should work no? agg.buffer_rgba() read-write buffer ptr 0x05400638, size 229200 at 0x055FC680 type(agg.buffer_rgba()) type 'buffer' agg matplotlib.backends.backend_agg.RendererAgg instance at 0x04BA0670 If I don't use memoryview (which would probably be preferred) I get the following exception. Can someone help us figure this one out. Thanks Werner TypeError: Bitmap.FromBufferRGBA(): argument 3 has unexpected type 'buffer' File h:\devProjectsT\aaTests\matplotlib\wxembedding-5.py, line 63, in module demo() File h:\devProjectsT\aaTests\matplotlib\wxembedding-5.py, line 60, in demo app.MainLoop() File c:\Python27\Lib\site-packages\wx-2.9.6-msw-phoenix\wx\core.py, line 1841, in MainLoop rv = wx.PyApp.MainLoop(self) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wx.py, line 1209, in _onPaint self.draw(drawDC=drawDC) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wxagg.py, line 61, in draw self.bitmap = _convert_agg_to_wx_bitmap(self.get_renderer(), None) File c:\Python27\Lib\site-packages\matplotlib\backends\backend_wxagg.py, line 173, in _convert_agg_to_wx_bitmap agg.buffer_rgba()) -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net
Re: [Matplotlib-users] matplotlib and opensuse 12.3
I believe this PR fixes this bug: https://github.com/matplotlib/matplotlib/pull/1884 I had been waiting for the original poster to confirm before merging, but I think I'll go ahead and do this anyway at this point. Mike On 04/23/2013 02:57 PM, Nils Wagner wrote: Hi all, I cannot install matplotlib. Please find enclosed the logfile of python setup.py install --prefix=$HOME/local log.txt Any idea how to resolve the problem is appreciated. Thanks in advance. Nils -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Try New Relic Now We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Save pdf with plot_surface
Just curious -- where is the formula for matplotlib in homebrew? I
can't find it. I thought I would look into why that was failing -- it
may just be simply that it's an old version of matplotlib and this bug
is now fixed in the latest release.
Mike
On 04/20/2013 11:12 PM, Derek Thomas wrote:
I was able to fix this by uninstalling the matplotlib from homebrew
and installing with pip.
On Sat, Apr 20, 2013 at 9:33 AM, Derek Thomas derekctho...@gmail.com
mailto:derekctho...@gmail.com wrote:
This may be known, but the following modified example from
http://matplotlib.org/mpl_toolkits/mplot3d/tutorial.html fails
with a TypeError at matplotlib/backends/backend_pdf.pyc in
draw_path_collection. Is it possible to save pdf files with
surface plots?
from mpl_toolkits.mplot3d import Axes3D
from matplotlib import cm
from matplotlib.ticker import LinearLocator, FormatStrFormatter
import matplotlib.pyplot as plt
import numpy as np
fig = plt.figure()
ax = fig.gca(projection='3d')
X = np.arange(-5, 5, 0.25)
Y = np.arange(-5, 5, 0.25)
X, Y = np.meshgrid(X, Y)
R = np.sqrt(X**2 + Y**2)
Z = np.sin(R)
surf = ax.plot_surface(X, Y, Z, rstride=1, cstride=1,
cmap=cm.coolwarm,
linewidth=0, antialiased=False)
ax.set_zlim(-1.01, 1.01)
ax.zaxis.set_major_locator(LinearLocator(10))
ax.zaxis.set_major_formatter(FormatStrFormatter('%.02f'))
fig.colorbar(surf, shrink=0.5, aspect=5)
fig.savefig('test.pdf')
plt.show()
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Re: [Matplotlib-users] Trying to migrate to Python 3.2, Matplotlib 1.2.1
On 04/19/2013 01:59 AM, C M wrote: On Thu, Apr 18, 2013 at 11:03 PM, John Ladasky john_lada...@sbcglobal.net mailto:john_lada...@sbcglobal.net wrote: . Reading more, I realize that the way I was getting GUI output previously (with Python 2.7 and Matplotlib 1.1) was through wxPython. Unfortunately, it appears that wxPython's star is fading, and a Python 3-compatible version will not be written. In fact, wxPython hasn't released a new version in nine months. wxPython is alive and well and the newest developmental version of it (Phoenix) runs on Python 3. It should be released fairly soon. One of the wxPython list regulars mentioned getting his software to run with it, with a few minor issues, just six days ago. So you might want to give Phoenix a try. That's great news. Unfortunately, I'm not aware of any testing with it and matplotlib on Python 3, so for someone who just wants to get things to work, I would still recommend Tk, gtk or Qt4 on Python3. Mike -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] TypeError: unsupported operand type(s) for +: 'NoneType' and 'float' on 1.2.1
Can you please provide a complete, minimal and self-contained script
that reproduces the error? The example below has many undefined
variables etc.
