Remove live plots #3411 (#3445)

* remove all references to live plots

* remove references to live_sample_plots

* remove miscellaneous files

* update RELEASE-NOTES

* remove more references to live_plot

* rebase with master

* remove miscellaneous files

* remove unused plot import from pymc3/sampling.py

Author: josephwillard

RELEASE-NOTES.md

@@ -36,6 +36,7 @@
 
 - `nuts_kwargs` and `step_kwargs` have been deprecated in favor of using the standard `kwargs` to pass optional step method arguments.
 - `SGFS` and `CSG` have been removed (Fix for [#3353](https://github.com/pymc-devs/pymc3/issues/3353)). They have been moved to [pymc3-experimental](https://github.com/pymc-devs/pymc3-experimental).
+-  References to `live_plot` and corresponding notebooks have been removed.
 
 ## PyMC3 3.6 (Dec 21 2018)
 

docs/source/notebooks/live_sample_plots.ipynb

@@ -16,6 +16,5 @@ Gallery.contents = {
     "howto_debugging": "How-To",
     "model_averaging": "How-To",
     "updating_priors": "How-To",
-    "live_sample_plots": "How-To",
     "lasso_block_update": "How-To"
 }

docs/source/notebooks/table_of_contents_tutorials.js

@@ -17,7 +17,6 @@
 from .util import update_start_vals, get_untransformed_name, is_transformed_name, get_default_varnames
 from .vartypes import discrete_types
 from pymc3.step_methods.hmc import quadpotential
-from pymc3 import plots
 import pymc3 as pm
 from tqdm import tqdm
 
@@ -189,8 +188,8 @@ def _cpu_count():
 
 def sample(draws=500, step=None, init='auto', n_init=200000, start=None, trace=None, chain_idx=0,
            chains=None, cores=None, tune=500, progressbar=True,
-           model=None, random_seed=None, live_plot=False, discard_tuned_samples=True,
-           live_plot_kwargs=None, compute_convergence_checks=True, **kwargs):
+           model=None, random_seed=None, discard_tuned_samples=True,
+           compute_convergence_checks=True, **kwargs):
     """Draw samples from the posterior using the given step methods.
 
     Multiple step methods are supported via compound step methods.
@@ -262,11 +261,6 @@ def sample(draws=500, step=None, init='auto', n_init=200000, start=None, trace=N
     model : Model (optional if in `with` context)
     random_seed : int or list of ints
         A list is accepted if `cores` is greater than one.
-    live_plot : bool
-        Flag for live plotting the trace while sampling. Ignored when using 'SMC'.
-    live_plot_kwargs : dict
-        Options for traceplot. Example: live_plot_kwargs={'varnames': ['x']}.
-        Ignored when using 'SMC'
     discard_tuned_samples : bool
         Whether to discard posterior samples of the tune interval. Ignored when using 'SMC'
     compute_convergence_checks : bool, default=True
@@ -423,8 +417,6 @@ def sample(draws=500, step=None, init='auto', n_init=200000, start=None, trace=N
                        'progressbar': progressbar,
                        'model': model,
                        'random_seed': random_seed,
-                       'live_plot': live_plot,
-                       'live_plot_kwargs': live_plot_kwargs,
                        'cores': cores, }
 
         sample_args.update(kwargs)
@@ -531,13 +523,11 @@ def _sample_population(draws, chain, chains, start, random_seed, step, tune,
     latest_traces = None
     for it, traces in enumerate(sampling):
         latest_traces = traces
-        # TODO: add support for liveplot during population-sampling
     return MultiTrace(latest_traces)
 
 
 def _sample(chain, progressbar, random_seed, start, draws=None, step=None,
-            trace=None, tune=None, model=None, live_plot=False,
-            live_plot_kwargs=None, **kwargs):
+            trace=None, tune=None, model=None, **kwargs):
     skip_first = kwargs.get('skip_first', 0)
     refresh_every = kwargs.get('refresh_every', 100)
 
@@ -548,15 +538,8 @@ def _sample(chain, progressbar, random_seed, start, draws=None, step=None,
     try:
         strace = None
         for it, strace in enumerate(sampling):
-            if live_plot:
-                if live_plot_kwargs is None:
-                    live_plot_kwargs = {}
-                if it >= skip_first:
-                    trace = MultiTrace([strace])
-                    if it == skip_first:
-                        ax = plots.traceplot(trace, live_plot=False, **live_plot_kwargs)
-                    elif (it - skip_first) % refresh_every == 0 or it == draws - 1:
-                        plots.traceplot(trace, ax=ax, live_plot=True, **live_plot_kwargs)
+            if it >= skip_first:
+                trace = MultiTrace([strace])
     except KeyboardInterrupt:
         pass
     finally: