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| #!/usr/bin/python | |
| r'''gnuplotlib: a gnuplot-based plotting backend for numpy | |
| * SYNOPSIS | |
| #+BEGIN_SRC python | |
| import numpy as np | |
| import gnuplotlib as gp | |
| x = np.arange(101) - 50 | |
| gp.plot(x**2) | |
| [ basic parabola plot pops up ] | |
| g1 = gp.gnuplotlib(title = 'Parabola with error bars', | |
| _with = 'xyerrorbars') | |
| g1.plot( x**2 * 10, np.abs(x)/10, np.abs(x)*5, | |
| legend = 'Parabola', | |
| tuplesize = 4 ) | |
| [ parabola with x,y errobars pops up in a new window ] | |
| x,y = np.ogrid[-10:11,-10:11] | |
| gp.plot( x**2 + y**2, | |
| title = 'Heat map', | |
| unset = 'grid', | |
| cmds = 'set view map', | |
| _with = 'image', | |
| tuplesize = 3) | |
| [ Heat map pops up where first parabola used to be ] | |
| theta = np.linspace(0, 6*np.pi, 200) | |
| z = np.linspace(0, 5, 200) | |
| g2 = gp.gnuplotlib(_3d = True) | |
| g2.plot( np.cos(theta), | |
| np.vstack((np.sin(theta), -np.sin(theta))), | |
| z ) | |
| [ Two 3D spirals together in a new window ] | |
| #+END_SRC | |
| * DESCRIPTION | |
| This module allows numpy data to be plotted using Gnuplot as a backend. As much | |
| as was possible, this module acts as a passive pass-through to Gnuplot, thus | |
| making available the full power and flexibility of the Gnuplot backend. Gnuplot | |
| is described in great detail at its upstream website: http://www.gnuplot.info | |
| gnuplotlib has an object-oriented interface (via class gnuplotlib) and a few | |
| helper class-less functions (plot(), plot3d(), plotimage()). Each instance of | |
| class gnuplotlib has a gnuplot process associated with it, which has (usually) a | |
| plot window to go with it. If multiple simultaneous plot windows are desired, | |
| create a separate class gnuplotlib object for each. | |
| The helper functions reuse a single global gnuplotlib instance, so each such | |
| invocation rewrites over the previous gnuplot window. | |
| When making a plot with the object-oriented interface, the gnuplotlib object is | |
| created with a set of plot options, then the plot is made by passing it curves, | |
| possibly with some curve options per curve. Something like this: | |
| #+BEGIN_SRC python | |
| import gnuplotlib as gp | |
| g = gp.gnuplotlib(plot_options) | |
| g.plot( curve, curve, .... ) | |
| #+END_SRC | |
| A call to plot(...) is simpler: | |
| #+BEGIN_SRC python | |
| import gnuplotlib as gp | |
| gp.plot( curve, curve, ...., plot_and_default_curve_options ) | |
| #+END_SRC | |
| plot3d(...) simply calls plot(...) with an extra plot option _3d=True. | |
| plotimage(...) simply calls plot(...) with extra plot options _with='image', | |
| tuplesize=3. | |
| If just a single curve is plotted, 'curve' can simply be a sequence of numpy | |
| arrays representing coordinates of each point. For instance: | |
| #+BEGIN_SRC python | |
| plot( x, y ) | |
| #+END_SRC | |
| If multiple curves are to be drawn on the same plot, then each 'curve' must live | |
| in a separate tuple. The last element of any such tuple can be a dict of curve | |
| options, if desired. For instance: | |
| #+BEGIN_SRC python | |
| plot( (x1,y1), | |
| (x2,y2, {'legend'='Second curve'}) ) | |
| #+END_SRC | |
| The plot_and_default_curve_options passed to plot(...) are kwargs. The curve | |
| options present here are used as defaults for each curve; these defaults can be | |
| overriden as desired. For instance: | |
| #+BEGIN_SRC python | |
| plot( (x1,y1), | |
| (x2,y2, {'with':'points'}), | |
| _with='lines') | |
| #+END_SRC | |
| would plot the first curve with lines, but the second with points. | |
| ** Options arguments | |
| Plot generation is controlled by two sets of options: | |
| - Plot options: parameters that affect the whole plot, like the title of the | |
| plot, the axis labels, the extents, 2d/3d selection, etc. All the plot options | |
| are described below in "Plot options". | |
| - Curve options: parameters that affect only a single curve | |
| ** Data arguments | |
| The 'curve' arguments in the plot(...) argument list represent the actual data | |
| being plotted. Each output data point is a tuple (set of values, not a python | |
| "tuple") whose size varies depending on what is being plotted. For example if | |
| we're making a simple 2D x-y plot, each tuple has 2 values; if we're making a 3d | |
| plot with each point having variable size and color, each tuple has 5 values | |
| (x,y,z,size,color). In the plot(...) argument list each tuple element must be | |
| passed separately. If we're making anything fancier than a simple 2D or 3D plot | |
| (2- and 3- tuples respectively) then the 'tuplesize' curve option MUST be passed | |
| in. | |
| Furthermore, broadcasting is fully supported, so multiple curves can be plotted | |
| by stacking data inside the passed-in arrays. Broadcasting works across curve | |
| options also, so things like curve labels and styles can also be stacked inside | |
| arrays. An example: | |
| #+BEGIN_SRC python | |
| th = np.linspace(0, 6*np.pi, 200) | |
| z = np.linspace(0, 5, 200) | |
| size = 0.5 + np.abs(np.cos(th)) | |
| color = np.sin(2*th) | |
| # without broadcasting: | |
| plot3d( ( np.cos(th), np.sin(th) | |
| z, size, color, | |
| { 'legend': 'spiral 1'}), | |
| ( -np.cos(th), -np.sin(th) | |
| z, size, color, | |
| { 'legend': 'spiral 2'}) | |
| title = 'double helix', tuplesize = 5, | |
| _with = 'points pointsize variable pointtype 7 palette' ) | |
| # identical plot using broadcasting: | |
| plot3d( ( np.cos(th) * np.array([[1,-1]]).T, | |
| np.sin(th) * np.array([[1,-1]]).T, | |
| z, size, color, { 'legend': np.array(('spiral 1', 'spiral 2'))}) | |
| title = 'double helix', tuplesize = 5, | |
| _with = 'points pointsize variable pointtype 7 palette' ) | |
| #+END_SRC | |
| This is a 3d plot with variable size and color. There are 5 values in the tuple, | |
| which we specify. The first 2 arrays have dimensions (2,N); all the other arrays | |
| have a single dimension. Thus the broadcasting rules generate 2 distinct curves, | |
| with varying values for x,y and identical values for z, size and color. We label | |
| the curves differently by passing an array for the 'legend' curve option. This | |
| array contains strings, and is broadcast like everything else. | |
| *** Implicit domains | |
| When a particular tuplesize is specified, gnuplotlib will attempt to read that | |
| many arrays. If there aren't enough arrays available, gnuplotlib will throw an | |
| error, unless an implicit domain can be used. This happens if we are EXACTLY 1 | |
| or 2 arrays short (usually when making 2D and 3D plots respectively). | |
| When making a simple 2D plot, if exactly 1 dimension is missing, gnuplotlib will | |
| use numpy.arange(N) as the domain. This is why code like | |
| #+BEGIN_SRC python | |
| plot(numpy.array([1,5,3,4,4])) | |
| #+END_SRC | |
| works. Only one array is given here, but the default tuplesize is 2, and we are | |
| thus exactly 1 array short. This is thus equivalent to | |
| #+BEGIN_SRC python | |
| plot(numpy.arange(5), numpy.array([1,5,3,4,4]) ) | |
| #+END_SRC | |
| If plotting in 3D, an implicit domain will be used if we are exactly 2 arrayss | |
| short. In this case, gnuplotlib will use a 2D grid as a domain. Example: | |
| #+BEGIN_SRC python | |
| xy = numpy.arange(21*21).reshape(21*21) | |
| plot( xy, _with = 'points', _3d=True) | |
| #+END_SRC | |
| Here the only given array has dimensions (21,21). This is a 3D plot, so we are | |
| exactly 2 arrays short. Thus, gnuplotlib generates an implicit domain, | |
| corresponding to a 21-by-21 grid. | |
| Note that while the DEFAULT tuplesize depends on whether we're making a 3d plot, | |
| once we have a tuplesize, the logic doesn't care if a 3d plot is being made. It | |
