From 00fc8ba1eb54b56a47af1a41ea6b6325185c00f6 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 13:25:04 +0000
Subject: [PATCH 01/25] Use only apply_gate

---
 qermit/noise_model/qermit_pauli.py | 52 +++++++++++++++---------------
 tests/noise_model_test.py          | 34 +++++++++----------
 2 files changed, 43 insertions(+), 43 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 95b827bf..a05fdd9d 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -265,33 +265,33 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
         """
 
         if op_type == OpType.H:
-            self.H(qubit=qubits[0])
+            self._H(qubit=qubits[0])
         elif op_type == OpType.S:
-            self.S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
         elif op_type == OpType.CX:
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
         elif op_type == OpType.Z:
-            self.S(qubit=qubits[0])
-            self.S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
         elif op_type == OpType.Sdg:
-            self.S(qubit=qubits[0])
-            self.S(qubit=qubits[0])
-            self.S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
+            self._S(qubit=qubits[0])
         elif op_type == OpType.X:
-            self.H(qubit=qubits[0])
+            self._H(qubit=qubits[0])
             self.apply_gate(op_type=OpType.Z, qubits=qubits)
-            self.H(qubit=qubits[0])
+            self._H(qubit=qubits[0])
         elif op_type == OpType.Y:
             self.apply_gate(op_type=OpType.Z, qubits=qubits)
             self.apply_gate(op_type=OpType.X, qubits=qubits)
         elif op_type == OpType.CZ:
-            self.H(qubit=qubits[1])
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self.H(qubit=qubits[1])
+            self._H(qubit=qubits[1])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._H(qubit=qubits[1])
         elif op_type == OpType.SWAP:
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self.CX(control_qubit=qubits[1], target_qubit=qubits[0])
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._CX(control_qubit=qubits[1], target_qubit=qubits[0])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
         elif op_type == OpType.PhasedX:
             params = kwargs.get("params", None)
             if all(
@@ -309,7 +309,7 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
             if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
                 angle = round(angle, 1)
                 for _ in range(int((angle % 2) // 0.5)):
-                    self.S(qubit=qubits[0])
+                    self._S(qubit=qubits[0])
             else:
                 raise Exception(f"{angle} is not a clifford angle.")
         elif op_type == OpType.Rx:
@@ -317,16 +317,16 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
             angle = params[0]
             if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
                 angle = round(angle, 1)
-                self.H(qubit=qubits[0])
+                self._H(qubit=qubits[0])
                 for _ in range(int((angle % 2) // 0.5)):
-                    self.S(qubit=qubits[0])
-                self.H(qubit=qubits[0])
+                    self._S(qubit=qubits[0])
+                self._H(qubit=qubits[0])
             else:
                 raise Exception(f"{angle} is not a clifford angle.")
         elif op_type == OpType.ZZMax:
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self.S(qubit=qubits[1])
-            self.CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
+            self._S(qubit=qubits[1])
+            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
         elif op_type == OpType.ZZPhase:
             params = kwargs.get("params", None)
             angle = params[0]
@@ -344,7 +344,7 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
                 + "Please use only Clifford gates."
             )
 
-    def S(self, qubit: Qubit):
+    def _S(self, qubit: Qubit):
         """Act S operation on the pauli. In particular this transforms
         the pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
         (i)^{phase}SX^{X_liist}Z^{Z_list}S^{dagger}.
@@ -357,7 +357,7 @@ def S(self, qubit: Qubit):
         self.phase += self.X_list[qubit]
         self.phase %= 4
 
-    def H(self, qubit: Qubit):
+    def _H(self, qubit: Qubit):
         """Act H operation. In particular this transforms
         the Pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
         H(i)^{phase}X^{X_liist}Z^{Z_list}H^{dagger}.
@@ -372,7 +372,7 @@ def H(self, qubit: Qubit):
         self.X_list[qubit] = self.Z_list[qubit]
         self.Z_list[qubit] = temp_X
 
-    def CX(self, control_qubit: Qubit, target_qubit: Qubit):
+    def _CX(self, control_qubit: Qubit, target_qubit: Qubit):
         """Act CX operation. In particular this transforms
         the Pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
         CX(i)^{phase}X^{X_liist}Z^{Z_list}CX^{dagger}.
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index b719f252..60fb942d 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -617,13 +617,13 @@ def test_H() -> None:
     qubit_list = [Qubit(0)]
     pauli = QermitPauli(Z_list=[1], X_list=[0], qubit_list=qubit_list)
 
-    pauli.H(qubit=qubit_list[0])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X]
     )
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.H(qubit=qubit_list[0])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.Z]
     )
@@ -697,8 +697,8 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.H(qubit_list[0])
-    pauli.S(qubit_list[0])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.Y, Pauli.Z, Pauli.Z]
@@ -706,7 +706,7 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.CX(qubit_list[0], qubit_list[1])
+    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[0], qubit_list[1]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.Y, Pauli.Z]
@@ -714,7 +714,7 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.S(qubit_list[1])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[1]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.X, Pauli.Z]
@@ -722,8 +722,8 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == -1
 
-    pauli.S(qubit_list[0])
-    pauli.CX(qubit_list[0], qubit_list[2])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
+    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[0], qubit_list[2]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.X, Pauli.Y]
@@ -740,47 +740,47 @@ def test_clifford_incremental() -> None:
         qubit_list=qubit_list,
     )
 
-    pauli.H(qubit_list[0])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.CX(qubit_list[1], qubit_list[2])
+    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.H(qubit_list[1])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[1]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.S(qubit_list[1])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[1]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.phase == 1
 
-    pauli.CX(qubit_list[1], qubit_list[2])
+    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 1
 
-    pauli.S(qubit_list[2])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 2
 
-    pauli.CX(qubit_list[1], qubit_list[0])
+    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 2
 
-    pauli.S(qubit_list[0])
+    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 3
 
-    pauli.H(qubit_list[0])
+    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 1

From b3c29a11d3c82285fb464e730f04c10d9107549b Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 15:35:31 +0000
Subject: [PATCH 02/25] Remove commute_coeff

---
 qermit/noise_model/noise_model.py  | 18 ++++++++++-----
 qermit/noise_model/qermit_pauli.py | 30 +------------------------
 tests/noise_model_test.py          | 36 ------------------------------
 3 files changed, 14 insertions(+), 70 deletions(-)

diff --git a/qermit/noise_model/noise_model.py b/qermit/noise_model/noise_model.py
index 5c465706..fd182e5f 100644
--- a/qermit/noise_model/noise_model.py
+++ b/qermit/noise_model/noise_model.py
@@ -115,10 +115,14 @@ def to_ptm(self) -> Tuple[NDArray, Dict[Tuple[Pauli, ...], int]]:
                     pauli_iterable=error,
                     qubit_list=[Qubit(i) for i in range(self.n_qubits)],
                 )
-
-                ptm[index][index] += error_rate * QermitPauli.commute_coeff(
-                    pauli_one=pauli, pauli_two=error_pauli
+                commute_coeff = (
+                    1
+                    if pauli.qubit_pauli_tensor.commutes_with(
+                        error_pauli.qubit_pauli_tensor
+                    )
+                    else -1
                 )
+                ptm[index][index] += error_rate * commute_coeff
 
         # Some checks that the form of the PTM is correct.
         identity = tuple(Pauli.I for _ in range(self.n_qubits))
@@ -190,8 +194,12 @@ def from_ptm(
                     pauli_iterable=pauli_two_tuple,
                     qubit_list=[Qubit(i) for i in range(len(pauli_two_tuple))],
                 )
-                commutation_matrix[index_one][index_two] = QermitPauli.commute_coeff(
-                    pauli_one=pauli_one, pauli_two=pauli_two
+                commutation_matrix[index_one][index_two] = (
+                    1
+                    if pauli_one.qubit_pauli_tensor.commutes_with(
+                        pauli_two.qubit_pauli_tensor
+                    )
+                    else -1
                 )
 
         error_rate_list = np.matmul(ptm.diagonal(), np.linalg.inv(commutation_matrix))
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index a05fdd9d..98f9ec45 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -48,34 +48,6 @@ def __init__(
         self.phase = phase
         self.qubit_list = qubit_list
 
-    @staticmethod
-    def commute_coeff(pauli_one: QermitPauli, pauli_two: QermitPauli) -> int:
-        """Calculate the coefficient which result from commuting pauli_one
-        past pauli_two. That is to say P_2 P_1 = c P_1 P_2 where c is the
-        coefficient returned by this function.
-
-        :param pauli_one: First Pauli
-        :param pauli_two: Second Pauli
-        :raises Exception: Raised if the Paulis do not act
-            on matching qubits.
-        :return: Coefficient resulting from commuting the two Paulis.
-        """
-        if not pauli_one.qubit_list == pauli_two.qubit_list:
-            raise Exception(
-                "The given Paulis must act on the same qubits. "
-                + f"In this case the qubits acted on by pauli_one {pauli_one.qubit_list} "
-                + f"differ from those of pauli_two {pauli_two.qubit_list}."
-            )
-        power = sum(
-            pauli_one.X_list[qubit] * pauli_two.Z_list[qubit]
-            for qubit in pauli_one.qubit_list
-        )
-        power += sum(
-            pauli_one.Z_list[qubit] * pauli_two.X_list[qubit]
-            for qubit in pauli_one.qubit_list
-        )
-        return (-1) ** power
-
     def is_measureable(self, qubit_list: List[Qubit]) -> bool:
         """Checks if this Pauli would be measurable on the given qubits in the
         computational bases. That is to say if at least one  Pauli on the given
@@ -208,7 +180,7 @@ def __hash__(self):
         return hash(key)
 
     def __str__(self) -> str:
-        return str(self.qubit_pauli_tensor)
+        return str(self.qubit_pauli_tensor.string) + str(self.qubit_pauli_tensor.coeff)
 
     def __eq__(self, other: object) -> bool:
         """Checks for equality by checking all qubits match, and that all
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index 60fb942d..26a5a6d4 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -112,42 +112,6 @@ def test_qermit_pauli_from_iterable() -> None:
     pauli.qubit_pauli_tensor.coeff == 1 + 0j
 
 
-def test_qermit_pauli_commute_coeff() -> None:
-    # This tests a few commutation coefficients
-    # which have been verified by hand.
-    verified_list = [
-        # Single qubit Paulis
-        ((([0], [1]), ([1], [0])), -1),
-        ((([1], [1]), ([1], [1])), 1),
-        ((([1], [0]), ([0], [1])), -1),
-        ((([0], [0]), ([0], [1])), 1),
-        ((([1], [0]), ([0], [0])), 1),
-        ((([1], [1]), ([0], [1])), -1),
-        # Two qubit Paulis
-        ((([0, 1], [1, 0]), ([1, 0], [0, 1])), 1),
-        ((([0, 1], [1, 0]), ([0, 0], [1, 1])), -1),
-        ((([0, 0], [0, 0]), ([0, 0], [1, 1])), 1),
-    ]
-
-    for verified in verified_list:
-        n_qubits = len(verified[0][0][0])
-
-        pauli_one = QermitPauli(
-            Z_list=verified[0][0][0],
-            X_list=verified[0][0][1],
-            qubit_list=[Qubit(i) for i in range(n_qubits)],
-        )
-        pauli_two = QermitPauli(
-            Z_list=verified[0][1][0],
-            X_list=verified[0][1][1],
-            qubit_list=[Qubit(i) for i in range(n_qubits)],
-        )
-        assert (
-            QermitPauli.commute_coeff(pauli_one=pauli_one, pauli_two=pauli_two)
-            == verified[1]
-        )
-
-
 def test_noise_model_logical_error_propagation() -> None:
     pytket_ciruit = Circuit(2).H(0).CX(0, 1).measure_all()
 

From 1086f7c5052cede3a1bcea72c83e288b4d5ab236 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 15:45:49 +0000
Subject: [PATCH 03/25] Use qubit pauli tensor in is_measureable

---
 qermit/noise_model/qermit_pauli.py | 9 ++++++---
 1 file changed, 6 insertions(+), 3 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 98f9ec45..81cdb4ab 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -59,9 +59,12 @@ def is_measureable(self, qubit_list: List[Qubit]) -> bool:
         :return: True if at least one Pauli on the given
             qubits anticommutes with Z. False otherwise.
         """
-        if not all(qubit in self.qubit_list for qubit in qubit_list):
-            raise Exception(f"{qubit_list} is not a subset of {self.qubit_list}.")
-        return any(self.X_list[qubit] == 1 for qubit in qubit_list)
+        return any(
+            not self.qubit_pauli_tensor.commutes_with(
+                QubitPauliTensor(qubit=qubit, pauli=Pauli.Z)
+            )
+            for qubit in qubit_list
+        )
 
     def reduce_qubits(self, qubit_list: List[Qubit]) -> QermitPauli:
         """Reduces Pauli onto given list of qubits. A new reduced

From d30f8f2d298c8eed56a4ce049d5b76115887c1d1 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:09:08 +0000
Subject: [PATCH 04/25] Add from qubit_pauli_tensor

---
 qermit/coherent_pauli_checks/pauli_sampler.py |  6 +-
 qermit/noise_model/qermit_pauli.py            |  9 ++-
 tests/noise_model_test.py                     | 57 ++++++++++++++-----
 3 files changed, 53 insertions(+), 19 deletions(-)

diff --git a/qermit/coherent_pauli_checks/pauli_sampler.py b/qermit/coherent_pauli_checks/pauli_sampler.py
index fb9acea2..0d707eaa 100644
--- a/qermit/coherent_pauli_checks/pauli_sampler.py
+++ b/qermit/coherent_pauli_checks/pauli_sampler.py
@@ -8,7 +8,7 @@
 from pytket import Circuit
 from pytket._tket.unit_id import UnitID
 from pytket.circuit import Bit, CircBox, Command, OpType, Qubit
-from pytket.pauli import Pauli, QubitPauliString
+from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 
 from qermit.noise_model.noise_model import NoiseModel
 from qermit.noise_model.qermit_pauli import QermitPauli
@@ -347,6 +347,8 @@ def sample(
         #     )
 
         return [
-            QermitPauli.from_qubit_pauli_string(smallest_commute_prob_pauli)
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(string=smallest_commute_prob_pauli, coeff=1)
+            )
             for smallest_commute_prob_pauli in smallest_commute_prob_pauli_list
         ]
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 81cdb4ab..5ce3d3d2 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -73,7 +73,6 @@ def reduce_qubits(self, qubit_list: List[Qubit]) -> QermitPauli:
         :param qubit_list: Qubits onto which pauli should be reduced.
         :return: Reduced Pauli.
         """
-
         return QermitPauli(
             Z_list=[Z for qubit, Z in self.Z_list.items() if qubit not in qubit_list],
             X_list=[X for qubit, X in self.X_list.items() if qubit not in qubit_list],
@@ -136,18 +135,22 @@ def dagger(self) -> QermitPauli:
         )
 
     @classmethod
-    def from_qubit_pauli_string(cls, qps: QubitPauliString) -> QermitPauli:
+    def from_qubit_pauli_tensor(cls, qpt: QubitPauliTensor) -> QermitPauli:
         """Create a Pauli from a qubit pauli string.
 
         :param qps: Qubit pauli string to be converted to a Pauli.
         :return: Pauli created from qubit pauli string.
         """
 
+        coeff_to_phase = {1 + 0j: 0, 0 + 1j: 1, -1 + 0j: 2, 0 - 1j: 3}
+
         Z_list = []
         X_list = []
-        phase = 0
+        phase = coeff_to_phase[qpt.coeff]
         qubit_list = []
 
+        qps = qpt.string
+
         for pauli in qps.to_list():
             qubit = Qubit(name=pauli[0][0], index=pauli[0][1])
             qubit_list.append(qubit)
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index 26a5a6d4..23191302 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -8,7 +8,7 @@
 import pytest
 from pytket import Circuit, OpType
 from pytket.circuit import Qubit
-from pytket.pauli import Pauli, QubitPauliString
+from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 
 from qermit.noise_model import (
     ErrorDistribution,
@@ -135,8 +135,10 @@ def test_noise_model_logical_error_propagation() -> None:
     logical_distribution = noise_model.counter_propagate(
         pytket_ciruit, n_counts=10000, direction=Direction.forward
     )
-    ideal_error = QermitPauli.from_qubit_pauli_string(
-        QubitPauliString(map={Qubit(0): Pauli.X, Qubit(1): Pauli.I})
+    ideal_error = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={Qubit(0): Pauli.X, Qubit(1): Pauli.I}), coeff=1
+        )
     )
     assert list(logical_distribution.keys()) == [ideal_error]
     assert abs(logical_distribution[ideal_error] - 1000) <= 1
@@ -239,8 +241,12 @@ def test_error_distribution_post_select() -> None:
     )
     pauli_error_counter = Counter(
         {
-            QermitPauli.from_qubit_pauli_string(qps_remove): 50,
-            QermitPauli.from_qubit_pauli_string(qps_keep): 50,
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(string=qps_remove, coeff=1)
+            ): 50,
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(string=qps_keep, coeff=1)
+            ): 50,
         }
     )
     error_distribution = LogicalErrorDistribution(
@@ -487,8 +493,13 @@ def test_effective_error_distribution() -> None:
     assert (
         abs(
             effective_error_dist.pauli_error_counter[
-                QermitPauli.from_qubit_pauli_string(
-                    QubitPauliString(qubits=qubits, paulis=[Pauli.X, Pauli.I, Pauli.X])
+                QermitPauli.from_qubit_pauli_tensor(
+                    QubitPauliTensor(
+                        string=QubitPauliString(
+                            qubits=qubits, paulis=[Pauli.X, Pauli.I, Pauli.X]
+                        ),
+                        coeff=1,
+                    )
                 )
             ]
             - 2100
@@ -499,8 +510,13 @@ def test_effective_error_distribution() -> None:
     assert (
         abs(
             effective_error_dist.pauli_error_counter[
-                QermitPauli.from_qubit_pauli_string(
-                    QubitPauliString(qubits=qubits, paulis=[Pauli.Y, Pauli.Y, Pauli.Z])
+                QermitPauli.from_qubit_pauli_tensor(
+                    QubitPauliTensor(
+                        string=QubitPauliString(
+                            qubits=qubits, paulis=[Pauli.Y, Pauli.Y, Pauli.Z]
+                        ),
+                        coeff=1,
+                    )
                 )
             ]
             - 900
@@ -511,8 +527,13 @@ def test_effective_error_distribution() -> None:
     assert (
         abs(
             effective_error_dist.pauli_error_counter[
-                QermitPauli.from_qubit_pauli_string(
-                    QubitPauliString(qubits=qubits, paulis=[Pauli.I, Pauli.I, Pauli.Z])
+                QermitPauli.from_qubit_pauli_tensor(
+                    QubitPauliTensor(
+                        string=QubitPauliString(
+                            qubits=qubits, paulis=[Pauli.I, Pauli.I, Pauli.Z]
+                        ),
+                        coeff=1,
+                    )
                 )
             ]
             - 2100
@@ -520,8 +541,11 @@ def test_effective_error_distribution() -> None:
         < 100
     )
 
-    pauli_error = QermitPauli.from_qubit_pauli_string(
-        QubitPauliString(qubits=qubits, paulis=[Pauli.Z, Pauli.Y, Pauli.X])
+    pauli_error = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(qubits=qubits, paulis=[Pauli.Z, Pauli.Y, Pauli.X]),
+            coeff=1,
+        )
     )
     pauli_error.phase = 2
     assert abs(effective_error_dist.pauli_error_counter[pauli_error] - 4900) < 100
@@ -757,7 +781,12 @@ def test_to_from_qps() -> None:
         qubits=qubits,
         paulis=paulis,
     )
-    stab = QermitPauli.from_qubit_pauli_string(qubit_pauli_string)
+    stab = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=qubit_pauli_string,
+            coeff=1,
+        )
+    )
     assert stab.qubit_pauli_tensor.string == qubit_pauli_string
     assert stab.qubit_pauli_tensor.coeff == 1 + 0j
 

From 897d6cffdd8db876fac108afe8d0022e0cd06877 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:31:02 +0000
Subject: [PATCH 05/25] Use qubit pauli tensors within reduce_qubits

---
 qermit/noise_model/qermit_pauli.py | 22 ++++++++++++++--------
 1 file changed, 14 insertions(+), 8 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 5ce3d3d2..0ab811eb 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -67,17 +67,23 @@ def is_measureable(self, qubit_list: List[Qubit]) -> bool:
         )
 
     def reduce_qubits(self, qubit_list: List[Qubit]) -> QermitPauli:
-        """Reduces Pauli onto given list of qubits. A new reduced
-        Pauli is created.
+        """Reduces Pauli by removing terms acting on qubits
+        in the given list. A new reduced Pauli is created.
 
