Re: [Matplotlib-users] uniqueness of polar coordinates (meaningfulness of r0)
Is this in reference to issue #1603? Are you advocating changing the solution? My only point was that the ongoing conversation should not accept uncritically the assertion that r0 is senseless. and I finally appreciate that criticism. From my perspective, I was happy to learn something new. I think it is clear to all on the list, that at first, this notion railed against my senses. Cheers, Andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
Hi Pierre, There is no mention in the docs about the treatment of negative r. The treatment is contrary to my expectations, and I would wager contrary to many peoples expectations. So at a new minimum, at the very least, the docs should make clear what is happening. I would further suggest that there are options specified by kwargs what the behavior is. The default could be the current behavior, which sounds like it is standard to some, and another option would be to complain if r 0, as I think many others would expect. I fully agree with the idea of enabling users to specify the behavior they want. I'm not sure about raising an error, but it's true that it can be pretty helpful to detect computational mistakes. This (above) sums up why I would like to have the option of matplotlib error raising for negative values of r. Just to set the scene, I come from a physics background. So for me, and any application I would have, r is interpreted as a radius bounded from [0,inf]. Otherwise, keeping track, for example, of the motion of an object in polar coordinates would be more difficult. Constructing polar coordinates is not always obvious, and one can make a mistake. Especially with something like matplotlib, where it is easy to experiment, sometimes one just throws the parameterization at the computer and sees what comes out. From this perspective, it would be nice if I were to get a warning or error message. I am perfectly happy to have the default behavior remain what it is. I wish I were in a position to actually contribute to adding this new option. At the moment, I am in the midst of job hunting season, and would not be able to attempt it for a few months. If no one has taken up the task by then, and a developer were willing to look over my shoulder now and then, I would be interested in trying to add such an option. I have not yet contributed in such a way. Regards, Andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
Hi Bob, I am a matplotlib.pyplot novice, but I have looked through various FAQs to no avail. I am plotting a polar graph with some negative values of r. Everything goes well until I try to use rgrids(). Am I doing something wrong? I attach some demo scripts and their outputs. version1.py uses rgrid() but only has positive values of r. Everything works the way I expect it to (see version1.png). version2.py has negative values of r and the same call to rgrid() and misbehaves (see version2.png). version3.py is the same as version2.py, but without the call to rgrids() (but with negative values of r). Again everything is as expected. What am I doing wrong in version2.py? I am not sure why things work in version 3 and do not work in version 2. A guess would be how matplotlib is covering up illegal values of your r coordinate. Here I am only speaking from the math point of view, and not what is actually happening in matplotlib. I tired finding info in the docs, but did not succeed in getting The coordinates t and r are angle and radius. In polar coordinates, negative values of the radial coordinate r are not well defined, since in this coordinate system, you can not have negative values of a radius. So my **guess** is that your problems are related to this ill definition of the radial coordinate. And that sometimes matplotlib can cover it up for you, and other times it complains more loudly. Regards, Andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
I am a matplotlib.pyplot novice, but I have looked through various FAQs to no avail. I am plotting a polar graph with some negative values of r. Everything goes well until I try to use rgrids(). Am I doing something wrong? I attach some demo scripts and their outputs. version1.py uses rgrid() but only has positive values of r. Everything works the way I expect it to (see version1.png). version2.py has negative values of r and the same call to rgrid() and misbehaves (see version2.png). version3.py is the same as version2.py, but without the call to rgrids() (but with negative values of r). Again everything is as expected. What am I doing wrong in version2.py? and only because it (sadly) took me a few minutes to figure out (even though it seemed so obvious), to create the plot of your version 3, with only positively defined values for r, you can do t = numpy.linspace(0,2*numpy.pi,61) r = t t2 = numpy.linspace(-numpy.pi,numpy.pi,61) r2 = numpy.pi - t2 plt.polar(t,r) plt.polar(t2,r2) andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
On Dec 17, 2012, at 1:12 PM, Pierre Haessig wrote: Le 17/12/2012 21:59, Pierre Haessig a écrit : Maybe this the code behind the masking of half your curve, but I don't know more. Looking closer at the plot, the curve is actually not masked ! Actually the rmin functionality' is activated with rmin=-2*pi so that the whole r-axis is offset by +2pi. The plot is therefore pretty consistent only it is not what you want, I guess. I don't know how to disable this radius offset functionality. Hi Pierre, Bob and all, I reiterate that in polar coordinates, a negative value of r does not make sense. It is confusing at best. At the very least, I think matplotlib should raise a NOISY warning. (I just checked that it does not). I would advocate for a change however. I suggest that given negative values of r, pyplot.polar raises an error and exits. One could add a kwarg that allows you to override this default behavior, neg_r=False unless the user specifies otherwise. In general, when I code things that don't make sense mathematically, I like it when the code tells me I made a dumb mistake. If the code is defaulting to fixing the dumb mistake for me without any explicit warnings, that is more likely to raise a more serious error in my code, and a much harder bug to track down. My two cents (well, it looks like a bit more than two). Regards, Andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
I reiterate that in polar coordinates, a negative value of r does not make sense. It is confusing at best. This isn't really true. Many standard introductions to polar coordinates consider negative r as valid. It's simply treated as a radius in the opposite direction In Euclidean space, can you have a negative distance? Would you ever describe a circle as having negative radius (in Euclidean space)? If you take r to be the radius, then I suggest you confuse a precise definition of radius with allowing a useful, non-unique interpretation of negative values of r. (i.e., the point is reflected about the origin). A few examples found by googling: http://tutorial.math.lamar.edu/Classes/CalcII/PolarCoordinates.aspx and http://sites.csn.edu/istewart/mathweb/math127/intro_polar/intro_polar.htm and an MIT Opencourseware document at http://ocw.mit.edu/resources/res-18-001-calculus-online-textbook-spring-2005/study-guide/MITRES_18_001_guide9.pdf. The nice MIT notes you linked to state (sec. 9.2, (page 355) listed as 132 on the bottom of page) The polar equation r = F(theta) is like y = f(x). For each angle theta the equation tells us the distance r (which is not allowed to be negative). Matplotlib shouldn't raise an error on negative r, it should just interpret negative r values correctly. You assume all people have chosen the same definition of how to interpret negative values of r. I grant you that it may be useful in some contexts to define what it means to have negative values of r. But this definition is NOT UNIQUE. However, if you take r as a radius, and hence a positive definite quantity, as you would expect in Euclidean geometry for a distance, and you allow r: [0,inf] theta: [0,2pi) then there is a unique and unambiguous representation of the coordinates. I am not arguing that one can not take a definition of negative r, only that different users will expect different things, and what matplotlib choses to do is not readily accessible in the documents as far as I can see. I also argue that many users, coming from the scientific background, will naturally interpret r as the radius (as I do) and hence expect r to be positive definite. And lastly, I argue, that since the definition is not unique, and people have different expectations, at the very least, matplotlib should warn you how it is interpreting negative r. Regards, Andre -- 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] Novice question: Am I using pyplot.rgrids correctly?
Hi Brendan, I reiterate that in polar coordinates, a negative value of r does not make sense. It is confusing at best. This isn't really true. Many standard introductions to polar coordinates consider negative r as valid. It's simply treated as a radius in the opposite direction In Euclidean space, can you have a negative distance? Would you ever describe a circle as having negative radius (in Euclidean space)? If you take r to be the radius, then I suggest you confuse a precise definition of radius with allowing a useful, non-unique interpretation of negative values of r. I don't take r to be the radius, I take it to be a number in an ordered pair with a particular mapping into R^2. It is an extension of the notion of radius, but there's no reason it has to conform with the restrictions on geometrically possible radii. This was clear from your previous comment - but this is precisely my point. In your original message, you used the word radius. My point is that mathematics, and computing, are precise languages with hopefully unambiguous definitions. You used the word radius, but had in mind a less rigorous definition, because you were thinking of r as just one component of a two-coordinate description of 2D Euclidean space, with a specific definition of how to interpret negative r. It is the standard you are used to and so not surprising to you. My point is that this expectation is not unique, and in my field, not common, and so not expected by me. Further, looking at the matplotlib doc, there is no indication what is happening - from http://matplotlib.org/api/pyplot_api.html matplotlib.pyplot.polar(*args, **kwargs) Make a polar plot. call signature: polar(theta, r, **kwargs) Multiple theta, r arguments are supported, with format strings, as in plot(). There is no mention in the docs about the treatment of negative r. The treatment is contrary to my expectations, and I would wager contrary to many peoples expectations. So at a new minimum, at the very least, the docs should make clear what is happening. I would further suggest that there are options specified by kwargs what the behavior is. The default could be the current behavior, which sounds like it is standard to some, and another option would be to complain if r 0, as I think many others would expect. Maybe I am totally off. Maybe I am the only one who does not expect r to go negative. But at least the behavior should be clear without having to dig into the code. However, those issues are beside the point. The point is that, regardless of what a radius is, in the context of polar coordinates, a negative *r-coordinate* is a perfectly mathematically respectable notion with a standard interpretation. Moreover, it is actually useful when you want to graph some things, and is supported by other plotting software (see, e.g., http://www.wolframalpha.com/input/?i=polar+plot+r%3Dtheta%2C-pi%3Cr%3C0). Matplotlib should plot r-coordinates according to this standard interpretation, Again, I would just argue the standard behavior should be clearly stated in the docs. Regards, Andre -- 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] Options for speeding up matplotlib, spectrogram with log scale axis, etc.
Hi Jianbao, One option for getting Chaco is to install the Enthought python disctribution http://www.enthought.com/ you can see from their package index, they install Chaco (and all needed libraries to make it work) http://www.enthought.com/products/epdlibraries.php If you have an email ending in .edu you can automatically get their academic version (fully functioning version - you just have to verify you are doing academic research). Since you mentioned you were at UC Berkeley, I assume you have .edu. Their python installation works nicely, and installs itself in /Library/Frameworks/Python.framework/ so it plays nicely with the Mac GUI environment. Also, it will not overwrite any other installation you have - it makes its own install dir. UNFORTUNATELY - at the moment, it appears they are writing their new academic software licenses, so you can not download it right now. But there message promises it will soon be available again. I have found the Enthought installation to be MUCH more reliable than FINK or MacPorts (Enthought is also a private company - hence the quality installers etc, and they like to support academic work). Cheers, Andre On Oct 8, 2012, at 10:55 AM, Jianbao Tao wrote: Hi all, A little background: I am from the space physics field where a lot of people watch/analyze satellite data for a living. This is a field currently dominated by IDL in terms of visualization/analysis software. I was a happy IDL user until I saw those very, very, I mean, seriously, very, very pretty matplotlib plots a couple of weeks ago. Although I was happy with IDL most of the time, I always hated the feel of IDL plots on screen. So, I decided to make my move from IDL to python + numpy + scipy + matplotlib. However, this is not a trivial move. One major thing that makes me stick to IDL in the first place is the Tplot package (bundled into THEMIS Data Analysis Software, a.k.a., TDAS) developed at my own lab, the Space Sciences Lab at UC Berkeley. I must have something equivalent to Tplot to work efficiently on the python platform. In order to do that, there are two problems to solve. First, a utility module is required to load data that are in NASA CDF format. Second, a 2D plotting application is required with the following features: 1) Able to handle large amount vector data, 2) able to display spectrogram with log scale axis quickly, and 3) convenient toolbar to navigate the data. I have written a module that can quickly load data in CDF files in cython, with help from the cython and the numpy communities. I have also gotten the third plotting feature working with a customized navigation toolbar, thanks to the help I received in this mailing list. However, I haven't figured out how to get the first two plotting features. Matplotlib is known for its slow speed when it comes to large data sets. However, it seems some other packages can plot large data sets very fast, although not as pretty as matplotlib. So, I am wondering what makes matplotlib so slow. Is it because the anti-aliasing engine? If so, is it possible to turn it on or off flexibly to compromise between performance and quality? Also, is it possible to convert the bottle-neck bit of the code into cython to speed up matplotlib? As for spectrograms with log scale axis, I found a working solution from Stack Overflow, but it is simply too slow. So, again, why is it so slow? So, for my purposes, my real problem now is the slow speed of matplotlib. I tried other packages, such as pyqtgraph, pyqwt, and Chaco/Traits. They seem to be faster, but they have serious problems too. Pyqtgraph seems very promising, but it seems to be in an infant stage for now with serious bugs. For example, I can't get it working together with matplotlib. PyQwt/guiqwt is reasonably robust, but it has too many dependencies in my opinion, and doesn't seem to have a wide user base. Chaco/Traits seems another viable possibility, especially considering the fact that it is actually supported by a company, but I didn't get a chance to see their performance and quality because I can't install Enable, a necessary bit for Chaco, on my mac. (But the fact that Chaco/Traits is supported by a real company is a real plus to me. If I can't eventually speed up matplotlib, I will probably give it another shot.) I have one idea to speed up line plots in matplotlib on screen, which is basically down-sampling the data before plotting. Basically, my idea is to down-sample the data into a level that one pixel only corresponds to one data point. Apparently, one must have enough information to determine the mapping between the data and the pixels on screen. However, such an overhead is just to maintain some house-keeping information, which I suppose is minimal. I have no idea how to speed up the log-scale spectrogram plot at the moment. :-( So, the bottom line: What
Re: [Matplotlib-users] Options for speeding up matplotlib, spectrogram with log scale axis, etc.
Hi Jianbao, I used to try and install my python suite from src code on my own. Somewhere between the Mac OS 10.5, 10.6, migrating accounts, my python installation broke, and I never could get it all working again. Something related to 10.6 didn't have full backwards compatibility because of the switch to 64 bit architecture, so my binaries stopped working... many long frustrating days trying to figure it out. I eventually went to a friend of mine who does computing support for an astrophysics group, to get help solving my installation problems. He said, Do you know about the Enthought python distribution? So that changed my philosophy. If my computer-wiz-friend uses Enthought, I have no excuse not to. I have been happier ever since :) Also - I have recently come to love HDF5 (Hierarchical Data Format (Version) 5), which is a smart binary database with smart metadata mapping (maybe good for your research). Eg. on the big machines at NERSC, Livermore, Argonne, etc (meaning next generation super computers) HDF5 is one of the pieces of software they use to benchmark the performance of their file systems, and make sure this code scales to work with these new architectures. HDF5 is also professionally maintained. And the Enthought distribution comes with HDF5 and two python interfaces to it. From your description, I thought maybe you guys already use this. And if not, maybe it is worth looking into. Cheers, Andre On Oct 8, 2012, at 11:32 AM, Jianbao Tao wrote: Hi Andre, Thanks for your message. I like it. :-) I do have a .edu email. I didn't try to install Chaco with EPD because I tend to be skeptical when it comes to a bundled package with a lot of stuff. I like it to be as simple as possible. But it seems that I am probably better off to install EPD as a whole. Cheers, Jianbao On Mon, Oct 8, 2012 at 11:17 AM, Andre' Walker-Loud walksl...@gmail.com wrote: Hi Jianbao, One option for getting Chaco is to install the Enthought python disctribution http://www.enthought.com/ you can see from their package index, they install Chaco (and all needed libraries to make it work) http://www.enthought.com/products/epdlibraries.php If you have an email ending in .edu you can automatically get their academic version (fully functioning version - you just have to verify you are doing academic research). Since you mentioned you were at UC Berkeley, I assume you have .edu. Their python installation works nicely, and installs itself in /Library/Frameworks/Python.framework/ so it plays nicely with the Mac GUI environment. Also, it will not overwrite any other installation you have - it makes its own install dir. UNFORTUNATELY - at the moment, it appears they are writing their new academic software licenses, so you can not download it right now. But there message promises it will soon be available again. I have found the Enthought installation to be MUCH more reliable than FINK or MacPorts (Enthought is also a private company - hence the quality installers etc, and they like to support academic work). Cheers, Andre On Oct 8, 2012, at 10:55 AM, Jianbao Tao wrote: Hi all, A little background: I am from the space physics field where a lot of people watch/analyze satellite data for a living. This is a field currently dominated by IDL in terms of visualization/analysis software. I was a happy IDL user until I saw those very, very, I mean, seriously, very, very pretty matplotlib plots a couple of weeks ago. Although I was happy with IDL most of the time, I always hated the feel of IDL plots on screen. So, I decided to make my move from IDL to python + numpy + scipy + matplotlib. However, this is not a trivial move. One major thing that makes me stick to IDL in the first place is the Tplot package (bundled into THEMIS Data Analysis Software, a.k.a., TDAS) developed at my own lab, the Space Sciences Lab at UC Berkeley. I must have something equivalent to Tplot to work efficiently on the python platform. In order to do that, there are two problems to solve. First, a utility module is required to load data that are in NASA CDF format. Second, a 2D plotting application is required with the following features: 1) Able to handle large amount vector data, 2) able to display spectrogram with log scale axis quickly, and 3) convenient toolbar to navigate the data. I have written a module that can quickly load data in CDF files in cython, with help from the cython and the numpy communities. I have also gotten the third plotting feature working with a customized navigation toolbar, thanks to the help I received in this mailing list. However, I haven't figured out how to get the first two plotting features. Matplotlib is known for its slow speed when it comes to large data sets. However, it seems some other packages can plot large data sets very
Re: [Matplotlib-users] Combining 4 plots into one figure
Hi Brad,
Have you have tried using the tabular environment?
I haven't tried using \vspace inside the figure, but I suspect that would also
let you squeeze the figures closer together.
\begin{figure}
\begin{tabular}{cc} %for a two columns of figures
\includegraphics[width=0.48\textwidth]{figure_a}
\includegraphics[width=0.48\textwidth]{figure_b}
\\
$(a)$ $(b)$
\\
\includegraphics[width=0.48\textwidth]{figure_c}
\includegraphics[width=0.48\textwidth]{figure_d}
\\
$(c)$ $(d)$
\end{tabular}
\caption{\label{fig:your_label} your caption}
\end{figure}
Andre
On Jul 19, 2012, at 9:34 AM, Damon McDougall wrote:
On Thu, Jul 19, 2012 at 07:56:29AM -0700, Brad Malone wrote:
Personally, I use the subfigure package and it works really well. Also,
+1 for reusable figures. The downside of the subfigure package is your
latex code looks that much worse, but if the journal doesn't mind you
using the subfigure package, then I recommend it.
Thanks for the comments everyone. I am giving subfigure a try now, and it
seems relatively promising. The only problem is that apparently the
\caption package intereferes with RevTeX. This causes me to have to use
\usepackage[caption=false]{subcaption} which then apparently doesn't allow
me to label the individual plots (a), (b), (c), and (d). Instead,
attempting to do this creates new FIG labels at these locations (using
\caption* doesn't fix this either). But maybe I can figure a workaround to
this, and besides, this is a LaTeX question at this point anyway.
I know this is getting off topic, but is the journal you're submitting
to insisting on the RevTex style file? Most of them have their own
custom style. If so, I recommend using that over RevTex. That would
potentially solve your package conflict.
If this doesn't work I suppose there is always just manually creating a new
file with Inkscape and adding the a), b), c), and d) labels manually in
there.
Thanks for all the suggestions.
--
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http://damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom
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[Matplotlib-users] legend label for fill_between (or similar)
Hi All, Sometimes, instead of using data points with error bars, I instead use fill_between to create a little bar, with a band which I use alpha=.3 or so. I have tried unsuccessfully to find an easy way to create a legend label for this band - I am trying to have a similar band appear in my legend. I am not attached to fill_between if there is a similar way to create such a little bar to represent my data point. Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] legend label for fill_between (or similar)
Hi Tony, Unfortunately, I think the preferred method is to create a proxy artist: http://matplotlib.sourceforge.net/users/legend_guide.html#using-proxy-artist Basically, you draw a fake patch with the same parameters as your fill (see example below). Hope that helps, Yes, that helps. I also found another simple way using matplotlib.pyplot.bar() === import numpy as np import matplotlib.pyplot as plt x = np.array([1,2]) data = np.array([10,8]) err = np.array([2,1]) b1 = plt.bar(x-.2,2*err,0.4,color='b',bottom=data - err,alpha=0.3) plt.legend([b1[0]], ['nice legend graphic'],shadow=True,fancybox=True,numpoints=1) plt.axis([0,3,0,15]) plt.show() === Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] matplotlit.pyplot.xtick lablel alignment with subscripts
Hi All,
Trying to tune alignment of xtick labels.
I have the following for my lables
===
import matlplotlib.pyplot as plt
x_dat = [1,2,3,4]
x_label = ['$\mathrm{nn}$' , '${}^2\mathrm{H}$', '${}^4\mathrm{He}$',
'${}^4_{\Lambda\Lambda}\mathrm{He}$']
plt.xticks(x_dat,x_label)
===
you can see I have both superscripts and subscripts (and sometimes none) on
these labels.
Try as I might, I can not figure out how to get these to align how I want (I
have tried all the options from verticalalignment=option in the plt.xticks()
command.
If LaTeX were rendering such fonts (in a TeX document), it would align the
bottom of the characters, and then place the super and sub scripts accordingly.
It seems that matplotlib is creating a bounding box around each label, and then
aligning according to the top, bottom or center of the corresponding bounding
boxes.
Is there a way to get the alignment to work according to my above description
(the LaTeX way)?
If it involves fine tuning the position of each label - could someone
demonstrate a simple example of how to set the positions individually?
I am using the mathtext (there are issues I have had trying to get latex to
work with my current set up, which I am still working on, but aren't sorted out
yet).
Thanks,
Andre
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Re: [Matplotlib-users] where did my plots go?
Hi All, Sort of hijacking my own thread here. I posted another issue yesterday or the day before, and this has caused me to find some bigger problems... Most likely, there was a change to your matplotlibrc file. There is a setting in there for interactive and by default, it is set to False. If you uncomment it and set it to True, you should get back the behavior you expected. You can also explicitly set the interactive mode to True from your scripts with a plt.ion() call before loading your other modules. I was having such problems with my setup (mac os 10.6.8, EPD 7.3[ python2.7 matplotlib 1.1.0]), I decided to completely wipe all my python installations in /Library/Frameworks/Python.framework/Versions/ I then re-installed EPD 7.3 I modified my matplotlibrc to backend : TkAgg interactive : True I have run with --verbose-helpful to verify that these options are used (at least at startup). But my plots still vanish as soon as the script is done :`( [that is me, a grown man, crying] I see I can use matplotlib.pyplot.isinteractive() to see that interactive is true. How can I print the rc param to check the backend? I haven't found this on google or in the matplotlib userguide yet. Also, any ideas? I am pulling hair out since of course I am supposed to be doing analysis for a talk next monday. Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] where did my plots go?
Hi Goyo,
2012/6/19 Andre' Walker-Loud walksl...@gmail.com:
But my plots still vanish as soon as the script is done :
That's to be expected. You can make the script not to end until the
user ask for it explicitly:
raw_input('Press Enter when you are done')
If this is expected - it is a new feature.
My understanding was that changing
interactive : True
in the matplotlibrc file, then the plots would not vanish until explicitly
closed by the user.
Is my understanding incorrect?
Thanks,
Andre
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Re: [Matplotlib-users] where did my plots go?
Hi Ben,
On Jun 19, 2012, at 12:15 PM, Benjamin Root wrote:
On Tue, Jun 19, 2012 at 2:40 PM, Andre' Walker-Loud walksl...@gmail.com
wrote:
Hi Goyo,
2012/6/19 Andre' Walker-Loud walksl...@gmail.com:
But my plots still vanish as soon as the script is done :
That's to be expected. You can make the script not to end until the
user ask for it explicitly:
raw_input('Press Enter when you are done')
If this is expected - it is a new feature.
My understanding was that changing
interactive : True
in the matplotlibrc file, then the plots would not vanish until explicitly
closed by the user.
Is my understanding incorrect?
Thanks,
Andre
That is correct. If you have a call to show(), then the script should not
finish on their own until the windows are closed -- regardless of whether or
not interactive is True or False. The interactive setting should only
dictate whether or not the script execution pauses or not at the call to
show(). Have you tried a different backend as a temporary work-around such
as QTAgg, QT4Agg, GTKAgg, TkAgg?
This behavior is observed with both TkAgg and MacOSX.
I don't have pygtk or pyqt installed, so couldn't test the others.
Andre
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Re: [Matplotlib-users] where did my plots go?
If this is expected - it is a new feature. My understanding was that changing interactive : True in the matplotlibrc file, then the plots would not vanish until explicitly closed by the user. Is my understanding incorrect? Thanks, Andre That is correct. If you have a call to show(), then the script should not finish on their own until the windows are closed -- regardless of whether or not interactive is True or False. The interactive setting should only dictate whether or not the script execution pauses or not at the call to show(). Have you tried a different backend as a temporary work-around such as QTAgg, QT4Agg, GTKAgg, TkAgg? This behavior is observed with both TkAgg and MacOSX. I don't have pygtk or pyqt installed, so couldn't test the others. In case it matters, I am using the i386 installation and not the x86_64. I have more info - which may be helpful. Inspired by a related thread - which Goyo just answered, I tried the following import matplotlib.pyplot as plt plt.plot([1.6, 2.7]) In an interactive python session (also in ipython), this produced the plot, and it stayed up until I closed it. I converted it to a little script === #!/Library/Frameworks/Python.framework/Versions/Current/bin/python import matplotlib.pyplot as plt plt.plot([1.6, 2.7]) print plt.get_backend() plt.show() === this prints to screen TkAgg, but the plot disappears as soon as the script finishes. Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] where did my plots go?
