complexeva 0.2.0__tar.gz → 0.2.2__tar.gz

{complexeva-0.2.0 → complexeva-0.2.2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: complexeva
-Version: 0.2.0
+Version: 0.2.2
 Home-page: 
 Author: Don Yin
 Author-email: don_yin@outlook.com
@@ -15,9 +15,14 @@ implementations of complexity measures in 1D sequences
 
 # examples
 ```python
-from complexeva import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
+from complexeva.sequence import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
 
 signal = numpy.random.rand(1000)  # shape: (1000,)
 complexity = hfd(signal)
 print(complexity)
 ```
+
+# install
+```bash
+pip install complexeva
+```

{complexeva-0.2.0 → complexeva-0.2.2}/README.md

@@ -3,9 +3,14 @@ implementations of complexity measures in 1D sequences
 
 # examples
 ```python
-from complexeva import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
+from complexeva.sequence import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
 
 signal = numpy.random.rand(1000)  # shape: (1000,)
 complexity = hfd(signal)
 print(complexity)
+```
+
+# install
+```bash
+pip install complexeva
 ```

{complexeva-0.2.0 → complexeva-0.2.2}/complexeva/sequence/__init__.py

@@ -1,6 +1,6 @@
-from .higuchi import hfd
+from .higuchi import hfd, hfd_hilbert
 from .lempel_ziv import lempel_ziv
 from .compression import compression_complexity
 from .lyapunov_exponent import lyapunov_exponent
 
-__all__ = ["compression_complexity", "lyapunov_exponent", "hfd", "lempel_ziv"]
+__all__ = ["compression_complexity", "lyapunov_exponent", "hfd", "hfd_hilbert", "lempel_ziv"]

complexeva-0.2.2/complexeva/sequence/higuchi.py

@@ -0,0 +1,75 @@
+#!/Users/donyin/miniconda3/envs/rotation-1/bin/python
+
+
+import numpy
+from numba import njit
+from scipy.signal import hilbert
+
+
+@njit
+def compute_L_x(X, k_max=16):
+    k_max = min(k_max, len(X) // 2) if k_max is None else k_max
+    N = len(X)
+    L = numpy.zeros(k_max)
+    x = numpy.zeros(k_max)
+    for k in range(1, k_max + 1):
+        Lk = numpy.zeros(k)
+        for m in range(k):
+            Lmk = 0.0
+            n_max = (N - m) // k
+            for i in range(1, n_max):
+                Lmk += numpy.abs(X[m + i * k] - X[m + (i - 1) * k])
+            Lmk *= (N - 1) / (n_max * k)
+            Lk[m] = Lmk
+        L[k - 1] = numpy.log(Lk.mean())
+        x[k - 1] = numpy.log(1.0 / k)
+    return x, L
+
+
+def hfd(X, k_max=16):
+    """expect a 1d numpy array as input"""
+    assert X.ndim == 1, f"X must be a 1d numpy array, got shape {X.shape}"
+    x, L = compute_L_x(X, k_max)
+    A = numpy.column_stack((x, numpy.ones_like(x)))
+    beta, _, _, _ = numpy.linalg.lstsq(A, L, rcond=None)
+    return beta[0]
+
+
+def hfd_hilbert(X, k_max=16):
+    """
+    Calculate Higuchi Fractal Dimension on the instantaneous frequency
+    obtained from Hilbert transform of the input signal.
+
+    Args:
+        X (numpy.ndarray): Input 1D signal
+        k_max (int): Maximum k value for HFD calculation
+
+    Returns:
+        float: Higuchi Fractal Dimension of the instantaneous frequency
+    """
+    assert X.ndim == 1, f"X must be a 1d numpy array, got shape {X.shape}"
+    analytic_signal = hilbert(X)
+    instantaneous_phase = numpy.angle(analytic_signal)
+    instantaneous_freq = numpy.diff(instantaneous_phase)
+    instantaneous_freq = numpy.append(instantaneous_freq, instantaneous_freq[-1])
+    return hfd(instantaneous_freq, k_max=k_max)
+
+
+if __name__ == "__main__":
+    import time
+
+    signal = numpy.random.rand(1000)  # shape: (1000,)
+
+    # Test plain HFD speed
+    start_time = time.time()
+    complexity_plain = hfd(signal)
+    plain_time = time.time() - start_time
+
+    # Test Hilbert HFD speed
+    start_time = time.time()
+    complexity_hilbert = hfd_hilbert(signal)
+    hilbert_time = time.time() - start_time
+
+    print(f"Plain HFD: {complexity_plain:.6f}, Time: {plain_time:.6f}s")
+    print(f"Hilbert HFD: {complexity_hilbert:.6f}, Time: {hilbert_time:.6f}s")
+    print(f"Speed ratio (Hilbert/Plain): {hilbert_time/plain_time:.2f}x")

{complexeva-0.2.0 → complexeva-0.2.2}/complexeva.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: complexeva
-Version: 0.2.0
+Version: 0.2.2
 Home-page: 
 Author: Don Yin
 Author-email: don_yin@outlook.com
@@ -15,9 +15,14 @@ implementations of complexity measures in 1D sequences
 
 # examples
 ```python
-from complexeva import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
+from complexeva.sequence import lyapunov_exponent, hfd, lempel_ziv, compression_complexity
 
 signal = numpy.random.rand(1000)  # shape: (1000,)
 complexity = hfd(signal)
 print(complexity)
 ```
+
+# install
+```bash
+pip install complexeva
+```

{complexeva-0.2.0 → complexeva-0.2.2}/setup.py

@@ -2,7 +2,7 @@ from setuptools import setup, find_packages
 
 setup(
     name="complexeva",
-    version="0.2.0",
+    version="0.2.2",
     packages=find_packages(),
     install_requires=[],
     author="Don Yin",

complexeva-0.2.0/complexeva/sequence/higuchi.py

@@ -1,38 +0,0 @@
-#!/Users/donyin/miniconda3/envs/rotation-1/bin/python
-
-
-import numpy
-from numba import njit
-
-
-@njit
-def compute_L_x(X, k_max=16):
-    N = len(X)
-    L = numpy.zeros(k_max)
-    x = numpy.zeros(k_max)
-    for k in range(1, k_max + 1):
-        Lk = numpy.zeros(k)
-        for m in range(k):
-            Lmk = 0.0
-            n_max = (N - m) // k
-            for i in range(1, n_max):
-                Lmk += numpy.abs(X[m + i * k] - X[m + (i - 1) * k])
-            Lmk *= (N - 1) / (n_max * k)
-            Lk[m] = Lmk
-        L[k - 1] = numpy.log(Lk.mean())
-        x[k - 1] = numpy.log(1.0 / k)
-    return x, L
-
-
-def hfd(X, k_max=16):
-    """expect a 1d numpy array as input"""
-    x, L = compute_L_x(X, k_max)
-    A = numpy.column_stack((x, numpy.ones_like(x)))
-    beta, _, _, _ = numpy.linalg.lstsq(A, L, rcond=None)
-    return beta[0]
-
-
-if __name__ == "__main__":
-    signal = numpy.random.rand(1000)  # shape: (1000,)
-    complexity = hfd(signal)
-    print(complexity)