-        :param qubit_list: Qubits onto which pauli should be reduced.
+        :param qubit_list: Qubits in Pauli which should be removed.
         :return: Reduced Pauli.
         """
-        return QermitPauli(
-            Z_list=[Z for qubit, Z in self.Z_list.items() if qubit not in qubit_list],
-            X_list=[X for qubit, X in self.X_list.items() if qubit not in qubit_list],
-            qubit_list=[qubit for qubit in self.qubit_list if qubit not in qubit_list],
-            phase=self.phase,
+        return self.from_qubit_pauli_tensor(
+            QubitPauliTensor(
+                string=QubitPauliString(
+                    map={
+                        qubit: pauli
+                        for qubit, pauli in self.qubit_pauli_tensor.string.map.items()
+                        if qubit not in qubit_list
+                    }
+                ),
+                coeff=self.qubit_pauli_tensor.coeff,
+            )
         )
 
     @property

From 26827e478b5817b127e9d65abc3908d7ef9b3898 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:32:42 +0000
Subject: [PATCH 06/25] Use qubit pauli tensor in equality check

---
 qermit/noise_model/qermit_pauli.py | 17 +----------------
 1 file changed, 1 insertion(+), 16 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 0ab811eb..8046c396 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -205,22 +205,7 @@ def __eq__(self, other: object) -> bool:
         if not isinstance(other, QermitPauli):
             return False
 
-        if sorted(list(self.X_list.keys())) != sorted(list(other.X_list.keys())):
-            return False
-        if not all(
-            self.X_list[quibt] == other.X_list[quibt] for quibt in self.X_list.keys()
-        ):
-            return False
-        if sorted(list(self.Z_list.keys())) != sorted(list(other.Z_list.keys())):
-            return False
-        if not all(
-            self.Z_list[quibt] == other.Z_list[quibt] for quibt in self.X_list.keys()
-        ):
-            return False
-        if self.phase != other.phase:
-            return False
-
-        return True
+        return self.qubit_pauli_tensor == other.qubit_pauli_tensor
 
     def apply_circuit(self, circuit: Circuit):
         """Apply a circuit to a pauli. This is to say commute tha Pauli

From 8822eae535a8604489a52b171267cc3fe87c71ba Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:39:12 +0000
Subject: [PATCH 07/25] Remove is_identity

---
 qermit/noise_model/noise_model.py  |  3 ++-
 qermit/noise_model/qermit_pauli.py | 10 ----------
 2 files changed, 2 insertions(+), 11 deletions(-)

diff --git a/qermit/noise_model/noise_model.py b/qermit/noise_model/noise_model.py
index fd182e5f..f543d9f1 100644
--- a/qermit/noise_model/noise_model.py
+++ b/qermit/noise_model/noise_model.py
@@ -615,7 +615,8 @@ def counter_propagate(
         for _ in range(n_counts):
             pauli_error = self.random_propagate(cliff_circ, **kwargs)
 
-            if not pauli_error.is_identity:
+            # Check if the error is the identity.
+            if pauli_error.qubit_pauli_tensor.string != QubitPauliString():
                 error_counter.update([pauli_error])
 
         return error_counter
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 8046c396..cee7e493 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -86,16 +86,6 @@ def reduce_qubits(self, qubit_list: List[Qubit]) -> QermitPauli:
             )
         )
 
-    @property
-    def is_identity(self) -> bool:
-        """True is the pauli represents the all I string.
-
-        :return: True is the pauli represents the all I string.
-        """
-        return all(Z == 0 for Z in self.Z_list.values()) and all(
-            X == 0 for X in self.X_list.values()
-        )
-
     @classmethod
     def random_pauli(
         cls,

From 5855016045ef4d0999e0092f22951384900315c3 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:54:49 +0000
Subject: [PATCH 08/25] Use qubit pauli tensor in dagger

---
 qermit/noise_model/qermit_pauli.py | 22 +++++-----------------
 1 file changed, 5 insertions(+), 17 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index cee7e493..53b10f72 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -111,23 +111,11 @@ def dagger(self) -> QermitPauli:
         :return: Conjugate transpose of the Pauli.
         """
 
-        # the phase is the conjugate of the original
-        phase = self.phase
-        phase += 2 * (self.phase % 2)
-
-        Z_list = list(self.Z_list.values())
-        X_list = list(self.X_list.values())
-        # The phase is altered here as the order Z and X is reversed by
-        # the inversion.
-        for Z, X in zip(Z_list, X_list):
-            phase += 2 * Z * X
-        phase %= 4
-
-        return QermitPauli(
-            Z_list=Z_list,
-            X_list=X_list,
-            qubit_list=self.qubit_list,
-            phase=phase,
+        return QermitPauli.from_qubit_pauli_tensor(
+            qpt=QubitPauliTensor(
+                string=self.qubit_pauli_tensor.string,
+                coeff=self.qubit_pauli_tensor.coeff.conjugate(),
+            )
         )
 
     @classmethod

From e2ce262af1dc8dd2f9caf0de6e0c7966ff8dc069 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 16:58:13 +0000
Subject: [PATCH 09/25] Remove random pauli

---
 qermit/noise_model/qermit_pauli.py | 19 -------------------
 1 file changed, 19 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 53b10f72..9a4b8d3f 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -86,25 +86,6 @@ def reduce_qubits(self, qubit_list: List[Qubit]) -> QermitPauli:
             )
         )
 
-    @classmethod
-    def random_pauli(
-        cls,
-        qubit_list: List[Qubit],
-        rng: Generator = np.random.default_rng(),
-    ) -> QermitPauli:
-        """Generates a uniformly random Pauli.
-
-        :param qubit_list: Qubits on which the Pauli acts.
-        :param rng: Randomness generator, defaults to np.random.default_rng()
-        :return: Random pauli.
-        """
-
-        return cls(
-            Z_list=list(rng.integers(2, size=len(qubit_list))),
-            X_list=list(rng.integers(2, size=len(qubit_list))),
-            qubit_list=qubit_list,
-        )
-
     def dagger(self) -> QermitPauli:
         """Generates the inverse of the Pauli.
 

From fe435cd50abbe3ec8014cc73d07deb45bb2a148b Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 17:02:05 +0000
Subject: [PATCH 10/25] Use qubit pauli tensor in __hash__

---
 qermit/noise_model/qermit_pauli.py | 8 +-------
 1 file changed, 1 insertion(+), 7 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 9a4b8d3f..6a9c1bd0 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -142,13 +142,7 @@ def from_qubit_pauli_tensor(cls, qpt: QubitPauliTensor) -> QermitPauli:
         )
 
     def __hash__(self):
-        key = (
-            *list(self.Z_list.values()),
-            *list(self.X_list.values()),
-            *self.qubit_list,
-            self.phase,
-        )
-        return hash(key)
+        return self.qubit_pauli_tensor.__hash__()
 
     def __str__(self) -> str:
         return str(self.qubit_pauli_tensor.string) + str(self.qubit_pauli_tensor.coeff)

From 2ff6a3b26a21dfe6160a8e474e74330d169c85bf Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 17:08:41 +0000
Subject: [PATCH 11/25] Remove pre_multiply

---
 qermit/noise_model/qermit_pauli.py | 16 +---------------
 1 file changed, 1 insertion(+), 15 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 6a9c1bd0..aff358e7 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -144,7 +144,7 @@ def from_qubit_pauli_tensor(cls, qpt: QubitPauliTensor) -> QermitPauli:
     def __hash__(self):
         return self.qubit_pauli_tensor.__hash__()
 
-    def __str__(self) -> str:
+    def __str__(self) -> str:  # pragma: no cover
         return str(self.qubit_pauli_tensor.string) + str(self.qubit_pauli_tensor.coeff)
 
     def __eq__(self, other: object) -> bool:
@@ -308,20 +308,6 @@ def _CX(self, control_qubit: Qubit, target_qubit: Qubit):
         self.X_list[target_qubit] += self.X_list[control_qubit]
         self.X_list[target_qubit] %= 2
 
-    def pre_multiply(self, pauli: QermitPauli):
-        """Pre-multiply by a Pauli.
-
-        :param pauli: Pauli to pre multiply by.
-        """
-
-        for qubit in self.qubit_list:
-            if pauli.X_list[qubit]:
-                self.pre_apply_X(qubit)
-            if pauli.Z_list[qubit]:
-                self.pre_apply_Z(qubit)
-            self.phase += pauli.phase
-            self.phase %= 4
-
     def pre_apply_pauli(self, pauli: Union[Pauli, OpType], qubit: Qubit):
         """Pre apply by a pauli on a particular qubit.
 

From 76593433efda111256943871fb896932266b5999 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 17:30:48 +0000
Subject: [PATCH 12/25] Use qubit pauli tensor in from_pauli_list

---
 qermit/noise_model/noise_model.py  | 16 ++++++++--------
 qermit/noise_model/qermit_pauli.py | 17 ++++++++++-------
 tests/noise_model_test.py          |  4 ++--
 3 files changed, 20 insertions(+), 17 deletions(-)

diff --git a/qermit/noise_model/noise_model.py b/qermit/noise_model/noise_model.py
index f543d9f1..39f716d5 100644
--- a/qermit/noise_model/noise_model.py
+++ b/qermit/noise_model/noise_model.py
@@ -99,8 +99,8 @@ def to_ptm(self) -> Tuple[NDArray, Dict[Tuple[Pauli, ...], int]]:
         # PTM entry as a sum pf error weights multiplied by +/-1
         # Depending on commutation relations.
         for pauli_tuple, index in pauli_index.items():
-            pauli = QermitPauli.from_pauli_iterable(
-                pauli_iterable=pauli_tuple,
+            pauli = QermitPauli.from_pauli_list(
+                pauli_list=list(pauli_tuple),
                 qubit_list=[Qubit(i) for i in range(self.n_qubits)],
             )
 
@@ -111,8 +111,8 @@ def to_ptm(self) -> Tuple[NDArray, Dict[Tuple[Pauli, ...], int]]:
             ptm[index][index] += self.identity_error_rate
 
             for error, error_rate in self.distribution.items():
-                error_pauli = QermitPauli.from_pauli_iterable(
-                    pauli_iterable=error,
+                error_pauli = QermitPauli.from_pauli_list(
+                    pauli_list=list(error),
                     qubit_list=[Qubit(i) for i in range(self.n_qubits)],
                 )
                 commute_coeff = (
@@ -185,13 +185,13 @@ def from_ptm(
         # is the matrix of commutation values.
         commutation_matrix = np.zeros(ptm.shape)
         for pauli_one_tuple, index_one in pauli_index.items():
-            pauli_one = QermitPauli.from_pauli_iterable(
-                pauli_iterable=pauli_one_tuple,
+            pauli_one = QermitPauli.from_pauli_list(
+                pauli_list=list(pauli_one_tuple),
                 qubit_list=[Qubit(i) for i in range(len(pauli_one_tuple))],
             )
             for pauli_two_tuple, index_two in pauli_index.items():
-                pauli_two = QermitPauli.from_pauli_iterable(
-                    pauli_iterable=pauli_two_tuple,
+                pauli_two = QermitPauli.from_pauli_list(
+                    pauli_list=list(pauli_two_tuple),
                     qubit_list=[Qubit(i) for i in range(len(pauli_two_tuple))],
                 )
                 commutation_matrix[index_one][index_two] = (
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index aff358e7..4fc0f0b8 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -472,8 +472,8 @@ def qubit_pauli_tensor(self) -> QubitPauliTensor:
         )
 
     @classmethod
-    def from_pauli_iterable(
-        cls, pauli_iterable: Iterable[Pauli], qubit_list: List[Qubit]
+    def from_pauli_list(
+        cls, pauli_list: List[Pauli], qubit_list: List[Qubit]
     ) -> QermitPauli:
         """Create a QermitPauli from a Pauli iterable.
 
@@ -481,9 +481,12 @@ def from_pauli_iterable(
         :param qubit_list: The qubits on which the resulting pauli will act.
         :return: The pauli corresponding to the given iterable.
         """
-        return cls(
-            Z_list=[int(pauli in (Pauli.Z, Pauli.Y)) for pauli in pauli_iterable],
-            X_list=[int(pauli in (Pauli.X, Pauli.Y)) for pauli in pauli_iterable],
-            qubit_list=qubit_list,
-            phase=sum(int(pauli == Pauli.Y) for pauli in pauli_iterable) % 4,
+        return cls.from_qubit_pauli_tensor(
+            qpt=QubitPauliTensor(
+                string=QubitPauliString(
+                    qubits=qubit_list,
+                    paulis=pauli_list,
+                ),
+                coeff=1,
+            ),
         )
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index 23191302..e2f6fa2f 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -104,8 +104,8 @@ def test_qermit_pauli_from_iterable() -> None:
         qubits=[Qubit(i) for i in range(5)],
         paulis=[Pauli.X, Pauli.Y, Pauli.Z, Pauli.Y, Pauli.Z],
     )
-    pauli = QermitPauli.from_pauli_iterable(
-        pauli_iterable=qubit_pauli_string.map.values(),
+    pauli = QermitPauli.from_pauli_list(
+        pauli_list=list(qubit_pauli_string.map.values()),
         qubit_list=list(qubit_pauli_string.map.keys()),
     )
     pauli.qubit_pauli_tensor.string == qubit_pauli_string

From 4c924a2188986807508555ce0e2b2e4de0e39b7e Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 18:50:26 +0000
Subject: [PATCH 13/25] Use qubit pauli tensor in get_control_circuit

---
 qermit/noise_model/qermit_pauli.py | 19 ++++++++++++++-----
 1 file changed, 14 insertions(+), 5 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 4fc0f0b8..312fe66d 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -24,6 +24,8 @@ class QermitPauli:
         3: 0 - 1j,
     }
 
+    coeff_to_phase = {1 + 0j: 0, 0 + 1j: 1, -1 + 0j: 2, 0 - 1j: 3}
+
     def __init__(
         self,
         Z_list: List[int],
@@ -107,11 +109,11 @@ def from_qubit_pauli_tensor(cls, qpt: QubitPauliTensor) -> QermitPauli:
         :return: Pauli created from qubit pauli string.
         """
 
-        coeff_to_phase = {1 + 0j: 0, 0 + 1j: 1, -1 + 0j: 2, 0 - 1j: 3}
+        # coeff_to_phase = {1 + 0j: 0, 0 + 1j: 1, -1 + 0j: 2, 0 - 1j: 3}
 
         Z_list = []
         X_list = []
-        phase = coeff_to_phase[qpt.coeff]
+        phase = cls.coeff_to_phase[qpt.coeff]
         qubit_list = []
 
         qps = qpt.string
@@ -403,21 +405,28 @@ def get_control_circuit(self, control_qubit: Qubit) -> Circuit:
         # TODO: in the case that this is secretly a controlled Y a controlled
         # Y should be applied. Otherwise there is additional noise added in
         # the case of a CY.
-        for qubit in self.qubit_list:
+        phase = self.coeff_to_phase[self.qubit_pauli_tensor.coeff]
+        for qubit, pauli in self.qubit_pauli_tensor.string.map.items():
             circ.add_qubit(id=qubit)
-            if self.Z_list[qubit] == 1:
+
+            if pauli == Pauli.Z or pauli == Pauli.Y:
                 circ.CZ(
                     control_qubit=control_qubit,
                     target_qubit=qubit,
                     opgroup="pauli check",
                 )
-            if self.X_list[qubit] == 1:
+
+            if pauli == Pauli.X or pauli == Pauli.Y:
                 circ.CX(
                     control_qubit=control_qubit,
                     target_qubit=qubit,
                     opgroup="pauli check",
                 )
 
+            if pauli == Pauli.Y:
+                phase += 2
+                phase %= 4
+
         for _ in range(self.phase):
             circ.S(
                 control_qubit,

From 312eb2b9a22dd278701b935fe40aba30910460ac Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Tue, 10 Dec 2024 19:11:50 +0000
Subject: [PATCH 14/25] Use qubit pauli tensor in circuit

---
 qermit/noise_model/qermit_pauli.py | 16 +++++++++++++---
 1 file changed, 13 insertions(+), 3 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 312fe66d..fb748d19 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -443,12 +443,22 @@ def circuit(self) -> Circuit:
         """
 
         circ = Circuit()
-        for qubit in self.qubit_list:
+
+        phase = self.coeff_to_phase[self.qubit_pauli_tensor.coeff]
+
+        for qubit, pauli in self.qubit_pauli_tensor.string.map.items():
             circ.add_qubit(id=qubit)
-            if self.Z_list[qubit] == 1:
+
+            if pauli == Pauli.Z or pauli == Pauli.Y:
                 circ.Z(qubit)
-            if self.X_list[qubit] == 1:
+
+            if pauli == Pauli.X or pauli == Pauli.Y:
                 circ.X(qubit)
+
+            if pauli == Pauli.Y:
+                phase += 2
+                phase %= 4
+
         circ.add_phase(a=self.phase / 2)
 
         return circ

From f44846e1b8f8827141765ca5f0189d81392a0af2 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 10:26:53 +0000
Subject: [PATCH 15/25] Use Op rather than OpType in apply_gate

---
 qermit/coherent_pauli_checks/pauli_sampler.py |  5 +-
 qermit/noise_model/noise_model.py             |  6 +-
 qermit/noise_model/qermit_pauli.py            | 76 ++++++++++---------
 tests/noise_model_test.py                     | 52 ++++++-------
 4 files changed, 70 insertions(+), 69 deletions(-)

diff --git a/qermit/coherent_pauli_checks/pauli_sampler.py b/qermit/coherent_pauli_checks/pauli_sampler.py
index 0d707eaa..dd07653a 100644
--- a/qermit/coherent_pauli_checks/pauli_sampler.py
+++ b/qermit/coherent_pauli_checks/pauli_sampler.py
@@ -124,9 +124,8 @@ def add_pauli_checks_to_circbox(
                         # is not Clifford. It could be worth raising a clearer
                         # error.
                         end_stabiliser.apply_gate(
-                            clifford_command.op.type,
-                            clifford_command.qubits,
-                            params=clifford_command.op.params,
+                            op=clifford_command.op,
+                            qubits=clifford_command.qubits,
                         )
 
                     pauli_check_circuit.add_barrier(command.args + [control_qubit])
diff --git a/qermit/noise_model/noise_model.py b/qermit/noise_model/noise_model.py
index 39f716d5..137e6b1f 100644
--- a/qermit/noise_model/noise_model.py
+++ b/qermit/noise_model/noise_model.py
@@ -665,9 +665,8 @@ def random_propagate(
             if direction == Direction.forward:
                 # Apply gate to total error.
                 pauli_error.apply_gate(
-                    op_type=command.op.type,
+                    op=command.op,
                     qubits=cast(List[Qubit], command.args),
-                    params=command.op.params,
                 )
             # Add noise operation if appropriate.
             if command.op.type in self.noisy_gates:
@@ -694,9 +693,8 @@ def random_propagate(
                 # which has the same effect on the pauli as pushing through the
                 # dagger.
                 pauli_error.apply_gate(
-                    op_type=command.op.dagger.type,
+                    op=command.op.dagger,
                     qubits=cast(List[Qubit], command.args),
-                    params=command.op.dagger.params,
                 )
 
         return pauli_error
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index fb748d19..94c852d9 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -6,7 +6,7 @@
 
 import numpy as np
 from numpy.random import Generator
-from pytket.circuit import Circuit, OpType, Qubit
+from pytket.circuit import Circuit, Op, OpType, Qubit
 from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 
 
@@ -172,13 +172,19 @@ def apply_circuit(self, circuit: Circuit):
         for command in circuit.get_commands():
             if command.op.type == OpType.Barrier:
                 continue
+
+            if command.qubits != command.args:
+                raise Exception(
+                    "Circuit must be purely quantum."
+                    f"The given circuit acts on bits {command.bits}"
+                )
+
             self.apply_gate(
-                op_type=command.op.type,
+                op=command.op,
                 qubits=command.qubits,
-                params=command.op.params,
             )
 
-    def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
+    def apply_gate(self, op: Op, qubits: List[Qubit]):
         """Apply operation of given type to given qubit in the pauli. At
         present the recognised operation types are H, S, CX, Z, Sdg,
         X, Y, CZ, SWAP, and Barrier.
@@ -188,57 +194,56 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
         :raises Exception: Raised if operator is not recognised.
         """
 
-        if op_type == OpType.H:
+        if op.type == OpType.H:
             self._H(qubit=qubits[0])
-        elif op_type == OpType.S:
+        elif op.type == OpType.S:
             self._S(qubit=qubits[0])
-        elif op_type == OpType.CX:
+        elif op.type == OpType.CX:
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op_type == OpType.Z:
+        elif op.type == OpType.Z:
             self._S(qubit=qubits[0])
             self._S(qubit=qubits[0])
-        elif op_type == OpType.Sdg:
+        elif op.type == OpType.Sdg:
             self._S(qubit=qubits[0])
             self._S(qubit=qubits[0])
             self._S(qubit=qubits[0])
-        elif op_type == OpType.X:
+        elif op.type == OpType.X:
             self._H(qubit=qubits[0])
-            self.apply_gate(op_type=OpType.Z, qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.Z), qubits=qubits)
             self._H(qubit=qubits[0])
-        elif op_type == OpType.Y:
-            self.apply_gate(op_type=OpType.Z, qubits=qubits)
-            self.apply_gate(op_type=OpType.X, qubits=qubits)
-        elif op_type == OpType.CZ:
+        elif op.type == OpType.Y:
+            self.apply_gate(op=Op.create(OpType.Z), qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.X), qubits=qubits)
+        elif op.type == OpType.CZ:
             self._H(qubit=qubits[1])
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
             self._H(qubit=qubits[1])
-        elif op_type == OpType.SWAP:
+        elif op.type == OpType.SWAP:
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
             self._CX(control_qubit=qubits[1], target_qubit=qubits[0])
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op_type == OpType.PhasedX:
-            params = kwargs.get("params", None)
+        elif op.type == OpType.PhasedX:
             if all(
                 math.isclose(param % 0.5, 0) or math.isclose(param % 0.5, 0.5)
-                for param in params
+                for param in op.params
             ):
-                self.apply_gate(OpType.Rz, qubits=qubits, params=[-params[1]])
-                self.apply_gate(OpType.Rx, qubits=qubits, params=[params[0]])
-                self.apply_gate(OpType.Rz, qubits=qubits, params=[params[1]])
+                self.apply_gate(op=Op.create(OpType.Rz, [-op.params[1]]), qubits=qubits)
+                self.apply_gate(op=Op.create(OpType.Rx, [op.params[0]]), qubits=qubits)
+                self.apply_gate(op=Op.create(OpType.Rz, [op.params[1]]), qubits=qubits)
             else:
-                raise Exception(f"{params} are not clifford angles for " + "PhasedX.")
-        elif op_type == OpType.Rz:
-            params = kwargs.get("params", None)
-            angle = params[0]
+                raise Exception(
+                    f"{op.params} are not clifford angles for " + "PhasedX."
+                )
+        elif op.type == OpType.Rz:
+            angle = op.params[0]
             if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
                 angle = round(angle, 1)
                 for _ in range(int((angle % 2) // 0.5)):
                     self._S(qubit=qubits[0])
             else:
                 raise Exception(f"{angle} is not a clifford angle.")
-        elif op_type == OpType.Rx:
-            params = kwargs.get("params", None)
-            angle = params[0]
+        elif op.type == OpType.Rx:
+            angle = op.params[0]
             if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
                 angle = round(angle, 1)
                 self._H(qubit=qubits[0])
@@ -247,24 +252,23 @@ def apply_gate(self, op_type: OpType, qubits: List[Qubit], **kwargs):
                 self._H(qubit=qubits[0])
             else:
                 raise Exception(f"{angle} is not a clifford angle.")
-        elif op_type == OpType.ZZMax:
+        elif op.type == OpType.ZZMax:
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
             self._S(qubit=qubits[1])
             self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op_type == OpType.ZZPhase:
-            params = kwargs.get("params", None)
-            angle = params[0]
+        elif op.type == OpType.ZZPhase:
+            angle = op.params[0]
             if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
                 angle = round(angle, 1)
                 for _ in range(int((angle % 2) // 0.5)):
-                    self.apply_gate(op_type=OpType.ZZMax, qubits=qubits)
+                    self.apply_gate(op=Op.create(OpType.ZZMax), qubits=qubits)
             else:
                 raise Exception(f"{angle} is not a clifford angle.")
-        elif op_type == OpType.Barrier:
+        elif op.type == OpType.Barrier:
             pass
         else:
             raise Exception(
-                f"{op_type} is an unrecognised gate type. "
+                f"{op.type} is an unrecognised gate type. "
                 + "Please use only Clifford gates."
             )
 
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index e2f6fa2f..45c04a2a 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -7,7 +7,7 @@
 import numpy as np
 import pytest
 from pytket import Circuit, OpType
-from pytket.circuit import Qubit
+from pytket.circuit import Op, Qubit
 from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 
 from qermit.noise_model import (
@@ -395,9 +395,9 @@ def test_error_backpropagation() -> None:
     )
 
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[1])
-    stabilise.apply_gate(op_type=OpType.CZ, qubits=qubit_list)
+    stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=qubit_list)
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[0])
-    stabilise.apply_gate(op_type=OpType.CZ, qubits=[qubit_list[1], qubit_list[0]])
+    stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=[qubit_list[1], qubit_list[0]])
 
     assert stabilise.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1}
     assert stabilise.X_list == {qubit_list[0]: 1, qubit_list[1]: 1}
@@ -410,10 +410,10 @@ def test_error_backpropagation() -> None:
     )
 
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[1])
-    stabilise.apply_gate(op_type=OpType.CZ, qubits=qubit_list)
-    stabilise.apply_gate(op_type=OpType.X, qubits=[qubit_list[1]])
+    stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=qubit_list)
+    stabilise.apply_gate(op=Op.create(OpType.X), qubits=[qubit_list[1]])
     stabilise.pre_apply_pauli(pauli=Pauli.Y, qubit=qubit_list[0])
-    stabilise.apply_gate(op_type=OpType.CZ, qubits=[qubit_list[1], qubit_list[0]])
+    stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=[qubit_list[1], qubit_list[0]])
 
     assert stabilise.Z_list == {qubit_list[0]: 1, qubit_list[1]: 1}
     assert stabilise.X_list == {qubit_list[0]: 1, qubit_list[1]: 1}
@@ -605,13 +605,13 @@ def test_H() -> None:
     qubit_list = [Qubit(0)]
     pauli = QermitPauli(Z_list=[1], X_list=[0], qubit_list=qubit_list)
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X]
     )
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.Z]
     )
@@ -647,7 +647,7 @@ def test_apply_gate() -> None:
         qubit_list=qubit_list,
     )
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
 
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.Z, Pauli.Z]
@@ -655,7 +655,7 @@ def test_apply_gate() -> None:
     assert pauli.qubit_pauli_tensor.coeff == 1
 
     pauli.apply_gate(
-        op_type=OpType.CX,
+        op=Op.create(OpType.CX),
         qubits=[qubit_list[1], qubit_list[2]],
     )
 
@@ -665,7 +665,7 @@ def test_apply_gate() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[1]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[1]])
 
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
@@ -685,8 +685,8 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[0]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.Y, Pauli.Z, Pauli.Z]
@@ -694,7 +694,7 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[0], qubit_list[1]])
+    pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[0], qubit_list[1]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.Y, Pauli.Z]
@@ -702,7 +702,7 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == 1
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[1]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[1]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.X, Pauli.Z]
@@ -710,8 +710,8 @@ def test_qubit_pauli_string() -> None:
     assert pauli.qubit_pauli_tensor.string == qubit_pauli_string
     assert pauli.qubit_pauli_tensor.coeff == -1
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
-    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[0], qubit_list[2]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[0], qubit_list[2]])
 
     qubit_pauli_string = QubitPauliString(
         qubits=qubit_list, paulis=[Pauli.X, Pauli.X, Pauli.Y]
@@ -728,47 +728,47 @@ def test_clifford_incremental() -> None:
         qubit_list=qubit_list,
     )
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[2]])
+    pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[1]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[1]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 0
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[1]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[1]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.phase == 1
 
-    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[2]])
+    pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
     assert pauli.phase == 1
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[2]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[2]])
     assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 2
 
-    pauli.apply_gate(op_type=OpType.CX, qubits=[qubit_list[1], qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 2
 
-    pauli.apply_gate(op_type=OpType.S, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 3
 
-    pauli.apply_gate(op_type=OpType.H, qubits=[qubit_list[0]])
+    pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
     assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
     assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
     assert pauli.phase == 1

From ef4f65b5282350089d03e04a957b677518be6e97 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 14:12:04 +0000
Subject: [PATCH 16/25] Correct wrong phase

---
 qermit/coherent_pauli_checks/pauli_sampler.py |  1 -
 qermit/noise_model/qermit_pauli.py            | 12 ++++++------
 tests/noise_model_test.py                     | 11 +++++++----
 3 files changed, 13 insertions(+), 11 deletions(-)

diff --git a/qermit/coherent_pauli_checks/pauli_sampler.py b/qermit/coherent_pauli_checks/pauli_sampler.py
index dd07653a..6da63035 100644
--- a/qermit/coherent_pauli_checks/pauli_sampler.py
+++ b/qermit/coherent_pauli_checks/pauli_sampler.py
@@ -238,7 +238,6 @@ def sample(
         :return: Random Pauli of length equal to the size of the circuit.
         """
         # TODO: Make sure sampling is done without replacement
-
         stabiliser_list: List[QermitPauli] = []
         while len(stabiliser_list) < self.n_checks:
             Z_list = [self.rng.integers(2) for _ in circ.qubits]
diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 94c852d9..40e353c8 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -7,7 +7,8 @@
 import numpy as np
 from numpy.random import Generator
 from pytket.circuit import Circuit, Op, OpType, Qubit
-from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
+from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor, pauli_string_mult
+from pytket.tableau import UnitaryTableau
 
 
 class QermitPauli:
@@ -93,7 +94,6 @@ def dagger(self) -> QermitPauli:
 
         :return: Conjugate transpose of the Pauli.
         """
-
         return QermitPauli.from_qubit_pauli_tensor(
             qpt=QubitPauliTensor(
                 string=self.qubit_pauli_tensor.string,
@@ -428,10 +428,10 @@ def get_control_circuit(self, control_qubit: Qubit) -> Circuit:
                 )
 
             if pauli == Pauli.Y:
-                phase += 2
+                phase += 1
                 phase %= 4
 
-        for _ in range(self.phase):
+        for _ in range(phase):
             circ.S(
                 control_qubit,
                 opgroup="phase correction",
@@ -460,10 +460,10 @@ def circuit(self) -> Circuit:
                 circ.X(qubit)
 
             if pauli == Pauli.Y:
-                phase += 2
+                phase += 1
                 phase %= 4
 
-        circ.add_phase(a=self.phase / 2)
+        circ.add_phase(a=phase / 2)
 
         return circ
 
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index 45c04a2a..8fd3c8d0 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -558,7 +558,7 @@ def test_qermit_pauli_circuit() -> None:
     L = QermitPauli(Z_list=[1, 1, 1], X_list=[0, 0, 0], qubit_list=circ.qubits)
     L_circ = L.circuit
 
-    R = deepcopy(L)
+    R = QermitPauli(Z_list=[1, 1, 1], X_list=[0, 0, 0], qubit_list=circ.qubits)
     R.apply_circuit(circ)
     R_circ = R.circuit
 
@@ -580,9 +580,12 @@ def test_initialisation() -> None:
         X_list=[0, 0, 0],
         qubit_list=qubit_list,
     )
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
-    assert pauli.phase == 0
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={Qubit(0): Pauli.I, Qubit(1): Pauli.I, Qubit(2): Pauli.Z}
+        ),
+        coeff=1,
+    )
 
 
 def test_identity_clifford() -> None:

From a4ca938e2b9acb15ef367ee36b7d692ed36c316f Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 14:49:27 +0000
Subject: [PATCH 17/25] Use UnitaryTableau

---
 qermit/noise_model/qermit_pauli.py | 336 ++++++++---------------------
 tests/noise_model_test.py          | 155 +++++++++----
 2 files changed, 212 insertions(+), 279 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index 40e353c8..ae194e6d 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -29,27 +29,38 @@ class QermitPauli:
 
     def __init__(
         self,
-        Z_list: List[int],
-        X_list: List[int],
-        qubit_list: List[Qubit],
+        Z_list: list[int],
+        X_list: list[int],
+        qubit_list: list[Qubit],
         phase: int = 0,
     ):
-        """Initialisation is by a list of qubits, and lists of 0, 1
-        values indicating that a Z or X operator acts there.
+        coeff = self.phase_dict[phase]
 
-        :param Z_list: 0 indicates no Z, 1 indicates Z.
-        :param X_list: 0 indicates no X, 1 indicates X.
-        :param qubit_list: List of qubits on which the Pauli acts.
-        :param phase: Phase as a power of i
-        """
+        self.qubit_list = qubit_list
 
-        assert all([Z in {0, 1} for Z in Z_list])
-        assert len(Z_list) == len(qubit_list)
+        self.unitary_tableau = UnitaryTableau(nqb=len(qubit_list))
 
-        self.Z_list = {qubit: Z for qubit, Z in zip(qubit_list, Z_list)}
-        self.X_list = {qubit: X for qubit, X in zip(qubit_list, X_list)}
-        self.phase = phase
-        self.qubit_list = qubit_list
+        self.qubit_index = {qubit: Qubit(i) for i, qubit in enumerate(qubit_list)}
+        self.index_qubit = {Qubit(i): qubit for i, qubit in enumerate(qubit_list)}
+
+        paulis = []
+
+        for Z, X in zip(Z_list, X_list):
+            if X and Z:
+                paulis.append(Pauli.Y)
+                coeff *= -1j
+            elif X:
+                paulis.append(Pauli.X)
+            elif Z:
+                paulis.append(Pauli.Z)
+            else:
+                paulis.append(Pauli.I)
+
+        self.input_pauli_tensor = QubitPauliTensor(
+            qubits=[qubit_index for qubit_index in self.qubit_index.values()],
+            paulis=paulis,
+            coeff=coeff,
+        )
 
     def is_measureable(self, qubit_list: List[Qubit]) -> bool:
         """Checks if this Pauli would be measurable on the given qubits in the
@@ -109,8 +120,6 @@ def from_qubit_pauli_tensor(cls, qpt: QubitPauliTensor) -> QermitPauli:
         :return: Pauli created from qubit pauli string.
         """
 
-        # coeff_to_phase = {1 + 0j: 0, 0 + 1j: 1, -1 + 0j: 2, 0 - 1j: 3}
-
         Z_list = []
         X_list = []
         phase = cls.coeff_to_phase[qpt.coeff]
@@ -184,226 +193,83 @@ def apply_circuit(self, circuit: Circuit):
                 qubits=command.qubits,
             )
 
-    def apply_gate(self, op: Op, qubits: List[Qubit]):
-        """Apply operation of given type to given qubit in the pauli. At
-        present the recognised operation types are H, S, CX, Z, Sdg,
-        X, Y, CZ, SWAP, and Barrier.
+    def apply_gate(self, op: Op, qubits: list[Qubit]):
+        if not op.is_clifford():
+            raise Exception(f"{op} is not a Clifford operation.")
 
-        :param op_type: Type of operator to be applied.
-        :param qubits: Qubits to which operator is applied.
-        :raises Exception: Raised if operator is not recognised.
-        """
-
-        if op.type == OpType.H:
-            self._H(qubit=qubits[0])
-        elif op.type == OpType.S:
-            self._S(qubit=qubits[0])
-        elif op.type == OpType.CX:
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op.type == OpType.Z:
-            self._S(qubit=qubits[0])
-            self._S(qubit=qubits[0])
-        elif op.type == OpType.Sdg:
-            self._S(qubit=qubits[0])
-            self._S(qubit=qubits[0])
-            self._S(qubit=qubits[0])
-        elif op.type == OpType.X:
-            self._H(qubit=qubits[0])
-            self.apply_gate(op=Op.create(OpType.Z), qubits=qubits)
-            self._H(qubit=qubits[0])
-        elif op.type == OpType.Y:
-            self.apply_gate(op=Op.create(OpType.Z), qubits=qubits)
-            self.apply_gate(op=Op.create(OpType.X), qubits=qubits)
-        elif op.type == OpType.CZ:
-            self._H(qubit=qubits[1])
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self._H(qubit=qubits[1])
-        elif op.type == OpType.SWAP:
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self._CX(control_qubit=qubits[1], target_qubit=qubits[0])
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op.type == OpType.PhasedX:
-            if all(
-                math.isclose(param % 0.5, 0) or math.isclose(param % 0.5, 0.5)
-                for param in op.params
-            ):
-                self.apply_gate(op=Op.create(OpType.Rz, [-op.params[1]]), qubits=qubits)
-                self.apply_gate(op=Op.create(OpType.Rx, [op.params[0]]), qubits=qubits)
-                self.apply_gate(op=Op.create(OpType.Rz, [op.params[1]]), qubits=qubits)
-            else:
-                raise Exception(
-                    f"{op.params} are not clifford angles for " + "PhasedX."
-                )
-        elif op.type == OpType.Rz:
-            angle = op.params[0]
-            if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
-                angle = round(angle, 1)
-                for _ in range(int((angle % 2) // 0.5)):
-                    self._S(qubit=qubits[0])
-            else:
-                raise Exception(f"{angle} is not a clifford angle.")
-        elif op.type == OpType.Rx:
-            angle = op.params[0]
-            if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
-                angle = round(angle, 1)
-                self._H(qubit=qubits[0])
-                for _ in range(int((angle % 2) // 0.5)):
-                    self._S(qubit=qubits[0])
-                self._H(qubit=qubits[0])
-            else:
-                raise Exception(f"{angle} is not a clifford angle.")
-        elif op.type == OpType.ZZMax:
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-            self._S(qubit=qubits[1])
-            self._CX(control_qubit=qubits[0], target_qubit=qubits[1])
-        elif op.type == OpType.ZZPhase:
-            angle = op.params[0]
-            if math.isclose(angle % 0.5, 0) or math.isclose(angle % 0.5, 0.5):
-                angle = round(angle, 1)
-                for _ in range(int((angle % 2) // 0.5)):
-                    self.apply_gate(op=Op.create(OpType.ZZMax), qubits=qubits)
-            else:
-                raise Exception(f"{angle} is not a clifford angle.")
-        elif op.type == OpType.Barrier:
-            pass
-        else:
-            raise Exception(
-                f"{op.type} is an unrecognised gate type. "
-                + "Please use only Clifford gates."
+        if op.is_clifford_type():
+            self.unitary_tableau.apply_gate_at_end(
+                type=op.type,
+                qbs=[self.qubit_index[qubit] for qubit in qubits],
             )
 
-    def _S(self, qubit: Qubit):
-        """Act S operation on the pauli. In particular this transforms
-        the pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
-        (i)^{phase}SX^{X_liist}Z^{Z_list}S^{dagger}.
-
-        :param qubit: Qubit in Pauli onto which S is acted.
-        """
-
-        self.Z_list[qubit] += self.X_list[qubit]
-        self.Z_list[qubit] %= 2
-        self.phase += self.X_list[qubit]
-        self.phase %= 4
-
-    def _H(self, qubit: Qubit):
-        """Act H operation. In particular this transforms
-        the Pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
-        H(i)^{phase}X^{X_liist}Z^{Z_list}H^{dagger}.
-
-        :param qubit: Qubit in Pauli on which H is acted.
-        """
-
-        self.phase += 2 * self.X_list[qubit] * self.Z_list[qubit]
-        self.phase %= 4
-
-        temp_X = self.X_list[qubit]
-        self.X_list[qubit] = self.Z_list[qubit]
-        self.Z_list[qubit] = temp_X
-
-    def _CX(self, control_qubit: Qubit, target_qubit: Qubit):
-        """Act CX operation. In particular this transforms
-        the Pauli (i)^{phase}X^{X_liist}Z^{Z_list} to
-        CX(i)^{phase}X^{X_liist}Z^{Z_list}CX^{dagger}.
-
-        :param control_qubit: Control qubit of CX gate.
-        :param target_qubit: Target qubit of CX gate.
-        """
-
-        self.Z_list[control_qubit] += self.Z_list[target_qubit]
-        self.Z_list[control_qubit] %= 2
-        self.X_list[target_qubit] += self.X_list[control_qubit]
-        self.X_list[target_qubit] %= 2
-
-    def pre_apply_pauli(self, pauli: Union[Pauli, OpType], qubit: Qubit):
-        """Pre apply by a pauli on a particular qubit.
-
-        :param pauli: Pauli to pre-apply.
-        :param qubit: Qubit to apply Pauli to.
-        :raises Exception: Raised if pauli is not a pauli operation.
-        """
-
-        if pauli in [Pauli.X, OpType.X]:
-            self.pre_apply_X(qubit)
-        elif pauli in [Pauli.Z, OpType.Z]:
-            self.pre_apply_Z(qubit)
-        elif pauli in [Pauli.Y, OpType.Y]:
-            self.pre_apply_X(qubit)
-            self.pre_apply_Z(qubit)
-            self.phase += 1
-            self.phase %= 4
-        elif pauli == Pauli.I:
-            pass
-        else:
-            raise Exception(f"{pauli} is not a Pauli.")
-
-    def pre_apply_X(self, qubit: Qubit):
-        """Pre-apply X Pauli ito qubit.
-
-        :param qubit: Qubit to which X is pre-applied.
-        """
-
-        self.X_list[qubit] += 1
-        self.X_list[qubit] %= 2
-        self.phase += 2 * self.Z_list[qubit]
-        self.phase %= 4
-
-    def pre_apply_Z(self, qubit: Qubit):
-        """Pre-apply Z Pauli ito qubit.
+        elif op.type == OpType.Rz:
+            for _ in range(int((op.params[0] % 2) // 0.5)):
+                self.apply_gate(op=Op.create(OpType.S), qubits=qubits)
 
-        :param qubit: Qubit to which Z is pre-applied.
-        """
+        elif op.type == OpType.Rx:
+            self.apply_gate(op=Op.create(OpType.H), qubits=qubits)
+            for _ in range(int((op.params[0] % 2) // 0.5)):
+                self.apply_gate(op=Op.create(OpType.S), qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.H), qubits=qubits)
 
-        self.Z_list[qubit] += 1
-        self.Z_list[qubit] %= 2
+        elif op.type == OpType.PhasedX:
+            self.apply_gate(op=Op.create(OpType.Rz, [-op.params[1]]), qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.Rx, [op.params[0]]), qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.Rz, [op.params[1]]), qubits=qubits)
 
-    def post_apply_pauli(self, pauli: Union[Pauli, OpType], qubit: Qubit):
-        """Post apply a Pauli operation.
+        elif op.type == OpType.ZZMax:
+            self.apply_gate(op=Op.create(OpType.CX), qubits=qubits)
+            self.apply_gate(op=Op.create(OpType.S), qubits=[qubits[1]])
+            self.apply_gate(op=Op.create(OpType.CX), qubits=qubits)
 
-        :param pauli: Pauli to post-apply.
-        :param qubit: Qubit to post-apply pauli to.
-        :raises Exception: Raised if pauli is not a Pauli operation.
-        """
+        elif op.type == OpType.ZZPhase:
+            for _ in range(int((op.params[0] % 2) // 0.5)):
+                self.apply_gate(op=Op.create(OpType.ZZMax), qubits=qubits)
 
-        if pauli in [Pauli.X, OpType.X]:
-            self.post_apply_X(qubit)
-        elif pauli in [Pauli.Z, OpType.Z]:
-            self.post_apply_Z(qubit)
-        elif pauli in [Pauli.Y, OpType.Y]:
-            self.post_apply_Z(qubit)
-            self.post_apply_X(qubit)
-            self.phase += 1
-            self.phase %= 4
-        elif pauli == Pauli.I:
-            pass
         else:
-            raise Exception(f"{pauli} is not a Pauli.")
+            raise NotImplementedError(
+                f"{op} if clifford but is not supported. "
+                "Please request the developers support this operation."
+            )
 
-    def post_apply_X(self, qubit: Qubit):
-        """Post-apply X Pauli ito qubit.
+    def pre_apply_pauli(self, pauli, qubit):
+        mult_string, mult_coeff = pauli_string_mult(
+            qubitpaulistring1=self.qubit_pauli_tensor.string,
+            qubitpaulistring2=QubitPauliString(qubit=qubit, pauli=pauli),
+        )
+        mult_string_map = {
+            self.qubit_index[qubit]: pauli for qubit, pauli in mult_string.map.items()
+        }
+        mult_string = QubitPauliString(map=mult_string_map)
 
-        :param qubit: Qubit to which X is post-applied.
-        """
+        self.input_pauli_tensor = QubitPauliTensor(
+            string=mult_string, coeff=self.qubit_pauli_tensor.coeff * mult_coeff
+        )
 
-        self.X_list[qubit] += 1
-        self.X_list[qubit] %= 2
+        self.unitary_tableau = UnitaryTableau(nqb=len(self.qubit_list))
 
-    def post_apply_Z(self, qubit: Qubit):
-        """Post-apply Z Pauli ito qubit.
+    def post_apply_pauli(self, pauli, qubit):
+        mult_string, mult_coeff = pauli_string_mult(
+            qubitpaulistring1=QubitPauliString(qubit=qubit, pauli=pauli),
+            qubitpaulistring2=self.qubit_pauli_tensor.string,
+        )
+        mult_string_map = {
+            self.qubit_index[qubit]: pauli for qubit, pauli in mult_string.map.items()
+        }
+        mult_string = QubitPauliString(map=mult_string_map)
 
-        :param qubit: Qubit to which Z is post-applied.
-        """
+        self.input_pauli_tensor = QubitPauliTensor(
+            string=mult_string, coeff=self.qubit_pauli_tensor.coeff * mult_coeff
+        )
 
-        self.Z_list[qubit] += 1
-        self.Z_list[qubit] %= 2
-        self.phase += 2 * self.X_list[qubit]
-        self.phase %= 4
+        self.unitary_tableau = UnitaryTableau(nqb=len(self.qubit_list))
 
     def get_control_circuit(self, control_qubit: Qubit) -> Circuit:
         """Controlled circuit which acts Pauli.
 
         :return: Controlled circuit acting Paulii.
         """
-
         circ = Circuit()
         circ.add_qubit(control_qubit)
         # TODO: in the case that this is secretly a controlled Y a controlled
@@ -445,7 +311,6 @@ def circuit(self) -> Circuit:
 
         :return: Circuit acting Pauli.
         """
-
         circ = Circuit()
 
         phase = self.coeff_to_phase[self.qubit_pauli_tensor.coeff]
@@ -468,30 +333,19 @@ def circuit(self) -> Circuit:
         return circ
 
     @property
-    def qubit_pauli_tensor(self) -> QubitPauliTensor:
-        """Return QubitPauliTensor describing Pauli.
-
-        :return: QubitPauliTensor describing Pauli.
-        """
-
-        operator_phase = self.phase
-        paulis = []
-        for X, Z in zip(self.X_list.values(), self.Z_list.values()):
-            if X == 0 and Z == 0:
-                paulis.append(Pauli.I)
-            elif X == 1 and Z == 0:
-                paulis.append(Pauli.X)
-            elif X == 0 and Z == 1:
-                paulis.append(Pauli.Z)
-            elif X == 1 and Z == 1:
-                paulis.append(Pauli.Y)
-                operator_phase += 3
-                operator_phase %= 4
-
+    def qubit_pauli_tensor(self):
+        mislabled_qpt = self.unitary_tableau.get_row_product(
+            paulis=self.input_pauli_tensor
+        )
+        correct_map = {
+            qubit: mislabled_qpt.string.map.get(index, Pauli.I)
+            for index, qubit in self.index_qubit.items()
+        }
         return QubitPauliTensor(
-            qubits=self.qubit_list,
-            paulis=paulis,
-            coeff=self.phase_dict[operator_phase],
+            string=QubitPauliString(
+                map=correct_map,
+            ),
+            coeff=mislabled_qpt.coeff,
         )
 
     @classmethod
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index 8fd3c8d0..b2b2e850 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -399,9 +399,15 @@ def test_error_backpropagation() -> None:
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[0])
     stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=[qubit_list[1], qubit_list[0]])
 
-    assert stabilise.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1}
-    assert stabilise.X_list == {qubit_list[0]: 1, qubit_list[1]: 1}
-    assert stabilise.phase == 0
+    assert stabilise.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                qubit_list[0]: Pauli.X,
+                qubit_list[1]: Pauli.Y,
+            }
+        ),
+        coeff=-1j,
+    )
 
     stabilise = QermitPauli(
         Z_list=[0] * len(qubit_list),
@@ -415,9 +421,15 @@ def test_error_backpropagation() -> None:
     stabilise.pre_apply_pauli(pauli=Pauli.Y, qubit=qubit_list[0])
     stabilise.apply_gate(op=Op.create(OpType.CZ), qubits=[qubit_list[1], qubit_list[0]])
 
-    assert stabilise.Z_list == {qubit_list[0]: 1, qubit_list[1]: 1}
-    assert stabilise.X_list == {qubit_list[0]: 1, qubit_list[1]: 1}
-    assert stabilise.phase == 1
+    assert stabilise.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                qubit_list[0]: Pauli.Y,
+                qubit_list[1]: Pauli.Y,
+            }
+        ),
+        coeff=-1j,
+    )
 
 
 def test_back_propagate_random_error() -> None:
@@ -435,13 +447,17 @@ def test_back_propagate_random_error() -> None:
     )
     noise_model = NoiseModel({OpType.CZ: error_distribution})
 
-    # error_sampler = ErrorSampler(noise_model=noise_model)
-
     pauli_error = noise_model.random_propagate(cliff_circ)
 
-    assert pauli_error.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1}
-    assert pauli_error.X_list == {qubit_list[0]: 0, qubit_list[1]: 0}
-    assert pauli_error.phase == 2
+    assert pauli_error.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.Z,
+            }
+        ),
+        coeff=-1,
+    )
 
 
 # TODO: check this test by hand. It also takes a long time to run, which
@@ -732,49 +748,112 @@ def test_clifford_incremental() -> None:
     )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
-    assert pauli.phase == 0
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.I,
+                Qubit(2): Pauli.Z,
+            }
+        ),
+        coeff=1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[2]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.phase == 0
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.Z,
+                Qubit(2): Pauli.Z,
+            }
+        ),
+        coeff=1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[1]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
-    assert pauli.phase == 0
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.Z,
+            }
+        ),
+        coeff=1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[1]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 0}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.phase == 1
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.Y,
+                Qubit(2): Pauli.Z,
+            }
+        ),
+        coeff=1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[2]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 1}
-    assert pauli.phase == 1
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.Y,
+            }
+        ),
+        coeff=1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[2]])
-    assert pauli.X_list == {qubit_list[0]: 0, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.phase == 2
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.I,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.X,
+            }
+        ),
+        coeff=-1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.CX), qubits=[qubit_list[1], qubit_list[0]])
-    assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.Z_list == {qubit_list[0]: 0, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.phase == 2
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.X,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.X,
+            }
+        ),
+        coeff=-1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.S), qubits=[qubit_list[0]])
-    assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.phase == 3
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.Y,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.X,
+            }
+        ),
+        coeff=-1,
+    )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
-    assert pauli.X_list == {qubit_list[0]: 1, qubit_list[1]: 1, qubit_list[2]: 1}
-    assert pauli.Z_list == {qubit_list[0]: 1, qubit_list[1]: 0, qubit_list[2]: 0}
-    assert pauli.phase == 1
+    assert pauli.qubit_pauli_tensor == QubitPauliTensor(
+        string=QubitPauliString(
+            map={
+                Qubit(0): Pauli.Y,
+                Qubit(1): Pauli.X,
+                Qubit(2): Pauli.X,
+            }
+        ),
+        coeff=1,
+    )
 
 
 def test_to_from_qps() -> None:

From 7657e2db490567ac3dfef2a616b6ed0e408a4242 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 15:05:24 +0000
Subject: [PATCH 18/25] Remove unnecessary imports

---
 qermit/noise_model/qermit_pauli.py | 6 +-----
 1 file changed, 1 insertion(+), 5 deletions(-)

diff --git a/qermit/noise_model/qermit_pauli.py b/qermit/noise_model/qermit_pauli.py
index ae194e6d..c9d8584f 100644
--- a/qermit/noise_model/qermit_pauli.py
+++ b/qermit/noise_model/qermit_pauli.py
@@ -1,11 +1,7 @@
 from __future__ import annotations
 
-import math
-from collections.abc import Iterable
-from typing import Dict, List, Tuple, Union
+from typing import Dict, List
 
-import numpy as np
-from numpy.random import Generator
 from pytket.circuit import Circuit, Op, OpType, Qubit
 from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor, pauli_string_mult
 from pytket.tableau import UnitaryTableau

From 9af038b06efeb51bbcbf19032d37b2132cc7c464 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 16:32:41 +0000
Subject: [PATCH 19/25] Repair high compute test

---
 tests/noise_model_test.py | 4 +---
 1 file changed, 1 insertion(+), 3 deletions(-)

diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index b2b2e850..a75d2ecf 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -1,7 +1,6 @@
 import json
 import multiprocessing as mp
 from collections import Counter
-from copy import deepcopy
 from itertools import product
 
 import numpy as np
@@ -560,10 +559,9 @@ def test_effective_error_distribution() -> None:
     pauli_error = QermitPauli.from_qubit_pauli_tensor(
         QubitPauliTensor(
             string=QubitPauliString(qubits=qubits, paulis=[Pauli.Z, Pauli.Y, Pauli.X]),
-            coeff=1,
+            coeff=1j,
         )
     )
-    pauli_error.phase = 2
     assert abs(effective_error_dist.pauli_error_counter[pauli_error] - 4900) < 100
 
 

From c92f4290bb413314bc4dde3d74700d58bd23120f Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 17:02:09 +0000
Subject: [PATCH 20/25] Add qulacs dependency

---
 poetry.lock    | 1164 +++++++++++++++++++++++-------------------------
 pyproject.toml |    1 +
 2 files changed, 548 insertions(+), 617 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 96931e56..e24c7440 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -35,21 +35,18 @@ files = [
 
 [[package]]
 name = "asttokens"
-version = "2.4.1"
+version = "3.0.0"
 description = "Annotate AST trees with source code positions"
 optional = true
-python-versions = "*"
+python-versions = ">=3.8"
 files = [
-    {file = "asttokens-2.4.1-py2.py3-none-any.whl", hash = "sha256:051ed49c3dcae8913ea7cd08e46a606dba30b79993209636c4875bc1d637bc24"},
-    {file = "asttokens-2.4.1.tar.gz", hash = "sha256:b03869718ba9a6eb027e134bfdf69f38a236d681c83c160d510768af11254ba0"},
+    {file = "asttokens-3.0.0-py3-none-any.whl", hash = "sha256:e3078351a059199dd5138cb1c706e6430c05eff2ff136af5eb4790f9d28932e2"},
+    {file = "asttokens-3.0.0.tar.gz", hash = "sha256:0dcd8baa8d62b0c1d118b399b2ddba3c4aff271d0d7a9e0d4c1681c79035bbc7"},
 ]
 
-[package.dependencies]
-six = ">=1.12.0"
-
 [package.extras]
-astroid = ["astroid (>=1,<2)", "astroid (>=2,<4)"]
-test = ["astroid (>=1,<2)", "astroid (>=2,<4)", "pytest"]
+astroid = ["astroid (>=2,<4)"]
+test = ["astroid (>=2,<4)", "pytest", "pytest-cov", "pytest-xdist"]
 
 [[package]]
 name = "attrs"
@@ -443,73 +440,73 @@ test-no-images = ["pytest", "pytest-cov", "pytest-rerunfailures", "pytest-xdist"
 
 [[package]]
 name = "coverage"
-version = "7.6.8"
+version = "7.6.9"
 description = "Code coverage measurement for Python"
 optional = true
 python-versions = ">=3.9"
 files = [
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 tests = ["pytest", "pytest-cov", "pytest-xdist"]
 
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 python-dateutil = ">=2.7"
 
 [package.extras]
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 [[package]]
 name = "matplotlib-inline"
@@ -1969,21 +1892,22 @@ files = [
 
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 testing = ["pytest", "pytest-benchmark"]
 
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 [package.extras]
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-
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-numpy = ">=1.20"
-
 [[package]]
 name = "pyspnego"
 version = "0.11.2"
@@ -2627,13 +2540,13 @@ yaml = ["ruamel.yaml"]
 
 [[package]]
 name = "pytest"
-version = "8.3.3"
+version = "8.3.4"
 description = "pytest: simple powerful testing with Python"
 optional = true
 python-versions = ">=3.8"
 files = [
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 [package.dependencies]
@@ -3145,19 +3058,19 @@ visualization = ["ipython (>=5.0.0)", "ipyvue (>=1.8.5)", "ipyvuetify (>=1.1)",
 
 [[package]]
 name = "qiskit-ibm-runtime"
-version = "0.33.2"
+version = "0.34.0"
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 optional = false
 python-versions = ">=3.8"
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 python-dateutil = ">=2.8.0"
 qiskit = ">=1.1.0"
 requests = ">=2.19"
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 websocket-client = ">=1.5.1"
 
 [package.extras]
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 visualization = ["plotly (>=5.23.0)"]
 
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 name = "quantum-pecos"
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 [package.extras]
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 name = "qulacs"
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 description = "Quantum circuit simulator for research"
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 [package.dependencies]
@@ -3328,128 +3245,141 @@ jupyter = ["ipywidgets (>=7.5.1,<9)"]
 
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 [[package]]
 name = "ruff"
-version = "0.8.1"
+version = "0.8.2"
 description = "An extremely fast Python linter and code formatter, written in Rust."
 optional = true
 python-versions = ">=3.7"
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 ]
 
 [[package]]
@@ -3553,13 +3483,13 @@ type = ["importlib_metadata (>=7.0.2)", "jaraco.develop (>=7.21)", "mypy (>=1.12
 
 [[package]]
 name = "six"
-version = "1.16.0"
+version = "1.17.0"
 description = "Python 2 and 3 compatibility utilities"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*"
+python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,>=2.7"
 files = [
-    {file = "six-1.16.0-py2.py3-none-any.whl", hash = "sha256:8abb2f1d86890a2dfb989f9a77cfcfd3e47c2a354b01111771326f8aa26e0254"},
-    {file = "six-1.16.0.tar.gz", hash = "sha256:1e61c37477a1626458e36f7b1d82aa5c9b094fa4802892072e49de9c60c4c926"},
+    {file = "six-1.17.0-py2.py3-none-any.whl", hash = "sha256:4721f391ed90541fddacab5acf947aa0d3dc7d27b2e1e8eda2be8970586c3274"},
+    {file = "six-1.17.0.tar.gz", hash = "sha256:ff70335d468e7eb6ec65b95b99d3a2836546063f63acc5171de367e834932a81"},
 ]
 
 [[package]]
@@ -4315,4 +4245,4 @@ tests = ["mypy", "pytest", "pytest-cov", "pytket-quantinuum", "qiskit-ibm-provid
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10,<3.14"
-content-hash = "518fb4ebd0da46487bbb8279c79d26e244c3459d43ab11e8506fbd7ab91095f6"
+content-hash = "15c0d2722625025e8e8290f48766f172a993fdb89dd4c4f83b05e7a0dec3d27a"
diff --git a/pyproject.toml b/pyproject.toml
index 3c052111..e5644470 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -29,6 +29,7 @@ furo = { version = "^2024.8.6", optional = true }
 myst-nb = { version = "^1.1.2", optional = true}
 sphinx-autodoc-typehints = { version = "^2.5.0", optional = true }
 jupyter-sphinx = { version = "^0.5.3", optional = true}
+qulacs = "^0.6.11"
 
 [tool.poetry.extras]
 tests = [

From 87ed732a6252e63e3e200b80427c11fd720255f1 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 17:07:47 +0000
Subject: [PATCH 21/25] Move qulacs dependency

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index e5644470..4ff31a33 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -17,6 +17,7 @@ readme = "README.md"
 python = ">=3.10,<3.14"
 pytket-qiskit = "^0.60.0"
 matplotlib = "^3.8.3"
+qulacs = "^0.6.11"
 
 pytest = { version = "^8.1.1", optional = true }
 mypy = { version = "^1.9.0", optional = true }
@@ -29,7 +30,6 @@ furo = { version = "^2024.8.6", optional = true }
 myst-nb = { version = "^1.1.2", optional = true}
 sphinx-autodoc-typehints = { version = "^2.5.0", optional = true }
 jupyter-sphinx = { version = "^0.5.3", optional = true}
-qulacs = "^0.6.11"
 
 [tool.poetry.extras]
 tests = [

From a1eaf53dfddd4c97e2fe42d26ea9fd7137627183 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 17:13:26 +0000
Subject: [PATCH 22/25] Add projectq

---
 poetry.lock    | 26 +++++++++++++++++++++++++-
 pyproject.toml |  1 +
 2 files changed, 26 insertions(+), 1 deletion(-)

diff --git a/poetry.lock b/poetry.lock
index e24c7440..d1de7f06 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -2252,6 +2252,30 @@ files = [
 dev = ["pre-commit", "tox"]
 testing = ["pytest", "pytest-benchmark"]
 
+[[package]]
+name = "projectq"
+version = "0.8.0"
+description = "ProjectQ - An open source software framework for quantum computing"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "projectq-0.8.0.tar.gz", hash = "sha256:0bcd242afabe947ac4737dffab1de62628b84125ee6ccb3ec23bd4f1d082ec60"},
+]
+
+[package.dependencies]
+matplotlib = ">=2.2.3"
+networkx = ">=2"
+numpy = "*"
+requests = "*"
+scipy = "*"
+
+[package.extras]
+azure-quantum = ["azure-quantum"]
+braket = ["boto3"]
+docs = ["sphinx", "sphinx_rtd_theme"]
+revkit = ["dormouse", "revkit (==3.0a2.dev2)"]
+test = ["flaky", "mock", "pytest (>=6.0)", "pytest-cov", "pytest-mock"]
+
 [[package]]
 name = "prompt-toolkit"
 version = "3.0.48"
@@ -4245,4 +4269,4 @@ tests = ["mypy", "pytest", "pytest-cov", "pytket-quantinuum", "qiskit-ibm-provid
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10,<3.14"
-content-hash = "15c0d2722625025e8e8290f48766f172a993fdb89dd4c4f83b05e7a0dec3d27a"
+content-hash = "b3da9668630723c6def5e311d38009bd63b1a9f488469e9bfc142113e1dffad8"
diff --git a/pyproject.toml b/pyproject.toml
index 4ff31a33..30234ca0 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -30,6 +30,7 @@ furo = { version = "^2024.8.6", optional = true }
 myst-nb = { version = "^1.1.2", optional = true}
 sphinx-autodoc-typehints = { version = "^2.5.0", optional = true }
 jupyter-sphinx = { version = "^0.5.3", optional = true}
+projectq = "^0.8.0"
 
 [tool.poetry.extras]
 tests = [

From a285f2bb390c74522810dfeac5833d8918cf7f77 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Wed, 11 Dec 2024 17:17:41 +0000
Subject: [PATCH 23/25] Reduce projectq version dep

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 30234ca0..5d1687ff 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -18,6 +18,7 @@ python = ">=3.10,<3.14"
 pytket-qiskit = "^0.60.0"
 matplotlib = "^3.8.3"
 qulacs = "^0.6.11"
+projectq = "^0.7.0"
 
 pytest = { version = "^8.1.1", optional = true }
 mypy = { version = "^1.9.0", optional = true }
@@ -30,7 +31,6 @@ furo = { version = "^2024.8.6", optional = true }
 myst-nb = { version = "^1.1.2", optional = true}
 sphinx-autodoc-typehints = { version = "^2.5.0", optional = true }
 jupyter-sphinx = { version = "^0.5.3", optional = true}
-projectq = "^0.8.0"
 
 [tool.poetry.extras]
 tests = [

From a71de8ee3cea87a217c0f2a8fc1e597876adc6ae Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Thu, 12 Dec 2024 17:39:05 +0000
Subject: [PATCH 24/25] Revert projectq dependency change

---
 poetry.lock    | 152 +++++++++++++++++++++----------------------------
 pyproject.toml |   2 -
 2 files changed, 64 insertions(+), 90 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index d1de7f06..6cbb400b 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -2256,7 +2256,7 @@ testing = ["pytest", "pytest-benchmark"]
 name = "projectq"
 version = "0.8.0"
 description = "ProjectQ - An open source software framework for quantum computing"
-optional = false
+optional = true
 python-versions = ">=3.7"
 files = [
     {file = "projectq-0.8.0.tar.gz", hash = "sha256:0bcd242afabe947ac4737dffab1de62628b84125ee6ccb3ec23bd4f1d082ec60"},
@@ -2345,6 +2345,20 @@ files = [
 [package.extras]
 tests = ["pytest"]
 
