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John Hunter wrote: > For Fernando's test case, I was able to reduce the typical run time > from 1.02s to 0.2s for PNGs and 1.35s to 0.26s for PS . Here are my > notes on the various changes and the gains they brought. With > collections, I think we could halve this again for PS, or at the very > least get this down to agg speeds. This is great, many thanks for working on this. For reference, here's what I was getting before: [logtest]> ./logtest.py Loading data... pylab times... plot: 3.38 s png : 2.57 s eps : 3.45 s gnuplot... plot: 0.16 s eps : 0.06 s Plot sizes: -rw-r--r-- 1 fperez wavelet 27196 Feb 5 17:19 fig_gnuplot.eps -rw-r--r-- 1 fperez wavelet 575701 Feb 5 17:19 fig_pylab.eps -rw-r--r-- 1 fperez wavelet 33057 Feb 5 17:19 fig_pylab.png and these are the current results: [logtest]> ./logtest.py Loading data... pylab times... plot: 0.70 s png : 0.46 s eps : 0.74 s gnuplot... plot: 0.02 s eps : 0.21 s Plot file info: -rw-r--r-- 1 fperez wavelet 27196 Feb 6 15:19 fig_gnuplot.eps -rw-r--r-- 1 fperez wavelet 417598 Feb 6 15:19 fig_pylab.eps -rw-r--r-- 1 fperez wavelet 31550 Feb 6 15:19 fig_pylab.png Note also how the pylab filesizes went down a bit, probably thanks to not having all the extra minor ticks. For interactive work (which measures the time for the show() call, hence is higher than above), the improvement is also very noticeable: In [6]: timing(fun2.plot_line,ptype='error') # pylab-based Out[6]: 2.5686090000000004 In [7]: timing(fun2.plot_line_gp,ptype='error') # gnuplot-based Out[7]: 0.56791400000000003 We're now within a factor of 5 of gnuplot (yesterday it was about 10x) > and here is the final profiler output of the newly optimized code > > > 58247 function calls (58081 primitive calls) in 0.980 CPU seconds Wow, that's a lot of function calls... Given the cost of python function calls, I suspect that a major further improvement would require some manual inlining of some of this to reduce this number significantly. I'm not sure how worth this would be doing, given the cost in readability/architecture it may have. Just as a reference for you, here's the time for 58000 empty calls with one argument on my laptop (timings() is in IPython.genutils): In [17]: def nothing(x): ....: pass ....: In [18]: timings(58000,nothing,5) Out[18]: (0.21196699999999957, 3.6546034482758548e-06) ^^ total time ^^ ^^ time per call ^^ But as far as I'm concerned, this is already much, much better than just a few days ago. Between the major fixes to correctness of log plots, and these performance improvements, I am very happy. Many thanks for this effort. For those of us who spend a lot of time making log plots, this is great. Best, f
Fernando sent me some test scripts and profile information which set me on a path to enhance log plot performance. The biggest hit was coming from the large number of tick labels which were formatted as mathtext. mathtext is faster now than it used to be, but it is still slow. I emailed the pyparsing Paul Mcguire and he's going to try and take another look for some performance enhancements. But superscript layout for mathtext is relatively easy, eg 10ドル^{-4}$ and so I special-cased this in the text module using a regex and did the layout "by hand". I also changed the default behavior of the subs property in the log tick locator. The value None now means to autosub. If the number of decades is small, you'll get full subbing for minor ticks as before. If the number of decades is large, you'll get no minor ticks. You can override the default by explicitly setting subs in semilogx and friends. I also inlined some of the num -> string conversions in backend ps. These were being done by a function that called another function and the profiler indicated we were paying a big hit. There are more big gains to be had -- eg backend ps could implement the various collection draw methods and the lines module could use collections for drawing markers. But that is for another day. For Fernando's test case, I was able to reduce the typical run time from 1.02s to 0.2s for PNGs and 1.35s to 0.26s for PS . Here are my notes on the various changes and the gains they brought. With collections, I think we could halve this again for PS, or at the very least get this down to agg speeds. Baseline plot: 1.15 s png : 1.02 s eps : 1.35 s Skipping layout of empty strings plot: 0.8 s png : 0.67 s eps : 1.02 s Using dot rather than Matrix plot: 0.74 s png : 0.62 s eps : 0.97 s Optimizing super script drawing by skipping mathtext parser png : 0.46 s eps : 0.62 s Implemented autosubbing to reduce the number of subticks for large decade ranges png : 0.21 s eps : 0.36 s Inline num2str backend ps draw_lines and draw_line png : 0.20 s eps : 0.26 s and here is the final profiler output of the newly optimized code 58247 function calls (58081 primitive calls) in 0.980 CPU seconds Ordered by: standard name ncalls tottime percall cumtime percall filename:lineno(function) 3/1 0.000 0.000 0.980 0.980 <string>:1(?) 1 0.000 0.000 0.000 0.000 ArrayPrinter.py:7(?) 1 0.000 0.000 0.000 0.000 FFT.py:21(?) 1 0.000 0.000 0.000 0.000 LinearAlgebra.py:14(LinAlgError) 1 0.010 0.010 0.010 0.010 LinearAlgebra.py:6(?) 1 0.000 0.000 0.000 0.000 MLab.py:9(?) 1 0.010 0.010 0.020 0.020 Matrix.py:1(?) 