Cheers,
Mike
On 04/16/2013 07:09 PM, Christophe Pettus wrote:
# preamble code collecting data
ind = np.arange(len(table_name))
width = 0.35
fig = plot.figure(figsize=DEFAULT_FIGURE_SIZE)
ax = fig.add_subplot(111, axisbg='#fafafa', alpha=0.9)
ax.set_title('Largest Tables')
ax.set_xlabel('Size (log scale)')
ax.set_xscale('log')
ax.grid(True)
ax.xaxis.set_major_formatter(FuncFormatter(magnitude_ticks))
dbar = ax.barh(ind, data_size, width, linewidth=0, color='blue',
label='Main Data') # exception here
ibar = ax.barh(ind, index_toast_size, width, left=data_size,
linewidth=0, color='red', label='Toast/Indexes')
ax.set_yticks(ind + width/2)
ax.set_yticklabels(table_name, fontproperties=xx_small_font)
ax.legend(loc='lower right', prop=x_small_font)
plot.tight_layout()
plot.savefig(REPORT_DIR_PATH + '/table_sizes.pdf')
plot.close()
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Re: [Matplotlib-users] difficult LaTeX formula for rendering
matplotlib does not support the `\begin{array}` construct. You can see
what is supported here:
http://matplotlib.org/users/mathtext.html
If you need something like that in Sphinx, there are a number of other
math plugins here:
http://sphinx-doc.org/ext/math.html
Mike
On 03/28/2013 02:45 AM, Ilias Miroslav wrote:
Hi again,
if you did not receive the attachement of my previous email, the files are here:
https://docs.google.com/folder/d/0B8qBHKNhZAipZ2pnS0ViTUZBdXM/edit?usp=sharing
The log of the simplest non-rendering formula:
.. math::
\begin{array}{c}
{\Psi}^{L} \\
{\Psi}^{S}
\end{array}
is as follows:
ilias@miro_ilias_desktop:~/Dokumenty/Work/programming/sphinx-math-test/.sphinx-build
. .
Running Sphinx v1.1.3
loading pickled environment... not yet created
No builder selected, using default: html
building [html]: targets for 1 source files that are out of date
updating environment: 1 added, 0 changed, 0 removed
reading sources... [100%] index
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
/usr/lib/pymodules/python2.7/matplotlib/sphinxext/mathmpl.py:56: Warning: Could
not render math expression $\begin{array}{c}{\Psi}^{L} \\{\Psi}^{S}\end{array}$
Warning)
#
writing additional files... genindex search
copying static files... done
dumping search index... done
dumping object inventory... done
build succeeded.
Best, Miro
From: Ilias Miroslav
Sent: Wednesday, March 27, 2013 8:28 PM
To: matplotlib-users@lists.sourceforge.net
Subject: difficult LaTeX formula for rendering
Dear experts,
in our sphinx-based project documentation (www.diracprogram.org) we have a
complicated latex math formula, which is not rendered:
/usr/lib/pymodules/python2.7/matplotlib/sphinxext/mathmpl.py:56: Warning: Could
not render math expression $i \hbar \frac{\partial}{\partial t} \left(
\begin{array}{c}\Psi^L \\\Psi^S \end{array} \right) = c \left(
\begin{array}{c}(\vec{\sigma} \cdot \vec{\pi}) \Psi^S \\(\vec{\sigma} \cdot
\vec{\pi}) \Psi^L \end{array} \right)+ m_ec^2 \left( \begin{array}{c} \Psi^L
\\-\Psi^S \end{array} \right) + V \left( \begin{array}{c}\Psi^L \\\Psi^S
\end{array} \right)$
The index.rst file with the sole math formula is attached.
I have most recent Ubuntu 12.10 (x86_64) with default packages python-sphinx
1.1.2, python-matplotlib 1.1.1.
Any help, please ? I was trying to cut this formula down; the smallest LaTeX part not
rendered is \begin{array}{c}\Psi^L \\ \Psi^S \end{array}.