| can make sense to have a 2D implicit domain when making 2D plots. For example, | |
| one can be plotting a color map: | |
| #+BEGIN_SRC python | |
| x,y = np.ogrid[-10:11,-10:11] | |
| gp.plot( x**2 + y**2, | |
| title = 'Heat map', | |
| set = 'view map', | |
| _with = 'image', | |
| tuplesize = 3) | |
| #+END_SRC | |
| Also note that the 'tuplesize' curve option is independent of implicit domains. | |
| This option specifies not how many data arrays we have, but how many values | |
| represent each data point. For example, if we want a 2D line plot with varying | |
| colors plotted with an implicit domain, set tuplesize=3 as before (x,y,color), | |
| but pass in only 2 arrays (y, color). | |
| ** Interactivity | |
| The graphical backends of Gnuplot are interactive, allowing the user to pan, | |
| zoom, rotate and measure the data in the plot window. See the Gnuplot | |
| documentation for details about how to do this. Some terminals (such as wxt) are | |
| persistently interactive, and the rest of this section does not apply to them. | |
| Other terminals (such as x11) have the downside described here. | |
| When using an affected terminal, interactivity is only possible if the gnuplot | |
| process is running. As long as the python program calling gnuplotlib is running, | |
| the plots are interactive, but once it exits, the child gnuplot process will | |
| exit also. This will keep the plot windows up, but the interactivity will be | |
| lost. So if the python program makes a plot and exits, the plot will NOT be | |
| interactive. | |
| * OPTIONS | |
| ** Plot options | |
| The plot options are a dictionary, passed as the keyword arguments to the global | |
| plot() function or as the only arguments to the gnuplotlib contructor. The | |
| supported keys of this dict are as follows: | |
| - title | |
| Specifies the title of the plot | |
| - 3d | |
| If true, a 3D plot is constructed. This changes the default tuple size from 2 to | |
| 3 | |
| - _3d | |
| Identical to '3d'. In python, keyword argument keys cannot start with a number, | |
| so '_3d' is accepted for that purpose. Same issue exists with with/_with | |
| - set/unset | |
| These take either a string of a list. If given a string, a set or unset gnuplot | |
| command is executed with that argument. If given a list, elements of that list | |
| are set/unset separately. Example: | |
| #+BEGIN_SRC python | |
| plot(..., set='grid', unset=['xtics', 'ytics]) | |
| [ turns on the grid, turns off the x and y axis tics ] | |
| #+END_SRC | |
| - with | |
| If no 'with' curve option is given, use this as a default. See the description | |
| of the 'with' curve option for more detail | |
| - _with | |
| Identical to 'with'. In python 'with' is a reserved word so it is illegal to use | |
| it as a keyword arg key, so '_with' exists as an alias. Same issue exists with | |
| 3d/_3d | |
| - square, square_xy | |
| If true, these request a square aspect ratio. For 3D plots, square_xy plots with | |
| a square aspect ratio in x and y, but scales z. Using either of these in 3D | |
| requires Gnuplot >= 4.4 | |
| - {x,y,y2,z,cb}{min,max,range,inv} | |
| If given, these set the extents of the plot window for the requested axes. | |
| Either min/max or range can be given but not both. min/max are numerical values. | |
| '*range' is a string 'min:max' with either one allowed to be omitted; it can | |
| also be a [min,max] tuple or list. '*inv' is a boolean that reverses this axis. | |
| If the bounds are known, this can also be accomplished by setting max < min. | |
| The y2 axis is the secondary y-axis that is enabled by the 'y2' curve option. | |
| The 'cb' axis represents the color axis, used when color-coded plots are being | |
| generated | |
| - xlabel, ylabel, zlabel, y2label | |
| These specify axis labels | |
| - hardcopy | |
| Instead of drawing a plot on screen, plot into a file instead. The output | |
| filename is the value associated with this key. The output format is inferred | |
| from the filename. Currently only eps, ps, pdf, png are supported with some | |
| default sets of options. This option is simply a shorthand for the 'terminal' | |
| and 'output' options. If the defaults provided by the 'hardcopy' option are | |
| insufficient, use 'terminal' and 'output' manually. Example: | |
| #+BEGIN_SRC python | |
| plot(..., hardcopy="plot.pdf") | |
| [ Plots into that file ] | |
| #+END_SRC | |
| - terminal | |
| Selects the gnuplot terminal (backend). This determines how Gnuplot generates | |
| its output. Common terminals are 'x11', 'qt', 'pdf', 'dumb' and so on. See the | |
| Gnuplot docs for all the details. | |
| - output | |
| Sets the plot output file. You generally only need to set this if you're | |
| generating a hardcopy, such as a PDF. | |
| A magic output value of '*STDOUT' is accepted to send the plot output to | |
| standard output. The special syntax is required because the standard output of | |
| gnuplot is connected to gnuplotlib, and we want a way to send the output to | |
| gnuplotlib's STDOUT. This is useful for instance with the dumb terminal: | |
| #+BEGIN_SRC python | |
| gp.plot( np.linspace(-5,5,30)**2, | |
| unset='grid', terminal='dumb 80 40', output='*STDOUT' ) | |
| #+END_SRC | |
| #+BEGIN_EXAMPLE | |
| 25 A-+---------+-----------+-----------+----------+-----------+---------A-+ | |
| * + + + + + * + | |
| |* * | | |
| |* * | | |
| | * * | | |
| | A A | | |
| | * * | | |
| 20 +-+ * * +-+ | |
| | * * | | |
| | A A | | |
| | * * | | |
| | * * | | |
| | * * | | |
| | A A | | |
| 15 +-+ * * +-+ | |
| | * * | | |
| | * * | | |
| | A A | | |
| | * * | | |
| | * * | | |
| | A A | | |
| 10 +-+ * * +-+ | |
| | * * | | |
| | A A | | |
| | * * | | |
| | * * | | |
| | A A | | |
| | * * | | |
| 5 +-+ A A +-+ | |
| | * ** | | |
| | A** A | | |
| | * | | |
| | A* *A | | |
| | A* *A | | |
| + + + A** + *A* + + + | |
| 0 +-+---------+-----------+------A*A**A*A--------+-----------+---------+-+ | |
| 0 5 10 15 20 25 30 | |
| #+END_EXAMPLE | |
| - cmds | |
| Arbitrary extra commands to pass to gnuplot before the plots are created. These | |
| are passed directly to gnuplot, without any validation. The value is either a | |
| string of a list of strings, one per command | |
| - dump | |
| Used for debugging. If true, writes out the gnuplot commands to STDOUT instead | |
| of writing to a gnuplot process. Useful to see what commands would be sent to | |
| gnuplot. This is a dry run. Note that this dump will contain binary data unless | |
| ascii-only plotting is enabled (see below). This is also useful to generate | |
| gnuplot scripts since the dumped output can be sent to gnuplot later, manually | |
| if desired. | |
| - log | |
| Used for debugging. If true, writes out the gnuplot commands and various | |
| progress logs to STDERR in addition to writing to a gnuplot process. This is NOT | |
| a dry run: data is sent to gnuplot AND to the log. Useful for debugging I/O | |
| issues. Note that this log will contain binary data unless ascii-only plotting | |
| is enabled (see below) | |
| - ascii | |
| If set, ASCII data is passed to gnuplot instead of binary data. Binary is the | |
| default because it is much more efficient (and thus faster). Binary input works | |
| for most plots, but not for all of them. An example where binary plotting | |
| doesn't work is 'with labels', and this option exists to force ASCII | |
| communication | |
| ** Curve options | |
| The curve options describe details of specific curves. They are in a dict, whose | |
| keys are as follows: | |
| - legend | |
| Specifies the legend label for this curve | |
| - with | |
| Specifies the style for this curve. The value is passed to gnuplot using its | |
| 'with' keyword, so valid values are whatever gnuplot supports. Read the gnuplot | |
