From d16271aed144a4798945ee678166e5b5275ff6cc Mon Sep 17 00:00:00 2001
From: Mitzi Morris <mitzi@panix.com>
Date: Wed, 6 Oct 2021 20:25:32 -0400
Subject: [PATCH] more cleanup

---
 cmdstanpy/model.py       | 15 +++++++--------
 cmdstanpy/utils.py       | 11 +++++------
 cmdstanpy_tutorial.ipynb |  8 +-------
 3 files changed, 13 insertions(+), 21 deletions(-)

diff --git a/cmdstanpy/model.py b/cmdstanpy/model.py
index df04ba2e..cbc284f9 100644
--- a/cmdstanpy/model.py
+++ b/cmdstanpy/model.py
@@ -1303,14 +1303,13 @@ def _run_cmdstan(
             )
             while proc.poll() is None:
                 if proc.stdout is not None:
-                    lines = proc.stdout.readlines()
-                    for line in lines:
-                        fd_out.write(line)
-                        line = line.strip()
-                        if show_console and len(line) > 1:
-                            print('chain {}: {}'.format(idx + 1, line))
-                        if show_progress and progress_hook is not None:
-                            progress_hook(line)
+                    line = proc.stdout.readline()
+                    fd_out.write(line)
+                    line = line.strip()
+                    if show_console and len(line) > 1:
+                        print('chain {}: {}'.format(idx + 1, line))
+                    if show_progress and progress_hook is not None:
+                        progress_hook(line)
             if show_progress and progress_hook is not None:
                 progress_hook("Done")
 
diff --git a/cmdstanpy/utils.py b/cmdstanpy/utils.py
index b98391ab..a8b08c78 100644
--- a/cmdstanpy/utils.py
+++ b/cmdstanpy/utils.py
@@ -961,12 +961,11 @@ def do_command(
         )
         while proc.poll() is None:
             if proc.stdout is not None:
-                lines = proc.stdout.readlines()
-                for line in lines:
-                    if fd_out is not None:
-                        fd_out.write(line)
-                    if pbar is not None:
-                        pbar(line.strip())
+                line = proc.stdout.readline()
+                if fd_out is not None:
+                    fd_out.write(line)
+                if pbar is not None:
+                    pbar(line.strip())
 
         stdout, _ = proc.communicate()
         if stdout:
diff --git a/cmdstanpy_tutorial.ipynb b/cmdstanpy_tutorial.ipynb
index 8d7a3e57..b88bb633 100644
--- a/cmdstanpy_tutorial.ipynb
+++ b/cmdstanpy_tutorial.ipynb
@@ -308,15 +308,9 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "%matplotlib inline\n",
-    "import pandas as pd\n",
-    "\n",
     "vars = fit.stan_variables()\n",
     "for (k,v) in vars.items():\n",
-    "    print(k, v.shape)\n",
-    "\n",
-    "thetas = fit.stan_variable(var='theta')\n",
-    "pd.DataFrame(data=thetas).plot.density()"
+    "    print(k, v.shape)"
    ]
   },
   {