ieeLabTools 0.1.1__tar.gz → 0.1.3__tar.gz

ieelabtools-0.1.3/.gitignore

@@ -0,0 +1,207 @@
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ieelabtools-0.1.3/Docs/Documentation.md

@@ -0,0 +1,200 @@
+# Documentation
+
+<a href="https://github.com/ieepirzy/PhySiLight-Tools/blob/main/Packages/ieeLabTools/suomidocs.md"> Dokumentaation pikaohjeet suomeksi </a>
+
+## Quickstart / TL;DR
+
+```python
+from ieeLabTools.core import Yvel
+import sympy as sp
+import numpy as np
+
+#Example variables and function
+U, I = sp.symbols("U I")
+R = U/I
+calc = Yvel(R,vars=[U,I])
+
+U_vals = np.array([1,2,3,4,5,6])
+I_vals = np.array([6,5,4,3,2,1])
+U_err = U_vals*0.001
+I_err = I_vals*0.05
+#Convert to desirable input format: m x k array-like, where k is your number of variables and m is your number of measurement events.
+values = np.column_stack([U_vals, I_vals]) 
+sigmas = np.column_stack([U_err, I_err])
+
+sigma_R = calc.numeric(values, sigmas)
+``` 
+
+>⚠ Important ⚠:
+>The order of columns in `values` and `sigmas` must match the order of variables in `vars`.
+>If `vars` is omitted, variables are ordered lexicographically by symbol name.
+
+> ⚠ The current version uses the **non-covariant** general error propagation formula. Covariance-aware propagation is planned for a future release.
+
+## 1. YVEL: Yleinen virheen etenemisen lauseke
+> YVEL = General error propagation equation in finnish.
+
+The class Yvel implements the general error propagation equation in non-covariant form, and exposes 2 methods for working with it.
+
+The mathematical expression for the YVEL in non-covariant from is:
+
+$$
+\sigma = \sqrt{ \sum_{i}  \left( \frac{\partial f}{\partial x_{i}} \right) ^{2}\sigma_{i}^{2} }
+$$
+
+The **initializer expects a sympy object representing the function** referred to from now on as `f`.
+An optional parameter for the initializer is a 1D array-like of the **variables as Sympy symbols** referred to as `var`.
+
+For note, the covariant expression for the YVEL is:
+
+$$
+\sigma = \sqrt{ \sum_{i}  \left( \frac{\partial f}{\partial x_{i}} \right) ^{2}\sigma_{i}^{2} +2 \sum_{i>j} \frac{\partial f}{\partial x_{i}} \frac{\partial f}{\partial x_{j}} \text{cov}(x_{i},x_{j}) }
+$$
+
+> Note: Adding a method to take covariance into account is planned for a future release.
+
+## Working principle:
+After instantiation, the class immediately either assigns the given `var` or automatically detects variables from `f` using the  `free_symbols()` method.
+
+Then the class calculates the partial derivatives for each variable by looping over all entries in `var` and calling `sp.diff`.
+
+Then a symbolic representation of the general error propagation equation is built as a Sympy object.
+#### Example.
+
+For a simplistic example, consider Ohm's law:
+
+$$
+R=\frac{U}{I}
+$$
+
+To find the deviation for $R$ using the ieeLabTools package, we will first build an instance of the Yvel class:
+>Note: for correct usage, some degree of familiarity with numpy and sympy is required.
+
+```python
+from ieeLabTools.core import Yvel
+import sympy as sp
+
+U , I = sp.symbols("U I") #Assign your symbols
+
+R = U/I #Create the expression
+
+instance = Yvel(R) #After this line the class has been instantiated.
+```
+
+The Yvel class currently provides 2 methods for working with the error propagation function. The first of these is the simpler one: `symbolic()`
+
+The `symbolic()` method simply returns the symbolic expression of the general error propagation equation for the `f` used to initialize it. As referenced earlier, this computation is implemented using `sympy`, for further details, consult the  `sympy` documentation for `symbol(), diff(), lambdify() and free_symbols()` methods.
+
+Example usage of the `symbolic()` method:
+```python
+#continuing from earlier...
+
+symbolic_expression = instance.symbolic()
+#For the example function, you should see:
+print(symbolic_expression)
+#return this:
+#sqrt(sigma_U**2/I**2 + U**2*sigma_I**2/I**4)
+```
+
+The 2nd method exposed by the class is the `numeric()` method. This is the arguably more useful method, as it allows you to calculate the actual deviation numerically.
+
+### Working principle for `numeric()` 
+
+The `numeric()` method is intended to massively ease the computation of errors for functions with many variables each contributing values (and possibly errors), making the partial derivatives tedious to solve by hand.
+
+To achieve this, I design the method with 2 principles in mind:
+
+1. Handle an arbitrary amount of variables and their errors, with 2 parameters.
+2. Do so in a clean, performant manner
+
+The `numeric()` method expects the variables and arrays to be passed in a matrix (array-like) format, where for any number of variables $k$ and a measurement series of length $m$ for each variable, constituting an $m \times k$ 2D array-like.
+
+A mathematical representation:
+
+$$
+\text{values}: m \times k \implies \begin{bmatrix}
+x_{0} & x_{1} & x_{2} & x_{3} & \dots & x_{k} \\
+val_{0} & val_{0} & val_{0} & val_{0} & \dots & val_{0} \\
+val_{1} & val_{1} & val_{1} & val_{1} & \dots & val_{1} \\
+val_{2} & val_{2} & val_{2} & val_{2} & \dots & val_{2} \\
+val_{3} & val_{3} & val_{3} & val_{3} & \dots & val_{3} \\
+\vdots & \vdots & \vdots & \vdots & \dots & \vdots \\
+val_{m} & val_{m} & val_{m} & val_{m} & \dots & val_{m}
+\end{bmatrix}
+$$
+
+$$
+\text{deviations}: m \times k \implies \begin{bmatrix}
+x_{0} & x_{1} & x_{2} & x_{3} & \dots & x_{k} \\
+\sigma_{0} & \sigma_{0} & \sigma_{0} & \sigma_{0} & \dots & \sigma_{0} \\
+\sigma_{1} & \sigma_{1} & \sigma_{1} & \sigma_{1} & \dots & \sigma_{1} \\
+\sigma_{2} & \sigma_{2} & \sigma_{2} & \sigma_{2} & \dots & \sigma_{2} \\
+\sigma_{3} & \sigma_{3} & \sigma_{3} & \sigma_{3} & \dots & \sigma_{3} \\
+\vdots & \vdots & \vdots & \vdots & \dots & \vdots \\
+\sigma_{m} & \sigma_{m} & \sigma_{m} & \sigma_{m} & \dots & \sigma_{m}
+\end{bmatrix}
+$$
+
+
+> Note: The measurement series for all variables must be the same size
+> Assumption: measurement events for all variables are equal
+
+> Note: The series of deviations must be equal in length with its corresponding series of measurements, and each measurement series must have a corresponding deviation series.
+
+> Note: For possible variables with 0 deviation, pass an array with all values being 0.
+
+Internally, the method uses numpy for vectorized processing and does shape validation. 
+
+Example usage for `numeric()` continuing with the same instance of the class as in the quickstart:
+```python
+#lets assume the variables from earlier have some values and deviations:
+import numpy as np
+
+#Real measurement data from a lab-course:
+U_values =  np.array([
+    0.131, 0.165, 0.204, 0.268, 0.361, 0.505,
+    0.692, 0.958, 1.370, 1.997, 2.944, 4.33, 6.74])
+    
+I_values = np.array([10/1000]*13) #mA -> A
+
+U_errors = np.array([0.000656, 0.000826, 0.001021, 0.001341, 0.001806, 0.002526, 0.003461, 0.004791, 0.006851, 0.009986, 0.014721, 0.021651, 0.033701])
+ 
+I_errors = np.zeros([13]) #good example of 0 deviations handling
+
+# Now in order to call the method, we must remember its required parameters and construct them out of our existing arrays.
+values = np.column_stack([U_values, I_values])
+sigmas = np.column_stack([U_errors, I_errors])
+# This constructs a 13x2 matrix for both values and sigmas, in alignment with what the method parameters expect.
+
+
+# Now to find the deviations for each value we call:
+deviation = instance.numeric(values,sigmas)
+
+#with the example data you should expect something like:
+print(deviation)
+# "[3.82262106e-04, 3.03397612e-04, 2.45338331e-04, 1.86706393e-04,
+# 5.22029629e-05, 3.65016783e-05, 2.50400639e-05, 1.69848494e-05, 1.15478775e-05,
+# 7.41861776e-06,]
+
+```
+
+Note: The known bug causing indeterministic ordering in Sympy's `free_symbols` method means that it is usually preferred to pass the variables explicitly, as how the script enforces deterministic ordering is by sorting the variables found by free_symbols lexographically, and as the user passes data to the `numeric()` method, must the ordering of the arrays corresponding to each measurement be in lexicographical order (the same order as the variables).
+
+> Note: The bug arrises from the way the set() function, used in the `free_symbols` method interacts with pythons HASHSEED.
+> HASHSEED being randomized for DoS-attack prevention. It is then assumed that if order matters, it is specified, hence a strong recommendation to pass the `vars` as a parameter directly.
+
+Example of indeterministic behaviour:
+
+```python
+
+# DON'T DO THIS - order may vary between runs:
+calc = Yvel(R)  # vars detected as [I, U] or [U, I] unpredictably
+values = np.column_stack([U_vals, I_vals])  # assumes [U, I]
+# ❌ Mismatch possible!
+
+# DO THIS - explicit and deterministic:
+calc = Yvel(R, vars=[U, I])  # ✅ Order guaranteed
+values = np.column_stack([U_vals, I_vals])
+
+```
+

