Fixes Aqua notebooks for upcoming Aqua 0.6 Release (#778)

* switch from BasicAer to LegacySimulators

* Eliminate paulis_grouping

* update the tutorial to register a component/algorithm

* Fix grover input file

* Change from qiskit_aqua to qiskit.aqua and from qiskit_chemistry to qiskit.chemistry

* Add run_config to some notebooks

* Remove LegacySimulators

* Remove get_aer_backend and arr run_config

* Remove get_aer_backend and add run_config

* fix the format of entangler_map

* Update h2_uccsd to latest chemistry/aqua

* Update ExactEigensolver valid dictionaries

* Shots defaults for statevector_simulator

* add example: 3-Coloring oracle by reduction to SAT

* minor edits

* remove period

* Remove RunConfig from QuantumInstance parameters

* remove cnf - its str content will be used directly

* Update grover.ipynb

* minor edit

* Change get_input_instance to get_pluggable_class

* Change set_aqua_logging to set_qiskit_aqua_logging

* Fixed grover input file

* Add Aqua tutorial solving linear systems of equation with HHL

* Fix Hamiltonian run return values

* random_distributions was renamed to uncertainty_models

* add arbitrary logic expr and truth table examples

* LogicExpressionOracle -> LogicalExpressionOracle

* moo -> moot

* Tutorial for variational algo optimization callback

* remove circuit_caching=False flags

* minor edits

* minor edit

* Update for latest hhl & ExactLPsolver

* Update Aqua general tutorials

* Notebook was refactored/renamed

* initial commit for new qiskit finance folder structure

* reintroduce fidelity and probability output

* added docplex.ipynb and added docplex parts into an exisitng maxcut_and_tsp.ipynb

* Added header and removed error examples. Fixed the problem name

* random number generator notebook

* new random generator

* minor improvements

* Moving the drivers to tutorials

* update ExactLSsolver naming

* Deprecation of warnings, addition of outputs

* Minor spelling and text fixups

* A simple tutorial for the Qiskit Finance data loading

* Updates to the random variates notebook

* A bugfix

* move finance tutorials to qiskit / finance and add new tutorials as well

* Create execute_qgan.ipynb

* Time series tutorial

* Minor improvements

* streamline all tutorials

* notebooks qgans

* update

* add HHL truncate parameters

* improve HHL example and clean up

* update results

* fix

* text update

* Noisy simulation with AER on Aqua

* Fix Grover input file

* delete files

* Create qgans_for_loading_random_distributions.ipynb

* Contributing the time_series, portfolio_diversification, and generating_random_variates notebooks.

* update qgan tutorials

* update qiskit finance index page

* bug fix in amplitude estimation tutorial

* update portfolio optimization and qiskit finance index

* Update portfolio_optimization.ipynb

* add notebook for deutsch-jozsa

* add notebook for bernstein-vazirani

* add notebook for simon's

* add notebook for shor's

* Change seed_mapper to seed_transpiler

* merge PR

* edit notebooks after VQC refactor

* switch BasicAer -> Aer

* switch back Aer -> BasicAer

* minor edits on wording

* Updates to chemistry notebooks

* Update chemistry notebooks

* more updates for vqc refactor

* Update optimization notebooks

* adjust tutorials index

* along with qiskit-community/qiskit-aqua#496

* Added random data

* Updated portfolio diversification to the current master branch

* Updated generation of random variates

* update qiskit tutorials and qiskit finance index

* merge use of time series

* rerun all notebooks with fetched terra / aqua

* The vehicle routing notebook

* Update portfolio_diversification.ipynb

* running optimization notebooks with fetched aqua / terra

* delete empty readmes

* For the updated Qiskit Aqua (as of April 30th)

* use data provider in portfolio optimization and rerun all notebooks with most recent aqua/terra

* update qgan notebooks

* Update time_series.ipynb

* Mover domain folders like chemistry, ai etc out of aqua as peers

* Update index to reflect chem, ai, opt folder moves

* Update section numbers for Aqua domains

* Re-ran notebook to remove old warning

* add notebook for vqc comparing feature maps

* Update the notebbooks

* add finance notebooks to community section and adjust indices where necessary

* update aqua community index

* add qgan tutorials and update corresponding indices

* Edits

* split into featured, community, and qiskit tutorials

* Update qGAN notebooks with a Numpy based Discriminator

* Use IBMQ v2 api and QuantumInstance seed_simulator parameter

* change qiskit_aqua import to qiskit.aqua

* Fix picture relative path

* Use Z2Symmetries static method

* fix aqua how to

* update usage based no aqua0.6's change

* Revert "split into featured, community, and qiskit tutorials"

This reverts commit 59dac5c.

* sync with aqua 0.6 branch

* updating references in finance tutorials

qiskit/advanced/aqua/Aqua_how_to_build_a_pluggable_algorithm_components.ipynb

@@ -75,7 +75,7 @@
    "source": [
     "from qiskit import BasicAer\n",
     "import numpy as np\n",
-    "from qiskit.aqua.operator import Operator\n",
+    "from qiskit.aqua.operators import MatrixOperator, op_converter\n",
     "from qiskit.aqua import local_pluggables, PluggableType"
    ]
   },
@@ -95,7 +95,7 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "['QAOA.Variational', 'VQC', 'VQE', 'ExactEigensolver', 'ExactLSsolver', 'SVM', 'EOH', 'QSVM', 'AmplitudeEstimation', 'BernsteinVazirani', 'DeutschJozsa', 'Grover', 'HHL', 'IQPE', 'QPE', 'Shor', 'Simon', 'EvolutionFidelity']\n"
+      "['QAOA.Variational', 'QGAN', 'VQC', 'VQE', 'ExactEigensolver', 'ExactLSsolver', 'SVM', 'EOH', 'QSVM', 'AmplitudeEstimation', 'BernsteinVazirani', 'DeutschJozsa', 'Grover', 'HHL', 'IQPE', 'QPE', 'Shor', 'Simon', 'EOM_EE', 'EOM_VQE', 'EvolutionFidelity']\n"
      ]
     }
    ],
@@ -116,11 +116,18 @@
    "execution_count": 4,
    "metadata": {},
    "outputs": [
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "Convert from a MatrixOperator to a Pauli-type Operator requires exponential time. You can turn on DEBUG logging to check the progress.\n"
+     ]
+    },
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "0.934847761060059\n"
+      "0.9597914987731967\n"
      ]
     }
    ],
@@ -130,7 +137,7 @@
     "from qiskit.aqua import QuantumInstance\n",
     "num_qubits = 2\n",
     "temp = np.random.random((2 ** num_qubits, 2 ** num_qubits))\n",
-    "qubit_op = Operator(matrix=temp + temp.T)\n",
+    "qubit_op = op_converter.to_weighted_pauli_operator(MatrixOperator(matrix=temp + temp.T))\n",
     "\n",
     "initial_state = Zero(qubit_op.num_qubits)\n",
     "\n",
@@ -185,7 +192,7 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "0.9348477610600592\n"
+      "0.9597914987731967\n"
      ]
     }
    ],
@@ -197,9 +204,9 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3",
+   "display_name": "Quantum (Dev)",
    "language": "python",
-   "name": "python3"
+   "name": "quantum-dev"
   },
   "language_info": {
    "codemirror_mode": {
@@ -212,35 +219,6 @@
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
    "version": "3.7.3"
-  },
-  "varInspector": {
-   "cols": {
-    "lenName": 16,
-    "lenType": 16,
-    "lenVar": 40
-   },
-   "kernels_config": {
-    "python": {
-     "delete_cmd_postfix": "",
-     "delete_cmd_prefix": "del ",
-     "library": "var_list.py",
-     "varRefreshCmd": "print(var_dic_list())"
-    },
-    "r": {
-     "delete_cmd_postfix": ") ",
-     "delete_cmd_prefix": "rm(",
-     "library": "var_list.r",
-     "varRefreshCmd": "cat(var_dic_list()) "
-    }
-   },
-   "types_to_exclude": [
-    "module",
-    "function",
-    "builtin_function_or_method",
-    "instance",
-    "_Feature"
-   ],
-   "window_display": false
   }
  },
  "nbformat": 4,

qiskit/advanced/aqua/artificial_intelligence/qsvm_classification.ipynb

@@ -66,7 +66,7 @@
     "### [Optional] Setup token to run the experiment on a real device\n",
     "If you would like to run the experiement on a real device, you need to setup your account first.\n",
     "\n",
-    "Note: If you do not store your token yet, use `IBMQ.save_accounts()` to store it first."
+    "Note: If you do not store your token yet, use `IBMQ.save_account('MY_API_TOKEN')` to store it first."
    ]
   },
   {
@@ -76,7 +76,7 @@
    "outputs": [],
    "source": [
     "# from qiskit import IBMQ\n",
-    "# IBMQ.load_accounts()"
+    "# provider = IBMQ.load_account()"
    ]
   },
   {
@@ -173,7 +173,7 @@
     "qsvm = QSVM(feature_map, training_input, test_input, datapoints[0])\n",
     "\n",
     "backend = BasicAer.get_backend('qasm_simulator')\n",
-    "quantum_instance = QuantumInstance(backend, shots=1024, seed=seed, seed_transpiler=seed)\n",
+    "quantum_instance = QuantumInstance(backend, shots=1024, seed_simulator=seed, seed_transpiler=seed)\n",
     "\n",
     "result = qsvm.run(quantum_instance)\n",
     "\n",
@@ -279,7 +279,7 @@
     "qsvm = QSVM(feature_map, training_input, test_input)\n",
     "\n",
     "backend = BasicAer.get_backend('qasm_simulator')\n",
-    "quantum_instance = QuantumInstance(backend, shots=1024, seed=seed, seed_transpiler=seed)\n",
+    "quantum_instance = QuantumInstance(backend, shots=1024, seed_simulator=seed, seed_transpiler=seed)\n",
     "\n",
     "result = qsvm.run(quantum_instance)\n",
     "\n",

qiskit/advanced/aqua/chemistry/declarative_approach.ipynb

@@ -68,7 +68,7 @@
     "### [Optional] Setup token to run the experiment on a real device\n",
     "If you would like to run the experiement on a real device, you need to setup your account first.\n",
     "\n",
-    "Note: If you have not stored your token yet, use `IBMQ.save_accounts()` to store it first."
+    "Note: If you have not stored your token yet, use `IBMQ.save_account('MY_API_TOKEN')` to store it first."
    ]
   },
   {
@@ -78,8 +78,8 @@
    "outputs": [],
    "source": [
     "# from qiskit import IBMQ\n",
-    "# IBMQ.load_accounts()\n",
-    "# backend = IBMQ.get_backend('ibmq_16_melbourne')"
+    "# provider = IBMQ.load_account()\n",
+    "# backend = provider.get_backend('ibmq_16_melbourne')"
    ]
   },
   {

qiskit/advanced/aqua/chemistry/dissociation_profile_of_molecule.ipynb

@@ -134,7 +134,7 @@
     "### [Optional] Setup token to run the experiment on a real device\n",
     "If you would like to run the experiement on a real device, you need to setup your account first.\n",
     "\n",
-    "Note: If you do not store your token yet, use `IBMQ.save_accounts()` to store it first."
+    "Note: If you do not store your token yet, use `IBMQ.save_account('MY_API_TOKEN')` to store it first."
    ]
   },
   {
@@ -144,7 +144,7 @@
    "outputs": [],
    "source": [
     "# from qiskit import IBMQ\n",
-    "# IBMQ.load_accounts()"
+    "# provider = IBMQ.load_account()"
    ]
   },
   {