+[[package]]
+name = "pybind11"
+version = "2.13.6"
+description = "Seamless operability between C++11 and Python"
+optional = true
+python-versions = ">=3.7"
+files = [
+    {file = "pybind11-2.13.6-py3-none-any.whl", hash = "sha256:237c41e29157b962835d356b370ededd57594a26d5894a795960f0047cb5caf5"},
+    {file = "pybind11-2.13.6.tar.gz", hash = "sha256:ba6af10348c12b24e92fa086b39cfba0eff619b61ac77c406167d813b096d39a"},
+]
+
+[package.extras]
+global = ["pybind11-global (==2.13.6)"]
+
 [[package]]
 name = "pycparser"
 version = "2.22"
@@ -2618,31 +2632,31 @@ six = ">=1.5"
 
 [[package]]
 name = "pytket"
-version = "1.36.0"
+version = "1.37.0"
 description = "Quantum computing toolkit and interface to the TKET compiler"
 optional = false
 python-versions = ">=3.10"
 files = [
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-    {file = "pytket-1.36.0-cp310-cp310-macosx_13_0_x86_64.whl", hash = "sha256:aacf6ca5565b0e8d73f06462600d4f66179b0a0ea7110ca3c496f5b1f27c2aa9"},
-    {file = "pytket-1.36.0-cp310-cp310-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl", hash = "sha256:2dc9be3b03670343d2af5e171ef8a13450a39a48dc5ffb7098afa721256aea03"},
-    {file = "pytket-1.36.0-cp310-cp310-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:8563d94c927cadac076eef6667721899a6f103e6b8cdc9d7b104624ab4b1cbc6"},
-    {file = "pytket-1.36.0-cp310-cp310-win_amd64.whl", hash = "sha256:ffd37116afe4fa48910b8011458a05bde4eb82bb528fd7b5b60ffb2f5ec84efa"},
-    {file = "pytket-1.36.0-cp311-cp311-macosx_13_0_arm64.whl", hash = "sha256:a7eb6f1baf1f239726484e97a39568710ae7f82f7185fa65e4aba8c9555d915a"},
-    {file = "pytket-1.36.0-cp311-cp311-macosx_13_0_x86_64.whl", hash = "sha256:2127df6cb5d1e72680eecba8e4535140214315b53d3d9fd98fef9158e7e4f320"},
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-    {file = "pytket-1.36.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:37b00e8aefc57802619e33582405d88fb0b9f372263d57217fd35e94f4fd92c5"},
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+    {file = "pytket-1.37.0-cp312-cp312-macosx_13_0_arm64.whl", hash = "sha256:f3bd9d42a6de858e35d082d1f9c5ac60f85cbe19e74668b97bd593fae2a8a1e5"},
+    {file = "pytket-1.37.0-cp312-cp312-macosx_13_0_x86_64.whl", hash = "sha256:bb74db598281bcdb22f84dc35a73df0c0807e7aa01a5a4282d6433ffa7ef79fe"},
+    {file = "pytket-1.37.0-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl", hash = "sha256:2c6682c2dac4ba361578377630d91ea0ec2f36864b19e94867fff84b6c0ddce0"},
+    {file = "pytket-1.37.0-cp312-cp312-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:6691f8df2de9432f70552f305f4136da694d71b648c0e5a2ccc435b02d19bd7d"},
+    {file = "pytket-1.37.0-cp312-cp312-win_amd64.whl", hash = "sha256:bd33e86b003fd8583e1992f3a9983662a376affdba2f9ef5752bb88a3c0fdd03"},
+    {file = "pytket-1.37.0-cp313-cp313-macosx_13_0_arm64.whl", hash = "sha256:4ce560347411e69434b625a62d31f0fb20b8126ad7dabc03e8478f73b65490e1"},
+    {file = "pytket-1.37.0-cp313-cp313-macosx_13_0_x86_64.whl", hash = "sha256:6676535c4ff44e5da8b54f7237acdcb134f0c9f8f940d7e4d2a1028340138ace"},
+    {file = "pytket-1.37.0-cp313-cp313-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl", hash = "sha256:d887bca4c40be9a0919fc1820cbf1f667d42a99d1cc149453793e4b9c034bab8"},
+    {file = "pytket-1.37.0-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:1be58da4cb449560db20606d1e431e2d4a1621fabd2578bc670cd35b1e5e3bd1"},
+    {file = "pytket-1.37.0-cp313-cp313-win_amd64.whl", hash = "sha256:9c723381d1856e7df763dff611a9a3909481a3072b6c7019b7147be602d953ca"},
 ]
 
 [package.dependencies]
@@ -2661,19 +2675,19 @@ zx = ["autoray (>=0.6.12)", "numba (>=0.60.0)", "quimb (>=1.8.2)"]
 
 [[package]]
 name = "pytket-pecos"
-version = "0.1.31"
+version = "0.1.32"
 description = "This package enables emulation of pytket circuits using the PECOS emulator."
 optional = true
 python-versions = "*"
 files = [
-    {file = "pytket_pecos-0.1.31-py2.py3-none-any.whl", hash = "sha256:f06d7495252f37ac734b2b3f3136d06513f0783ac7f38fc3708aa510f82247a2"},
-    {file = "pytket_pecos-0.1.31.tar.gz", hash = "sha256:bc1b3e090a83b4023683d1ecc8181daf0a4e735127caafd043724cbcfa703bdb"},
+    {file = "pytket_pecos-0.1.32-py2.py3-none-any.whl", hash = "sha256:c30dc77668236573d19a34767324af3df429c071fa3a12a5608c94dd9af97047"},
+    {file = "pytket_pecos-0.1.32.tar.gz", hash = "sha256:587cbe61426d5520033b5629874ef168a85dc9bd26382a583e016395c01f4a60"},
 ]
 
 [package.dependencies]
-pytket = ">=1.34"
-pytket-phir = ">=0.9.0"
-quantum-pecos = {version = ">=0.6.0.dev6", extras = ["simulators", "wasmtime"]}
+pytket = ">=1.36"
+pytket-phir = ">=0.9.1"
+quantum-pecos = {version = ">=0.6.0.dev7", extras = ["projectq", "wasmtime"]}
 
 [[package]]
 name = "pytket-phir"
@@ -3128,6 +3142,8 @@ numpy = [
 ]
 pecos-rslib = "0.6.0.dev7"
 phir = ">=0.3.3"
+projectq = {version = "*", optional = true, markers = "extra == \"projectq\""}
+pybind11 = {version = ">=2.2.3", optional = true, markers = "extra == \"projectq\""}
 scipy = ">=1.1.0"
 wasmtime = {version = ">=13.0", optional = true, markers = "extra == \"wasmtime\""}
 
@@ -3142,46 +3158,6 @@ visualization = ["plotly (>=5.9.0,<5.10.0)"]
 wasmer = ["wasmer (>=1.1.0,<1.2.0)", "wasmer_compiler_cranelift (>=1.1.0,<1.2.0)"]
 wasmtime = ["wasmtime (>=13.0)"]
 
-[[package]]
-name = "qulacs"
-version = "0.6.11"
-description = "Quantum circuit simulator for research"
-optional = false
-python-versions = "*"
-files = [
-    {file = "qulacs-0.6.11-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:35b007c96fc357b64d7c0c2fb5f6a7337708cca1180658607904a408e62037da"},
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-    {file = "qulacs-0.6.11-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:117813f4238e4594a72468823bad715361983742ea8d1948a2aaf62965460f20"},
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-    {file = "qulacs-0.6.11-cp39-cp39-macosx_10_9_x86_64.whl", hash = "sha256:42abca915c49b082df7e85c7e6d86dfe62f173fcdb82f9f65830a79ee2467cfe"},
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-    {file = "qulacs-0.6.11-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:679d13a65d2f68587b5bde2a0cefa7e8cc0d3f0075561ecdb1d130cff36e2c5b"},
-    {file = "qulacs-0.6.11-cp39-cp39-win_amd64.whl", hash = "sha256:2c2f10adefcbb667fbea7a0b1db59f876190f508eb843965bb8a8f59d5b0a1c5"},
-    {file = "qulacs-0.6.11.tar.gz", hash = "sha256:3dfa030c6d90e78c8dfe840423a53fb1d7e7e4a63bb7180e1b46a4d25d2c72bf"},
-]
-
-[package.dependencies]
-numpy = "*"
-scipy = "*"
-
-[package.extras]
-ci = ["black", "flake8", "isort", "mypy", "openfermion", "pybind11-stubgen", "pytest"]
-dev = ["black", "flake8", "isort", "mypy", "openfermion", "pybind11-stubgen", "pytest"]
-doc = ["breathe", "exhale", "ipykernel", "mypy", "myst-parser", "nbsphinx", "pybind11-stubgen", "sphinx (==7.*)", "sphinx-autoapi (==3.0.0)", "sphinx-copybutton", "sphinx-rtd-theme"]
-test = ["openfermion"]
-
 [[package]]
 name = "qwasm"
 version = "1.0.1"
@@ -3381,29 +3357,29 @@ files = [
 
 [[package]]
 name = "ruff"
-version = "0.8.2"
+version = "0.8.3"
 description = "An extremely fast Python linter and code formatter, written in Rust."
 optional = true
 python-versions = ">=3.7"
 files = [
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+    {file = "ruff-0.8.3-py3-none-manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:7f26bc76a133ecb09a38b7868737eded6941b70a6d34ef53a4027e83913b6502"},
+    {file = "ruff-0.8.3-py3-none-manylinux_2_17_ppc64.manylinux2014_ppc64.whl", hash = "sha256:01b14b2f72a37390c1b13477c1c02d53184f728be2f3ffc3ace5b44e9e87b90d"},
+    {file = "ruff-0.8.3-py3-none-manylinux_2_17_ppc64le.manylinux2014_ppc64le.whl", hash = "sha256:53babd6e63e31f4e96ec95ea0d962298f9f0d9cc5990a1bbb023a6baf2503a82"},
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+    {file = "ruff-0.8.3-py3-none-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:d7c65bc0cadce32255e93c57d57ecc2cca23149edd52714c0c5d6fa11ec328cd"},
+    {file = "ruff-0.8.3-py3-none-musllinux_1_2_aarch64.whl", hash = "sha256:5be450bb18f23f0edc5a4e5585c17a56ba88920d598f04a06bd9fd76d324cb20"},
+    {file = "ruff-0.8.3-py3-none-musllinux_1_2_armv7l.whl", hash = "sha256:8faeae3827eaa77f5721f09b9472a18c749139c891dbc17f45e72d8f2ca1f8fc"},
+    {file = "ruff-0.8.3-py3-none-musllinux_1_2_i686.whl", hash = "sha256:db503486e1cf074b9808403991663e4277f5c664d3fe237ee0d994d1305bb060"},
+    {file = "ruff-0.8.3-py3-none-musllinux_1_2_x86_64.whl", hash = "sha256:6567be9fb62fbd7a099209257fef4ad2c3153b60579818b31a23c886ed4147ea"},
+    {file = "ruff-0.8.3-py3-none-win32.whl", hash = "sha256:19048f2f878f3ee4583fc6cb23fb636e48c2635e30fb2022b3a1cd293402f964"},
+    {file = "ruff-0.8.3-py3-none-win_amd64.whl", hash = "sha256:f7df94f57d7418fa7c3ffb650757e0c2b96cf2501a0b192c18e4fb5571dfada9"},
+    {file = "ruff-0.8.3-py3-none-win_arm64.whl", hash = "sha256:fe2756edf68ea79707c8d68b78ca9a58ed9af22e430430491ee03e718b5e4936"},
+    {file = "ruff-0.8.3.tar.gz", hash = "sha256:5e7558304353b84279042fc584a4f4cb8a07ae79b2bf3da1a7551d960b5626d3"},
 ]
 
 [[package]]
@@ -4269,4 +4245,4 @@ tests = ["mypy", "pytest", "pytest-cov", "pytket-quantinuum", "qiskit-ibm-provid
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10,<3.14"
-content-hash = "b3da9668630723c6def5e311d38009bd63b1a9f488469e9bfc142113e1dffad8"
+content-hash = "518fb4ebd0da46487bbb8279c79d26e244c3459d43ab11e8506fbd7ab91095f6"
diff --git a/pyproject.toml b/pyproject.toml
index 5d1687ff..3c052111 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -17,8 +17,6 @@ readme = "README.md"
 python = ">=3.10,<3.14"
 pytket-qiskit = "^0.60.0"
 matplotlib = "^3.8.3"
-qulacs = "^0.6.11"
-projectq = "^0.7.0"
 
 pytest = { version = "^8.1.1", optional = true }
 mypy = { version = "^1.9.0", optional = true }

From ec3aa139c541cc60d78d78f9bb9a7132ccd487f4 Mon Sep 17 00:00:00 2001
From: Dan Mills <52407433+daniel-mills-cqc@users.noreply.github.com>
Date: Thu, 12 Dec 2024 20:59:45 +0000
Subject: [PATCH 25/25] Do not use init

---
 poetry.lock                                   | 682 ++++++++++++++++--
 pyproject.toml                                |   1 +
 qermit/coherent_pauli_checks/pauli_sampler.py |  47 +-
 qermit/noise_model/noise_model.py             |  16 +-
 tests/coherent_pauli_checks_test.py           |  81 ++-
 tests/noise_model_test.py                     | 141 ++--
 6 files changed, 814 insertions(+), 154 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 6cbb400b..a8389fa8 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -22,22 +22,120 @@ files = [
     {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"},
 ]
 
+[[package]]
+name = "anyio"
+version = "4.7.0"
+description = "High level compatibility layer for multiple asynchronous event loop implementations"
+optional = false
+python-versions = ">=3.9"
+files = [
+    {file = "anyio-4.7.0-py3-none-any.whl", hash = "sha256:ea60c3723ab42ba6fff7e8ccb0488c898ec538ff4df1f1d5e642c3601d07e352"},
+    {file = "anyio-4.7.0.tar.gz", hash = "sha256:2f834749c602966b7d456a7567cafcb309f96482b5081d14ac93ccd457f9dd48"},
+]
+
+[package.dependencies]
+exceptiongroup = {version = ">=1.0.2", markers = "python_version < \"3.11\""}
+idna = ">=2.8"
+sniffio = ">=1.1"
+typing_extensions = {version = ">=4.5", markers = "python_version < \"3.13\""}
+
+[package.extras]
+doc = ["Sphinx (>=7.4,<8.0)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx_rtd_theme"]
+test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "truststore (>=0.9.1)", "uvloop (>=0.21)"]
+trio = ["trio (>=0.26.1)"]
+
 [[package]]
 name = "appnope"
 version = "0.1.4"
 description = "Disable App Nap on macOS >= 10.9"
-optional = true
+optional = false
 python-versions = ">=3.6"
 files = [
     {file = "appnope-0.1.4-py2.py3-none-any.whl", hash = "sha256:502575ee11cd7a28c0205f379b525beefebab9d161b7c964670864014ed7213c"},
     {file = "appnope-0.1.4.tar.gz", hash = "sha256:1de3860566df9caf38f01f86f65e0e13e379af54f9e4bee1e66b48f2efffd1ee"},
 ]
 
+[[package]]
+name = "argon2-cffi"
+version = "23.1.0"
+description = "Argon2 for Python"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "argon2_cffi-23.1.0-py3-none-any.whl", hash = "sha256:c670642b78ba29641818ab2e68bd4e6a78ba53b7eff7b4c3815ae16abf91c7ea"},
+    {file = "argon2_cffi-23.1.0.tar.gz", hash = "sha256:879c3e79a2729ce768ebb7d36d4609e3a78a4ca2ec3a9f12286ca057e3d0db08"},
+]
+
+[package.dependencies]
+argon2-cffi-bindings = "*"
+
+[package.extras]
+dev = ["argon2-cffi[tests,typing]", "tox (>4)"]
+docs = ["furo", "myst-parser", "sphinx", "sphinx-copybutton", "sphinx-notfound-page"]
+tests = ["hypothesis", "pytest"]
+typing = ["mypy"]
+
+[[package]]
+name = "argon2-cffi-bindings"
+version = "21.2.0"
+description = "Low-level CFFI bindings for Argon2"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "argon2-cffi-bindings-21.2.0.tar.gz", hash = "sha256:bb89ceffa6c791807d1305ceb77dbfacc5aa499891d2c55661c6459651fc39e3"},
+    {file = "argon2_cffi_bindings-21.2.0-cp36-abi3-macosx_10_9_x86_64.whl", hash = "sha256:ccb949252cb2ab3a08c02024acb77cfb179492d5701c7cbdbfd776124d4d2367"},
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+    {file = "argon2_cffi_bindings-21.2.0-pp37-pypy37_pp73-macosx_10_9_x86_64.whl", hash = "sha256:3e385d1c39c520c08b53d63300c3ecc28622f076f4c2b0e6d7e796e9f6502194"},
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+    {file = "argon2_cffi_bindings-21.2.0-pp38-pypy38_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:20ef543a89dee4db46a1a6e206cd015360e5a75822f76df533845c3cbaf72670"},
+    {file = "argon2_cffi_bindings-21.2.0-pp38-pypy38_pp73-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:ed2937d286e2ad0cc79a7087d3c272832865f779430e0cc2b4f3718d3159b0cb"},
+    {file = "argon2_cffi_bindings-21.2.0-pp38-pypy38_pp73-win_amd64.whl", hash = "sha256:5e00316dabdaea0b2dd82d141cc66889ced0cdcbfa599e8b471cf22c620c329a"},
+]
+
+[package.dependencies]
+cffi = ">=1.0.1"
+
+[package.extras]
+dev = ["cogapp", "pre-commit", "pytest", "wheel"]
+tests = ["pytest"]
+
+[[package]]
+name = "arrow"
+version = "1.3.0"
+description = "Better dates & times for Python"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "arrow-1.3.0-py3-none-any.whl", hash = "sha256:c728b120ebc00eb84e01882a6f5e7927a53960aa990ce7dd2b10f39005a67f80"},
+    {file = "arrow-1.3.0.tar.gz", hash = "sha256:d4540617648cb5f895730f1ad8c82a65f2dad0166f57b75f3ca54759c4d67a85"},
+]
+
+[package.dependencies]
+python-dateutil = ">=2.7.0"
+types-python-dateutil = ">=2.8.10"
+
+[package.extras]
+doc = ["doc8", "sphinx (>=7.0.0)", "sphinx-autobuild", "sphinx-autodoc-typehints", "sphinx_rtd_theme (>=1.3.0)"]
+test = ["dateparser (==1.*)", "pre-commit", "pytest", "pytest-cov", "pytest-mock", "pytz (==2021.1)", "simplejson (==3.*)"]
+
 [[package]]
 name = "asttokens"
 version = "3.0.0"
 description = "Annotate AST trees with source code positions"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "asttokens-3.0.0-py3-none-any.whl", hash = "sha256:e3078351a059199dd5138cb1c706e6430c05eff2ff136af5eb4790f9d28932e2"},
@@ -48,11 +146,25 @@ files = [
 astroid = ["astroid (>=2,<4)"]
 test = ["astroid (>=2,<4)", "pytest", "pytest-cov", "pytest-xdist"]
 