| documentation for the 'with' keyword for more information | |
| - _with | |
| Identical to 'with'. In python 'with' is a reserved word so it is illegal to use | |
| it as a keyword arg key, so '_with' exists as an alias | |
| - y2 | |
| If true, requests that this curve be plotted on the y2 axis instead of the main y axis | |
| - tuplesize | |
| Specifies how many values represent each data point. For 2D plots this defaults | |
| to 2; for 3D plots this defaults to 3. These defaults are correct for simple | |
| plots | |
| * INTERFACE | |
| ** class gnuplotlib | |
| A gnuplotlib object abstracts a gnuplot process and a plot window. Invocation: | |
| #+BEGIN_SRC python | |
| import gnuplotlib as gp | |
| g = gp.gnuplotlib(plot_options) | |
| g.plot( curve, curve, .... ) | |
| #+END_SRC | |
| The plot options are passed into the constructor; the curve options and the data | |
| are passed into the plot() method. One advantage of making plots this way is | |
| that there's a gnuplot process associated with each gnuplotlib instance, so as | |
| long as the object exists, the plot will be interactive. Calling 'g.plot()' | |
| multiple times reuses the plot window instead of creating a new one. | |
| ** global plot(...) | |
| The convenience plotting routine in gnuplotlib. Invocation: | |
| #+BEGIN_SRC python | |
| import gnuplotlib as gp | |
| gp.plot( curve, curve, ...., plot_and_default_curve_options ) | |
| #+END_SRC | |
| Each 'plot()' call reuses the same window. | |
| ** global plot3d(...) | |
| Generates 3D plots. Shorthand for 'plot(..., _3d=True)' | |
| ** global plotimage(...) | |
| Generates an image plot. Shorthand for 'plot(..., _with='image', tuplesize=3)' | |
| * RECIPES | |
| Some different plots appear here. A longer set of demos is given in demos.py. | |
| ** 2D plotting | |
| If we're plotting y-values sequentially (implicit domain), all you need is | |
| #+BEGIN_SRC python | |
| plot(y) | |
| #+END_SRC | |
| If we also have a corresponding x domain, we can plot y vs. x with | |
| #+BEGIN_SRC python | |
| plot(x, y) | |
| #+END_SRC | |
| *** Simple style control | |
| To change line thickness: | |
| #+BEGIN_SRC python | |
| plot(x,y, _with='lines linewidth 3') | |
| #+END_SRC | |
| To change point size and point type: | |
| #+BEGIN_SRC python | |
| gp.plot(x,y, _with='points pointtype 4 pointsize 8') | |
| #+END_SRC | |
| Everything (like _with) feeds directly into Gnuplot, so look at the Gnuplot docs | |
| to know how to change thicknesses, styles and such. | |
| *** Errorbars | |
| To plot errorbars that show y +- 1, plotted with an implicit domain | |
| #+BEGIN_SRC python | |
| plot( y, np.ones(y.shape), _with = 'yerrorbars', tuplesize = 3 ) | |
| #+END_SRC | |
| Same with an explicit x domain: | |
| #+BEGIN_SRC python | |
| plot( x, y, np.ones(y.shape), _with = 'yerrorbars', tuplesize = 3 ) | |
| #+END_SRC | |
| Symmetric errorbars on both x and y. x +- 1, y +- 2: | |
| #+BEGIN_SRC python | |
| plot( x, y, np.ones(x.shape), 2*np.ones(y.shape), _with = 'xyerrorbars', tuplesize = 4 ) | |
| #+END_SRC | |
| To plot asymmetric errorbars that show the range y-1 to y+2 (note that here you | |
| must specify the actual errorbar-end positions, NOT just their deviations from | |
| the center; this is how Gnuplot does it) | |
| #+BEGIN_SRC python | |
| plot( y, y - np.ones(y.shape), y + 2*np.ones(y.shape), | |
| _with = 'yerrorbars', tuplesize = 4 ) | |
| #+END_SRC | |
| *** More multi-value styles | |
| Plotting with variable-size circles (size given in plot units, requires Gnuplot >= 4.4) | |
| #+BEGIN_SRC python | |
| plot(x, y, radii, | |
| _with = 'circles', tuplesize = 3) | |
| #+END_SRC | |
| Plotting with an variably-sized arbitrary point type (size given in multiples of | |
| the "default" point size) | |
| #+BEGIN_SRC python | |
| plot(x, y, sizes, | |
| _with = 'points pointtype 7 pointsize variable', tuplesize = 3 ) | |
| #+END_SRC | |
| Color-coded points | |
| #+BEGIN_SRC python | |
| plot(x, y, colors, | |
| _with = 'points palette', tuplesize = 3 ) | |
| #+END_SRC | |
| Variable-size AND color-coded circles. A Gnuplot (4.4.0) quirk makes it | |
| necessary to specify the color range here | |
| #+BEGIN_SRC python | |
| plot(x, y, radii, colors, | |
| cbmin = mincolor, cbmax = maxcolor, | |
| _with = 'circles palette', tuplesize = 4 ) | |
| #+END_SRC | |
| ** 3D plotting | |
| General style control works identically for 3D plots as in 2D plots. | |
| To plot a set of 3d points, with a square aspect ratio (squareness requires | |
| Gnuplot >= 4.4): | |
| #+BEGIN_SRC python | |
| plot3d(x, y, z, square = 1) | |
| #+END_SRC | |
| If xy is a 2D array, we can plot it as a height map on an implicit domain | |
| #+BEGIN_SRC python | |
| plot3d(xy) | |
| #+END_SRC | |
| Ellipse and sphere plotted together, using broadcasting: | |
| #+BEGIN_SRC python | |
| th = np.linspace(0, np.pi*2, 30) | |
| ph = np.linspace(-np.pi/2, np.pi*2, 30)[:,np.newaxis] | |
| x_3d = (np.cos(ph) * np.cos(th)) .ravel() | |
| y_3d = (np.cos(ph) * np.sin(th)) .ravel() | |
| z_3d = (np.sin(ph) * np.ones( th.shape )) .ravel() | |
| gp.plot3d( (x_3d * np.array([[1,2]]).T, | |
| y_3d * np.array([[1,2]]).T, | |
| z_3d, | |
| { 'legend': np.array(('sphere', 'ellipse'))}), | |
| title = 'sphere, ellipse', | |
| square = True, | |
| _with = 'points') | |
| #+END_SRC | |
| Image arrays plots can be plotted as a heat map: | |
| #+BEGIN_SRC python | |
| x,y = np.ogrid[-10:11,-10:11] | |
| gp.plot( x**2 + y**2, | |
| title = 'Heat map', | |
| set = 'view map', | |
| _with = 'image', | |
| tuplesize = 3) | |
| #+END_SRC | |
| ** Hardcopies | |
| To send any plot to a file, instead of to the screen, one can simply do | |
| #+BEGIN_SRC python | |
| plot(x, y, | |
| hardcopy = 'output.pdf') | |
| #+END_SRC | |
| The 'hardcopy' option is a shorthand for the 'terminal' and 'output' | |
| options. If more control is desired, the latter can be used. For example to | |
| generate a PDF of a particular size with a particular font size for the text, | |
| one can do | |
| #+BEGIN_SRC python | |
| plot(x, y, | |
| terminal = 'pdfcairo solid color font ",10" size 11in,8.5in', | |
| output = 'output.pdf') | |
| #+END_SRC | |
| This command is equivalent to the 'hardcopy' shorthand used previously, but the | |
| fonts and sizes can be changed. | |
| * COMPATIBILITY | |
| Only python 2 is supported. I have no plans to support python 3 (forcing me to | |
| care about unicode is stupid), but patches are welcome. | |
| Everything should work on all platforms that support Gnuplot and Python. That | |
| said, only Debian GNU/Linux has been tested at this point. Comments and/or | |
| patches are welcome. | |
| * REPOSITORY | |
| https://github.com/dkogan/gnuplotlib | |
| * AUTHOR | |
| Dima Kogan <dima@secretsauce.net> | |
| * LICENSE AND COPYRIGHT | |
| Copyright 2015 Dima Kogan. | |
| This program is free software; you can redistribute it and/or modify it under | |
| the terms of the GNU Lesser General Public License (version 3 or higher) as | |
| published by the Free Software Foundation | |
| See https://www.gnu.org/licenses/lgpl.html | |
| ''' | |
| from __future__ import print_function | |
| import subprocess | |
| import time | |
| import sys | |
| import os | |
| import re | |
| import select | |
| import numpy as np | |
| knownPlotOptions = frozenset(('3d', 'dump', 'ascii', 'log', | |
| 'cmds', 'set', 'unset', 'square', 'square_xy', 'title', | |
| 'hardcopy', 'terminal', 'output', | |
| 'with', | |
| 'xmax', 'xmin', 'xrange', 'xinv', 'xlabel', | |
| 'y2max', 'y2min', 'y2range', 'y2inv', 'y2label', | |
| 'ymax', 'ymin', 'yrange', 'yinv', 'ylabel', | |
| 'zmax', 'zmin', 'zrange', 'zinv', 'zlabel', | |
| 'cbmin', 'cbmax', 'cbrange')) | |
| knownCurveOptions = frozenset(('legend', 'y2', 'with', 'tuplesize')) | |
