From 50129ee7cc5ba7f6c150e8c0d9f7e509a46ba877 Mon Sep 17 00:00:00 2001
From: Ryan Babbush <ryanbabbush@gmail.com>
Date: Mon, 5 Mar 2018 22:34:15 -0800
Subject: [PATCH] updated arXiv reference (#242)

* updated arXiv reference

* updated demo to show output by default

* Update README.rst

* bumped version number
---
 README.rst                                 | 11 ++--
 examples/binary_code_transforms_demo.ipynb | 77 ++++++++++++----------
 src/openfermion/_version.py                |  2 +-
 3 files changed, 49 insertions(+), 41 deletions(-)

diff --git a/README.rst b/README.rst
index ac26ea010..c3c9219a9 100644
--- a/README.rst
+++ b/README.rst
@@ -152,11 +152,12 @@ How to cite
 ===========
 When using OpenFermion for research projects, please cite:
 
-    Jarrod R. McClean, Ian D. Kivlichan, Damian S. Steiger, Kevin J. Sung,
-    Yudong Cao, Chengyu Dai, E. Schuyler Fried, Craig Gidney, Thomas Häner,
-    Vojtĕch Havlíček, Cupjin Huang, Zhang Jiang, Matthew Neeley, Jhonathan Romero,
-    Nicholas Rubin, Nicolas P. D. Sawaya, Kanav Setia, Sukin Sim, Wei Sun,
-    Fang Zhang and Ryan Babbush.
+    Jarrod R. McClean, Ian D. Kivlichan, Kevin J. Sung, Damian S. Steiger,
+    Yudong Cao, Chengyu Dai, E. Schuyler Fried, Craig Gidney, Brendan Gimby,
+    Thomas Häner, Tarini Hardikar, Vojtĕch Havlíček, Cupjin Huang, Zhang Jiang,
+    Matthew Neeley, Thomas O'Brien, Isil Ozfidan, Maxwell D. Radin, Jhonathan Romero,
+    Nicholas Rubin, Nicolas P. D. Sawaya, Kanav Setia, Sukin Sim, Mark Steudtner,
+    Wei Sun, Fang Zhang and Ryan Babbush.
     *OpenFermion: The Electronic Structure Package for Quantum Computers*.
     `arXiv:1710.07629 <https://arxiv.org/abs/1710.07629>`__. 2017.
 
diff --git a/examples/binary_code_transforms_demo.ipynb b/examples/binary_code_transforms_demo.ipynb
index ade753809..2afc113ea 100644
--- a/examples/binary_code_transforms_demo.ipynb
+++ b/examples/binary_code_transforms_demo.ipynb
@@ -2,8 +2,10 @@
  "cells": [
   {
    "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
+   "execution_count": 1,
+   "metadata": {
+    "collapsed": true
+   },
    "outputs": [],
    "source": [
     "# This code block is for automatic testing purposes, please ignore.\n",
@@ -16,10 +18,7 @@
   },
   {
    "cell_type": "markdown",
-   "metadata": {
-    "deletable": true,
-    "editable": true
-   },
+   "metadata": {},
    "source": [
     "# Lowering qubit requirements using binary codes\n",
     "## Introduction\n",
@@ -42,13 +41,22 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "collapsed": false,
-    "deletable": true,
-    "editable": true
-   },
-   "outputs": [],
+   "execution_count": 2,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "('These three expressions are equivalent: \\n', [W0 W1] + [W1] + [1])\n",
+      "[W0 W1] + [W0] + [1]\n",
+      "[W0 W1] + [W1] + [1]\n",
+      "The native data type structure can be seen here:\n",
+      "[(0, 1), (1,), ('one',)]\n",
+      "('We can always evaluate the expression for instance by the vector (w0, w1, w2) = (1, 0, 0):', 1)\n"
+     ]
+    }
+   ],
    "source": [
     "from openfermion.ops import SymbolicBinary\n",
     "\n",
@@ -68,10 +76,8 @@
    "cell_type": "markdown",
    "metadata": {
     "code_folding": [
-     0.0
-    ],
-    "deletable": true,
-    "editable": true
+     0
+    ]
    },
    "source": [
     "## Binary codes\n",
@@ -80,13 +86,21 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "collapsed": false,
-    "deletable": true,
-    "editable": true
-   },
-   "outputs": [],
+   "execution_count": 3,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "[[[1, 0, 0], [0, 1, 0]], '[[W0],[W1],[W0] + [W1] + [1]]']\n",
+      "('number of qubits: ', 2, '  number of Fermion modes: ', 3)\n",
+      "('encoding matrix: \\n', array([[1, 0, 0],\n",
+      "       [0, 1, 0]]))\n",
+      "('decoder: ', [[W0], [W1], [W0] + [W1] + [1]])\n"
+     ]
+    }
+   ],
    "source": [
     "from openfermion.ops import BinaryCode\n",
     "\n",
@@ -100,10 +114,7 @@
   },
   {
    "cell_type": "markdown",
-   "metadata": {
-    "deletable": true,
-    "editable": true
-   },
+   "metadata": {},
    "source": [
     "The code used in the example above, is in fact the (odd) Checksum code, and is implemented already - along with a few other examples from arxiv:1712.07067. In addition to the $\\text{checksum_code}$ the functions $\\text{weight_one_segment_code}$, $\\text{weight_two_segment_code}$, that output a subcode each, as well as $\\text{weight_one_binary_addressing_code}$ can be found under openfermion.transforms._code_transform_functions.\n",
     "\n",
@@ -133,12 +144,8 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 11,
-   "metadata": {
-    "collapsed": false,
-    "deletable": true,
-    "editable": true
-   },
+   "execution_count": 4,
+   "metadata": {},
    "outputs": [
     {
      "name": "stdout",
@@ -338,7 +345,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython2",
-   "version": "2.7.12"
+   "version": "2.7.13"
   }
  },
  "nbformat": 4,
diff --git a/src/openfermion/_version.py b/src/openfermion/_version.py
index b89ff0fa3..dcc0c5955 100644
--- a/src/openfermion/_version.py
+++ b/src/openfermion/_version.py
@@ -11,4 +11,4 @@
 #   limitations under the License.
 
 """Define version number here and read it from setup.py automatically"""
-__version__ = "0.3"
+__version__ = "0.4"