+[[package]]
+name = "async-lru"
+version = "2.0.4"
+description = "Simple LRU cache for asyncio"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "async-lru-2.0.4.tar.gz", hash = "sha256:b8a59a5df60805ff63220b2a0c5b5393da5521b113cd5465a44eb037d81a5627"},
+    {file = "async_lru-2.0.4-py3-none-any.whl", hash = "sha256:ff02944ce3c288c5be660c42dbcca0742b32c3b279d6dceda655190240b99224"},
+]
+
+[package.dependencies]
+typing-extensions = {version = ">=4.0.0", markers = "python_version < \"3.11\""}
+
 [[package]]
 name = "attrs"
 version = "24.2.0"
 description = "Classes Without Boilerplate"
-optional = true
+optional = false
 python-versions = ">=3.7"
 files = [
     {file = "attrs-24.2.0-py3-none-any.whl", hash = "sha256:81921eb96de3191c8258c199618104dd27ac608d9366f5e35d011eae1867ede2"},
@@ -71,7 +183,7 @@ tests-mypy = ["mypy (>=1.11.1)", "pytest-mypy-plugins"]
 name = "babel"
 version = "2.16.0"
 description = "Internationalization utilities"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "babel-2.16.0-py3-none-any.whl", hash = "sha256:368b5b98b37c06b7daf6696391c3240c938b37767d4584413e8438c5c435fa8b"},
@@ -85,7 +197,7 @@ dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"]
 name = "beautifulsoup4"
 version = "4.12.3"
 description = "Screen-scraping library"
-optional = true
+optional = false
 python-versions = ">=3.6.0"
 files = [
     {file = "beautifulsoup4-4.12.3-py3-none-any.whl", hash = "sha256:b80878c9f40111313e55da8ba20bdba06d8fa3969fc68304167741bbf9e082ed"},
@@ -106,7 +218,7 @@ lxml = ["lxml"]
 name = "bleach"
 version = "6.2.0"
 description = "An easy safelist-based HTML-sanitizing tool."
-optional = true
+optional = false
 python-versions = ">=3.9"
 files = [
     {file = "bleach-6.2.0-py3-none-any.whl", hash = "sha256:117d9c6097a7c3d22fd578fcd8d35ff1e125df6736f554da4e432fdd63f31e5e"},
@@ -341,7 +453,7 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""}
 name = "colorama"
 version = "0.4.6"
 description = "Cross-platform colored terminal text."
-optional = true
+optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7"
 files = [
     {file = "colorama-0.4.6-py2.py3-none-any.whl", hash = "sha256:4f1d9991f5acc0ca119f9d443620b77f9d6b33703e51011c16baf57afb285fc6"},
@@ -352,7 +464,7 @@ files = [
 name = "comm"
 version = "0.2.2"
 description = "Jupyter Python Comm implementation, for usage in ipykernel, xeus-python etc."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "comm-0.2.2-py3-none-any.whl", hash = "sha256:e6fb86cb70ff661ee8c9c14e7d36d6de3b4066f1441be4063df9c5009f0a64d3"},
@@ -585,7 +697,7 @@ tests = ["pytest", "pytest-cov", "pytest-xdist"]
 name = "debugpy"
 version = "1.8.9"
 description = "An implementation of the Debug Adapter Protocol for Python"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "debugpy-1.8.9-cp310-cp310-macosx_14_0_x86_64.whl", hash = "sha256:cfe1e6c6ad7178265f74981edf1154ffce97b69005212fbc90ca22ddfe3d017e"},
@@ -620,7 +732,7 @@ files = [
 name = "decorator"
 version = "5.1.1"
 description = "Decorators for Humans"
-optional = true
+optional = false
 python-versions = ">=3.5"
 files = [
     {file = "decorator-5.1.1-py3-none-any.whl", hash = "sha256:b8c3f85900b9dc423225913c5aace94729fe1fa9763b38939a95226f02d37186"},
@@ -631,7 +743,7 @@ files = [
 name = "defusedxml"
 version = "0.7.1"
 description = "XML bomb protection for Python stdlib modules"
-optional = true
+optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
     {file = "defusedxml-0.7.1-py2.py3-none-any.whl", hash = "sha256:a352e7e428770286cc899e2542b6cdaedb2b4953ff269a210103ec58f6198a61"},
@@ -668,7 +780,7 @@ files = [
 name = "exceptiongroup"
 version = "1.2.2"
 description = "Backport of PEP 654 (exception groups)"
-optional = true
+optional = false
 python-versions = ">=3.7"
 files = [
     {file = "exceptiongroup-1.2.2-py3-none-any.whl", hash = "sha256:3111b9d131c238bec2f8f516e123e14ba243563fb135d3fe885990585aa7795b"},
@@ -682,7 +794,7 @@ test = ["pytest (>=6)"]
 name = "executing"
 version = "2.1.0"
 description = "Get the currently executing AST node of a frame, and other information"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "executing-2.1.0-py2.py3-none-any.whl", hash = "sha256:8d63781349375b5ebccc3142f4b30350c0cd9c79f921cde38be2be4637e98eaf"},
@@ -696,7 +808,7 @@ tests = ["asttokens (>=2.1.0)", "coverage", "coverage-enable-subprocess", "ipyth
 name = "fastjsonschema"
 version = "2.21.1"
 description = "Fastest Python implementation of JSON schema"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "fastjsonschema-2.21.1-py3-none-any.whl", hash = "sha256:c9e5b7e908310918cf494a434eeb31384dd84a98b57a30bcb1f535015b554667"},
@@ -779,6 +891,17 @@ ufo = ["fs (>=2.2.0,<3)"]
 unicode = ["unicodedata2 (>=15.1.0)"]
 woff = ["brotli (>=1.0.1)", "brotlicffi (>=0.8.0)", "zopfli (>=0.1.4)"]
 
+[[package]]
+name = "fqdn"
+version = "1.5.1"
+description = "Validates fully-qualified domain names against RFC 1123, so that they are acceptable to modern bowsers"
+optional = false
+python-versions = ">=2.7, !=3.0, !=3.1, !=3.2, !=3.3, !=3.4, <4"
+files = [
+    {file = "fqdn-1.5.1-py3-none-any.whl", hash = "sha256:3a179af3761e4df6eb2e026ff9e1a3033d3587bf980a0b1b2e1e5d08d7358014"},
+    {file = "fqdn-1.5.1.tar.gz", hash = "sha256:105ed3677e767fb5ca086a0c1f4bb66ebc3c100be518f0e0d755d9eae164d89f"},
+]
+
 [[package]]
 name = "furo"
 version = "2024.8.6"
@@ -898,6 +1021,62 @@ files = [
 docs = ["Sphinx", "furo"]
 test = ["objgraph", "psutil"]
 
+[[package]]
+name = "h11"
+version = "0.14.0"
+description = "A pure-Python, bring-your-own-I/O implementation of HTTP/1.1"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "h11-0.14.0-py3-none-any.whl", hash = "sha256:e3fe4ac4b851c468cc8363d500db52c2ead036020723024a109d37346efaa761"},
+    {file = "h11-0.14.0.tar.gz", hash = "sha256:8f19fbbe99e72420ff35c00b27a34cb9937e902a8b810e2c88300c6f0a3b699d"},
+]
+
+[[package]]
+name = "httpcore"
+version = "1.0.7"
+description = "A minimal low-level HTTP client."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "httpcore-1.0.7-py3-none-any.whl", hash = "sha256:a3fff8f43dc260d5bd363d9f9cf1830fa3a458b332856f34282de498ed420edd"},
+    {file = "httpcore-1.0.7.tar.gz", hash = "sha256:8551cb62a169ec7162ac7be8d4817d561f60e08eaa485234898414bb5a8a0b4c"},
+]
+
+[package.dependencies]
+certifi = "*"
+h11 = ">=0.13,<0.15"
+
+[package.extras]
+asyncio = ["anyio (>=4.0,<5.0)"]
+http2 = ["h2 (>=3,<5)"]
+socks = ["socksio (==1.*)"]
+trio = ["trio (>=0.22.0,<1.0)"]
+
+[[package]]
+name = "httpx"
+version = "0.28.1"
+description = "The next generation HTTP client."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "httpx-0.28.1-py3-none-any.whl", hash = "sha256:d909fcccc110f8c7faf814ca82a9a4d816bc5a6dbfea25d6591d6985b8ba59ad"},
+    {file = "httpx-0.28.1.tar.gz", hash = "sha256:75e98c5f16b0f35b567856f597f06ff2270a374470a5c2392242528e3e3e42fc"},
+]
+
+[package.dependencies]
+anyio = "*"
+certifi = "*"
+httpcore = "==1.*"
+idna = "*"
+
+[package.extras]
+brotli = ["brotli", "brotlicffi"]
+cli = ["click (==8.*)", "pygments (==2.*)", "rich (>=10,<14)"]
+http2 = ["h2 (>=3,<5)"]
+socks = ["socksio (==1.*)"]
+zstd = ["zstandard (>=0.18.0)"]
+
 [[package]]
 name = "ibm-cloud-sdk-core"
 version = "3.22.0"
@@ -1019,7 +1198,7 @@ files = [
 name = "ipykernel"
 version = "6.29.5"
 description = "IPython Kernel for Jupyter"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "ipykernel-6.29.5-py3-none-any.whl", hash = "sha256:afdb66ba5aa354b09b91379bac28ae4afebbb30e8b39510c9690afb7a10421b5"},
@@ -1052,7 +1231,7 @@ test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-asyncio
 name = "ipython"
 version = "8.30.0"
 description = "IPython: Productive Interactive Computing"
-optional = true
+optional = false
 python-versions = ">=3.10"
 files = [
     {file = "ipython-8.30.0-py3-none-any.whl", hash = "sha256:85ec56a7e20f6c38fce7727dcca699ae4ffc85985aa7b23635a8008f918ae321"},
@@ -1107,11 +1286,25 @@ widgetsnbextension = ">=4.0.12,<4.1.0"
 [package.extras]
 test = ["ipykernel", "jsonschema", "pytest (>=3.6.0)", "pytest-cov", "pytz"]
 
+[[package]]
+name = "isoduration"
+version = "20.11.0"
+description = "Operations with ISO 8601 durations"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "isoduration-20.11.0-py3-none-any.whl", hash = "sha256:b2904c2a4228c3d44f409c8ae8e2370eb21a26f7ac2ec5446df141dde3452042"},
+    {file = "isoduration-20.11.0.tar.gz", hash = "sha256:ac2f9015137935279eac671f94f89eb00584f940f5dc49462a0c4ee692ba1bd9"},
+]
+
+[package.dependencies]
+arrow = ">=0.15.0"
+
 [[package]]
 name = "jedi"
 version = "0.19.2"
 description = "An autocompletion tool for Python that can be used for text editors."
-optional = true
+optional = false
 python-versions = ">=3.6"
 files = [
     {file = "jedi-0.19.2-py2.py3-none-any.whl", hash = "sha256:a8ef22bde8490f57fe5c7681a3c83cb58874daf72b4784de3cce5b6ef6edb5b9"},
@@ -1143,11 +1336,36 @@ MarkupSafe = ">=2.0"
 [package.extras]
 i18n = ["Babel (>=2.7)"]
 
+[[package]]
+name = "json5"
+version = "0.10.0"
+description = "A Python implementation of the JSON5 data format."
+optional = false
+python-versions = ">=3.8.0"
+files = [
+    {file = "json5-0.10.0-py3-none-any.whl", hash = "sha256:19b23410220a7271e8377f81ba8aacba2fdd56947fbb137ee5977cbe1f5e8dfa"},
+    {file = "json5-0.10.0.tar.gz", hash = "sha256:e66941c8f0a02026943c52c2eb34ebeb2a6f819a0be05920a6f5243cd30fd559"},
+]
+
+[package.extras]
+dev = ["build (==1.2.2.post1)", "coverage (==7.5.3)", "mypy (==1.13.0)", "pip (==24.3.1)", "pylint (==3.2.3)", "ruff (==0.7.3)", "twine (==5.1.1)", "uv (==0.5.1)"]
+
+[[package]]
+name = "jsonpointer"
+version = "3.0.0"
+description = "Identify specific nodes in a JSON document (RFC 6901)"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "jsonpointer-3.0.0-py2.py3-none-any.whl", hash = "sha256:13e088adc14fca8b6aa8177c044e12701e6ad4b28ff10e65f2267a90109c9942"},
+    {file = "jsonpointer-3.0.0.tar.gz", hash = "sha256:2b2d729f2091522d61c3b31f82e11870f60b68f43fbc705cb76bf4b832af59ef"},
+]
+
 [[package]]
 name = "jsonschema"
 version = "4.23.0"
 description = "An implementation of JSON Schema validation for Python"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "jsonschema-4.23.0-py3-none-any.whl", hash = "sha256:fbadb6f8b144a8f8cf9f0b89ba94501d143e50411a1278633f56a7acf7fd5566"},
@@ -1156,9 +1374,17 @@ files = [
 
 [package.dependencies]
 attrs = ">=22.2.0"
+fqdn = {version = "*", optional = true, markers = "extra == \"format-nongpl\""}
+idna = {version = "*", optional = true, markers = "extra == \"format-nongpl\""}
+isoduration = {version = "*", optional = true, markers = "extra == \"format-nongpl\""}
+jsonpointer = {version = ">1.13", optional = true, markers = "extra == \"format-nongpl\""}
 jsonschema-specifications = ">=2023.03.6"
 referencing = ">=0.28.4"
+rfc3339-validator = {version = "*", optional = true, markers = "extra == \"format-nongpl\""}
+rfc3986-validator = {version = ">0.1.0", optional = true, markers = "extra == \"format-nongpl\""}
 rpds-py = ">=0.7.1"
+uri-template = {version = "*", optional = true, markers = "extra == \"format-nongpl\""}
+webcolors = {version = ">=24.6.0", optional = true, markers = "extra == \"format-nongpl\""}
 
 [package.extras]
 format = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3987", "uri-template", "webcolors (>=1.11)"]
@@ -1168,7 +1394,7 @@ format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-
 name = "jsonschema-specifications"
 version = "2024.10.1"
 description = "The JSON Schema meta-schemas and vocabularies, exposed as a Registry"
-optional = true
+optional = false
 python-versions = ">=3.9"
 files = [
     {file = "jsonschema_specifications-2024.10.1-py3-none-any.whl", hash = "sha256:a09a0680616357d9a0ecf05c12ad234479f549239d0f5b55f3deea67475da9bf"},
@@ -1209,7 +1435,7 @@ testing = ["coverage", "ipykernel", "jupytext", "matplotlib", "nbdime", "nbforma
 name = "jupyter-client"
 version = "8.6.3"
 description = "Jupyter protocol implementation and client libraries"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "jupyter_client-8.6.3-py3-none-any.whl", hash = "sha256:e8a19cc986cc45905ac3362915f410f3af85424b4c0905e94fa5f2cb08e8f23f"},
@@ -1231,7 +1457,7 @@ test = ["coverage", "ipykernel (>=6.14)", "mypy", "paramiko", "pre-commit", "pyt
 name = "jupyter-core"
 version = "5.7.2"
 description = "Jupyter core package. A base package on which Jupyter projects rely."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "jupyter_core-5.7.2-py3-none-any.whl", hash = "sha256:4f7315d2f6b4bcf2e3e7cb6e46772eba760ae459cd1f59d29eb57b0a01bd7409"},
@@ -1247,6 +1473,100 @@ traitlets = ">=5.3"
 docs = ["myst-parser", "pydata-sphinx-theme", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "traitlets"]
 test = ["ipykernel", "pre-commit", "pytest (<8)", "pytest-cov", "pytest-timeout"]
 
+[[package]]
+name = "jupyter-events"
+version = "0.10.0"
+description = "Jupyter Event System library"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyter_events-0.10.0-py3-none-any.whl", hash = "sha256:4b72130875e59d57716d327ea70d3ebc3af1944d3717e5a498b8a06c6c159960"},
+    {file = "jupyter_events-0.10.0.tar.gz", hash = "sha256:670b8229d3cc882ec782144ed22e0d29e1c2d639263f92ca8383e66682845e22"},
+]
+
+[package.dependencies]
+jsonschema = {version = ">=4.18.0", extras = ["format-nongpl"]}
+python-json-logger = ">=2.0.4"
+pyyaml = ">=5.3"
+referencing = "*"
+rfc3339-validator = "*"
+rfc3986-validator = ">=0.1.1"
+traitlets = ">=5.3"
+
+[package.extras]
+cli = ["click", "rich"]
+docs = ["jupyterlite-sphinx", "myst-parser", "pydata-sphinx-theme", "sphinxcontrib-spelling"]
+test = ["click", "pre-commit", "pytest (>=7.0)", "pytest-asyncio (>=0.19.0)", "pytest-console-scripts", "rich"]
+
+[[package]]
+name = "jupyter-lsp"
+version = "2.2.5"
+description = "Multi-Language Server WebSocket proxy for Jupyter Notebook/Lab server"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyter-lsp-2.2.5.tar.gz", hash = "sha256:793147a05ad446f809fd53ef1cd19a9f5256fd0a2d6b7ce943a982cb4f545001"},
+    {file = "jupyter_lsp-2.2.5-py3-none-any.whl", hash = "sha256:45fbddbd505f3fbfb0b6cb2f1bc5e15e83ab7c79cd6e89416b248cb3c00c11da"},
+]
+
+[package.dependencies]
+jupyter-server = ">=1.1.2"
+
+[[package]]
+name = "jupyter-server"
+version = "2.14.2"
+description = "The backend—i.e. core services, APIs, and REST endpoints—to Jupyter web applications."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyter_server-2.14.2-py3-none-any.whl", hash = "sha256:47ff506127c2f7851a17bf4713434208fc490955d0e8632e95014a9a9afbeefd"},
+    {file = "jupyter_server-2.14.2.tar.gz", hash = "sha256:66095021aa9638ced276c248b1d81862e4c50f292d575920bbe960de1c56b12b"},
+]
+
+[package.dependencies]
+anyio = ">=3.1.0"
+argon2-cffi = ">=21.1"
+jinja2 = ">=3.0.3"
+jupyter-client = ">=7.4.4"
+jupyter-core = ">=4.12,<5.0.dev0 || >=5.1.dev0"
+jupyter-events = ">=0.9.0"
+jupyter-server-terminals = ">=0.4.4"
+nbconvert = ">=6.4.4"
+nbformat = ">=5.3.0"
+overrides = ">=5.0"
+packaging = ">=22.0"
+prometheus-client = ">=0.9"
+pywinpty = {version = ">=2.0.1", markers = "os_name == \"nt\""}
+pyzmq = ">=24"
+send2trash = ">=1.8.2"
+terminado = ">=0.8.3"
+tornado = ">=6.2.0"
+traitlets = ">=5.6.0"
+websocket-client = ">=1.7"
+
+[package.extras]
+docs = ["ipykernel", "jinja2", "jupyter-client", "myst-parser", "nbformat", "prometheus-client", "pydata-sphinx-theme", "send2trash", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-openapi (>=0.8.0)", "sphinxcontrib-spelling", "sphinxemoji", "tornado", "typing-extensions"]
+test = ["flaky", "ipykernel", "pre-commit", "pytest (>=7.0,<9)", "pytest-console-scripts", "pytest-jupyter[server] (>=0.7)", "pytest-timeout", "requests"]
+
+[[package]]
+name = "jupyter-server-terminals"
+version = "0.5.3"
+description = "A Jupyter Server Extension Providing Terminals."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyter_server_terminals-0.5.3-py3-none-any.whl", hash = "sha256:41ee0d7dc0ebf2809c668e0fc726dfaf258fcd3e769568996ca731b6194ae9aa"},
+    {file = "jupyter_server_terminals-0.5.3.tar.gz", hash = "sha256:5ae0295167220e9ace0edcfdb212afd2b01ee8d179fe6f23c899590e9b8a5269"},
+]
+
+[package.dependencies]
+pywinpty = {version = ">=2.0.3", markers = "os_name == \"nt\""}
+terminado = ">=0.8.3"
+
+[package.extras]
+docs = ["jinja2", "jupyter-server", "mistune (<4.0)", "myst-parser", "nbformat", "packaging", "pydata-sphinx-theme", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxcontrib-spelling", "sphinxemoji", "tornado"]
+test = ["jupyter-server (>=2.0.0)", "pytest (>=7.0)", "pytest-jupyter[server] (>=0.5.3)", "pytest-timeout"]
+
 [[package]]
 name = "jupyter-sphinx"
 version = "0.5.3"
@@ -1270,17 +1590,76 @@ sphinx = ">=7"
 doc = ["matplotlib"]
 test = ["bash-kernel", "pytest"]
 
+[[package]]
+name = "jupyterlab"
+version = "4.3.3"
+description = "JupyterLab computational environment"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyterlab-4.3.3-py3-none-any.whl", hash = "sha256:32a8fd30677e734ffcc3916a4758b9dab21b02015b668c60eb36f84357b7d4b1"},
+    {file = "jupyterlab-4.3.3.tar.gz", hash = "sha256:76fa39e548fdac94dc1204af5956c556f54c785f70ee26aa47ea08eda4d5bbcd"},
+]
+
+[package.dependencies]
+async-lru = ">=1.0.0"
+httpx = ">=0.25.0"
+ipykernel = ">=6.5.0"
+jinja2 = ">=3.0.3"
+jupyter-core = "*"
+jupyter-lsp = ">=2.0.0"
+jupyter-server = ">=2.4.0,<3"
+jupyterlab-server = ">=2.27.1,<3"
+notebook-shim = ">=0.2"
+packaging = "*"
+setuptools = ">=40.8.0"
+tomli = {version = ">=1.2.2", markers = "python_version < \"3.11\""}
+tornado = ">=6.2.0"
+traitlets = "*"
+
+[package.extras]
+dev = ["build", "bump2version", "coverage", "hatch", "pre-commit", "pytest-cov", "ruff (==0.6.9)"]
+docs = ["jsx-lexer", "myst-parser", "pydata-sphinx-theme (>=0.13.0)", "pytest", "pytest-check-links", "pytest-jupyter", "sphinx (>=1.8,<8.1.0)", "sphinx-copybutton"]
+docs-screenshots = ["altair (==5.4.1)", "ipython (==8.16.1)", "ipywidgets (==8.1.5)", "jupyterlab-geojson (==3.4.0)", "jupyterlab-language-pack-zh-cn (==4.2.post3)", "matplotlib (==3.9.2)", "nbconvert (>=7.0.0)", "pandas (==2.2.3)", "scipy (==1.14.1)", "vega-datasets (==0.9.0)"]
+test = ["coverage", "pytest (>=7.0)", "pytest-check-links (>=0.7)", "pytest-console-scripts", "pytest-cov", "pytest-jupyter (>=0.5.3)", "pytest-timeout", "pytest-tornasync", "requests", "requests-cache", "virtualenv"]
+upgrade-extension = ["copier (>=9,<10)", "jinja2-time (<0.3)", "pydantic (<3.0)", "pyyaml-include (<3.0)", "tomli-w (<2.0)"]
+
 [[package]]
 name = "jupyterlab-pygments"
 version = "0.3.0"
 description = "Pygments theme using JupyterLab CSS variables"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "jupyterlab_pygments-0.3.0-py3-none-any.whl", hash = "sha256:841a89020971da1d8693f1a99997aefc5dc424bb1b251fd6322462a1b8842780"},
     {file = "jupyterlab_pygments-0.3.0.tar.gz", hash = "sha256:721aca4d9029252b11cfa9d185e5b5af4d54772bb8072f9b7036f4170054d35d"},
 ]
 