Yours,
Miro
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[Matplotlib-users] ANN: matplotlib 1.2.1 release
I'm pleased to announce the release of matplotlib 1.2.1. This is a bug release and improves stability and quality over the 1.2.0 release from four months ago. All users on 1.2.0 are encouraged to upgrade. Since github no longer provides download hosting, our tarballs and binaries are back on SourceForge, and we have a master index of downloads here: http://matplotlib.org/downloads http://matplotlib.org/downloads.html Highlights include: - Usage of deprecated APIs in matplotlib are now displayed by default on all Python versions - Agg backend: Cleaner rendering of rectilinear lines when snapping to pixel boundaries, and fixes rendering bugs when using clip paths - Python 3: Fixes a number of missed Python 3 compatibility problems - Histograms and stacked histograms have a number of important bugfixes - Compatibility with more 3rd-party TrueType fonts - SVG backend: Image support in SVG output is consistent with other backends - Qt backend: Fixes leaking of window objects in Qt backend - hexbin with a log scale now works correctly - autoscaling works better on 3D plots - ...and numerous others. Enjoy! As always, there are number of good ways to get help with matplotlib listed on the homepage at http://matplotlib.org/ and I thank everyone for their continued support of this project. Mike Droettboom -- Own the Future-Intelreg; Level Up Game Demo Contest 2013 Rise to greatness in Intel's independent game demo contest. Compete for recognition, cash, and the chance to get your game on Steam. $5K grand prize plus 10 genre and skill prizes. Submit your demo by 6/6/13. http://p.sf.net/sfu/intel_levelupd2d___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] removing paths inside polygon
See https://github.com/matplotlib/matplotlib/pull/1846 On 03/22/2013 11:17 AM, Michael Droettboom wrote: It's puzzler. I'm looking at it now. Mike On 03/22/2013 06:33 AM, Andrew Dawson wrote: Thanks, the clipping is working now. But as you say the weird line width issue still remains for Agg (and png, perhaps that uses Agg, I don't know...). PDF output looks correct. On 20 March 2013 05:48, Jae-Joon Lee lee.j.j...@gmail.com mailto:lee.j.j...@gmail.com wrote: On Wed, Mar 13, 2013 at 2:17 AM, Andrew Dawson daw...@atm.ox.ac.uk mailto:daw...@atm.ox.ac.uk wrote: You should see that the circle is no longer circular, and also there are weird line width issues. What I want it basically exactly like the attached without_clipping.png but with paths inside the circle removed. The reason that circle is no more circle is that simply inverting the vertices does not always results in a correctly inverted path. Instead of following line. interior.vertices = interior.vertices[::-1] You should use something like below. interior = mpath.Path(np.concatenate([interior.vertices[-2::-1], interior.vertices[-1:]]), interior.codes) It would be good if we have a method to invert a path. This will give you a circle. But the weird line width issue remains. This seems to be an Agg issue, and the line width seems to depend on the dpi. I guess @mdboom nay have some insight on this. Regards, -JJ -- Dr Andrew Dawson Atmospheric, Oceanic Planetary Physics Clarendon Laboratory Parks Road Oxford OX1 3PU, UK Tel: +44 (0)1865 282438 Email: daw...@atm.ox.ac.uk mailto:daw...@atm.ox.ac.uk Web Site: http://www2.physics.ox.ac.uk/contacts/people/dawson -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_mar ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_mar ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_mar___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] SciPy John Hunter Excellence in Plotting Contest
Apologies for any accidental cross-posting. Email not displaying correctly? View it in your browser. http://us1.campaign-archive1.com/?u=e91b4574d5d1709a9dc4f7ab7id=999d7ba343e=7c1fb2879c Scientific Computing with Python-Austin, Texas-June 24-29, 2013 SciPy John Hunter Excellence in Plotting Contest In memory of John Hunter, we are pleased to announce the first SciPy John Hunter Excellence in Plotting Competition. This open competition aims to highlight the importance of quality plotting to scientific progress and showcase the capabilities of the current generation of plotting software. Participants are invited to submit scientific plots to be judged by a panel. The winning entries will be announced and displayed at the conference. NumFOCUS is graciously sponsoring cash prizes for the winners in the following amounts: * 1st prize: $500 * 2nd prize: $200 * 3rd prize: $100 Instructions * Entries must be submitted by April 3 via e-mail mailto:plotting-cont...