| # when testing plots with ASCII i/o, this is the unit of test data | |
| testdataunit_ascii = 10 | |
| def _runSubprocess(cmd, input): | |
| """Runs a given command feeding the given input to stdin. Waits for the command | |
| to terminate, and returns the stdout,stderr tuple we get back""" | |
| process = subprocess.Popen(cmd, stdin=subprocess.PIPE, stdout=subprocess.PIPE, stderr=subprocess.PIPE) | |
| out, err = process.communicate(input=input) | |
| retcode = process.poll() | |
| if retcode: | |
| raise subprocess.CalledProcessError(retcode, cmd[0], output=out + err) | |
| return out,err | |
| def _getGnuplotFeatures(): | |
| # Be careful talking to gnuplot here. If you use a tty then gnuplot | |
| # messes with the tty settings where it should NOT. For example it turns | |
| # on the local echo. So make sure to not use a tty | |
| # first, I run 'gnuplot --help' to extract all the cmdline options as features | |
| helpstring = subprocess.check_output(['gnuplot', '--help'], stderr=subprocess.STDOUT) | |
| features = set( re.findall(r'--([a-zA-Z0-9_]+)', helpstring) ) | |
| # then I try to set a square aspect ratio for 3D to see if it works | |
| out,err = _runSubprocess(['gnuplot'], | |
| """set view equal | |
| exit | |
| """) | |
| # no output if works; some output if error | |
| if( not ( out or err ) ): | |
| features.add('equal_3d') | |
| return frozenset(features) | |
| features = _getGnuplotFeatures() | |
| def _dictDeUnderscore(d): | |
| """Takes a dict, and renames all keys that start with an '_' to not contain that | |
| anymore. This is done because some keys are illegal as kwargs (notably 'with' | |
| and '3d'), so the user passes in '_with' and '_3d', which ARE legal | |
| """ | |
| d2 = {} | |
| for key in d: | |
| if isinstance(key, (str, bytes)) and key[0] == '_': | |
| d2[key[1:]] = d[key] | |
| else: | |
| d2[key] = d[key] | |
| return d2 | |
| class GnuplotlibError(Exception): | |
| def __init__(self, err): self.err = err | |
| def __str__(self): return self.err | |
| class gnuplotlib: | |
| def __init__(self, **plotOptions): | |
| # some defaults | |
| self.plotOptions = _dictDeUnderscore(plotOptions) | |
| self.t0 = time.time() | |
| self.checkpoint_stuck = False | |
| self.sync_count = 1 | |
| plotOptionsCmds = self._getPlotOptionsCmds() | |
| # if we already have a gnuplot process, reset it. Otherwise make a new | |
| # one | |
| if hasattr(self, 'gnuplotProcess') and self.gnuplotProcess: | |
| self._printGnuplotPipe( "reset\nset output\n" ) | |
| self._checkpoint() | |
| else: | |
| self.gnuplotProcess = None | |
| self._startgnuplot() | |
| self._logEvent("_startgnuplot() finished") | |
| self._safelyWriteToPipe(plotOptionsCmds) | |
| def _startgnuplot(self): | |
| self._logEvent("_startgnuplot()") | |
| if not self.plotOptions.get('dump'): | |
| cmd = ['gnuplot'] | |
| if 'persist' in features: | |
| cmd += ['--persist'] | |
| self.fdDupSTDOUT = os.dup(sys.stdout.fileno()) | |
| self.gnuplotProcess = subprocess.Popen(cmd, stdin=subprocess.PIPE, stdout=subprocess.PIPE, stderr=subprocess.PIPE) | |
| # save the default terminal | |
| self._safelyWriteToPipe("set terminal push", 'terminal') | |
| def _getPlotOptionsCmds(self): | |
| for option in self.plotOptions: | |
| if not option in knownPlotOptions: | |
| raise GnuplotlibError(option + ' is not a valid plot option') | |
| # set some defaults | |
| # plot with lines and points by default | |
| if not 'with' in self.plotOptions: | |
| self.plotOptions['with'] = 'linespoints' | |
| # make sure I'm not passed invalid combinations of options | |
| if self.plotOptions.get('3d'): | |
| if 'y2min' in self.plotOptions or 'y2max' in self.plotOptions: | |
| raise GnuplotlibError("'3d' does not make sense with 'y2'...") | |
| if not 'equal_3d' in features and \ | |
| ( self.plotOptions.get('square_xy') or self.plotOptions.get('square') ): | |
| sys.stderr.write("Your gnuplot doesn't support square aspect ratios for 3D plots, so I'm ignoring that\n") | |
| del self.plotOptions['square_xy'] | |
| del self.plotOptions['square'] | |
| else: | |
| if self.plotOptions.get('square_xy'): | |
| raise GnuplotlibError("'square_xy' only makes sense with '3d'") | |
| # grid on by default | |
| cmds = ['set grid'] | |
| # send all set/unset as is | |
| for setunset in ('set', 'unset'): | |
| if setunset in self.plotOptions: | |
| if isinstance(self.plotOptions[setunset], (list, tuple)): | |
| cmds += [ setunset + ' ' + setting for setting in self.plotOptions[setunset] ] | |
| else: | |
| cmds.append(setunset + ' ' + self.plotOptions[setunset]) | |
| # set the plot bounds | |
| for axis in ('x', 'y', 'y2', 'z', 'cb'): | |
| # if we have min AND max AND inv, I make sure that min>max, and | |
| # suppress the inv. This is because in gnuplot 'plot [min:max] | |
| # reverse' ingores the 'reverse' if both min and max are given | |
| if axis + 'min' in self.plotOptions and \ | |
| axis + 'max' in self.plotOptions and \ | |
| self.plotOptions.get(axis + 'inv'): | |
| minval = min(self.plotOptions[axis + 'min'], self.plotOptions[axis + 'max']) | |
| maxval = max(self.plotOptions[axis + 'min'], self.plotOptions[axis + 'max']) | |
| self.plotOptions[axis + 'min'] = maxval | |
| self.plotOptions[axis + 'max'] = minval | |
| self.plotOptions[axis + 'inv'] = False | |
| # If a bound isn't given I want to set it to the empty string, so I can communicate it simply | |
| # to gnuplot | |
| rangeopt_name = axis + 'range' | |
| for minmax in ('min', 'max'): | |
| opt = axis + minmax | |
| if not opt in self.plotOptions: | |
| self.plotOptions[opt] = '' | |
| else: | |
| if rangeopt_name in self.plotOptions: | |
| raise GnuplotlibError("Both {} and {} not allowed at the same time".format(opt,rangeopt_name)) | |
| self.plotOptions[opt] = str(self.plotOptions[opt]) | |
| # if any of the ranges are given, set the range | |
| if len(self.plotOptions[axis + 'min'] + self.plotOptions[axis + 'max']): | |
| rangeopt_val = ':'.join((self.plotOptions[axis + 'min'], self.plotOptions[axis + 'max'])) | |
| elif rangeopt_name in self.plotOptions: | |
| # A range was given. If it's a string, just take it. It can also | |
| # be a two-value list for the min/max | |
| rangeopt_val = self.plotOptions[rangeopt_name] | |
| if isinstance(rangeopt_val, (list, tuple)): | |
| rangeopt_val = ':'.join(str(x) for x in rangeopt_val) | |
| else: | |
| rangeopt_val = '' | |
| cmds.append( "set {} [{}] {}".format(rangeopt_name, | |
| rangeopt_val, | |
| 'reverse' if self.plotOptions.get(axis + 'inv') else '')) | |
| # set the curve labels | |
| if not axis == 'cb': | |
| if axis + 'label' in self.plotOptions: | |
| cmds.append('set {axis}label "{label}"'.format(axis = axis, | |
| label = self.plotOptions[axis + 'label'])) | |
| # set the title | |
| if 'title' in self.plotOptions: | |
| cmds.append('set title "' + self.plotOptions['title'] + '"') | |
| # handle a requested square aspect ratio | |
| # set a square aspect ratio. Gnuplot does this differently for 2D and 3D plots | |
| if self.plotOptions.get('3d'): | |
| if self.plotOptions.get('square'): | |
| cmds.append("set view equal xyz") | |
| elif self.plotOptions.get('square_xy'): | |
| cmds.append("set view equal xy") | |
| else: | |
| if self.plotOptions.get('square'): | |
| cmds.append("set size ratio -1") | |
| # handle 'hardcopy'. This simply ties in to 'output' and 'terminal', handled | |
| # later | |
| if 'hardcopy' in self.plotOptions: | |
| # 'hardcopy' is simply a shorthand for 'terminal' and 'output', so they | |
| # can't exist together | |
| if 'terminal' in self.plotOptions or 'output' in self.plotOptions: | |
| raise GnuplotlibError( | |
| """The 'hardcopy' option can't coexist with either 'terminal' or 'output'. If the | |
| defaults are acceptable, use 'hardcopy' only, otherwise use 'terminal' and | |
| 'output' to get more control""") | |