Hi Goyo, That is correct. If you have a call to show(), then the script should not finish on their own until the windows are closed -- regardless of whether or not interactive is True or False. The interactive setting should only dictate whether or not the script execution pauses or not at the call to show(). Then the script is supposed to keep itself alive, after executing the last statment, until the plot windows are closed? Does not work that way for me (tkagg, qt4agg and gtk*) and I wouldn't expect that. Yes, this is how things used to work on my mac (1 week ago). After upgrade, no longer works this way. Reverting to old compilation - still no longer works. BTW this may be better than using raw_input: import matplotlib.pyplot as plt plt.ion() plt.plot([1.6, 2.7]) # The plot windows shows up. # Do stuff, even user interaction, more plots, etc. # ... # Wait until all plot windows are closed. plt.ioff() plt.show() This reproduces (as far as I can tell) the exact behavior I used to have. Interesting to note. If I have interactive : True in my matplotlibrc file, and then import matplotlib.pyplot as plt # do everything I used to do # including call functions that do other plots etc. plt.ioff() plt.show() this also produces the above behavior (what used to work). So, if I am in interactive mode, then matplotlibrc opens and closes the figures for me. However, if after making all my plots, just before calling plt.show(), I turn off interactive mode, then the plots stay open. This does not follow the logic I would expect - ie interactive means I would have to close the figures interactively. But it gives the behavior I have come to expect. Now back to my other problems (I'll start a new thread). Cheers, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] where did my plots go?
Hi All, I have mac os x, 10.6.8, enthought distribution. I recently upgraded from the 6.2 to 7.3 EPD. Previously, I had a script which would manipulate some data, and as soon as the command plt.figure() was issued, the plot would show up. I could then continue along with the analysis (I wrote an interactive script) and plots would be updated, and new plots would show up (when I issued a command like re-sizing the plot limits. This no longer happens, and now the plots are not drawn until the very end of all the analysis. But of course this defeats the purpose of having an interactive analysis session. I do have plt.show() at the very end of the script. In case it may matter, my main script loads another one as a module. (But this is how it was before when it worked). I am not sure what has caused this to change. I have tried the follwing - restart computer in case there were just some gui problem - re-install the EPD 7.3 and EPD 6.2 (in that order) - use the older 6.2 installation to run the script all of these fail to produce the behavior I previously had. It would be great to sort this out. Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] where did my plots go?
Most likely, there was a change to your matplotlibrc file. There is a setting in there for interactive and by default, it is set to False. If you uncomment it and set it to True, you should get back the behavior you expected. You can also explicitly set the interactive mode to True from your scripts with a plt.ion() call before loading your other modules. I hope that helps! Yes!!! I don't recall changing that before (but that was 2+ years ago), so I didn't think to look for such a thing. My google searches were also not precise enough. So very helpful. I expected it was something simple like this, thanks. Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] another mac os matplotlib question
Hi All, A few more issues have come up for me with matplotlib in an EPD upgrade. mac os X 10.6.8, EPD 7.3 (python 2.7, matplotlib 1.1.0) 1) After my code generates a plot (at the moment, not sure if it is a specific plot or all plots), it gives me a long list of the repeated error Python[10440] Error: CGContextClosePath: no current point. It gives so many, it ruins the point of my interactive analysis session, as it pushes the raw_input queries I am using so far up my terminal screen, it is hard to make progress in the analysis work. Hoping someone else has seen this and has an idea where to look for the problem (or knows the answer). 2) and 3) Two warnings show up which didn't previously /Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/matplotlib/__init__.py:395: UserWarning: matplotlibrc text.usetex option can not be used unless TeX-3.1415 or later is installed on your system 'installed on your system') % tex_req) /Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/matplotlib/__init__.py:401: UserWarning: matplotlibrc text.usetex can not be used with *Agg backend unless dvipng-1.5 or later is installed on your system warnings.warn( 'matplotlibrc text.usetex can not be used with *Agg ' I tried looking for where matplotlib points to the TeX distribution. I have used TeXShop for years and never had a problem. Also - previously on EPD 6.3, I did not get this warning, and all my fonts rendered correctly. I should say, it appears they still render correctly, but if I can point it to my TeXShop build instead of texmf that would be nice. I have my backend set to MacOSX, so I don't understand why I get the second error message. I tried reverting back to my 6.3 build, but that is now buggy and doesn't render fonts correctly. It is having trouble with the ticks and ticklabels, and gives a long list of errors. At the moment, if I can get the 7.3 build working, I can happily ignore my issues in 6.3. Thanks, Andre -- Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib installation and ?'s
Hi William,
There is a company, Enthought, which offers a free package installer, which
comes with 6 essential python libraries, including matplotlib.
http://www.enthought.com/products/epd_free.php
If you have an edu email account (you are an academic, or do academic
research at a gov lab, like LBL) you can download their full set of libraries
http://www.enthought.com/products/edudownload.php
If not, and you think it is worth it (or can get your company to pay), starting
at $199 you can download their package installer (and get their tech support).
Couple words about them: I have no affiliation with them. Some of their
original employees were deeply involved in numpy. They developed a 3D plotting
library, Mayavi, which is pretty cool.
I am reasonably comfortable with my mac, installing src code etc. I used to
install everything myself (back on OS X Tiger). Then, when I upgraded to Snow
Leopard, I couldn't get it all to work out - I did an account migration from
old to new, and then there were some issues (I think) relating to the 32 vs 64
bit compatibility that I couldn't resolve. I went to a friend who is good with
computers to get help - he said You should just use the Enthought installer -
its so easy, that is what I do. That helped me get over feeling like I had to
do it all myself. (Of course some day, when I have heaps of free time and no
pressure from work, I will sort out how to do it all myself again)
I am guessing if you want to link numpy against the full BLAS/LAPACK libraries
for optimal speed on matrix manipulation etc, then you may need to do the
installation yourself, including all the fortran libraries. But at least with
their package installer, it should work out of the box. Also, it installs the
whole suite as a Framework in /Library/Frameworks/Python.framework/Versions/
with a cleverly chosen Version so as not to mesh with your own installation.
So you can install there version, based on 2.7 and your own version 2.7 and
they won't interfere. You'll just have to relink the /usr/bin/python and
/usr/local/bin/python to which version you want.
Good luck,
Andre
On Feb 20, 2012, at 9:07 PM, William Jennings wrote:
Hello mat plot lib users!
I feel quite embarrassed that I’ve gone through 2 days of trying to get to
get numpy, scipy and matplotlib all to work nice with each other. I’ve
scraped through forums, stackoverflow and all the links that can bide me some
type of logic. Yet, alas I still fail wildly with this set of errors:
my current status is: just did a fresh install of my lion os and haven't
installed Xcode yet. I'm a little lost and have found only macports, homebrew
guides online only to be a slower failure. I really need to use this software
but I'm finding it difficult keeping straight what order and what I need to
install. Is it best to have python 2.6 or 2.72? if it's 2.72 should it be the
universal version from python.org? Once that is installed is it best to just
install numpy and scipy from github and then try matplotlib? I know I need to
install fortran and make sure that it's using G++ 4.2 and C++ 4.2 BEFORE i
run scipy and numpy setup... Yet, right now I'm floundering for a clear
example on 10 or so commands I should put into terminal and in the correct
order for how to install it. I promise once I learn how to install I'll put a
resource on the web or link back to some of the better resources. As for now
my freshly installed os computer is in your hands currently with python 2.71
that was preinstalled with Lion. That is all I've done thus far.
Thank you !
Here is the old error I was getting when I used the home brew guide that I
found here: bit.ly/qGdKy9
In file included from src/backend_agg.cpp:11:
In file included from src/_backend_agg.h:34:
agg24/include/agg_renderer_outline_aa.h:1368:45: error: binding of reference
to type ‘agg::line_profile_aa’ to a value of type ‘const
agg::line_profile_aa’ drops qualifiers
line_profile_aa profile() { return *m_profile; }
^~
1 error generated.