@scipy.org. * Plots may be produced with any combination of Python-based tools (it is not required that they use matplotlib, for example). * Source code for the plot must be provided, along with a rendering of the plot in a vector format (PDF, PS, etc.). If the data can not be shared for reasons of size or licensing, fake data may be substituted, along with an image of the plot using real data. * Entries will be judged on their clarity, innovation and aesthetics, but most importantly for their effectiveness in illuminating real scientific work. Entrants are encouraged to submit plots that were used during the course of research, rather than merely being hypothetical. * SciPy reserves the right to display the entry at the conference, use in any materials or on its website, providing attribution to the original author(s). Important dates: * April 3rd: Plotting submissions due * Monday-Tuesday, June 24 - 25: SciPy 2013 Tutorials, Austin TX * Wednesday-Thursday, June 26 - 27: SciPy 2013 Conference, Austin TX * Winners will be announced during the conference days * Friday-Saturday, June 27 - 28: SciPy 2013 Sprints, Austin TX remote We look forward to exciting submissions that push the boundaries of plotting, in this, our first attempt at this kind of competition. The SciPy Plotting Contest Organizer -Michael Droettboom, Space Telescope Science Institute You are receiving this email because you subscribed to the mailing list or registered for the SciPy 2010 or SciPy 2011 conference in Austin, TX. Unsubscribe http://scipy.us1.list-manage.com/unsubscribe?u=e91b4574d5d1709a9dc4f7ab7id=069dcb6ee4e=7c1fb2879cc=999d7ba343 mdb...@gmail.com mailto:mdb...@gmail.com from this list | Forward to a friend http://us1.forward-to-friend1.com/forward?u=e91b4574d5d1709a9dc4f7ab7id=999d7ba343e=7c1fb2879c | Update your profile http://scipy.us1.list-manage.com/profile?u=e91b4574d5d1709a9dc4f7ab7id=069dcb6ee4e=7c1fb2879c *Our mailing address is:* Enthought, Inc. 515 Congress Ave. Austin, TX 78701 Add us to your address book http://scipy.us1.list-manage.com/vcard?u=e91b4574d5d1709a9dc4f7ab7id=069dcb6ee4 /Copyright (C) 2013 Enthought, Inc. All rights reserved./ -- Michael Droettboom http://www.droettboom.com/ -- Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester Wave(TM): Endpoint Security, Q1 2013 and remains a good choice in the endpoint security space. For insight on selecting the right partner to tackle endpoint security challenges, access the full report. http://p.sf.net/sfu/symantec-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Missing Edit Curves... button in NavigationToolbar2Wx
That feature is specific to the Qt4 backend. Mike On 02/27/2013 02:23 PM, Jonno wrote: Can anyone explain to me why I don't see the Edit Curves Line and Axes Parameters button in the matplotlib toolbar when using matplotlib.backends.backend_wxagg.NavigationToolbar2Wx The example code here creates a Matplotlib plot with the matplotlib toolbar including all buttons except for the one above. -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_feb ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_feb___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] CMYK
We don't currently have any support -- and we're still struggling in certain areas supporting RGBA consistently across the system. I think this would take someone writing a MEP (as a preliminary study of all of the changes that would be involved) and then shepherding it through implementation. Mike On 01/30/2013 11:10 AM, Ignas Anikevičius wrote: On 29/01/13 03:37:51 -0800, Dieter wrote: I was wondering if anything changed regarding this within the last 2.5 years since the last thread. Is there a way to produce CMYK with matplotlib? Hello everybody, I would be also interested in how to produce CMYK graphics without external fiddling. Cheers, Ignas -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_jan ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_jan ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Problems installing matplotlib - compiling error
As a shortcut, you can also install all of the build dependencies for a package (without installing the package itself) using: sudo apt-get build_dep python-matplotlib Mike On 01/28/2013 01:40 PM, Orgun wrote: Thanks, that helped a lot! I don't know why the dev-package hasn't been installed. That has been the first think I thought I did when re-installing after my latest hardware change in December. Thanks a lot. That saved my day. Christian -- View this message in context: http://matplotlib.1069221.n5.nabble.com/Problems-installing-matplotlib-compiling-error-tp40343p40345.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnnow-d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnnow-d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] BUG: RuntimeError: dictionary changed size during iteration
Does this pull request: https://github.com/matplotlib/matplotlib/pull/1697 fix your issue? I have no way of knowing without a test case... Mike On 01/22/2013 08:33 AM, Massimiliano Costacurta wrote: Hello everyone, in my program I'm encountering an error when calling the function axes.set_xticks (Matplotlib 1.2.0 on python 2.7-64 bit). It is really difficult for me to build a test case, because my program is really complex. Here is the error traceback: File C:\Python27\Lib\site-packages\matplotlib\axes.py, line 2596, in set_xticks return self.xaxis.set_ticks(ticks, minor=minor) File C:\Python27\Lib\site-packages\matplotlib\axis.py, line 1489, in set_ticks self.set_view_interval(min(ticks), max(ticks)) File C:\Python27\Lib\site-packages\matplotlib\axis.py, line 1771, in set_view_interval max(vmin, vmax, Vmax)) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 932, in _set_intervalx self.invalidate() File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 131, in invalidate return self._invalidate_internal(value, invalidating_node=self) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 155, in _invalidate_internal invalidating_node=self) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 155, in _invalidate_internal invalidating_node=self) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 155, in _invalidate_internal invalidating_node=self) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 2141, in _invalidate_internal invalidating_node=invalidating_node) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 155, in _invalidate_internal invalidating_node=self) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 2141, in _invalidate_internal invalidating_node=invalidating_node) File C:\Python27\Lib\site-packages\matplotlib\transforms.py, line 153, in _invalidate_internal for parent in self._parents.itervalues(): File C:\Python27\Lib\weakref.py, line 147, in itervalues for wr in self.data.itervalues(): RuntimeError: dictionary changed size during iteration I googled and found that this is a well known bug due to the use of self.data.itervalues() in the for loop (i think the correct syntax should be for wr in iter(self.data.items()). So I would like to point out the bug (if it is) to the matplotlib guys, how can I do it? In the meantime, how can I work around it without changing the source code? Thanks in advance! -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnnow-d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnnow-d2d___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib lag on windows seven
Which backends are you using on each platform. A difference there is the most likely culprit. Mike On 01/17/2013 08:16 AM, Fabien Lafont wrote: Hello everyone, I've just changed my computer from a old core 2 duo on windows Xp to a intel Xeon with 12 Gb Ram. I've installed matplotlib but I plot a graph it's about 10 times slower than windows Xp to pan the axis or move the graph. Even if I'm plotting something very simple like that: from pylab import * x = [0,1,2] plot(x,x) show() Do you have any idea? Thanks, Fabien -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnmore_122712 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnmore_122712___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] mathtext and fonts under Windows 8
Christoph, The patch you attach looks like it might be helpful to us. I'll investigate further. Mike On 01/17/2013 12:10 PM, Christoph Gohlke wrote: I can reproduce this. The Windows 8 Arial font is different from the one in Windows 7. It seems other projects encountered and fixed the same issue: http://code.google.com/p/sumatrapdf/issues/detail?id=2056 Christoph On 1/17/2013 7:20 AM, Michael Droettboom wrote: Is the Arial font file different on Windows 8 vs. Windows 7? (Just a difference in file size would be enough to know). If so, it's probably the nature of those differences that we need to look into. Mike On 01/16/2013 10:04 AM, CAB wrote: Dear Mike Paul, Thanks for your replies. I tried Mike's protocol, and I found that font_manager found the Arial font (C:\\Windows\\fonts\\Arial.ttf) in the right place. I don't have fontforge yet, so I guess I need to install and check it out. But the thing that bothers me about this error is that it only occurs if I try to mix mathtext and non-matplotlib font. So matplotlib finds Arial just fine. And it finds the mathtext font fine. Only the mixture is fatal. It's as if the parser loses track of the Arial font, or it looks for a mathtext glyph in Arial. Very strange that it occurs only in Windows 8. Regarding Paul's response, I don't have LaTeX on the W8 computer, and my impression is that mathtext doesn't look for mathematical Arial, instead there are some packaged fonts that it uses for this purpose, like Computer Modern and STIX. I'll try to hunt this down further, and let you know if I find anything. Best, Chad *From:* Michael Droettboom md...@stsci.edu *To:* matplotlib-users@lists.sourceforge.net *Sent:* Thursday, January 10, 2013 7:35 AM *Subject:* Re: [Matplotlib-users] mathtext and fonts under Windows 8 Since this is specific to Windows 8, I wonder if the Arial font has been updated in that version. If it's a newer OTF font, rather than a TTF font, it's possible matplotlib can't read it correctly. You can see what font file is on each platform by starting up a Python prompt and doing: from matplotlib import font_manager font_manager.findfont(Arial) It should display the path to the font. From that, you should be able to get the Arial file on each of your platforms and see if they are different. To get more details, you could open them up in the open source fontforge tool. Sorry I can't do this myself, as I don't have access to anything past XP. If the fonts turn out to be different, as a workaround, you could try backing up and then replacing the Arial font on your Windows 8 machine with the one on your Windows 7 machine. Cheers, Mike On 01/09/2013 11:59 PM, Paul Hobson wrote: Sounds like it might have something to do with your Latex installation (if any) or the barebones Latex-rendering done by MPL alone. Namely, they simply don't have the characters for mathematical Arial available. Not too sure though. Hopefully someone more knowledgeable responds. -paul On Tue, Jan 8, 2013 at 9:31 PM, CAB cabr...@yahoo.com mailto:cabr...@yahoo.com wrote: Hi, All, I am encountering a thorny problem when trying to run matplotlib under Windows 8. If I label an axis using a command like ax.set_ylabel(r'time (s)', name='Arial'), all is well. But if try to add mathtext to that, as in ax.set_ylabel(r'time ($s$)', name='Arial'), mathtext.py http://mathtext.py/ throws an error (a very long stream) ending in RuntimeError: Face has no glyph names. If I remove the name='Arial' above and let the program default to Bitstream Vera Sans, the mathtext works. This problem does not occur under Windows 7 or XP; only under two different Windows 8 installations. Any ideas what's going on? Chad -- Master Java SE, Java EE, Eclipse, Spring, Hibernate, JavaScript, jQuery and much more. Keep your Java skills current with LearnJavaNow - 200+ hours of step-by-step video tutorials by Java experts. SALE $49.99 this month only -- learn more at: http://p.sf.net/sfu/learnmore_122612 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL,ASP.NET http://asp.net/, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnmore_122712
Re: [Matplotlib-users] Sorry, could not import Basemap in http://matplotlib.org/users/screenshots.html
Thanks. It should be restored momentarily when github fetches the new revision of the docs. Mike On 01/15/2013 11:52 AM, Alejandro Weinstein wrote: Hi: I just want to report that in the screenshots section of the website (http://matplotlib.org/users/screenshots.html), in the Basemap demo (http://matplotlib.org/users/screenshots.html#basemap-demo) section, instead of the plot there is a message saying Sorry, could not import Basemap. Alejandro. -- Master SQL Server Development, Administration, T-SQL, SSAS, SSIS, SSRS and more. Get SQL Server skills now (including 2012) with LearnDevNow - 200+ hours of step-by-step video tutorials by Microsoft MVPs and experts. SALE $99.99 this month only - learn more at: http://p.sf.net/sfu/learnmore_122512 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master SQL Server Development, Administration, T-SQL, SSAS, SSIS, SSRS and more. Get SQL Server skills now (including 2012) with LearnDevNow - 200+ hours of step-by-step video tutorials by Microsoft MVPs and experts. SALE $99.99 this month only - learn more at: http://p.sf.net/sfu/learnmore_122512 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] mathtext and fonts under Windows 8
Since this is specific to Windows 8, I wonder if the Arial font has been updated in that version. If it's a newer OTF font, rather than a TTF font, it's possible matplotlib can't read it correctly. You can see what font file is on each platform by starting up a Python prompt and doing: from matplotlib import font_manager font_manager.findfont(Arial) It should display the path to the font. From that, you should be able to get the Arial file on each of your platforms and see if they are different. To get more details, you could open them up in the open source fontforge tool. Sorry I can't do this myself, as I don't have access to anything past XP. If the fonts turn out to be different, as a workaround, you could try backing up and then replacing the Arial font on your Windows 8 machine with the one on your Windows 7 machine. Cheers, Mike On 01/09/2013 11:59 PM, Paul Hobson wrote: Sounds like it might have something to do with your Latex installation (if any) or the barebones Latex-rendering done by MPL alone. Namely, they simply don't have the characters for mathematical Arial available. Not too sure though. Hopefully someone more knowledgeable responds. -paul On Tue, Jan 8, 2013 at 9:31 PM, CAB cabr...@yahoo.com mailto:cabr...@yahoo.com wrote: Hi, All, I am encountering a thorny problem when trying to run matplotlib under Windows 8. If I label an axis using a command like ax.set_ylabel(r'time (s)', name='Arial'), all is well. But if try to add mathtext to that, as in ax.set_ylabel(r'time ($s$)', name='Arial'), mathtext.py throws an error (a very long stream) ending in RuntimeError: Face has no glyph names. If I remove the name='Arial' above and let the program default to Bitstream Vera Sans, the mathtext works. This problem does not occur under Windows 7 or XP; only under two different Windows 8 installations. Any ideas what's going on? Chad -- Master Java SE, Java EE, Eclipse, Spring, Hibernate, JavaScript, jQuery and much more. Keep your Java skills current with LearnJavaNow - 200+ hours of step-by-step video tutorials by Java experts. SALE $49.99 this month only -- learn more at: http://p.sf.net/sfu/learnmore_122612 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnmore_122712 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Master Visual Studio, SharePoint, SQL, ASP.NET, C# 2012, HTML5, CSS, MVC, Windows 8 Apps, JavaScript and much more. Keep your skills current with LearnDevNow - 3,200 step-by-step video tutorials by Microsoft MVPs and experts. ON SALE this month only -- learn more at: http://p.sf.net/sfu/learnmore_122712___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib is slow
I think using the profiler is the best bet here. We've used that in the
past to track down things that take a long time to import quite
successfully. I'm not seeing any slowness here, so that is likely do to
an environmental difference on your machine, implying you'll really need
to run the profiler yourself. I recommend runsnakerun to examine the
profile output -- if you have trouble interpreting it, feel free to send
me your raw profiler data to me off list.