| outputfile = self.plotOptions['hardcopy'] | |
| m = re.search(r'\.(eps|ps|pdf|png)$', outputfile) | |
| if not m: | |
| raise GnuplotlibError("Only .eps, .ps, .pdf and .png hardcopy output supported") | |
| outputfileType = m.group(1) | |
| terminalOpts = { 'eps': 'postscript solid color enhanced eps', | |
| 'ps': 'postscript solid color landscape 10', | |
| 'pdf': 'pdf solid color font ",10" size 11in,8.5in', | |
| 'png': 'png size 1280,1024' } | |
| self.plotOptions['terminal'] = terminalOpts[outputfileType] | |
| self.plotOptions['output'] = outputfile | |
| if 'terminal' in self.plotOptions and not 'output' in self.plotOptions: | |
| sys.stderr.write('Warning: defined gnuplot terminal, but NOT an output file. Is this REALLY what you want?\n') | |
| # add the extra global options | |
| if 'cmds' in self.plotOptions: | |
| # if there's a single cmds option, put it into a 1-element list to | |
| # make the processing work | |
| if isinstance(self.plotOptions['cmds'], (list, tuple)): | |
| cmds += self.plotOptions['cmds'] | |
| else: | |
| cmds.append(self.plotOptions['cmds']) | |
| return cmds | |
| def __del__(self): | |
| if self.gnuplotProcess: | |
| if self.checkpoint_stuck: | |
| self.gnuplotProcess.terminate() | |
| else: | |
| self._printGnuplotPipe( "exit\n" ) | |
| self.gnuplotProcess.wait() | |
| self.gnuplotProcess = None | |
| os.close(self.fdDupSTDOUT) | |
| def _safelyWriteToPipe(self, input, flags=''): | |
| def barfOnDisallowedCommands(line): | |
| # I use STDERR as the backchannel, so I don't allow any "set print" | |
| # commands, since those can disable that | |
| if re.match(r'''(?: .*;)? # optionally wait for a semicolon | |
| \s* | |
| set\s+print\b''', | |
| line, re.X): | |
| raise GnuplotlibError("Please don't 'set print' since I use gnuplot's STDERR for error detection") | |
| if re.match(r'''(?: .*;)? # optionally wait for a semicolon | |
| \s* | |
| print\b''', | |
| line, re.X): | |
| raise GnuplotlibError("Please don't ask gnuplot to 'print' anything since this can confuse my error detection") | |
| if re.match(r'''(?: .*;)? # optionally wait for a semicolon | |
| \s* | |
| set\s+terminal\b''', | |
| line, re.X) and flags != 'terminal': | |
| raise GnuplotlibError("Please do not 'set terminal' manually. Use the 'terminal' plot option instead") | |
| if re.match(r'''(?: .*;)? # optionally wait for a semicolon | |
| \s* | |
| set\s+output\b''', | |
| line, re.X) and not re.match('output', flags): | |
| raise GnuplotlibError("Please do not 'set output' manually. Use the 'output' plot option instead") | |
| if not isinstance(input, (list,tuple)): | |
| input = (input,) | |
| for cmd in input: | |
| barfOnDisallowedCommands(cmd) | |
| self._printGnuplotPipe( cmd + '\n' ) | |
| errorMessage, warnings = self._checkpoint('printwarnings') | |
| if errorMessage: | |
| barfmsg = "Gnuplot error: '\n{}\n' while sending cmd '{}'\n".format(errorMessage, cmd) | |
| if warnings: | |
| barfmsg += "Warnings:\n" + str(warnings) | |
| raise GnuplotlibError(barfmsg) | |
| def _gnuplotStdin(self): | |
| if self.gnuplotProcess: | |
| return self.gnuplotProcess.stdin | |
| return sys.stdout | |
| def _printGnuplotPipe(self, string): | |
| self._gnuplotStdin().write( string ) | |
| self._logEvent("Sent to child process {} bytes ==========\n{}=========================". | |
| format(len(string), string)) | |
| # I test the plot command by making a dummy plot with the test command. | |
| def _testPlotcmd(self, cmd, data): | |
| # I don't actually want to see the plot, I just want to make sure that | |
| # no errors are thrown. I thus send the output to /dev/null. Note that I | |
| # never actually read stdout, so if this test plot goes to the default | |
| # stdout output, then eventually the buffer fills up and gnuplot blocks. | |
| # So keep it going to /dev/null, or make sure to read the test plot from | |
| # stdout | |
| self._printGnuplotPipe( "set output '/dev/null'\n" ) | |
| self._printGnuplotPipe( "set terminal dumb\n" ) | |
| # I send a test plot command. Gnuplot implicitly uses && if multiple | |
| # commands are present on the same line. Thus if I see the post-plot print | |
| # in the output, I know the plot command succeeded | |
| self._printGnuplotPipe( cmd + "\n" ) | |
| self._printGnuplotPipe( data ) | |
| checkpointMessage,warnings = self._checkpoint('ignore_known_test_failures') | |
| if checkpointMessage: | |
| # There's a checkpoint message. I explicitly ignored and threw away all | |
| # errors that are allowed to occur during a test. Anything leftover | |
| # implies a plot failure. | |
| barfmsg = "Gnuplot error: '\n{}\n' while sending plotcmd '{}'\n".format(checkpointMessage, cmd) | |
| if warnings: | |
| barfmsg += "Warnings:\n" + "\n".join(warnings) | |
| raise GnuplotlibError(barfmsg) | |
| # syncronizes the child and parent processes. After _checkpoint() returns, I | |
| # know that I've read all the data from the child. Extra data that represents | |
| # errors is returned. Warnings are explicitly stripped out | |
| def _checkpoint(self, flags=''): | |
| # I have no way of knowing if the child process has sent its error data | |
| # yet. It may be that an error has already occurred, but the message hasn't | |
| # yet arrived. I thus print out a checkpoint message and keep reading the | |
| # child's STDERR pipe until I get that message back. Any errors would have | |
| # been printed before this | |
| checkpoint = "gpsync{}xxx".format(self.sync_count) | |
| self.sync_count += 1 | |
| self._printGnuplotPipe( 'print "{}"\n'.format(checkpoint) ) | |
| # if no error pipe exists, we can't check for errors, so we're done. | |
| # Usually happens if(we're dumping) | |
| if not self.gnuplotProcess or not self.gnuplotProcess.stderr: | |
| return '',[] | |
| fromerr = '' | |
| while not fromerr.endswith(checkpoint): | |
| # if no data received in 5 seconds, the gnuplot process is stuck. This | |
| # usually happens if the gnuplot process is not in a command mode, but in | |
| # a data-receiving mode. I'm careful to avoid this situation, but bugs in | |
| # this module and/or in gnuplot itself can make this happen | |
| self._logEvent("Trying to read from gnuplot") | |
| rlist,wlist,xlist = select.select([self.gnuplotProcess.stderr],[], [], 5) | |
| if rlist: | |
| # read a byte. I'd like to read "as many bytes as are | |
| # available", but I don't know how to this in a very portable | |
| # way (I just know there will be windows users complaining if I | |
| # simply do a non-blocking read). Very little data will be | |
| # coming in anyway, so doing this a byte at a time is an | |
| # irrelevant inefficiency | |
| byte = self.gnuplotProcess.stderr.read(1) | |
| fromerr += byte | |
| self._logEvent("Read byte '{}' ({}) from gnuplot child process".format(byte, hex(ord(byte)))) | |
| else: | |
| self._logEvent("Gnuplot read timed out") | |
| self.checkpoint_stuck = True | |
| raise GnuplotlibError( | |
| r'''Gnuplot process no longer responding. This is likely a bug in gnuplotlib | |
| and/or gnuplot itself. Please report this as a gnuplotlib bug''') | |
| fromerr = re.search(r'\s*(.*?)\s*{}$'.format(checkpoint), fromerr, re.M + re.S).group(1) | |
| warningre = re.compile(r'^.*(?:warning:\s*(.*?)\s*$)\n?', re.M + re.I) | |
| warnings = warningre.findall(fromerr) | |
| if flags == 'printwarnings': | |
| for w in warnings: | |
| sys.stderr.write("Gnuplot warning: {}\n".format(w)) | |
| # I've now read all the data up-to the checkpoint. Strip out all the warnings | |
| fromerr = warningre.sub('',fromerr) | |
| # if asked, ignore and get rid of all the errors known to happen during | |
| # plot-command testing. These include | |
| # | |
| # 1. "invalid command" errors caused by the test data being sent to gnuplot | |
| # as a command. The plot command itself will never be invalid, so this | |
| # doesn't actually mask out any errors | |
| # | |
| # 2. "invalid range" errors caused by requested plot bounds (xmin, xmax, | |
| # etc) tossing out any test-plot data. The point of the plot-command | |
| # testing is to make sure the command is valid, so any out-of-boundedness | |
| # of the test data is irrelevant | |
| # | |
| # 3. image grid complaints | |
| if flags == 'ignore_known_test_failures': | |
| r = re.compile(r'''^gnuplot>\s*(?:{}|e\b).*$ # report of the actual invalid command | |
| \n^\s+\^\s*$ # ^ mark pointing to where the error happened | |
| \n^.*invalid\s+command.*$''' # actual 'invalid command' complaint | |
| .format(testdataunit_ascii), | |
| re.X + re.M) | |
| fromerr = r.sub('', fromerr) | |
| # ignore a simple 'invalid range' error observed when, say only the | |
| # xmin bound is set and all the data is below it | |
| r = re.compile(r'''^gnuplot>\s*plot.*$ # the test plot command | |
| \n^\s+\^\s*$ # ^ mark pointing to where the error happened | |
| \n^.*range\s*is\s*invalid.*$''', # actual 'invalid range' complaint | |
| re.X + re.M) | |
| fromerr = r.sub('', fromerr) | |
| # fancier plots show a different 'invalid range' error. Observed when xmin | |
| # > xmax (inverted x axis) and when there's out-of-bounds data | |
| r = re.compile(r'''^gnuplot>\s*plot.*$ # the test plot command | |
| \n^\s+\^\s*$ # ^ mark pointing to where the error happened | |
| \n^.*all\s*points.*undefined.*$''', # actual 'invalid range' complaint | |
| re.X + re.M) | |
| fromerr = r.sub('', fromerr) | |
| # Newer gnuplot sometimes says 'x_min should not equal x_max!' when | |
| # complaining about ranges. Ignore those here | |
| r = re.compile(r'^.*_min should not equal .*_max!.*$', # actual 'invalid range' complaint | |
| re.X + re.M) | |
| fromerr = r.sub('', fromerr) | |
| # 'with image' plots can complain about an uninteresting domain. Exact error: | |
| # GNUPLOT (plot_image): Image grid must be at least 4 points (2 x 2). | |
| r = re.compile(r'^.*Image grid must be at least.*$', | |
| re.X + re.M) | |
| fromerr = r.sub('', fromerr) | |
| fromerr = fromerr.strip() | |
| return fromerr, warnings | |
| def _logEvent(self, event): | |
| # only log when asked | |
| if not self.plotOptions.get('log'): | |
| return | |
| t = time.time() - self.t0 | |
| print( "==== PID {} at t={:.4f}: {}".format(self.gnuplotProcess.pid if self.gnuplotProcess else '(none)', | |
| t, event), | |
| file=sys.stderr ) | |
| def _sendCurve(self, curve): | |
| pipe = self._gnuplotStdin() | |
| if self.plotOptions.get('ascii'): | |
| if curve.get('matrix'): | |
| np.savetxt( pipe, | |
| np.vstack(curve['_data']).astype(np.float64,copy=False), | |
| '%s' ) | |
| pipe.write("\ne\n") | |
| else: | |
| np.savetxt( pipe, | |
| np.vstack(curve['_data']).transpose().astype(np.float64,copy=False), | |
| '%s' ) | |
| pipe.write("e\n") | |
| else: | |
| np.dstack(curve['_data']).astype(np.float64,copy=False).tofile(pipe) | |
| def _getPlotCmd(self, curves): | |
| def optioncmd(curve): | |
| cmd = '' | |
| if 'legend' in curve: cmd += 'title "{}" '.format(curve['legend']) | |
| else: cmd += 'notitle ' | |
| # use the given per-curve 'with' style if there is one. Otherwise fall | |
| # back on the global | |
| _with = curve['with'] if 'with' in curve else self.plotOptions['with'] | |
| if _with: cmd += "with {} ".format(_with) | |
| if curve.get('y2'): cmd += "axes x1y2 " | |
| return cmd | |
| def binaryFormatcmd(curve): | |
| # I make 2 formats: one real, and another to test the plot cmd, in case it | |
| # fails | |
| tuplesize = curve['tuplesize'] | |
| fmt = '' | |
| if curve.get('matrix'): | |
| fmt += 'binary array=({},{})'.format(curve['_data'][0].shape[-1], | |
| curve['_data'][0].shape[-2]) | |
| fmt += ' format="' + ('%double' * (tuplesize-2)) + '"' | |
| else: | |
| fmt += 'binary record=' + str(curve['_data'][0].shape[-1]) | |
| fmt += ' format="' + ('%double' * tuplesize) + '"' | |
| # when doing fancy things, gnuplot can get confused if I don't | |
| # explicitly tell it the tuplesize. It has its own implicit-tuples | |
| # logic that I don't want kicking in. For instance, 3d matrix plots | |
| # with image do not work in binary without 'using': | |
| using_Ncolumns = tuplesize | |
| if curve.get('matrix'): | |
| using_Ncolumns -= 2 | |
| fmt += ' using ' + ':'.join( str(x+1) for x in range(using_Ncolumns) ) | |
| # to test the plot I plot a single record | |
| fmtTest = fmt | |
| fmtTest = re.sub('record=\d+', 'record=1', fmtTest) | |
| fmtTest = re.sub('array=\(\d+,\d+\)', 'array=(2, 2)', fmtTest) | |
| return fmt,fmtTest | |
| def getTestDataLen(curve): | |
| # assuming sizeof(double)==8 | |
| if curve.get('matrix'): | |
| return 8 * 2*2*(curve['tuplesize']-2) | |
| return 8 * curve['tuplesize'] | |
| basecmd = '' | |
| # if anything is to be plotted on the y2 axis, set it up | |
| if any( curve.get('y2') for curve in curves ): | |
| if self.plotOptions.get('3d'): | |
| raise GnuplotlibError("3d plots don't have a y2 axis") | |
| basecmd += "set ytics nomirror\n" | |
| basecmd += "set y2tics\n" | |
| if self.plotOptions.get('3d'): basecmd += 'splot ' | |
| else: basecmd += 'plot ' | |
| plotCurveCmds = [] | |
| plotCurveCmdsMinimal = [] # same as above, but with a single data point per plot only | |
| testData = '' # data to make a minimal plot | |
| for curve in curves: | |
| optioncmds = optioncmd(curve) | |
| if not self.plotOptions.get('ascii'): | |
| # I get 2 formats: one real, and another to test the plot cmd, in case it | |
| # fails. The test command is the same, but with a minimal point count. I | |
| # also get the number of bytes in a single data point here | |
| formatFull,formatMinimal = binaryFormatcmd(curve) | |
| Ntestbytes_here = getTestDataLen(curve) | |
| plotCurveCmds .append( "'-' " + formatFull + ' ' + optioncmds ) | |
| plotCurveCmdsMinimal.append( "'-' " + formatMinimal + ' ' + optioncmds ) | |
| # If there was an error, these whitespace commands will simply do | |
| # nothing. If there was no error, these are data that will be plotted in | |
| # some manner. I'm not actually looking at this plot so I don't care | |
| # what it is. Note that I'm not making assumptions about how long a | |
| # newline is (perl docs say it could be 0 bytes). I'm printing as many | |
| # spaces as the number of bytes that I need, so I'm potentially doubling | |
| # or even tripling the amount of needed data. This is OK, since gnuplot | |
| # will simply ignore the tail. | |
| testData += " \n" * Ntestbytes_here | |
| else: | |
| # for some things gnuplot has its own implicit-tuples logic; I want to | |
| # suppress this, so I explicitly tell gnuplot to use all the columns we | |
| # have | |
| using = ' using ' + ':'.join(str(x+1) for x in range(curve['tuplesize'])) | |
| # I'm using ascii to talk to gnuplot, so the minimal and "normal" plot | |
| # commands are the same (point count is not in the plot command) | |
| matrix = '' | |
| if curve.get('matrix'): matrix = 'matrix' | |
| plotCurveCmds.append( \ | |
| "'-' {matrix} {using} {optioncmds}". | |
| format(matrix = matrix, | |
| using = using, | |
| optioncmds = optioncmds)) | |
| testData_curve = '' | |
| if curve.get('matrix'): | |
| testmatrix = "{0} {0}\n" + "{0} {0}\n" + "\ne\n" | |
| testData_curve = testmatrix.format(testdataunit_ascii) * (curve['tuplesize'] - 2) | |
| else: | |
| testData_curve = ' '.join( ['{}'.format(testdataunit_ascii)] * curve['tuplesize']) + \ | |
| "\n" + "e\n" | |
| testData += testData_curve | |
| # the command to make the plot and to test the plot | |
| cmd = basecmd + ','.join(plotCurveCmds) | |
| cmdMinimal = (basecmd + ','.join(plotCurveCmdsMinimal)) if plotCurveCmdsMinimal else cmd | |
| return (cmd, cmdMinimal, testData) | |
| def _massageAndValidateArgs(self, curves, curveOptions_base): | |