error: command ‘/usr/bin/clang’ failed with exit status 1
—-
Command /Users/Will/.virtualenvs/test1/bin/python -c “import
setuptools;file=’/Users/Will/.virtualenvs/test1/src/matplotlib/setup.py’;
exec(compile(open(file).read().replace(‘\r\n’, ‘\n’), file, ‘exec’))” develop
–no-deps failed with error code 1 in
/Users/Will/.virtualenvs/test1/src/matplotlib
Storing complete log in /Users/Will/.pip/pip.log
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[Matplotlib-users] matplotlib 0.99.3 -- 1.0.1 plotting error
Hi All, I recently upgraded my python packages through Enthought. I have a mac osx 10.6.8 Previous versions: python 2.6, matplotlib 0.99.3 (Enthought 6.2) New versions: python 2.7, matplotlib 1.0.1 (Enthought 7.1) I am using the macosx backend. I have some functions I wrote which analyze data. They previously worked with no error. Now I get a weird error I am not sure how to sort out yet: Python[47092] Error: CGContextClosePath: no current point. I believe this is a matplotlib issue as searching for CGContextClosePath returns errors regarding drawing lines. I should add that my scripts still run, and the plots are still drawn, but I get a dump of error messages like this in my output. Any ideas what is going on? Thanks, Andre -- All the data continuously generated in your IT infrastructure contains a definitive record of customers, application performance, security threats, fraudulent activity and more. Splunk takes this data and makes sense of it. Business sense. IT sense. Common sense. http://p.sf.net/sfu/splunk-d2dcopy1 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Bug in scatter
I agree that this is a bug. (I suspect it is a malign side-effect of some attempt to make bar plots work with a log scale, but I haven't tracked it down.) What is less clear is the desired behavior. Raise an exception? Silently delete the points that are invalid with a log scale? Or delete them with a warning? I would delete them with a warning. Those who are familiar with logs will not be surprised. Those who are not familiar will be provided an opportunity to learn something new! Andre Eric thanks a lot, richard The verbose output: $HOME=/Users/richard CONFIGDIR=/Users/richard/.matplotlib matplotlib data path /Library/Frameworks/EPD64.framework/Versions/7.0/lib/python2.7/site-packages/matplotlib/mpl-data loaded rc file /Library/Frameworks/EPD64.framework/Versions/7.0/lib/python2.7/site-packages/matplotlib/mpl-data/matplotlibrc matplotlib version 1.0.1 verbose.level helpful interactive is False units is False platform is darwin Using fontManager instance from /Users/richard/.matplotlib/fontList.cache backend MacOSX version unknown 1.0.1 The resulting figure: -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] errorbar plot with different markers
Hi All, A question for a possible new feature for Matplotlib. First, in case there is a way to do it currently: I often find myself plotting data with errorbars, and I would like to be able to modify the marker, or marker size of each individual point separately. A (seemingly to me) natural way to do this would allow marker markersize markerfacecolor markeredgecolor etc accept arrays, as well as a single kwarg. As far as I can tell, if I have a set of data, and I want to make the markers with different sizes, the only way to do this is have a loop that calls each data point individually and assigns the marker features. 1 - am I mistaken? and if so, could someone instruct me how to achieve my goal 2 - does anyone else find this feature desirable? If so, could this be added to Matplotlib? I have not the coding experience to attempt this myself - but I imagine the simplest thing to do would be check if the marker, ms, etc are given single kwargs, or arrays. If single, everything happens as now. If array, then check the len of the array against the len of the data, and if the same, match the entries. Thanks, Andre -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] tick sizes
Hi All, I am trying to modify tick sizes and labels. Reading documents and examples, I have found an easy way to modify the labels, import matplotlib.pyplot as plt ax = plt.axes() font_size = 24 plt.setp(ax.get_xticklabels(),fontsize=font_size) but I am struggling to find such a nice solution for the tick size. I would like to change the size of the major and minor ticks independently. But the best I have come up with so far is a brute force double loop (I tried calling major=False but major is not a recognized kwarg) for tick in ax.xaxis.get_ticklines(minor=True): tick.set_markersize(5) for tick in ax.xaxis.get_ticklines(minor=False): tick.set_markersize(10) I assume there is some nice solution like for the tick labels, but I have not found it. Anyone figured this one out yet? Thanks, Andre -- Got Input? Slashdot Needs You. Take our quick survey online. Come on, we don't ask for help often. Plus, you'll get a chance to win $100 to spend on ThinkGeek. http://p.sf.net/sfu/slashdot-survey ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] tick sizes
Hi Ben,
Would you expect this to work on Matplotlib 0.99.3?
I get the following error
AttributeError: 'XAxis' object has no attribute 'set_tick_params'
Thanks,
Andre
On Jul 28, 2011, at 12:18 PM, Ben Breslauer wrote:
Hi Andre,
You should be able to set the size with the following:
params = {'length': 10}
axis = plt.axes().xaxis
axis.set_tick_params(which='major', **params)
You can also use 'minor' instead of 'major' to set the minor ticks. There
are a number of different valid values for the params dict, including
direction, width, and color.
Ben
On Thu, Jul 28, 2011 at 2:22 PM, Andre' Walker-Loud walksl...@gmail.com
wrote:
Hi All,
I am trying to modify tick sizes and labels. Reading documents and examples,
I have found an easy way to modify the labels,
import matplotlib.pyplot as plt
ax = plt.axes()
font_size = 24
plt.setp(ax.get_xticklabels(),fontsize=font_size)
but I am struggling to find such a nice solution for the tick size. I would
like to change the size of the major and minor ticks independently. But the
best I have come up with so far is a brute force double loop (I tried calling
major=False but major is not a recognized kwarg)
for tick in ax.xaxis.get_ticklines(minor=True):
tick.set_markersize(5)
for tick in ax.xaxis.get_ticklines(minor=False):
tick.set_markersize(10)
I assume there is some nice solution like for the tick labels, but I have not
found it.
Anyone figured this one out yet?
Thanks,
Andre
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Re: [Matplotlib-users] tick sizes
well I knew there was a better solution, thanks.
I guess I'll just have to upgrade my installation.
Andre
On Jul 28, 2011, at 12:44 PM, Ben Breslauer wrote:
Hmm, no, it looks like the tick_params were added in 1.0. I can also get it
to work using
plt.setp(ax.xaxis.get_ticklines(minor=False), markersize=10)
but I'm using matplotlib 1.0.1. I'm not sure if neither of those solutions
work.
Ben
On Thu, Jul 28, 2011 at 3:30 PM, Andre' Walker-Loud walksl...@gmail.com
wrote:
Hi Ben,
Would you expect this to work on Matplotlib 0.99.3?
I get the following error
AttributeError: 'XAxis' object has no attribute 'set_tick_params'
Thanks,
Andre
On Jul 28, 2011, at 12:18 PM, Ben Breslauer wrote:
Hi Andre,
You should be able to set the size with the following:
params = {'length': 10}
axis = plt.axes().xaxis
axis.set_tick_params(which='major', **params)
You can also use 'minor' instead of 'major' to set the minor ticks. There
are a number of different valid values for the params dict, including
direction, width, and color.
Ben
On Thu, Jul 28, 2011 at 2:22 PM, Andre' Walker-Loud walksl...@gmail.com
wrote:
Hi All,
I am trying to modify tick sizes and labels. Reading documents and
examples, I have found an easy way to modify the labels,
import matplotlib.pyplot as plt
ax = plt.axes()
font_size = 24
plt.setp(ax.get_xticklabels(),fontsize=font_size)
but I am struggling to find such a nice solution for the tick size. I would
like to change the size of the major and minor ticks independently. But the
best I have come up with so far is a brute force double loop (I tried
calling major=False but major is not a recognized kwarg)
for tick in ax.xaxis.get_ticklines(minor=True):
tick.set_markersize(5)
for tick in ax.xaxis.get_ticklines(minor=False):
tick.set_markersize(10)
I assume there is some nice solution like for the tick labels, but I have
not found it.
Anyone figured this one out yet?
Thanks,
Andre
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Re: [Matplotlib-users] LaTeX matplotlib Bug?
Hi Sean, I just checked - the hyphenation you want does not work in LaTeX in math mode. Try removing the $-signs in your string command. Then the hyphenation should work. Andre On Apr 5, 2011, at 4:56 PM, Sean Lake wrote: Hello all, I'm trying to specify a range of numbers in a particular legend using LaTeX. In order to do so I'm feeding it the string: r$80--120. The output should be have an endash, 80–120, but I'm getting 80--120. This is a standard feature of LaTeX ( http://en.wikibooks.org/wiki/LaTeX/Formatting ), so I don't know what's going on. Thanks, Sean Lake uname -a Darwin dynamic_051.astro.ucla.edu 10.7.0 Darwin Kernel Version 10.7.0: Sat Jan 29 15:17:16 PST 2011; root:xnu-1504.9.37~1/RELEASE_I386 i386 (You also have a bug on this web page: http://matplotlib.sourceforge.net/faq/troubleshooting_faq.html#reporting-problems , The line python -c `import matplotlib; print matplotlib.__version__` should not have back-ticks) /sw/bin/python2.6 -c 'import matplotlib; print matplotlib.__version__' 1.0.0 Got matplotlib via fink: fink --version Package manager version: 0.29.21 Distribution version: selfupdate-rsync Sun Apr 3 02:28:24 2011, 10.6, x86_64 Trees: local/main stable/main stable/crypto unstable/main unstable/crypto matplotlibrc file: text.usetex : True #backend : MacOSX backend : GTKAgg #backend : ps #backend : pdf -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] LaTeX matplotlib Bug?