Mike
On 12/31/2012 02:21 PM, C M wrote:
Resurrecting an old thread here
On Tue, Mar 29, 2011 at 3:23 PM, David Kremer da...@david-kremer.fr
mailto:da...@david-kremer.fr wrote:
I would recommend running the import in the Python profiler to
determine
where most of the time is going. When I investigated this a few
years
back, it was mainly due to loading the GUI toolkits, which are
understandably quite large. You can avoid most of that by using
the Agg
backend. If you're using the Agg backend and still experiencing
slowness, it may be that load-up issues have crept back into
matplotlib
since then -- but we need profiling data to figure out where and
how.
Importing Matplotlib is very slow for me, too. For a wxPython
application with embedded Matplotlib, I am getting load times of
20 seconds when cold importing matplotlib, with this (circa mid
2004) computer setup: Windows XP, sp3, Intel Pentium, 1.70 Ghz, 1 GB
RAM.
This is, by the way, an import well after Python and wxPython have
already been loaded into RAM, as it happens by a user action, so none
of the time involved here is due to loading Python or wxPython (they
both load more quickly--about 10 seconds to cold import them, my code,
images, and some other libraries).
First of all: does that amount of time seem appropriate for that fast
of a system--or is that too long? It definitely *feels* way too long
from a user perspective (for comparison Word or PowerPoint loads on
this computer in about 2.5 seconds).
Trying to improve it and following this old thread, I have switched to
matplotlib.use('Agg')
instead of
matplotlib.use('wxAgg')
as suggested to speed things up...but it is no faster.
I see, though, that I also have lines such as:
from matplotlib.backends.backend_wxagg import FigureCanvasWxAgg
from matplotlib.backends.backend_wxagg import NavigationToolbar2WxAgg
Would the presence of these imports obviate the fact that I switched
to using the Agg instead of the wxAgg? If so, is there any way to use
something faster here (I suspect not but thought I'd ask).
Also, what else should I consider doing to reduce the import time
significantly? (I have to learn how to use the profiler, so I haven't
done that yet).
Thanks,
Che
Mike
Thank you a lot for your answer.
I noticed than _matplotlib.pyplot_ is longer to be imported the
first time than
if it has already been imported previously (maybe things are
already loaded in
ram memory), and we don't need to fetch it from the hard drive
thanks to the
kernel.
As far I see, the function calls are the same for the two logs I
obtained,
except than the first took 6s instead of 1.4s.
The two logs have been obtained using :
code
python -m cProfile temp.py
/code
where temp.py consist of two lines :
code
#!/usr/bin/env python2
import matplotlib.pyplot
/code
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Re: [Matplotlib-users] compile numpy with UCS4
When you recompile Python in a new unicode mode, you then need to recompile all extensions (such as Numpy), since an extension compiled for one mode will not work with the other. Annoying if you have a lot of extensions. However, I don't think that UCS4 mode is required for Tkinter -- it could just be that the Tkinter you have compiled was compiled against a Python of a different unicode mode. (RHEL builds its python packages with --enable-unicode=UCS4, so if you're using the RH package for Tkinter with a self compiled Python, that may be what you're running into.) Mike On 12/19/2012 06:08 PM, Kurt Peters wrote: I had to compile and install Python 2.7 on RHEL with the --enable-unicode=USC4 to get it to work with Tkinter. Unfortunately, I'm now trying to install numpy, and get an error when importing it into python ImportError: numpy/core/multiarray.so: undefined symbol: PyUnicodeUCS2_AsASCIIString. Is there are way to get the two to play together nicely? Such as recompiling numpy with USC4 support? KURT -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Undocumented transform API change between 1.1 and 1.2?