| # Collect all the passed data into a tuple of lists, one curve per list | |
| if all(type(curve) is np.ndarray for curve in curves): | |
| curves = (list(curves),) | |
| elif all(type(curve) is tuple for curve in curves): | |
| curves = [ list(curve) for curve in curves ] | |
| else: | |
| raise GnuplotlibError("all data arguments should be of type ndarray (one curve) or tuples") | |
| # add an options dict if there isn't one, apply the base curve | |
| # options to each curve | |
| for curve in curves: | |
| if not type(curve[-1]) is dict: | |
| curve.append({}) | |
| curve[-1].update(curveOptions_base) | |
| # I convert the curve definition from a list of | |
| # (data, data, data, ..., {options}) | |
| # to a dict | |
| # {options, '_data': (data, data, data, ....)} | |
| # | |
| # The former is nicer as a user interface, but the latter is easier for | |
| # the programmer (me!) to deal with | |
| def reformat(curve): | |
| d = _dictDeUnderscore(curve[-1]) | |
| d['_data'] = list(curve[0:-1]) | |
| return d | |
| curves = [ reformat(curve) for curve in curves ] | |
| for curve in curves: | |
| # make sure all the curve options are valid | |
| for opt in curve: | |
| if opt == '_data': | |
| continue | |
| if not opt in knownCurveOptions: | |
| raise GnuplotlibError("'{}' not a known curve option".format(opt)) | |
| # tuplesize is either given explicitly, or taken from the '3d' plot | |
| # option. 2d plots default to tuplesize=2 and 3d plots to | |
| # tuplesize=3. This means that the tuplesize can be omitted for | |
| # basic plots but MUST be given for anything fancy | |
| Ndata = len(curve['_data']) | |
| if not 'tuplesize' in curve: | |
| curve['tuplesize'] = 3 if self.plotOptions.get('3d') else 2 | |
| if Ndata > curve['tuplesize']: | |
| raise GnuplotlibError("Got {} tuples, but the tuplesize is {}. Giving up". \ | |
| format(Ndata, curve['tuplesize'])) | |
| if Ndata < curve['tuplesize']: | |
| # I got fewer data elements than I expected. Set up the implicit | |
| # domain if that makes sense | |
| if Ndata+1 == curve['tuplesize']: | |
| # A plot is one data element short. Fill in a sequential | |
| # domain 0,1,2,... | |
| curve['_data'].insert(0, np.arange(curve['_data'][0].shape[-1])) | |
| elif Ndata+2 == curve['tuplesize']: | |
| # a plot is 2 elements short. Use a grid as a domain. I simply set the | |
| # 'matrix' flag and have gnuplot deal with it later | |
| if self.plotOptions.get('ascii') and curve['tuplesize'] > 3: | |
| raise GnuplotlibError( \ | |
| "Can't make more than 3-dimensional plots on a implicit 2D domain\n" + \ | |
| "when sending ASCII data. I don't think gnuplot supports this. Use binary data\n" + \ | |
| "or explicitly specify the domain\n" ) | |
| curve['matrix'] = True | |
| else: | |
| raise GnuplotlibError( \ | |
| "plot() needed {} data arrays, but only got {}".format(curve['tuplesize'],Ndata)) | |
| # The curve is now set up. I look at the input matrices to make sure | |
| # the dimensions line up | |
| # Make sure the domain and ranges describe the same number of data points | |
| dim01 = [None, None] | |
| for datum in curve['_data']: | |
| if curve.get('matrix') and datum.ndim < 2: | |
| raise GnuplotlibError("Tried to plot against an implicit 2D domain, but was given less than 2D data") | |
| def checkdim(idim): | |
| dim_here = datum.shape[-1 - idim] | |
| if dim01[idim]: | |
| if dim_here != dim01[idim]: | |
| raise GnuplotlibError("plot() was given mismatched tuples to plot. {} vs {}". \ | |
| format(dim01[idim], dim_here)) | |
| else: | |
| dim01[idim] = dim_here | |
| checkdim(0) | |
| if curve.get('matrix'): | |
| checkdim(1) | |
| # I now manually broadcast the dimensions. PDL does this for me | |
| # automatically, but numpy absolutely does not. This is a MAJOR | |
| # advantage PDL has over numpy. Oh well | |
| def broadcast_split(curve): | |
| # I line up all the dimensions, and split off any that are being | |
| # broadcasted | |
| # With line plots I don't broadcast the last dimension; with | |
| # matrices, I don't broadcast the last 2 | |
| ndims_keep = 2 if curve.get('matrix') else 1 | |
| # object needed for fancy slices. m[:] is exactly the same as | |
| # m[colon], but 'colon' can be manipulated in ways that ':' can't | |
| colon = slice(None, None, None) | |
| # make a copy of the plot options | |
| curve_options = dict(curve) | |
| del curve_options['_data'] | |
| # grab all option keys that have numpy arrays as values. I broadcast | |
| # these | |
| numpy_options_keys = [ k for k in curve_options.keys() | |
| if type(curve_options[k]) == np.ndarray ] | |
| # The numpy option values have no domain dimension, so I add dummy | |
| # dimensions to make things line up | |
| idx_new_axes = (colon,) + (np.newaxis,)*ndims_keep | |
| for k in numpy_options_keys: | |
| curve_options[k] = curve_options[k][idx_new_axes] | |
| shapes = [ v.shape for v in curve['_data'] + [curve_options[k] for k in numpy_options_keys] ] | |
| max_ndim = max( len(s) for s in shapes ) | |
| # Broadcasting does 2 things: | |
| # 1. out-of-bounds dimensions are added at the front | |
| # 2. too-high indices are truncated to 1 | |
| # | |
| # I handle the first case before I do anything else: I add dummy | |
| # length-1 dimensions at the front as needed. After this is done, | |
| # ndims for all the matrices will be the same | |
| data = [] | |
| for v in curve['_data']: | |
| N_new_axes = max_ndim - len(v.shape) | |
| idx_new_axes = (np.newaxis,)*N_new_axes + (colon,) | |
| data.append(v[idx_new_axes]) | |
| for k in numpy_options_keys: | |
| o = curve_options[k] | |
| N_new_axes = max_ndim - len(o.shape) | |
| idx_new_axes = (np.newaxis,)*N_new_axes + (colon,) | |
| curve_options[k] = o[idx_new_axes] | |
| shapes = [ v.shape for v in data + [curve_options[k] for k in numpy_options_keys] ] | |
| dims = [] | |
| for i in range(max_ndim): | |
| # looking at a particular dimension. I'm broadcasting, so this dimension | |
| # may not exist. The dimensions are lined up at the end. dim_idxs is the | |
| # indices of dimension i for each vector. If <0, this dimension does not | |
| # exist in that vector | |
| dim_idxs = [ len(s) - max_ndim + i for s in shapes ] | |
| # I grab all the dimensions that aren't 1. All the counts that aren't 1 | |
| # must match, or else we can't broadcast this | |
| dims_not_1 = [ s[dim_idx] for s,dim_idx in zip(shapes,dim_idxs) | |
| if dim_idx >= 0 and s[dim_idx] != 1 ] | |
| if len(dims_not_1) and not all( d == dims_not_1[0] for d in dims_not_1): | |
| raise GnuplotlibError("Mismatched dimensions, cannot broadcast. Shapes: {}".format(shapes)) | |
| # grab this dimension | |
| dims.append( dims_not_1[0] if len(dims_not_1) else 1 ) | |
| split_curves = [] | |
| def accum_dim( dimlist ): | |
| if len(dimlist) == max_ndim - ndims_keep: | |
| # I have a full list of dimensions. I sample the curves and | |
| # accumulate. Need to pay attention to 2 things: | |
| # | |
| # 1. out-of-bounds dimensions are added at the front (the | |
| # 'data' and 'curve_options' already has this taken care of) | |
| # | |
| # 2. too-high indices are truncated to 1 | |
| # expand the dimensionality to cover out-of-bounds dimensions | |
| split_curve = dict(curve_options) | |
| def lookup_broadcasted_slice(array): | |
| return tuple(d if array.shape[i] != 1 else 0 for i,d in enumerate(dimlist)) | |
| split_curve['_data'] = [ v[ lookup_broadcasted_slice(v) ] for v in data ] | |
| for k in numpy_options_keys: | |
| split_curve[k] = split_curve[k][ lookup_broadcasted_slice(split_curve[k]) + | |
| (0,)*ndims_keep ] | |
| split_curves.append(split_curve) | |
| return | |
| for inext in range( dims[ len(dimlist)] ): | |
| accum_dim( dimlist + (inext,) ) | |
| accum_dim( () ) | |
| return split_curves | |
| curves_flattened = [] | |
| for curve in curves: | |