you appear to have another typo. Gary Ruben found the actual bug: math mode doesn't support --. Gary Ruben -- Andre Walker-Loud :) On Apr 5, 2011, at 5:15 PM, Sean Lake wrote: Ah, sorry about that. In the script I was using it had the closing $. In spite of the typo, Gary Ruben found the actual bug: math mode doesn't support --. Thanks, Sean On Apr 5, 2011, at 17:08, gary ruben wrote: Um, how about r$80--120$ instead of r$80--120 ? On Wed, Apr 6, 2011 at 9:56 AM, Sean Lake odysseus9...@gmail.com wrote: Hello all, I'm trying to specify a range of numbers in a particular legend using LaTeX. In order to do so I'm feeding it the string: r$80--120. The output should be have an endash, 80–120, but I'm getting 80--120. This is a standard feature of LaTeX ( http://en.wikibooks.org/wiki/LaTeX/Formatting ), so I don't know what's going on. Thanks, Sean Lake uname -a Darwin dynamic_051.astro.ucla.edu 10.7.0 Darwin Kernel Version 10.7.0: Sat Jan 29 15:17:16 PST 2011; root:xnu-1504.9.37~1/RELEASE_I386 i386 (You also have a bug on this web page: http://matplotlib.sourceforge.net/faq/troubleshooting_faq.html#reporting-problems , The line python -c `import matplotlib; print matplotlib.__version__` should not have back-ticks) /sw/bin/python2.6 -c 'import matplotlib; print matplotlib.__version__' 1.0.0 Got matplotlib via fink: fink --version Package manager version: 0.29.21 Distribution version: selfupdate-rsync Sun Apr 3 02:28:24 2011, 10.6, x86_64 Trees: local/main stable/main stable/crypto unstable/main unstable/crypto matplotlibrc file: text.usetex : True #backend : MacOSX backend : GTKAgg #backend : ps #backend : pdf -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] LaTeX matplotlib Bug?
On Apr 5, 2011, at 5:51 PM, Jae-Joon Lee wrote: On Wed, Apr 6, 2011 at 9:15 AM, Sean Lake odysseus9...@gmail.com wrote: Gary Ruben found the actual bug: math mode doesn't support --. Just to clarify, in latex math mode, $-$ is - (minus sign) and $--$ is --. And this is not a bug. -JJ Yes. That is correct. Andre -- Xperia(TM) PLAY It's a major breakthrough. An authentic gaming smartphone on the nation's most reliable network. And it wants your games. http://p.sf.net/sfu/verizon-sfdev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Access to contents of bins of a matplotlib histogram
Hi Chris,
I think I understand what you are asking. I think the key point is I have used
np.histogram where you are using np.hist
When I make my plots, I use np.hist, but then to access the data, I use
np.histogram.
Just to demonstrate, incase this is not what you want, I have found, if I
create a bin
bin =
np.histogram(binData,range=(ymin,ymax),weights=binQ,bins=np.arange(ymin,ymax,dm0/4))
where
ind = np.argsort(my_data) # list to order the data from low to high
binDat = my_data[ind]
binQ = weights[ind] / np.sum(weights) #ordered list of weight factors
for the data (for a weighted distribution. example, if you have data with
uncertainties, the weights are given by the inverse uncertainties)
and ymin, ymax and dm0 are params I have specified (based on the data) to set
the bin size and range of bins
The pdf, in this case, is given by pdf[i] = binQ[i].
I can then access this with
bin[0][i] #this is the i'th weight (the pdf at i)
also, the data (the x values) can be accessed by
bin[1][i]
At the very least, this gives a poor-working man's solution. I couldn't figure
out how to get it from np.hist.
Andre
On Mar 24, 2011, at 8:47 PM, Chris Edwards wrote:
Hi,
I would like to access values in the bins of a matplotlib histogram. The
following example script is an attempt to do this. Clearly pdf contains
floating point numbers, but I am unable to access them.
Help with this problem would be much appreciated.
Chris
--
import numpy as np
import matplotlib.pyplot as plt
fig = plt.figure()
ax = fig.add_subplot(111)
mu, sigma = 100, 15
x = mu + sigma * np.random.randn(20)
#Generate the histogram of the data. Example from Matplotlib documentation
n, bins, patches = plt.hist(x, 50, normed=True, facecolor='g', alpha=0.75)
plt.xlabel('Smarts')
plt.ylabel('Probability')
plt.title('Histogram of IQ')
plt.text(60, .025, r'$\mu=100,\ \sigma=15$')
plt.axis([40, 160, 0, 0.03])
plt.grid(True)
#From Matplotlib documentation.
#normed: If True, the first element of the return tuple will be the counts
normalized
#to form a probability density, i.e., n/(len(x)*dbin). In a probability
density,
#the integral of the histogram should be 1; you can verify that with a
trapezoidal
#integration of the probability density function.
pdf, bins, patches = ax.hist(x, 50, normed=True, facecolor='g', alpha=0.75)
#print pdf shows pdf contains the value in each bin of the normed histogram
print pdf = , pdf
print Integration of PDF = , np.sum(pdf * np.diff(bins))
#How to access values in pdf? Various tries made but none successful. Example
attempt shown
count=0
for line in open(pdf,'r+'):
x=pdf.readline()
z=('%.10f' % float(x))
count=count+1
print count = , count
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[Matplotlib-users] matplotlib figures missing text
Hi All, I am having two slight irritating issues making figures with matplotlib (and have not found a solution with Google) I am running the Enthought 6.2 distribution (python 2.6, matplotlib 0.99.3, ipython 0.10, ...) which is installed as a Framework on a Mac OSX 10.6 platform. I currently am using (matplotlibrc file) backend : macosx (I find the same issues with WXAgg and TkAgg as well) ... text.usetex : true #use latex for all text handling Both problems began with my Enthought distribution (but for reasons I will spare you, I don't want to switch to a different installation if possible, except upgrade Enthought). Problem 1: With all my old installations, which existed on previous Mac OSX version (10.5), I did not need to set text.usetex : true #use latex for all text handling My text rendering worked fine. But with the Enthought version, for some reason, I got fatal errors. So I switched to having latex render all text. This wasn't a big deal, and it has been a while, so I don't have the error logs anymore. Just wondering if anyone else experienced this, and understands why? Problem 2: (I believe unrelated to 1) I use the annotate command to add text to my figures, displaying analysis results. Frequently, when I save the figure as a PDF, these annotated texts do not appear in the saved PDF. I find that if I fiddle with the matplotlib gui figure-window, adjusting the size on my screen, then I can eventually get the saved PDF to contain this text. But this gets very annoying quickly, as almost never is the default size the one needed to properly capture the text in the saved figure, and it requires lots of fine-tuning with trial and error. If I instead save as PNG, I almost never have this problem (maybe never). Infrequently, the text doesn't even display in the gui window, until I fiddle with the size of the window. In both cases, NO errors are produced. My script which does the analysis and produces the figures uses from pylab import * but otherwise no * imports. My old Fink installation doesn't have this problem - but it was moved from my old Mac OSX 10.5 system, and there are some issues with the upgrade to Mac OSX 10.6, which lead me to need to just re-install everything fresh on the 10.6 OS. I am not sure if this problem is specific to Enthought's distribution (the latex tex rendering problem made me suspect this) or is just some bizarre Mac problem or ??? So, does anyone out there have the same or similar problem? And better yet, understand why and how to fix? Thanks, Andre -- Enable your software for Intel(R) Active Management Technology to meet the growing manageability and security demands of your customers. Businesses are taking advantage of Intel(R) vPro (TM) technology - will your software be a part of the solution? Download the Intel(R) Manageability Checker today! http://p.sf.net/sfu/intel-dev2devmar ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib figures missing text
Hi Michael, In both cases, I was first hoping someone else has experienced this problem, to know I am not alone in the universe. But since you asked, I am using the macosx backend - but find the same problem also with WXAgg and TkAgg. When you mention included examples, I do not find any in my /Library/Frameworks/Python.framework/Versions/6.2/lib/python2.6/site-packages/matplotlib/mpl-data/example/ folder. Do you mean ones I find on the web at the matplotlib site? Thanks, Andre On Mar 24, 2011, at 4:31 PM, Michael Droettboom wrote: On 03/24/2011 09:35 AM, Andre' Walker-Loud wrote: Hi All, I am having two slight irritating issues making figures with matplotlib (and have not found a solution with Google) I am running the Enthought 6.2 distribution (python 2.6, matplotlib 0.99.3, ipython 0.10, ...) which is installed as a Framework on a Mac OSX 10.6 platform. I currently am using (matplotlibrc file) backend : macosx (I find the same issues with WXAgg and TkAgg as well) ... text.usetex : true #use latex for all text handling Both problems began with my Enthought distribution (but for reasons I will spare you, I don't want to switch to a different installation if possible, except upgrade Enthought). Problem 1: With all my old installations, which existed on previous Mac OSX version (10.5), I did not need to set text.usetex : true #use latex for all text handling My text rendering worked fine. But with the Enthought version, for some reason, I got fatal errors. So I switched to having latex render all text. This wasn't a big deal, and it has been a while, so I don't have the error logs anymore. Just wondering if anyone else experienced this, and understands why? Without seeing the content of the error, it's very hard to say why