Trace plot from cmdstan results in IndexError: arrays used as indices must be of integer (or boolean) type

I can’t plot the trace plot from cmdstan

ID = 3
posterior_glob =  "./samplesID_%d-[1-9].csv"%ID
obs_data_path = "./DataID_%d.R"%ID
cmdstan_data = az.from_cmdstan(posterior = posterior_glob, observed_data=obs_data_path)

pars = ["R0","kappa"]
az.plot_trace(cmdstan_data,var_names=pars)

which results in

/home/XXX/arviz/plots/kdeplot.py:326: RuntimeWarning: invalid value encountered in true_divide
  def _fast_kde_2d(x, y, gridsize=(128, 128), circular=False):

---------------------------------------------------------------------------
IndexError                                Traceback (most recent call last)
<ipython-input-145-9641094159ee> in <module>
----> 1 az.plot_trace(cmdstan_data,var_names=pars)

~/anaconda3/lib/python3.6/site-packages/arviz/plots/traceplot.py in plot_trace(data, var_names, coords, divergences, figsize, textsize, lines, compact, combined, legend, plot_kwargs, fill_kwargs, rug_kwargs, hist_kwargs, trace_kwargs, max_plots)

IndexError: arrays used as indices must be of integer (or boolean) type

I can get density_plot with no problems, but trace plot does not work. It shows the first subplot for R0, but then displays the error.

Additional context Stable version 0.5.1 installed via pip-command

[ahartikainen]

Yes, there is an error in from_cmdstan where part of the sample_stats items are float (they should be int or bool).

The quick fix to plot your results is

az.plot_trace(cmdstan_data,var_names=pars, divergences=False)

[aakhmetz]

Thanks!