| curves_flattened.extend( broadcast_split( curve )) | |
| curves = curves_flattened | |
| return curves | |
| def plot(self, *curves, **curveOptions_base): | |
| r"""Main gnuplotlib API entry point""" | |
| curves = self._massageAndValidateArgs(curves, curveOptions_base) | |
| # I'm now ready to send the plot command. If the plot command fails, | |
| # I'll get an error message; if it succeeds, gnuplot will sit there | |
| # waiting for data. I don't want to have a timeout waiting for the error | |
| # message, so I try to run the plot command to see if it works. I make a | |
| # dummy plot into the 'dumb' terminal, and then _checkpoint() for | |
| # errors. To make this quick, the test plot command contains the minimum | |
| # number of data points | |
| plotcmd, testcmd, testdata = self._getPlotCmd( curves ) | |
| self._testPlotcmd(testcmd, testdata) | |
| # tests ok. Now set the terminal and actually make the plot! | |
| # select the default terminal in case that's what we want | |
| self._safelyWriteToPipe("set terminal pop; set terminal push", 'terminal') | |
| if 'terminal' in self.plotOptions: | |
| self._safelyWriteToPipe("set terminal " + self.plotOptions['terminal'], | |
| 'terminal') | |
| if 'output' in self.plotOptions: | |
| if hasattr(self,'fdDupSTDOUT') and self.plotOptions['output'] == '*STDOUT': | |
| self.plotOptions['output'] = '/dev/fd/' + str(self.fdDupSTDOUT) | |
| self._safelyWriteToPipe('set output "' + self.plotOptions['output'] + '"', | |
| 'output') | |
| # all done. make the plot | |
| self._printGnuplotPipe( plotcmd + "\n") | |
| for curve in curves: | |
| self._sendCurve(curve) | |
| # read and report any warnings that happened during the plot | |
| self._checkpoint('printwarnings') | |
| globalplot = None | |
| def plot(*curves, **jointOptions): | |
| r'''A simple wrapper around class gnuplotlib | |
| SYNOPSIS | |
| import numpy as np | |
| import gnuplotlib as gp | |
| x = np.linspace(-5,5,100) | |
| gp.plot( x, np.sin(x) ) | |
| [ graphical plot pops up showing a simple sinusoid ] | |
| gp.plot( (x, np.sin(x), {'with': 'boxes'}), | |
| (x, np.cos(x), {'legend': 'cosine'}), | |
| _with = 'lines', | |
| terminal = 'dumb 80,40', | |
| output = '*STDOUT', | |
| unset = 'grid') | |
| [ ascii plot printed on STDOUT] | |
| 1 +-+---------+----------+-----------+-----------+----------+---------+-+ | |
| + +|||+ + + +++++ +++|||+ + + | |
| | |||||+ + + +|||||| cosine +-----+ | | |
| 0.8 +-+ |||||| + + ++||||||+ +-+ | |
| | ||||||+ + ++||||||||+ | | |
| | ||||||| + ++||||||||| | | |
| | |||||||+ + ||||||||||| | | |
| 0.6 +-+ |||||||| + +||||||||||+ +-+ | |
| | ||||||||+ | ++||||||||||| | | |
| | ||||||||| + ||||||||||||| | | |
| 0.4 +-+ ||||||||| | ++||||||||||||+ +-+ | |
| | ||||||||| + +|||||||||||||| | | |
| | |||||||||+ + ||||||||||||||| | | |
| | ||||||||||+ | ++||||||||||||||+ + | | |
| 0.2 +-+ ||||||||||| + ||||||||||||||||| + +-+ | |
| | ||||||||||| | +||||||||||||||||+ | | | |
| | ||||||||||| + |||||||||||||||||| + | | |
| 0 +-+ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +-+ | |
| | + ||||||||||||||||||+ | ++|||||||||| | | |
| | | +||||||||||||||||| + ||||||||||| | | |
| | + ++|||||||||||||||| | +|||||||||| | | |
| -0.2 +-+ + ||||||||||||||||| + ||||||||||| +-+ | |
| | | ++||||||||||||||+ | ++||||||||| | | |
| | + ||||||||||||||| + ++|||||||| | | |
| | | +|||||||||||||| + ||||||||| | | |
| -0.4 +-+ + ++||||||||||||+ | +|||||||| +-+ | |
| | + ||||||||||||| + ||||||||| | | |
| | | +|||||||||||+ + ++||||||| | | |
| -0.6 +-+ + ++|||||||||| | +||||||| +-+ | |
| | + ||||||||||| + ++|||||| | | |
| | + +|||||||||+ + ||||||| | | |
| | + ++|||||||| + +++||||| | | |
| -0.8 +-+ + + ++||||||+ + + +||||| +-+ | |
| | + + +|||||| + + ++|||| | | |
| + + + ++ ++|||++ + + ++ + + ++||| + | |
| -1 +-+---------+----------+-----------+-----------+----------+---------+-+ | |
| -6 -4 -2 0 2 4 6 | |
| DESCRIPTION | |
| class gnuplotlib provides full power and flexibility, but for simple plots this | |
| wrapper is easier to use. plot() uses a global instance of class gnuplotlib, so | |
| only a single plot can be made by plot() at a time: the one plot window is | |
| reused. | |
| Data is passed to plot() in exactly the same way as when using class gnuplotlib. | |
| The kwargs passed to this function are a combination of curve options and plot | |
| options. The curve options passed here are defaults for all the curves. Any | |
| specific options specified in each curve override the defaults given in the | |
| kwargs. | |
| See the documentation for class gnuplotlib for full details. | |
| ''' | |
| # pull out the options (joint curve and plot) | |
| jointOptions = _dictDeUnderscore(jointOptions) | |
| # separate the options into plot and curve ones | |
| plotOptions = {} | |
| curveOptions_base = {} | |
| for opt in jointOptions: | |
| if opt in knownPlotOptions: | |
| plotOptions[opt] = jointOptions[opt] | |
| elif opt in knownCurveOptions: | |
| curveOptions_base[opt] = jointOptions[opt] | |
| else: | |
| raise GnuplotlibError("Option '{}' not a known curve or plot option".format(opt)) | |
| # I make a brand new gnuplot process if necessary. If one already exists, I | |
| # re-initialize it. If we're doing a data dump then I also create a new | |
| # object. There's no gnuplot session to reuse in that case, and otherwise | |
| # the dumping won't get activated | |
| global globalplot | |
| if not globalplot or plotOptions.get('dump'): | |
| globalplot = gnuplotlib(**plotOptions) | |
| else: | |
| globalplot.__init__(**plotOptions) | |
| globalplot.plot(*curves, **curveOptions_base) | |
| def plot3d(*curves, **jointOptions): | |
| r'''A simple wrapper around class gnuplotlib to make 3d plots | |
| SYNOPSIS | |
| import numpy as np | |
| import gnuplotlib as gp | |
| th = np.linspace(0,10,1000) | |
| x = np.cos(np.linspace(0,10,1000)) | |
| y = np.sin(np.linspace(0,10,1000)) | |
| gp.plot3d( x, y, th ) | |
| [ an interactive, graphical plot of a spiral pops up] | |
| DESCRIPTION | |
| class gnuplotlib provides full power and flexibility, but for simple 3d plots | |
| this wrapper is easier to use. plot3d() simply calls plot(..., _3d=True). See | |
| the documentation for plot() and class gnuplotlib for full details. | |
| ''' | |
| jointOptions['3d'] = True | |
| plot(*curves, **jointOptions) | |
| def plotimage(*curves, **jointOptions): | |
| r'''A simple wrapper around class gnuplotlib to plot image maps | |
| SYNOPSIS | |
| import numpy as np | |
| import gnuplotlib as gp | |
| x,y = np.ogrid[-10:11,-10:11] | |
| gp.plotimage( x**2 + y**2, | |
| title = 'Heat map') | |
| DESCRIPTION | |
| class gnuplotlib provides full power and flexibility, but for simple image-map | |
| plots this wrapper is easier to use. plotimage() simply calls plot(..., | |
| _with='image', tuplesize=3). See the documentation for plot() and class | |
| gnuplotlib for full details. | |
| ''' | |
| jointOptions['_with'] = 'image' | |
| jointOptions['tuplesize'] = 3 | |
| plot(*curves, **jointOptions) | |
| if __name__ == '__main__': | |
| import numpy as np | |
| import gnuplotlib as gp | |
| import time | |
| x = np.arange(101) - 50 | |
| gp.plot(x**2, dump=0, ascii=0) | |
| time.sleep(1) | |
| g1 = gp.gnuplotlib(title = 'Parabola with error bars', | |
| _with = 'xyerrorbars') | |
| g1.plot( x**2 * 10, np.abs(x)/10, np.abs(x)*5, | |
| legend = 'Parabola', | |
| tuplesize = 4 ) | |
| time.sleep(5) | |
| x,y = np.ogrid[-10:11,-10:11] | |
| gp.plot( x**2 + y**2, | |
| title = 'Heat map', | |
| set = 'view map', | |
| _with = 'image', | |
| tuplesize = 3) | |
| time.sleep(5) | |
| theta = np.linspace(0, 6*np.pi, 200) | |
| z = np.linspace(0, 5, 200) | |
| g2 = gp.gnuplotlib(_3d = True) | |
| g2.plot( (np.cos(theta), np.sin(theta), z), | |
| (np.cos(theta), -np.sin(theta), z)) | |
| time.sleep(60) |