Is there anything we could do to give this important information a little more visibility on the webpage? The webpage still indicates that 1.2.0 is a development version. Oops. That's been updated. Perhaps we could update it to say: 1.2.0 The most current stable release. Click here to see what's new since 1.1.1 And have Click here link to the page Phil mentioned. Thoughts? I think I'm fine with this, but I'll hold off a bit on making this change in case there are better ideas raised. Cheers, Mike -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] 3d performance question
This is a great summary of the issues related to OpenGL, and how it can help but is not a universal panacea. Thanks, Mike On 12/18/2012 08:53 AM, Sturla Molden wrote: Interactive 2D plots can be sluggish too, if you have enough objects in them. It is not the backend that is sluggish. Replacing the backend does not speed up the frontend. OpenGL is only 'fast' if you have a frontend that exploits it (e.g. uses vertex buffers and vertex shaders). If you just use OpenGL for bitblitting an image or drawing vertices individually (glVertex*), it is not going to help at all. My impression is that whenever Matplotlib is 'too slow', I have to go down to the iron and use OpenGL directly. It tends to happen when there are too many objects to draw, and the drawing has to happen in 'real-time'. Observe that if we let OpenGL render to a frame buffer, we can copy its content into a Matplotlib canvas. Unless we are doing some really heavy real-time graphics, displaying the image is not going to be the speed limiting factor. Even though using OpenGL to swap framebuffers will be 'faster', you will not be able to tell the difference in an interactive Matplotlib plotting. Sturla On 14.12.2012 15:51, Ethan Gutmann wrote: Hi Neal, my understanding is that matplotlib does not use OpenGL (thus the terrible performance you see). You might want to look into glumpy for mplot3d OpenGL acceleration. Ethan On Dec 14, 2012, at 5:23 AM, Neal Beckerndbeck...@gmail.com wrote: I'm using fedora (17) linux. I notice on complicated 3d plot, interactive performance can get sluggish. I'm using nouveau driver now, but wondering if installing nvidia driver will improve mpl 3d performance? Does mpl use opengl? -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] 3d performance question
On 12/18/2012 09:21 AM, Jason Grout wrote: On 12/18/12 6:53 AM, Sturla Molden wrote: Interactive 2D plots can be sluggish too, if you have enough objects in them. It is not the backend that is sluggish. Replacing the backend does not speed up the frontend. OpenGL is only 'fast' if you have a frontend that exploits it (e.g. uses vertex buffers and vertex shaders). If you just use OpenGL for bitblitting an image or drawing vertices individually (glVertex*), it is not going to help at all. My impression is that whenever Matplotlib is 'too slow', I have to go down to the iron and use OpenGL directly. It tends to happen when there are too many objects to draw, and the drawing has to happen in 'real-time'. Observe that if we let OpenGL render to a frame buffer, we can copy its content into a Matplotlib canvas. Unless we are doing some really heavy real-time graphics, displaying the image is not going to be the speed limiting factor. Even though using OpenGL to swap framebuffers will be 'faster', you will not be able to tell the difference in an interactive Matplotlib plotting. I'm curious: how come Chaco is so much faster for real-time plots? What are the main technical differences to enable it to plot things much more quickly? I think this a great question -- one way to address this might be to find certain examples or plot types where the performance has a large gap and then drill down from there. There are so many different plot types and methods in both matplotlib and Chaco that it's hard to be general about performance issues. (And raw drawing performance isn't always the same thing as interactive performance, or file size or memory performance). I know years ago when I was working on the path simplification code in matplotlib it was way ahead of what Chaco was doing in that (very narrow and specific) case, but I haven't looked at Chaco much since. Mike -- LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Why is pip not mentioned in the Installation Documentation?
One of the reasons (historically) is that the build scripts predate setuptools and ships copies of dependencies rather than using easy_install or pip to install them. There is an open PR to address this here: https://github.com/matplotlib/matplotlib/pull/1454 But you do make a good point that `pip` should be mentioned in the docs as part of that change. Mike On 11/16/2012 05:54 AM, Mathew Topper wrote: Hi, I'm interested to know why the pip package manager is not more widely supported for installation of python packages like matplotlib? Matplotlib seems to be particularly slowly updated in the Fedora repositories, for example, so I often find that a source installation is necessary. I know this isn't especially difficult for the experienced user, but surely using something like pip would make this process for accessible for all users of python packages, particularly those that do not receive much attention from the big distribution maintainers? Yet, pip doesn't get a mention on the installation documentation of matplotlib or many other python packs. I would love to hear anyone's thoughts on this matter. Many Thanks, Mat -- Dr. Mathew Topper Institute for Energy Systems School of Engineering The University of Edinburgh Faraday Building The King's Buildings Edinburgh EH9 3JL Tel: +44 (0)131 650 5570 School fax: +44 (0)131 650 6554 mathew.top...@ed.ac.uk mailto:mathew.top...@ed.ac.uk http://www.see.ed.ac.uk http://www.see.ed.ac.uk/ The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. -- Monitor your physical, virtual and cloud infrastructure from a single web console. Get in-depth insight into apps, servers, databases, vmware, SAP, cloud infrastructure, etc. Download 30-day Free Trial. Pricing starts from $795 for 25 servers or applications! http://p.sf.net/sfu/zoho_dev2dev_nov ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Monitor your physical, virtual and cloud infrastructure from a single web console. Get in-depth insight into apps, servers, databases, vmware, SAP, cloud infrastructure, etc. Download 30-day Free Trial. Pricing starts from $795 for 25 servers or applications! http://p.sf.net/sfu/zoho_dev2dev_nov___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
