Problem with errorbar in log scale about matplotlib HOT 6 CLOSED

The error bar does plot, but for some reason, it doesn't show the vertical connecting bar. You'll see if you do this:

fig = plt.figure()
ax = fig.add_subplot(111)
ax.errorbar([1.,2.,3.],[1.,1.,1.],yerr = [0.1,3.,0.4])
ax.set_yscale('log')
fig.savefig('test.png')

something like this outputs:
http://i.imgur.com/LOIi7.png

I think the problem lies in the fact that numpy computes log(1), in any base, equal to 0

from matplotlib.

Confirming. Pretty sure this is related to the fact that you are trying to plot an error bar down to log(0). This works if your not trying log(0). For instance:

ax.errorbar([10, 11, 12], [8, 9, 10], yerr=[0.5, 0.7, 0.9])

Looks fine. @M-funk: can you confirm what you are expecting to see? I can't see that there is an action on this issue (perhaps a warning might be suitable when you are at log(0))?

from matplotlib.

This can be worked around by doing

ax.set_yscale('log', nonposy="clip")

Maybe this should be the default for set_yscale? This seems to cause quite a few problems.

from matplotlib.

@neggert : Nice workaround.
Wish I had seen it before I wasted 1 hour to try and fix it ;)

From a beginners standpoint I would definitely vote for making it the default (unless there are obvious reasons not to do so).

from matplotlib.

👍 on making the default clip, with the appropriate API change warning.

from matplotlib.

Uhm... No, the errorbar should not be asymmetric when passing in log scale.
Please consider
http://faculty.washington.edu/stuve/uwess/log_error.pdf
If I understood correctly the documentation, I would consider nonposx="mask" as the best option of the default behavour.

from matplotlib.