it might be failing. Can you set text.usetex back to False and send us the error output? Problem 2: (I believe unrelated to 1) I use the annotate command to add text to my figures, displaying analysis results. Frequently, when I save the figure as a PDF, these annotated texts do not appear in the saved PDF. I find that if I fiddle with the matplotlib gui figure-window, adjusting the size on my screen, then I can eventually get the saved PDF to contain this text. But this gets very annoying quickly, as almost never is the default size the one needed to properly capture the text in the saved figure, and it requires lots of fine-tuning with trial and error. If I instead save as PNG, I almost never have this problem (maybe never). Infrequently, the text doesn't even display in the gui window, until I fiddle with the size of the window. In both cases, NO errors are produced. My script which does the analysis and produces the figures uses from pylab import * but otherwise no * imports. My old Fink installation doesn't have this problem - but it was moved from my old Mac OSX 10.5 system, and there are some issues with the upgrade to Mac OSX 10.6, which lead me to need to just re-install everything fresh on the 10.6 OS. I am not sure if this problem is specific to Enthought's distribution (the latex tex rendering problem made me suspect this) or is just some bizarre Mac problem or ??? So, does anyone out there have the same or similar problem? And better yet, understand why and how to fix? Which backend are you using? Can you provide a standalone plot that produces the error? Do any of the included examples (particularly those related to annotate) fail for you? Mike From: Andre' Walker-Loud [walksl...@gmail.com] Sent: Thursday, March 24, 2011 12:35 PM To: Matplotlib Users Subject: [Matplotlib-users] matplotlib figures missing text Hi All, I am having two slight irritating issues making figures with matplotlib (and have not found a solution with Google) I am running the Enthought 6.2 distribution (python 2.6, matplotlib 0.99.3, ipython 0.10, ...) which is installed as a Framework on a Mac OSX 10.6 platform. I currently am using (matplotlibrc file) backend : macosx (I find the same issues with WXAgg and TkAgg as well) ... text.usetex : true #use latex for all text handling Both problems began with my Enthought distribution (but for reasons I will spare you, I don't want to switch to a different installation if possible, except upgrade Enthought). Problem 1: With all my old installations, which existed on previous Mac OSX version (10.5), I did not need to set text.usetex : true #use latex for all text handling My text rendering worked fine. But with the Enthought version, for some reason, I got fatal errors. So I switched to having latex render all text. This wasn't a big deal, and it has been a while, so I don't have the error logs anymore. Just wondering if anyone else experienced
Re: [Matplotlib-users] Math fonts not working after upgrading to MPL 1.0
It may not be an MPL issue, but rather Snow Leopard. I have a friend who had font troubles, but it was because Mac OSX 10.6 (Snow Leopard) changed the way fonts are handled. He had a file in his home directory (which he created on 10.5) which had some font specifications, which he had to alter/remove to fix his trouble. I can't remember any more details, but thought I would share in case this helps. Andre On Sep 8, 2010, at 8:56 AM, Jeremy Conlin wrote: I have trouble getting any symbols or any super/sub scripts to work since I upgraded to 1.0 a few months ago. I always get a message saying that some font isn't found. This occurs whenever I try to put symbols, superscripts, or subscripts in a label, or when I use a log scale (because then it MPL has to use superscripts). I have tried changing my matplotlibrc file but haven't found any combination of settings that help. To illustrate the problem, I have included three files, one python file and the other the error as captured from the output as well as my matplotlibrc file. The python file is trivial: # - import matplotlib.pyplot as pyplot pyplot.plot([1,2,3], label='$\alpha \beta$') pyplot.legend() pyplot.show() # - Can someone please help me figure out what is wrong? I'm on a Mac running 10.6, python 2.6, matplotlib 1.0, and I have TeX installed. Thanks, Jeremy mathfonterror .txt mathfont .py matplotlibrc -- This SF.net Dev2Dev email is sponsored by: Show off your parallel programming skills. Enter the Intel(R) Threading Challenge 2010. http://p.sf.net/sfu/intel-thread-sfd___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Start uncovering the many advantages of virtual appliances and start using them to simplify application deployment and accelerate your shift to cloud computing http://p.sf.net/sfu/novell-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Math fonts not working after upgrading to MPL 1.0
It may not be an MPL issue, but rather Snow Leopard. I have a friend who had font troubles, but it was because Mac OSX 10.6 (Snow Leopard) changed the way fonts are handled. He had a file in his home directory (which he created on 10.5) which had some font specifications, which he had to alter/remove to fix his trouble. I can't remember any more details, but thought I would share in case this helps. Andre On Wed, Sep 8, 2010 at 8:56 AM, Jeremy Conlin jlcon...@gmail.com wrote: I have trouble getting any symbols or any super/sub scripts to work since I upgraded to 1.0 a few months ago. I always get a message saying that some font isn't found. This occurs whenever I try to put symbols, superscripts, or subscripts in a label, or when I use a log scale (because then it MPL has to use superscripts). I have tried changing my matplotlibrc file but haven't found any combination of settings that help. To illustrate the problem, I have included three files, one python file and the other the error as captured from the output as well as my matplotlibrc file. The python file is trivial: # - import matplotlib.pyplot as pyplot pyplot.plot([1,2,3], label='$\alpha \beta$') pyplot.legend() pyplot.show() # - Can someone please help me figure out what is wrong? I'm on a Mac running 10.6, python 2.6, matplotlib 1.0, and I have TeX installed. Thanks, Jeremy -- This SF.net Dev2Dev email is sponsored by: Show off your parallel programming skills. Enter the Intel(R) Threading Challenge 2010. http://p.sf.net/sfu/intel-thread-sfd ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net Dev2Dev email is sponsored by: Show off your parallel programming skills. Enter the Intel(R) Threading Challenge 2010. http://p.sf.net/sfu/intel-thread-sfd___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] setting scientific number notation on colorbar
Hi Thanks for the answer, actually, I always use show and plot, I have no clue how to use the functions you suggested ... I'll look into it. Do you have an idea where I can find a description of the keyword format '%.3f' is nice, but still not scientific format... you can use '%.3e' for scientific format. Cheers, Andre is this like Fortran? On Mon, May 31, 2010 at 5:41 PM, Benjamin Root ben.r...@ou.edu wrote: Oz, Some plotting functions like pcolor and imshow have keyword args for vmin/vmax where you can explicitly set the min and maximum values for the colorscale. There are some more complicated things you can do with the colormap that are more generic to all plotting functions as well, but I would see if using vmin and vmax does the trick for you. Ben Root On Mon, May 31, 2010 at 7:25 PM, Oz Nahum nahu...@gmail.com wrote: found a solution after 2 hours ... colorbar(ax=ax1, orientation='horizontal',format='%.3f') now, I need to know how to set up limits for all the images which are exactly the same limits. So far I'm failing with the use of boundaries Would be happy to know -- Oz Nahum Graduate Student Zentrum für Angewandte Geologie Universität Tübingen --- Imagine there's no countries it isn't hard to do Nothing to kill or die for And no religion too Imagine all the people Living life in peace -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Oz Nahum Graduate Student Zentrum für Angewandte Geologie Universität Tübingen --- Imagine there's no countries it isn't hard to do Nothing to kill or die for And no religion too Imagine all the people Living life in peace -- ___ 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] setting scientific number notation on colorbar
Hi Oz, Sorry, I am not familiar with what you are trying to do with your plots. Everything I have learned is from trial and error, the gallery page http://matplotlib.sourceforge.net/gallery.html and the user manual http://matplotlib.sourceforge.net/contents.html Good luck, Andre On May 31, 2010, at 8:56 PM, Oz Nahum wrote: hi andre, thanks for your reply, do you know where I can find more documentation about this ? Thanks, On Mon, May 31, 2010 at 5:55 PM, Andre Walker-Loud walksl...@gmail.com wrote: Hi Thanks for the answer, actually, I always use show and plot, I have no clue how to use the functions you suggested ... I'll look into it. Do you have an idea where I can find a description of the keyword format '%.3f' is nice, but still not scientific format... you can use '%.3e' for scientific format. Cheers, Andre is this like Fortran? On Mon, May 31, 2010 at 5:41 PM, Benjamin Root ben.r...@ou.edu wrote: Oz, Some plotting functions like pcolor and imshow have keyword args for vmin/vmax where you can explicitly set the min and maximum values for the colorscale. There are some more complicated things you can do with the colormap that are more generic to all plotting functions as well, but I would see if using vmin and vmax does the trick for you. Ben Root On Mon, May 31, 2010 at 7:25 PM, Oz Nahum nahu...@gmail.com wrote: found a solution after 2 hours ... colorbar(ax=ax1, orientation='horizontal',format='%.3f') now, I need to know how to set up limits for all the images which are exactly the same limits. So far I'm failing with the use of boundaries Would be happy to know -- Oz Nahum Graduate Student Zentrum für Angewandte Geologie Universität Tübingen --- Imagine there's no countries it isn't hard to do Nothing to kill or die for And no religion too Imagine all the people Living life in peace -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Oz Nahum Graduate Student Zentrum für Angewandte Geologie Universität Tübingen --- Imagine there's no countries it isn't hard to do Nothing to kill or die for And no religion too Imagine all the people Living life in peace -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Oz Nahum Graduate Student Zentrum für Angewandte Geologie Universität Tübingen --- Imagine there's no countries it isn't hard to do Nothing to kill or die for And no religion too Imagine all the people Living life in peace -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Adding a plot within a plot
