I am using matplotlib(with LaTex enabled and agg backend) in order to display hydrodynamical simulations using the pcolormesh function.
System: Ubuntu 16.04
Python: Python 2.7.12
Matplotlib: 1.5.1-1ubuntu1
Im am also adding additional axis using twinx twiny After saving ~300 png images I get a crash pointing to a non-working dvi conversion command when processing the title. I am always using pylab.close("all") in order to close my figure after each saving process.
pylab.rc('text', usetex=True)
pylab.rc('text.latex', preamble=[r"\usepackage{amsmath}", r"\usepackage{amssymb}", r"\usepackage[alsoload=astronomy]{siunitx}"])
pylab.close("all")
f, ax = pylab.subplots(1)
cmap = pylab.cm.jet
cmap.set_bad('w',1.)
if in logquantity:
plot = ax.pcolormesh(x, y, quantity , vmax=maxvalue, vmin=minvalue, norm=LogNorm(vmax= maxvalue, vmin = minvalue), cmap=cmap)
else:
plot = ax.pcolormesh(x, y, quantity, vmax=maxvalue, vmin=minvalue, cmap=cmap)
ax.set_title("Title")
ax.set_aspect("equal")
ax.set_xscale("log")
ax.grid()
...<More Formatting stuff>
ax2 = ax.axes.twiny()
ax3 = ax.twinx()
...<Formatting labels, setting scales etc>
pylab.savefig("test.png", dpi = 800, bbox_inches='tight')
pylab.close("all")
pylab.savefig("test.png", dpi = 800, bbox_inches='tight')
File "/usr/lib/python2.7/dist-packages/matplotlib/pyplot.py", line 689, in savefig
fig.canvas.draw_idle() # need this if 'transparent=True' to reset colors
File "/usr/lib/python2.7/dist-packages/matplotlib/backend_bases.py", line 2026, in draw_idle
self.draw(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/backends/backend_agg.py", line 474, in draw
self.figure.draw(self.renderer)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/figure.py", line 1159, in draw
func(*args)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/axes/_base.py", line 2324, in draw
a.draw(renderer)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/text.py", line 792, in draw
mtext=mtext)
File "/usr/lib/python2.7/dist-packages/matplotlib/backends/backend_agg.py", line 253, in draw_tex
Z = texmanager.get_grey(s, size, self.dpi)
File "/usr/lib/python2.7/dist-packages/matplotlib/texmanager.py", line 583, in get_grey
pngfile = self.make_png(tex, fontsize, dpi)
File "/usr/lib/python2.7/dist-packages/matplotlib/texmanager.py", line 524, in make_png
'dvipng: \n\n' % dvifile + report)
RuntimeError: dvipng was not able to process the following file:
$HOME/.cache/matplotlib/tex.cache/2664bc1e879cb69289e1663e63a1c713.dvi
Here is the full report generated by dvipng:
No dvipng error report available.
If I check the mentioned .cache location I can perfectly find the dvi file mentioned. if I use dvipng on it I get the perfectly correctly rendered header it should put in the plot. I am assuming some kind of cache/buffer is running full. If it only concerns lineplots using plot,semilogy, semilogx and loglog I get this error after a much higher number of images. I can also provided the formatting details(or any other additional information) if anoyone thinks they are relevant for this problem.
Thank you in advance for your answers :-)
EDIT:
The string is $\rho$$\left[6.96e-20 \frac{\si{\gram}}{\si{\centi \meter \cubed}}\right]$, $t =\num{0.00e+00}\text{y}$, $n_R = \num{300}$, $n_{\varphi} = \num{50}$, $n_z = \num{401},\ [C.L.] = 1.14e+02\text{pc}$
Png Version of cached file This is the result when I copy the cached file to another location and convert it to a png manually using dvipng.
The problem is not specific to this plot. It can happen with any plot. It works fine for whatever the first ~300 plots are. It is not always the same plot for which it crashes. That is one of the problems of looking into the problem. There is a loop that runs through all quantities and then calls functions to plot
for quantityname in quantities:
quantitydict = quantities[quantityname]
quantity = quantitydict["data"]
There are 18 of these quantities per time-step. EDIT2(More Information) The error occurs more often when the machine it is run on does not have much free Main Memory(below 10GB, script uses roughly 1GB while running). Also, sometimes manifests differently. It gives a LaTeX error. All the previous plots created in the run work just fine and I copy the line and compile it in LaTeX I get the correct result. Error Message:
pylab.savefig("test.png", dpi = 800, bbox_inches='tight')
File "/usr/lib/python2.7/dist-packages/matplotlib/pyplot.py", line 688, in savefig
res = fig.savefig(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/figure.py", line 1565, in savefig
self.canvas.print_figure(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/backend_bases.py", line 2180, in print_figure
**kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/backends/backend_agg.py", line 527, in print_png
FigureCanvasAgg.draw(self)
File "/usr/lib/python2.7/dist-packages/matplotlib/backends/backend_agg.py", line 474, in draw
self.figure.draw(self.renderer)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/figure.py", line 1159, in draw
func(*args)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/axes/_base.py", line 2324, in draw
a.draw(renderer)
File "/usr/lib/python2.7/dist-packages/matplotlib/artist.py", line 61, in draw_wrapper
draw(artist, renderer, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/matplotlib/text.py", line 749, in draw
bbox, info, descent = textobj._get_layout(renderer)
File "/usr/lib/python2.7/dist-packages/matplotlib/text.py", line 361, in _get_layout
ismath=ismath)
File "/usr/lib/python2.7/dist-packages/matplotlib/backends/backend_agg.py", line 229, in get_text_width_height_descent
renderer=self)
File "/usr/lib/python2.7/dist-packages/matplotlib/texmanager.py", line 675, in get_text_width_height_descent
dvifile = self.make_dvi(tex, fontsize)
File "/usr/lib/python2.7/dist-packages/matplotlib/texmanager.py", line 422, in make_dvi
report))
RuntimeError: LaTeX was not able to process the following string:
'CFL $\\\\Delta t_\\\\text{min}$$\\\\left[4.65e+05 \\\\text{yrs}\\\\right]$, $t =\\\\num{3.80e+03}\\\\text{y}$, $n_R = \\\\num{300}$, $n_{\\\\varphi} = \\\\num{50}$, $n_z = \\\\num{401},\\\\ [C.L.] = 1.14e+02\\\\text{pc}$'
Here is the full report generated by LaTeX:
No latex error report available.