1 0.000 0.000 0.000 0.000 Matrix.py:66(Matrix) 710 0.000 0.000 0.000 0.000 Numeric.py:130(asarray) 131 0.000 0.000 0.000 0.000 Numeric.py:146(repeat) 1 0.000 0.000 0.000 0.000 Numeric.py:492(Unpickler) 1 0.000 0.000 0.000 0.000 Numeric.py:499(Pickler) 131 0.000 0.000 0.000 0.000 Numeric.py:561(nonzero) 127 0.010 0.000 0.010 0.000 Numeric.py:593(ones) 1 0.010 0.010 0.030 0.030 Numeric.py:85(?) 5 0.000 0.000 0.000 0.000 Precision.py:15(_get_precisions) 1 0.000 0.000 0.000 0.000 Precision.py:21(_fill_table) 1 0.000 0.000 0.000 0.000 Precision.py:28(PrecisionError) 23 0.000 0.000 0.000 0.000 Precision.py:31(_lookup) 1 0.000 0.000 0.000 0.000 Precision.py:7(?) 1 0.000 0.000 0.000 0.000 RandomArray.py:1(?) 1 0.000 0.000 0.000 0.000 RandomArray.py:13(ArgumentError) 1 0.000 0.000 0.000 0.000 RandomArray.py:16(seed) 1 0.000 0.000 0.000 0.000 StringIO.py:30(?) 1 0.000 0.000 0.000 0.000 StringIO.py:38(StringIO) 1 0.000 0.000 0.000 0.000 UTC.py:1(?) 1 0.000 0.000 0.000 0.000 UTC.py:5(UTC) 1 0.000 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>>>>> "Abraham" == Abraham Schneider <ab...@cn...> writes: Abraham> This might work as a compromise. Instead of using the Abraham> traits class, I wrote a quick and dirty Traits Lite(tm) Abraham> class. I think the traits class provided a lot more Abraham> functionality than was needed, and what was needed Abraham> required very little code. OK, this is looking much more promising. I have given a quick glance over and will test it more extensively this afternoon. Quick comments. I'd like to continue using the matplotlib naming convention (UpperCase) for class names, rather than underscore separated class trait_color(Trait): also, I don't think we should use the name Trait or HasTrait, since that will confuse people into thinking we are using enthought traits (Property and HasProperty ?) Finally, another feature I would like to be able to support, which won't be hard, is to enable the use of an RC class or something like it in Artist constructors Here is what we currently have def __init__(self, xdata, ydata, linewidth = None, # default to rc linestyle = None, # default to rc color = None, # default to rc ...snip.. ): This overloads None which leads to strange usages like linestyle='None' to turn off lines (note the quotes). I would rather do something like def __init__(self, xdata, ydata, linewidth = RC('lines.linewidth'), linestyle = RC('lines.linestyle') ...snip... ): if isinstance(linewidth, RC): linewidth=linewidth() Note that this is different than def __init__(self, xdata, ydata, linewidth = rc.lines.linewidth, linestyle = rc.lines.linestyle, ...snip... ): The syntax above is not the point. What I want to emphasize is that I want a self documenting way of saying this parameter defaults to an rc param, and that param should be evaluated *at init time*. If you can do it with the second syntax, that looks better, but if I read your code correctly, something like rc.lines.linewidth evaluates to a float at module load time and so cannot be used as a sentinel at module init time. Is this correct? In any case, it looks very promising. Two final comments. Like Fernando, I'm not too concerned about being able to parse existing rc files. It's a minor burden to require people simply to take the new format and customize it. Also, do you need to extend the fontsize train to support fontsizes in points, eg 12.0 ? Abraham> Sorry for sending in such a large file once again. I Abraham> wanted to be able to parse the entire RC file to make Abraham> sure that things were going to work okay. No problem, I think we can handle it. Abraham> It still needs some work, but it's pretty functional for Abraham> a proof of concept. It's capable of parsing the RC file, Abraham> validating the type-assignment, and uses the Abraham> 'rc.lines.color = xxx' format. It's also fairly modular, Abraham> so additions should be easy. Well if it already parses existing rc, no reason to kill it. I look forward to looking more closely at it -- thanks! JDH
As noted here previously, PS/EPS files are 25 times larger than they need to be in many cases because we embed the entire freetype font into them. I think this is a problem that needs to be addressed, so I'm posting here in hopes to motivate Paul, Jochen, or anyonw else wanting to kill an afternoon to look into it. Last time Paul looked at this (when he implemented freetype fonts for PS mathtext), he came to the conclusion that it was not possible to extract individual glyphs fro ps file, and had to resort to dumping in the entire file. I don't believe this is the case. See, eg agg22/font_freetype/agg_font_freetype.cpp in the matplotlib src distro and the routine decompose_ft_outline in which a freetype glyph outline is converted to an agg path (at least that is my read of it). We could port this code to ft2font, and use it to embed the individual glyph information in postscript, me thinks (caveat, I know nothing about postscript font embedding). The other idea, which I think is worth doing independently of the embedding issue, is to support an rc option so that postscript uses postscript fonts (eg what matplotlib used to do before we started embedding using the supplied afm files for metrics and the AFM class to parse them). For scripts that don't use mathtext, this is a perfectly viable solution which would produce the minimal files, since nothing has to be embedded. But I think the embedding problem is the top priority. We can see where we are vis-a-vis file sizes after that. Any takers? JDH`