+[[package]]
+name = "jupyterlab-server"
+version = "2.27.3"
+description = "A set of server components for JupyterLab and JupyterLab like applications."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "jupyterlab_server-2.27.3-py3-none-any.whl", hash = "sha256:e697488f66c3db49df675158a77b3b017520d772c6e1548c7d9bcc5df7944ee4"},
+    {file = "jupyterlab_server-2.27.3.tar.gz", hash = "sha256:eb36caca59e74471988f0ae25c77945610b887f777255aa21f8065def9e51ed4"},
+]
+
+[package.dependencies]
+babel = ">=2.10"
+jinja2 = ">=3.0.3"
+json5 = ">=0.9.0"
+jsonschema = ">=4.18.0"
+jupyter-server = ">=1.21,<3"
+packaging = ">=21.3"
+requests = ">=2.31"
+
+[package.extras]
+docs = ["autodoc-traits", "jinja2 (<3.2.0)", "mistune (<4)", "myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-copybutton", "sphinxcontrib-openapi (>0.8)"]
+openapi = ["openapi-core (>=0.18.0,<0.19.0)", "ruamel-yaml"]
+test = ["hatch", "ipykernel", "openapi-core (>=0.18.0,<0.19.0)", "openapi-spec-validator (>=0.6.0,<0.8.0)", "pytest (>=7.0,<8)", "pytest-console-scripts", "pytest-cov", "pytest-jupyter[server] (>=0.6.2)", "pytest-timeout", "requests-mock", "ruamel-yaml", "sphinxcontrib-spelling", "strict-rfc3339", "werkzeug"]
+
 [[package]]
 name = "jupyterlab-widgets"
 version = "3.0.13"
@@ -1594,7 +1973,7 @@ dev = ["meson-python (>=0.13.1)", "numpy (>=1.25)", "pybind11 (>=2.6,!=2.13.3)",
 name = "matplotlib-inline"
 version = "0.1.7"
 description = "Inline Matplotlib backend for Jupyter"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "matplotlib_inline-0.1.7-py3-none-any.whl", hash = "sha256:df192d39a4ff8f21b1895d72e6a13f5fcc5099f00fa84384e0ea28c2cc0653ca"},
@@ -1638,7 +2017,7 @@ files = [
 name = "mistune"
 version = "3.0.2"
 description = "A sane and fast Markdown parser with useful plugins and renderers"
-optional = true
+optional = false
 python-versions = ">=3.7"
 files = [
     {file = "mistune-3.0.2-py3-none-any.whl", hash = "sha256:71481854c30fdbc938963d3605b72501f5c10a9320ecd412c121c163a1c7d205"},
@@ -1803,7 +2182,7 @@ testing-docutils = ["pygments", "pytest (>=8,<9)", "pytest-param-files (>=0.6.0,
 name = "nbclient"
 version = "0.10.1"
 description = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor."
-optional = true
+optional = false
 python-versions = ">=3.8.0"
 files = [
     {file = "nbclient-0.10.1-py3-none-any.whl", hash = "sha256:949019b9240d66897e442888cfb618f69ef23dc71c01cb5fced8499c2cfc084d"},
@@ -1825,7 +2204,7 @@ test = ["flaky", "ipykernel (>=6.19.3)", "ipython", "ipywidgets", "nbconvert (>=
 name = "nbconvert"
 version = "7.16.4"
 description = "Converting Jupyter Notebooks (.ipynb files) to other formats.  Output formats include asciidoc, html, latex, markdown, pdf, py, rst, script.  nbconvert can be used both as a Python library (`import nbconvert`) or as a command line tool (invoked as `jupyter nbconvert ...`)."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "nbconvert-7.16.4-py3-none-any.whl", hash = "sha256:05873c620fe520b6322bf8a5ad562692343fe3452abda5765c7a34b7d1aa3eb3"},
@@ -1862,7 +2241,7 @@ webpdf = ["playwright"]
 name = "nbformat"
 version = "5.10.4"
 description = "The Jupyter Notebook format"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "nbformat-5.10.4-py3-none-any.whl", hash = "sha256:3b48d6c8fbca4b299bf3982ea7db1af21580e4fec269ad087b9e81588891200b"},
@@ -1883,7 +2262,7 @@ test = ["pep440", "pre-commit", "pytest", "testpath"]
 name = "nest-asyncio"
 version = "1.6.0"
 description = "Patch asyncio to allow nested event loops"
-optional = true
+optional = false
 python-versions = ">=3.5"
 files = [
     {file = "nest_asyncio-1.6.0-py3-none-any.whl", hash = "sha256:87af6efd6b5e897c81050477ef65c62e2b2f35d51703cae01aff2905b1852e1c"},
@@ -1909,6 +2288,46 @@ example = ["cairocffi (>=1.7)", "contextily (>=1.6)", "igraph (>=0.11)", "momepy
 extra = ["lxml (>=4.6)", "pydot (>=3.0.1)", "pygraphviz (>=1.14)", "sympy (>=1.10)"]
 test = ["pytest (>=7.2)", "pytest-cov (>=4.0)"]
 
+[[package]]
+name = "notebook"
+version = "7.3.1"
+description = "Jupyter Notebook - A web-based notebook environment for interactive computing"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "notebook-7.3.1-py3-none-any.whl", hash = "sha256:212e1486b2230fe22279043f33c7db5cf9a01d29feb063a85cb139747b7c9483"},
+    {file = "notebook-7.3.1.tar.gz", hash = "sha256:84381c2a82d867517fd25b86e986dae1fe113a70b98f03edff9b94e499fec8fa"},
+]
+
+[package.dependencies]
+jupyter-server = ">=2.4.0,<3"
+jupyterlab = ">=4.3.2,<4.4"
+jupyterlab-server = ">=2.27.1,<3"
+notebook-shim = ">=0.2,<0.3"
+tornado = ">=6.2.0"
+
+[package.extras]
+dev = ["hatch", "pre-commit"]
+docs = ["myst-parser", "nbsphinx", "pydata-sphinx-theme", "sphinx (>=1.3.6)", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"]
+test = ["importlib-resources (>=5.0)", "ipykernel", "jupyter-server[test] (>=2.4.0,<3)", "jupyterlab-server[test] (>=2.27.1,<3)", "nbval", "pytest (>=7.0)", "pytest-console-scripts", "pytest-timeout", "pytest-tornasync", "requests"]
+
+[[package]]
+name = "notebook-shim"
+version = "0.2.4"
+description = "A shim layer for notebook traits and config"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "notebook_shim-0.2.4-py3-none-any.whl", hash = "sha256:411a5be4e9dc882a074ccbcae671eda64cceb068767e9a3419096986560e1cef"},
+    {file = "notebook_shim-0.2.4.tar.gz", hash = "sha256:b4b2cfa1b65d98307ca24361f5b30fe785b53c3fd07b7a47e89acb5e6ac638cb"},
+]
+
+[package.dependencies]
+jupyter-server = ">=1.8,<3"
+
+[package.extras]
+test = ["pytest", "pytest-console-scripts", "pytest-jupyter", "pytest-tornasync"]
+
 [[package]]
 name = "numpy"
 version = "1.26.4"
@@ -2018,6 +2437,17 @@ files = [
     {file = "numpy-2.2.0.tar.gz", hash = "sha256:140dd80ff8981a583a60980be1a655068f8adebf7a45a06a6858c873fcdcd4a0"},
 ]
 
+[[package]]
+name = "overrides"
+version = "7.7.0"
+description = "A decorator to automatically detect mismatch when overriding a method."
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "overrides-7.7.0-py3-none-any.whl", hash = "sha256:c7ed9d062f78b8e4c1a7b70bd8796b35ead4d9f510227ef9c5dc7626c60d7e49"},
+    {file = "overrides-7.7.0.tar.gz", hash = "sha256:55158fa3d93b98cc75299b1e67078ad9003ca27945c76162c1c0766d6f91820a"},
+]
+
 [[package]]
 name = "packaging"
 version = "24.2"
@@ -2033,7 +2463,7 @@ files = [
 name = "pandocfilters"
 version = "1.5.1"
 description = "Utilities for writing pandoc filters in python"
-optional = true
+optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
     {file = "pandocfilters-1.5.1-py2.py3-none-any.whl", hash = "sha256:93be382804a9cdb0a7267585f157e5d1731bbe5545a85b268d6f5fe6232de2bc"},
@@ -2044,7 +2474,7 @@ files = [
 name = "parso"
 version = "0.8.4"
 description = "A Python Parser"
-optional = true
+optional = false
 python-versions = ">=3.6"
 files = [
     {file = "parso-0.8.4-py2.py3-none-any.whl", hash = "sha256:a418670a20291dacd2dddc80c377c5c3791378ee1e8d12bffc35420643d43f18"},
@@ -2100,7 +2530,7 @@ files = [
 name = "pexpect"
 version = "4.9.0"
 description = "Pexpect allows easy control of interactive console applications."
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "pexpect-4.9.0-py2.py3-none-any.whl", hash = "sha256:7236d1e080e4936be2dc3e326cec0af72acf9212a7e1d060210e70a47e253523"},
@@ -2225,7 +2655,7 @@ xmp = ["defusedxml"]
 name = "platformdirs"
 version = "4.3.6"
 description = "A small Python package for determining appropriate platform-specific dirs, e.g. a `user data dir`."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "platformdirs-4.3.6-py3-none-any.whl", hash = "sha256:73e575e1408ab8103900836b97580d5307456908a03e92031bab39e4554cc3fb"},
@@ -2276,11 +2706,25 @@ docs = ["sphinx", "sphinx_rtd_theme"]
 revkit = ["dormouse", "revkit (==3.0a2.dev2)"]
 test = ["flaky", "mock", "pytest (>=6.0)", "pytest-cov", "pytest-mock"]
 
+[[package]]
+name = "prometheus-client"
+version = "0.21.1"
+description = "Python client for the Prometheus monitoring system."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "prometheus_client-0.21.1-py3-none-any.whl", hash = "sha256:594b45c410d6f4f8888940fe80b5cc2521b305a1fafe1c58609ef715a001f301"},
+    {file = "prometheus_client-0.21.1.tar.gz", hash = "sha256:252505a722ac04b0456be05c05f75f45d760c2911ffc45f2a06bcaed9f3ae3fb"},
+]
+
+[package.extras]
+twisted = ["twisted"]
+
 [[package]]
 name = "prompt-toolkit"
 version = "3.0.48"
 description = "Library for building powerful interactive command lines in Python"
-optional = true
+optional = false
 python-versions = ">=3.7.0"
 files = [
     {file = "prompt_toolkit-3.0.48-py3-none-any.whl", hash = "sha256:f49a827f90062e411f1ce1f854f2aedb3c23353244f8108b89283587397ac10e"},
@@ -2324,7 +2768,7 @@ test = ["pytest", "pytest-xdist", "setuptools"]
 name = "ptyprocess"
 version = "0.7.0"
 description = "Run a subprocess in a pseudo terminal"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "ptyprocess-0.7.0-py2.py3-none-any.whl", hash = "sha256:4b41f3967fce3af57cc7e94b888626c18bf37a083e3651ca8feeb66d492fef35"},
@@ -2335,7 +2779,7 @@ files = [
 name = "pure-eval"
 version = "0.2.3"
 description = "Safely evaluate AST nodes without side effects"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "pure_eval-0.2.3-py3-none-any.whl", hash = "sha256:1db8e35b67b3d218d818ae653e27f06c3aa420901fa7b081ca98cbedc874e0d0"},
@@ -2498,7 +2942,7 @@ typing-extensions = ">=4.6.0,<4.7.0 || >4.7.0"
 name = "pygments"
 version = "2.18.0"
 description = "Pygments is a syntax highlighting package written in Python."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "pygments-2.18.0-py3-none-any.whl", hash = "sha256:b8e6aca0523f3ab76fee51799c488e38782ac06eafcf95e7ba832985c8e7b13a"},
@@ -2630,6 +3074,20 @@ files = [
 [package.dependencies]
 six = ">=1.5"
 
+[[package]]
+name = "python-json-logger"
+version = "3.2.0"
+description = "JSON Log Formatter for the Python Logging Package"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "python_json_logger-3.2.0-py3-none-any.whl", hash = "sha256:d73522ddcfc6d0461394120feaddea9025dc64bf804d96357dd42fa878cc5fe8"},
+    {file = "python_json_logger-3.2.0.tar.gz", hash = "sha256:2c11056458d3f56614480b24e9cb28f7aba69cbfbebddbb77c92f0ec0d4947ab"},
+]
+
+[package.extras]
+dev = ["backports.zoneinfo", "black", "build", "freezegun", "mdx_truly_sane_lists", "mike", "mkdocs", "mkdocs-awesome-pages-plugin", "mkdocs-gen-files", "mkdocs-literate-nav", "mkdocs-material (>=8.5)", "mkdocstrings[python]", "msgspec", "msgspec-python313-pre", "mypy", "orjson", "pylint", "pytest", "tzdata", "validate-pyproject[all]"]
+
 [[package]]
 name = "pytket"
 version = "1.37.0"
@@ -2771,7 +3229,7 @@ pecos = ["pytket-pecos (>=0.1.31,<0.2.0)"]
 name = "pywin32"
 version = "308"
 description = "Python for Window Extensions"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "pywin32-308-cp310-cp310-win32.whl", hash = "sha256:796ff4426437896550d2981b9c2ac0ffd75238ad9ea2d3bfa67a1abd546d262e"},
@@ -2794,11 +3252,26 @@ files = [
     {file = "pywin32-308-cp39-cp39-win_amd64.whl", hash = "sha256:71b3322d949b4cc20776436a9c9ba0eeedcbc9c650daa536df63f0ff111bb920"},
 ]
 
+[[package]]
+name = "pywinpty"
+version = "2.0.14"
+description = "Pseudo terminal support for Windows from Python."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "pywinpty-2.0.14-cp310-none-win_amd64.whl", hash = "sha256:0b149c2918c7974f575ba79f5a4aad58bd859a52fa9eb1296cc22aa412aa411f"},
+    {file = "pywinpty-2.0.14-cp311-none-win_amd64.whl", hash = "sha256:cf2a43ac7065b3e0dc8510f8c1f13a75fb8fde805efa3b8cff7599a1ef497bc7"},
+    {file = "pywinpty-2.0.14-cp312-none-win_amd64.whl", hash = "sha256:55dad362ef3e9408ade68fd173e4f9032b3ce08f68cfe7eacb2c263ea1179737"},
+    {file = "pywinpty-2.0.14-cp313-none-win_amd64.whl", hash = "sha256:074fb988a56ec79ca90ed03a896d40707131897cefb8f76f926e3834227f2819"},
+    {file = "pywinpty-2.0.14-cp39-none-win_amd64.whl", hash = "sha256:5725fd56f73c0531ec218663bd8c8ff5acc43c78962fab28564871b5fce053fd"},
+    {file = "pywinpty-2.0.14.tar.gz", hash = "sha256:18bd9529e4a5daf2d9719aa17788ba6013e594ae94c5a0c27e83df3278b0660e"},
+]
+
 [[package]]
 name = "pyyaml"
 version = "6.0.2"
 description = "YAML parser and emitter for Python"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "PyYAML-6.0.2-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:0a9a2848a5b7feac301353437eb7d5957887edbf81d56e903999a75a3d743086"},
@@ -2860,7 +3333,7 @@ files = [
 name = "pyzmq"
 version = "26.2.0"
 description = "Python bindings for 0MQ"
-optional = true
+optional = false
 python-versions = ">=3.7"
 files = [
     {file = "pyzmq-26.2.0-cp310-cp310-macosx_10_15_universal2.whl", hash = "sha256:ddf33d97d2f52d89f6e6e7ae66ee35a4d9ca6f36eda89c24591b0c40205a3629"},
@@ -3176,7 +3649,7 @@ setuptools = "*"
 name = "referencing"
 version = "0.35.1"
 description = "JSON Referencing + Python"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "referencing-0.35.1-py3-none-any.whl", hash = "sha256:eda6d3234d62814d1c64e305c1331c9a3a6132da475ab6382eaa997b21ee75de"},
@@ -3224,6 +3697,31 @@ cryptography = ">=1.3"
 pyspnego = ">=0.4.0"
 requests = ">=2.0.0"
 
+[[package]]
+name = "rfc3339-validator"
+version = "0.1.4"
+description = "A pure python RFC3339 validator"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+files = [
+    {file = "rfc3339_validator-0.1.4-py2.py3-none-any.whl", hash = "sha256:24f6ec1eda14ef823da9e36ec7113124b39c04d50a4d3d3a3c2859577e7791fa"},
+    {file = "rfc3339_validator-0.1.4.tar.gz", hash = "sha256:138a2abdf93304ad60530167e51d2dfb9549521a836871b88d7f4695d0022f6b"},
+]
+
+[package.dependencies]
+six = "*"
+
+[[package]]
+name = "rfc3986-validator"
+version = "0.1.1"
+description = "Pure python rfc3986 validator"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+files = [
+    {file = "rfc3986_validator-0.1.1-py2.py3-none-any.whl", hash = "sha256:2f235c432ef459970b4306369336b9d5dbdda31b510ca1e327636e01f528bfa9"},
+    {file = "rfc3986_validator-0.1.1.tar.gz", hash = "sha256:3d44bde7921b3b9ec3ae4e3adca370438eccebc676456449b145d533b240d055"},
+]
+
 [[package]]
 name = "rich"
 version = "13.9.4"
@@ -3247,7 +3745,7 @@ jupyter = ["ipywidgets (>=7.5.1,<9)"]
 name = "rpds-py"
 version = "0.22.3"
 description = "Python bindings to Rust's persistent data structures (rpds)"
-optional = true
+optional = false
 python-versions = ">=3.9"
 files = [
     {file = "rpds_py-0.22.3-cp310-cp310-macosx_10_12_x86_64.whl", hash = "sha256:6c7b99ca52c2c1752b544e310101b98a659b720b21db00e65edca34483259967"},
@@ -3461,6 +3959,22 @@ dev = ["cython-lint (>=0.12.2)", "doit (>=0.36.0)", "mypy (==1.10.0)", "pycodest
 doc = ["jupyterlite-pyodide-kernel", "jupyterlite-sphinx (>=0.13.1)", "jupytext", "matplotlib (>=3.5)", "myst-nb", "numpydoc", "pooch", "pydata-sphinx-theme (>=0.15.2)", "sphinx (>=5.0.0,<=7.3.7)", "sphinx-design (>=0.4.0)"]
 test = ["Cython", "array-api-strict (>=2.0)", "asv", "gmpy2", "hypothesis (>=6.30)", "meson", "mpmath", "ninja", "pooch", "pytest", "pytest-cov", "pytest-timeout", "pytest-xdist", "scikit-umfpack", "threadpoolctl"]
 
+[[package]]
+name = "send2trash"
+version = "1.8.3"
+description = "Send file to trash natively under Mac OS X, Windows and Linux"
+optional = false
+python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
+files = [
+    {file = "Send2Trash-1.8.3-py3-none-any.whl", hash = "sha256:0c31227e0bd08961c7665474a3d1ef7193929fedda4233843689baa056be46c9"},
+    {file = "Send2Trash-1.8.3.tar.gz", hash = "sha256:b18e7a3966d99871aefeb00cfbcfdced55ce4871194810fc71f4aa484b953abf"},
+]
+
+[package.extras]
+nativelib = ["pyobjc-framework-Cocoa", "pywin32"]
+objc = ["pyobjc-framework-Cocoa"]
+win32 = ["pywin32"]
+
 [[package]]
 name = "setuptools"
 version = "75.6.0"
@@ -3492,6 +4006,17 @@ files = [
     {file = "six-1.17.0.tar.gz", hash = "sha256:ff70335d468e7eb6ec65b95b99d3a2836546063f63acc5171de367e834932a81"},
 ]
 
+[[package]]
+name = "sniffio"
+version = "1.3.1"
+description = "Sniff out which async library your code is running under"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "sniffio-1.3.1-py3-none-any.whl", hash = "sha256:2f6da418d1f1e0fddd844478f41680e794e6051915791a034ff65e5f100525a2"},
+    {file = "sniffio-1.3.1.tar.gz", hash = "sha256:f4324edc670a0f49750a81b895f35c3adb843cca46f0530f79fc1babb23789dc"},
+]
+
 [[package]]
 name = "snowballstemmer"
 version = "2.2.0"
@@ -3507,7 +4032,7 @@ files = [
 name = "soupsieve"
 version = "2.6"
 description = "A modern CSS selector implementation for Beautiful Soup."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "soupsieve-2.6-py3-none-any.whl", hash = "sha256:e72c4ff06e4fb6e4b5a9f0f55fe6e81514581fca1515028625d0f299c602ccc9"},
@@ -3823,7 +4348,7 @@ files = [
 name = "stack-data"
 version = "0.6.3"
 description = "Extract data from python stack frames and tracebacks for informative displays"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "stack_data-0.6.3-py3-none-any.whl", hash = "sha256:d5558e0c25a4cb0853cddad3d77da9891a08cb85dd9f9f91b9f8cd66e511e695"},
@@ -3934,11 +4459,32 @@ files = [
 [package.extras]
 widechars = ["wcwidth"]
 