Hi Nathan, It sounds like this example is what you want http://matplotlib.sourceforge.net/examples/pylab_examples/axes_demo.html Cheers, Andre On Mar 15, 2010, at 7:44 AM, Nathan Harmston wrote: Hi everyone, I've been trying (with no luck) to add a plot inside a plot, like this (apologies for the ascii art), the smaller box represents the plot I want to add. The thing I know it doesnt want to be a subplot and I can't find an example of this plot in the gallery. It is possible in R with some hackingand I'm hoping its possible in matplotlib. | _ | || | || | || | | | | -- Any ideas on how to do this? I m guessing/hoping someone must have done it before? Many thanks in advance Nathan -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] figure save problem
Hi All, An update: I have likely figured out the problem. When I did a fresh install of Python-2.6 on my mac, I simply used ./configure and reading more about installing on the mac, I believe I should have used ./configure --enable-framework to support all the GUI stuff. Well, I tried this, but got the warning, Failed to find the necessary bits to build these modules: _bsddb gdbm linuxaudiodev ossaudiodevreadline spwd sunaudiodev so, instead of trying to track down the solution to this problem (I am still new at learning how to properly install software from binaries) I just grabbed the latest python-2.6 .dmg file for mac, and installed with that. Now, everything seems to work fine. :) Cheers, Andre On Mar 11, 2010, at 4:56 PM, James Boyle wrote: I have the same problem with nearly identical setup: OS X 10.5.8 - intel matplotlib 99.1.1 python 2.6.1 ipython 0.9.1 numpy-1.3.0 --Jim On Mar 11, 2010, at 1:31 PM, Andre Walker-Loud wrote: Hi All, I am having a problem saving figures produced with matplotlib. Right now, I am running a freshly built matplotlib-0.99.1.2 (unzipped, the directory reads 0.99.1.1?) built on python-2.6 numpy-1.3.0 scipy-0.7.1 ipython-0.10 All on an OSX 10.5 intel. When I try to save a figure, in the Save the figure dialogue box, the Save As: window does not recognize any keyboard entries. If I copy and paste, that works (at first). But I remembered reading about this problem people were having with Snow Leopard. Originally, copy/pasting worked to workaround this problem, but I find that after trying a few other things, I can no longer even paste anything into the Save As: Box. Further, when I click the Save or Cancel buttons, they flash like normal, however the dialogue box does not go away, the file is not saved, and I can't escape! Ahh! I can still navigate through my folders with the mouse in the dialogue box, but clearly something is not right. Last week, I had Python 2.5, matplotlib 0.98.6 and everything worked just fine. I have the problem whether running through python or ipython.asdfasdf Any ideas how to fix this? Thanks, Andre -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://*p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://*lists.sourceforge.net/lists/listinfo/matplotlib-users -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] figure save problem
Hi All, I am having a problem saving figures produced with matplotlib. Right now, I am running a freshly built matplotlib-0.99.1.2 (unzipped, the directory reads 0.99.1.1?) built on python-2.6 numpy-1.3.0 scipy-0.7.1 ipython-0.10 All on an OSX 10.5 intel. When I try to save a figure, in the Save the figure dialogue box, the Save As: window does not recognize any keyboard entries. If I copy and paste, that works (at first). But I remembered reading about this problem people were having with Snow Leopard. Originally, copy/pasting worked to workaround this problem, but I find that after trying a few other things, I can no longer even paste anything into the Save As: Box. Further, when I click the Save or Cancel buttons, they flash like normal, however the dialogue box does not go away, the file is not saved, and I can't escape! Ahh! I can still navigate through my folders with the mouse in the dialogue box, but clearly something is not right. Last week, I had Python 2.5, matplotlib 0.98.6 and everything worked just fine. I have the problem whether running through python or ipython.asdfasdf Any ideas how to fix this? Thanks, Andre -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] ipython -pylab
Hi All, I am trying to understand exactly what the -pylab option does when I launch ipython -pylab - thought some folks here might know. For example, after executing ipython -pylab I can type either a = np.array([1.,10.]) OR b = array([1.,10.]) are these both numpy arrays? And clearly, there has been an import numpy as np from the -pylab option. Also, how is scipy imported? Just form scipy import * or something similar to numpy? I haven't been able to find this info online or in documents yet. Thanks, Andre -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] interactive python session with matplotlib
Hi Gökhan, Thanks. I will start playing around with iPython. Andre On Sep 25, 2009, at 1:22 AM, Gökhan Sever wrote: On Thu, Sep 24, 2009 at 10:47 PM, Andre Walker-Loud walksl...@gmail.com wrote: IPython can remedy all your wonderings :) http://matplotlib.sourceforge.net/users/shell.html -- Gökhan Hi Gökhan, I am not very familiar with iPython (I am not opposed to learning either). What I have in mind is writing code that I can call from a terminal, as opposed to interactively as with iPython. However, in iPython, can you have a module/script running, and asking me as the user for input? I have assumed iPython is similar to an interactive Python interpreter. With the knowledge I have, I can not, while in interactive mode, launch a sub routine that will ask me for input. Is this possible to do (in either Python or iPython)? Thanks, Andre Just give it a try (http://ipython.scipy.org/moin/) I don't think you will ever look back the regular Python interpreter. (When I first start with Python, I only use it for about less than a day :) This page is very explanatory of what IPython is capable of http://ipython.scipy.org/doc/stable/html/overview.html This is a great audio-visual tutorial about IPython by Jeff Rush A Demonstration of the 'IPython' Interactive Shell and finally I recommend you to watch some of the SciPy09 videos to see how other people using IPython interactively. Since we are corresponding under matplotlib roof, wouldn't be fair it don't suggest you to watch John Hunter's Advanced topics in matplotlib tutorial. -- Come build with us! The BlackBerryreg; Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart your developing skills, take BlackBerry mobile applications to market and stay ahead of the curve. Join us from November 9#45;12, 2009. Register now#33; http://p.sf.net/sfu/devconf___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] interactive python session with matplotlib
Hi All, I have what I think is a basic question. I want to have an interactive python script/code which uses matplotlib. For example, the script first asks what data set to use, then when received, it does some analysis routines, and then makes some plots. To launch the plot, my I have in my routine #!/usr/bin/python (I am not running in interactive mode, rather I made an executable script) import matplotlib.pyplot as plt some analysis stuff plt.show() after the plt.show() command, the terminal I run the script from becomes unresponsive until I close plot I made. However, I would like instead to be able to continue interacting with the program. For example, choosing a fitting window based upon the first plot. But I don't want to have to close down the plot to do this. So my question(s): 1 - how do I continue to interact with the terminal (and my program asking for more imput) after the plt.show() command has been issued? 2 - is there an alternative command I can use instead of plt.show() which does not lock up the terminal? 3 - is it possible to launch more than one matplotlib plotting window with the same interactive python session (executable python script)? I thought perhaps the answer to my question would be to have a sub- script executed by my main one which generates the various plots I want, where each successive plot requires user input after viewing the previous ones. Any thoughts/advice are appreciated. Thanks, Andre -- Come build with us! The BlackBerryreg; Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart your developing skills, take BlackBerry mobile applications to market and stay ahead of the curve. Join us from November 9#45;12, 2009. Register now#33; http://p.sf.net/sfu/devconf ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