+[[package]]
+name = "terminado"
+version = "0.18.1"
+description = "Tornado websocket backend for the Xterm.js Javascript terminal emulator library."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "terminado-0.18.1-py3-none-any.whl", hash = "sha256:a4468e1b37bb318f8a86514f65814e1afc977cf29b3992a4500d9dd305dcceb0"},
+    {file = "terminado-0.18.1.tar.gz", hash = "sha256:de09f2c4b85de4765f7714688fff57d3e75bad1f909b589fde880460c753fd2e"},
+]
+
+[package.dependencies]
+ptyprocess = {version = "*", markers = "os_name != \"nt\""}
+pywinpty = {version = ">=1.1.0", markers = "os_name == \"nt\""}
+tornado = ">=6.1.0"
+
+[package.extras]
+docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"]
+test = ["pre-commit", "pytest (>=7.0)", "pytest-timeout"]
+typing = ["mypy (>=1.6,<2.0)", "traitlets (>=5.11.1)"]
+
 [[package]]
 name = "tinycss2"
 version = "1.4.0"
 description = "A tiny CSS parser"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "tinycss2-1.4.0-py3-none-any.whl", hash = "sha256:3a49cf47b7675da0b15d0c6e1df8df4ebd96e9394bb905a5775adb0d884c5289"},
@@ -3956,7 +4502,7 @@ test = ["pytest", "ruff"]
 name = "tomli"
 version = "2.2.1"
 description = "A lil' TOML parser"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "tomli-2.2.1-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:678e4fa69e4575eb77d103de3df8a895e1591b48e740211bd1067378c69e8249"},
@@ -3997,7 +4543,7 @@ files = [
 name = "tornado"
 version = "6.4.2"
 description = "Tornado is a Python web framework and asynchronous networking library, originally developed at FriendFeed."
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "tornado-6.4.2-cp38-abi3-macosx_10_9_universal2.whl", hash = "sha256:e828cce1123e9e44ae2a50a9de3055497ab1d0aeb440c5ac23064d9e44880da1"},
@@ -4017,7 +4563,7 @@ files = [
 name = "traitlets"
 version = "5.14.3"
 description = "Traitlets Python configuration system"
-optional = true
+optional = false
 python-versions = ">=3.8"
 files = [
     {file = "traitlets-5.14.3-py3-none-any.whl", hash = "sha256:b74e89e397b1ed28cc831db7aea759ba6640cb3de13090ca145426688ff1ac4f"},
@@ -4028,6 +4574,17 @@ files = [
 docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"]
 test = ["argcomplete (>=3.0.3)", "mypy (>=1.7.0)", "pre-commit", "pytest (>=7.0,<8.2)", "pytest-mock", "pytest-mypy-testing"]
 
+[[package]]
+name = "types-python-dateutil"
+version = "2.9.0.20241206"
+description = "Typing stubs for python-dateutil"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "types_python_dateutil-2.9.0.20241206-py3-none-any.whl", hash = "sha256:e248a4bc70a486d3e3ec84d0dc30eec3a5f979d6e7ee4123ae043eedbb987f53"},
+    {file = "types_python_dateutil-2.9.0.20241206.tar.gz", hash = "sha256:18f493414c26ffba692a72369fea7a154c502646301ebfe3d56a04b3767284cb"},
+]
+
 [[package]]
 name = "types-requests"
 version = "2.32.0.20241016"
@@ -4053,6 +4610,20 @@ files = [
     {file = "typing_extensions-4.12.2.tar.gz", hash = "sha256:1a7ead55c7e559dd4dee8856e3a88b41225abfe1ce8df57b7c13915fe121ffb8"},
 ]
 
+[[package]]
+name = "uri-template"
+version = "1.3.0"
+description = "RFC 6570 URI Template Processor"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "uri-template-1.3.0.tar.gz", hash = "sha256:0e00f8eb65e18c7de20d595a14336e9f337ead580c70934141624b6d1ffdacc7"},
+    {file = "uri_template-1.3.0-py3-none-any.whl", hash = "sha256:a44a133ea12d44a0c0f06d7d42a52d71282e77e2f937d8abd5655b8d56fc1363"},
+]
+
+[package.extras]
+dev = ["flake8", "flake8-annotations", "flake8-bandit", "flake8-bugbear", "flake8-commas", "flake8-comprehensions", "flake8-continuation", "flake8-datetimez", "flake8-docstrings", "flake8-import-order", "flake8-literal", "flake8-modern-annotations", "flake8-noqa", "flake8-pyproject", "flake8-requirements", "flake8-typechecking-import", "flake8-use-fstring", "mypy", "pep8-naming", "types-PyYAML"]
+
 [[package]]
 name = "urllib3"
 version = "2.2.3"
@@ -4096,18 +4667,29 @@ testing = ["componentize-py", "coverage", "pycparser", "pytest", "pytest-mypy"]
 name = "wcwidth"
 version = "0.2.13"
 description = "Measures the displayed width of unicode strings in a terminal"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "wcwidth-0.2.13-py2.py3-none-any.whl", hash = "sha256:3da69048e4540d84af32131829ff948f1e022c1c6bdb8d6102117aac784f6859"},
     {file = "wcwidth-0.2.13.tar.gz", hash = "sha256:72ea0c06399eb286d978fdedb6923a9eb47e1c486ce63e9b4e64fc18303972b5"},
 ]
 
+[[package]]
+name = "webcolors"
+version = "24.11.1"
+description = "A library for working with the color formats defined by HTML and CSS."
+optional = false
+python-versions = ">=3.9"
+files = [
+    {file = "webcolors-24.11.1-py3-none-any.whl", hash = "sha256:515291393b4cdf0eb19c155749a096f779f7d909f7cceea072791cb9095b92e9"},
+    {file = "webcolors-24.11.1.tar.gz", hash = "sha256:ecb3d768f32202af770477b8b65f318fa4f566c22948673a977b00d589dd80f6"},
+]
+
 [[package]]
 name = "webencodings"
 version = "0.5.1"
 description = "Character encoding aliases for legacy web content"
-optional = true
+optional = false
 python-versions = "*"
 files = [
     {file = "webencodings-0.5.1-py2.py3-none-any.whl", hash = "sha256:a0af1213f3c2226497a97e2b3aa01a7e4bee4f403f95be16fc9acd2947514a78"},
@@ -4245,4 +4827,4 @@ tests = ["mypy", "pytest", "pytest-cov", "pytket-quantinuum", "qiskit-ibm-provid
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10,<3.14"
-content-hash = "518fb4ebd0da46487bbb8279c79d26e244c3459d43ab11e8506fbd7ab91095f6"
+content-hash = "f9e5ba419678f6e8c780cca0a354340f9cb9f5e163719161dc0d34da76b441fe"
diff --git a/pyproject.toml b/pyproject.toml
index 3c052111..5fce61fd 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -29,6 +29,7 @@ furo = { version = "^2024.8.6", optional = true }
 myst-nb = { version = "^1.1.2", optional = true}
 sphinx-autodoc-typehints = { version = "^2.5.0", optional = true }
 jupyter-sphinx = { version = "^0.5.3", optional = true}
+notebook = "^7.3.1"
 
 [tool.poetry.extras]
 tests = [
diff --git a/qermit/coherent_pauli_checks/pauli_sampler.py b/qermit/coherent_pauli_checks/pauli_sampler.py
index 6da63035..5fc40655 100644
--- a/qermit/coherent_pauli_checks/pauli_sampler.py
+++ b/qermit/coherent_pauli_checks/pauli_sampler.py
@@ -188,10 +188,13 @@ def sample(self, circ: Circuit) -> List[QermitPauli]:
         :return: Z Pauli string of length equal to the circuit.
         """
         return [
-            QermitPauli(
-                Z_list=[1] * circ.n_qubits,
-                X_list=[0] * circ.n_qubits,
-                qubit_list=circ.qubits,
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(
+                    string=QubitPauliString(
+                        map={qubit: Pauli.Z for qubit in circ.qubits}
+                    ),
+                    coeff=1,
+                )
             )
         ]
 
@@ -206,10 +209,13 @@ def sample(self, circ: Circuit) -> List[QermitPauli]:
         :return: X Pauli string of length equal to the circuit.
         """
         return [
-            QermitPauli(
-                Z_list=[0] * circ.n_qubits,
-                X_list=[1] * circ.n_qubits,
-                qubit_list=circ.qubits,
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(
+                    string=QubitPauliString(
+                        map={qubit: Pauli.X for qubit in circ.qubits}
+                    ),
+                    coeff=1,
+                )
             )
         ]
 
@@ -240,18 +246,19 @@ def sample(
         # TODO: Make sure sampling is done without replacement
         stabiliser_list: List[QermitPauli] = []
         while len(stabiliser_list) < self.n_checks:
-            Z_list = [self.rng.integers(2) for _ in circ.qubits]
-            X_list = [self.rng.integers(2) for _ in circ.qubits]
-
-            # Avoids using the identity string as it commutes with all errors
-            if any(Z == 1 for Z in Z_list) or any(X == 1 for X in X_list):
-                stabiliser_list.append(
-                    QermitPauli(
-                        Z_list=Z_list,
-                        X_list=X_list,
-                        qubit_list=circ.qubits,
-                    )
-                )
+            qpt = QubitPauliTensor(
+                string=QubitPauliString(
+                    map={
+                        qubit: self.rng.choice(
+                            numpy.array([Pauli.X, Pauli.Y, Pauli.Z, Pauli.I])
+                        )
+                        for qubit in circ.qubits
+                    }
+                ),
+                coeff=1,
+            )
+            if qpt != QubitPauliTensor():
+                stabiliser_list.append(QermitPauli.from_qubit_pauli_tensor(qpt))
 
         return stabiliser_list
 
diff --git a/qermit/noise_model/noise_model.py b/qermit/noise_model/noise_model.py
index 137e6b1f..9a49162f 100644
--- a/qermit/noise_model/noise_model.py
+++ b/qermit/noise_model/noise_model.py
@@ -12,7 +12,7 @@
 from numpy.typing import NDArray
 from pytket import Circuit, Qubit
 from pytket.circuit import OpType
-from pytket.pauli import Pauli, QubitPauliString
+from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 from scipy.linalg import fractional_matrix_power  # type: ignore
 
 from .qermit_pauli import QermitPauli
@@ -636,13 +636,13 @@ def random_propagate(
         :raises Exception: Raised if direction is invalid.
         :return: Resulting logical error.
         """
-
-        # Create identity error.
-        qubit_list = cliff_circ.qubits
-        pauli_error = QermitPauli(
-            Z_list=[0] * len(qubit_list),
-            X_list=[0] * len(qubit_list),
-            qubit_list=qubit_list,
+        pauli_error = QermitPauli.from_qubit_pauli_tensor(
+            QubitPauliTensor(
+                string=QubitPauliString(
+                    map={qubit: Pauli.I for qubit in cliff_circ.qubits}
+                ),
+                coeff=1,
+            )
         )
 
         # Commands are ordered in reverse or original order depending on which
diff --git a/tests/coherent_pauli_checks_test.py b/tests/coherent_pauli_checks_test.py
index 028f1731..3f28635b 100644
--- a/tests/coherent_pauli_checks_test.py
+++ b/tests/coherent_pauli_checks_test.py
@@ -8,7 +8,7 @@
 from pytket.circuit import Bit, CircBox, Qubit
 from pytket.extensions.qiskit import AerBackend
 from pytket.passes import DecomposeBoxes
-from pytket.pauli import Pauli, QubitPauliString
+from pytket.pauli import Pauli, QubitPauliString, QubitPauliTensor
 
 from qermit import CircuitShots
 from qermit.coherent_pauli_checks import (
@@ -802,11 +802,11 @@ def test_optimal_pauli_sampler():
         circ=cliff_circ,
     )
 
-    assert stab[0] == QermitPauli(
-        Z_list=[0, 0, 1],
-        X_list=[0, 0, 1],
-        qubit_list=qubits,
-        phase=1,
+    assert stab[0] == QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(qubits=qubits, paulis=[Pauli.I, Pauli.I, Pauli.Y]),
+            coeff=1,
+        )
     )
 
     # TODO: an assert is needed for this last part
@@ -836,10 +836,14 @@ class DeterministicPauliSampler(PauliSampler):
         def sample(self, circ, **kwargs):
             qubit_list = circ.qubits
             return [
-                QermitPauli(
-                    Z_list=[1],
-                    X_list=[1],
-                    qubit_list=qubit_list,
+                QermitPauli.from_qubit_pauli_tensor(
+                    QubitPauliTensor(
+                        string=QubitPauliString(
+                            pauli=Pauli.Y,
+                            qubit=qubit_list[0],
+                        ),
+                        coeff=-1j,
+                    )
                 )
             ]
 
@@ -970,32 +974,41 @@ def test_error_sampler():
     )
     ideal = Counter(
         {
-            QermitPauli(
-                Z_list=[0, 0, 0],
-                X_list=[1, 1, 0],
-                qubit_list=[
-                    Qubit(name="ancilla", index=0),
-                    Qubit(name="my_reg", index=0),
-                    Qubit(name="my_reg", index=1),
-                ],
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(
+                    string=QubitPauliString(
+                        map={
+                            Qubit(name="ancilla", index=0): Pauli.X,
+                            Qubit(name="my_reg", index=0): Pauli.X,
+                            Qubit(name="my_reg", index=1): Pauli.I,
+                        }
+                    ),
+                    coeff=1,
+                )
             ): 190,
-            QermitPauli(
-                Z_list=[0, 0, 0],
-                X_list=[1, 0, 1],
-                qubit_list=[
-                    Qubit(name="ancilla", index=0),
-                    Qubit(name="my_reg", index=0),
-                    Qubit(name="my_reg", index=1),
-                ],
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(
+                    string=QubitPauliString(
+                        map={
+                            Qubit(name="ancilla", index=0): Pauli.X,
+                            Qubit(name="my_reg", index=0): Pauli.I,
+                            Qubit(name="my_reg", index=1): Pauli.X,
+                        }
+                    ),
+                    coeff=1,
+                )
             ): 164,
-            QermitPauli(
-                Z_list=[0, 0, 0],
-                X_list=[0, 1, 1],
-                qubit_list=[
-                    Qubit(name="ancilla", index=0),
-                    Qubit(name="my_reg", index=0),
-                    Qubit(name="my_reg", index=1),
-                ],
+            QermitPauli.from_qubit_pauli_tensor(
+                QubitPauliTensor(
+                    string=QubitPauliString(
+                        map={
+                            Qubit(name="ancilla", index=0): Pauli.X,
+                            Qubit(name="my_reg", index=0): Pauli.X,
+                            Qubit(name="my_reg", index=1): Pauli.X,
+                        }
+                    ),
+                    coeff=1,
+                )
             ): 81,
         }
     )
diff --git a/tests/noise_model_test.py b/tests/noise_model_test.py
index a75d2ecf..f7c86bf9 100644
--- a/tests/noise_model_test.py
+++ b/tests/noise_model_test.py
@@ -387,10 +387,11 @@ def test_error_backpropagation() -> None:
     name = "my_reg"
     qubit_list = [Qubit(name=name, index=0), Qubit(name=name, index=1)]
 
-    stabilise = QermitPauli(
-        Z_list=[0] * len(qubit_list),
-        X_list=[0] * len(qubit_list),
-        qubit_list=qubit_list,
+    stabilise = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={qubit: Pauli.I for qubit in qubit_list}),
+            coeff=1,
+        )
     )
 
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[1])
@@ -408,10 +409,11 @@ def test_error_backpropagation() -> None:
         coeff=-1j,
     )
 
-    stabilise = QermitPauli(
-        Z_list=[0] * len(qubit_list),
-        X_list=[0] * len(qubit_list),
-        qubit_list=qubit_list,
+    stabilise = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={qubit: Pauli.I for qubit in qubit_list}),
+            coeff=1,
+        )
     )
 
     stabilise.pre_apply_pauli(pauli=Pauli.X, qubit=qubit_list[1])
@@ -433,7 +435,6 @@ def test_error_backpropagation() -> None:
 
 def test_back_propagate_random_error() -> None:
     cliff_circ = Circuit(2).CZ(0, 1).X(1).CZ(1, 0)
-    qubit_list = cliff_circ.qubits
 
     error_rate = 0.5
     error_distribution_dict = {}
@@ -569,10 +570,24 @@ def test_qermit_pauli_circuit() -> None:
     circ = Circuit(3)
     circ.CZ(0, 1).add_barrier([0, 2]).H(1).H(2).SWAP(1, 2).S(1).Y(0)
 
-    L = QermitPauli(Z_list=[1, 1, 1], X_list=[0, 0, 0], qubit_list=circ.qubits)
+    L = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                paulis=[Pauli.Z, Pauli.Z, Pauli.Z],
+                qubits=circ.qubits,
+            )
+        )
+    )
     L_circ = L.circuit
 
-    R = QermitPauli(Z_list=[1, 1, 1], X_list=[0, 0, 0], qubit_list=circ.qubits)
+    R = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                paulis=[Pauli.Z, Pauli.Z, Pauli.Z],
+                qubits=circ.qubits,
+            )
+        )
+    )
     R.apply_circuit(circ)
     R_circ = R.circuit
 
@@ -588,11 +603,13 @@ def test_qermit_pauli_circuit() -> None:
 
 
 def test_initialisation() -> None:
-    qubit_list = [Qubit(0), Qubit(1), Qubit(2)]
-    pauli = QermitPauli(
-        Z_list=[0, 0, 1],
-        X_list=[0, 0, 0],
-        qubit_list=qubit_list,
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                map={Qubit(0): Pauli.I, Qubit(1): Pauli.I, Qubit(2): Pauli.Z}
+            ),
+            coeff=1,
+        )
     )
     assert pauli.qubit_pauli_tensor == QubitPauliTensor(
         string=QubitPauliString(
@@ -607,8 +624,11 @@ def test_identity_clifford() -> None:
     circ.X(1).H(1).X(1).X(0).Sdg(1).X(0).CZ(1, 0)
 
     qubit_list = circ.qubits
-    pauli = QermitPauli(
-        Z_list=circ.n_qubits * [1], X_list=circ.n_qubits * [0], qubit_list=qubit_list
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={qubit: Pauli.Z for qubit in qubit_list}),
+            coeff=1,
+        )
     )
     pauli.apply_circuit(circ)
 
@@ -620,7 +640,11 @@ def test_identity_clifford() -> None:
 
 def test_H() -> None:
     qubit_list = [Qubit(0)]
-    pauli = QermitPauli(Z_list=[1], X_list=[0], qubit_list=qubit_list)
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(qubit=Qubit(0), pauli=Pauli.Z), coeff=1
+        )
+    )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
     assert pauli.qubit_pauli_tensor.string == QubitPauliString(
@@ -637,15 +661,23 @@ def test_H() -> None:
 
 def test_h_series_gates() -> None:
     circ = Circuit(2).ZZPhase(3.5, 0, 1).PhasedX(1.5, 0.5, 0)
-    stab = QermitPauli(Z_list=[1, 1], X_list=[1, 1], qubit_list=circ.qubits)
+    stab = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={qubit: Pauli.Y for qubit in circ.qubits}),
+            coeff=-1,
+        )
+    )
     stab.apply_circuit(circ)
 
 
 def test_apply_circuit() -> None:
     circ = Circuit(2).H(0).S(0).CX(0, 1)
     qubit_list = circ.qubits
-    pauli = QermitPauli(
-        Z_list=circ.n_qubits * [1], X_list=circ.n_qubits * [0], qubit_list=qubit_list
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(map={qubit: Pauli.Z for qubit in circ.qubits}),
+            coeff=1,
+        )
     )
 
     pauli.apply_circuit(circ)
@@ -658,10 +690,17 @@ def test_apply_circuit() -> None:
 
 def test_apply_gate() -> None:
     qubit_list = [Qubit(0), Qubit(1), Qubit(2)]
-    pauli = QermitPauli(
-        Z_list=[1, 1, 1],
-        X_list=[0, 0, 0],
-        qubit_list=qubit_list,
+
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                map={
+                    Qubit(0): Pauli.Z,
+                    Qubit(1): Pauli.Z,
+                    Qubit(2): Pauli.Z,
+                }
+            )
+        )
     )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
@@ -690,10 +729,17 @@ def test_apply_gate() -> None:
 
 def test_qubit_pauli_string() -> None:
     qubit_list = [Qubit(0), Qubit(1), Qubit(2)]
-    pauli = QermitPauli(
-        Z_list=[1, 1, 1],
-        X_list=[0, 0, 0],
-        qubit_list=qubit_list,
+
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                map={
+                    Qubit(0): Pauli.Z,
+                    Qubit(1): Pauli.Z,
+                    Qubit(2): Pauli.Z,
+                }
+            )
+        )
     )
 
     qubit_pauli_string = QubitPauliString(
@@ -739,10 +785,18 @@ def test_qubit_pauli_string() -> None:
 
 def test_clifford_incremental() -> None:
     qubit_list = [Qubit(0), Qubit(1), Qubit(2)]
-    pauli = QermitPauli(
-        Z_list=[0, 0, 1],
-        X_list=[0, 0, 0],
-        qubit_list=qubit_list,
+
+    pauli = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                map={
+                    Qubit(0): Pauli.I,
+                    Qubit(1): Pauli.I,
+                    Qubit(2): Pauli.Z,
+                }
+            ),
+            coeff=1,
+        )
     )
 
     pauli.apply_gate(op=Op.create(OpType.H), qubits=[qubit_list[0]])
@@ -872,14 +926,17 @@ def test_to_from_qps() -> None:
 
 
 def test_is_measureable() -> None:
-    stab = QermitPauli(
-        Z_list=[1, 0, 0],
-        X_list=[1, 0, 1],
-        qubit_list=[
-            Qubit(name="A", index=0),
-            Qubit(name="B", index=0),
-            Qubit(name="A", index=1),
-        ],
+    stab = QermitPauli.from_qubit_pauli_tensor(
+        QubitPauliTensor(
+            string=QubitPauliString(
+                map={
+                    Qubit(name="A", index=0): Pauli.Y,
+                    Qubit(name="B", index=0): Pauli.I,
+                    Qubit(name="A", index=1): Pauli.X,
+                }
+            ),
+            coeff=-1j,
+        )
     )
     assert stab.is_measureable(qubit_list=[Qubit(name="A", index=1)])
     assert stab.is_measureable(qubit_list=[Qubit(name="A", index=0)])