ieelabtools-0.1.3/Docs/suomidocs.md

@@ -0,0 +1,42 @@
+# Dokumentaatio
+
+Saat moduulin käyttöösi suorittamalla komennon:
+
+```CLI
+pip install ieeLabTools
+```
+
+<a href="https://pypi.org/project/ieeLabTools/">Moduuli on julkaistu PyPi alustalle</a>
+
+## Pikaesimerkki:
+```python
+from ieeLabTools.core import Yvel
+import sympy as sp
+import numpy as np
+
+#Luodaan esimerkkimuuttujat, näiden täytyy olla sympy-symboleja
+U, I = sp.symbols("U I")
+R = U/I #Rakennetaan symboleista/muututjista esimerkkifunktio
+calc = Yvel(R) # Tässä luodaan Yvel-objekti yllä määritetyllä funktiolla. 
+#TS. Jotta voit käyttää Yvel:iä niin anna sille aina aluksi näin funktio
+
+#Esimerkki arvot ja virheet.
+U_arvot = np.array([1,2,3,4,5,6]) 
+I_arvot = np.array([6,5,4,3,2,1])
+U_err = U_arvot*0.001
+I_err = I_arvot*0.05
+
+#Muutetaan np.column_stack() metodilla arvot ja virheet muotoon, jota numeerinen laskuri odottaa.
+arvot = np.column_stack([U_arvot, I_arvot]) 
+virheet = np.column_stack([U_err, I_err])
+
+# numeric() metodi odottaa parametreikseen m x k matriisin, jossa m on mittaussarjan pituus ja k muuttujien määrä.
+sigma = calc.numeric(arvot, virheet) #Tällä tavalla kutsutaan numeric() metodia.
+``` 
+
+>Huom! Kaikilla muuttujilla ja virheillä tulee olla sama muoto. Eli mittaussarjoilla sama pituus.
+
+>Huom! Jos jollakin muuttujalla ei ole virhettä, niin käytä sen virhesarjana 0-sarjaa.
+
+Metodi toimii vain **toisistaan riippumattomille** muuttujille.
+Kattavampi dokumentaatio ja läpikäyminen löytyy englanninkielisestä veriosta.

ieelabtools-0.1.3/LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2025 Ilari Pirkkalainen
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

{ieelabtools-0.1.1 → ieelabtools-0.1.3}/PKG-INFO

@@ -1,12 +1,13 @@
 Metadata-Version: 2.4
 Name: ieeLabTools
-Version: 0.1.1
-Summary: General symbolic + numeric uncertainty propagation, weighted linear regression
-Project-URL: Homepage, https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools
-Project-URL: Documentation, https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools/README.md
-Project-URL: Source, https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools/ieeLabTools/core.py
+Version: 0.1.3
+Summary: General linear symbolic + numeric uncertainty propagation, weighted linear regression
+Project-URL: Homepage, https://github.com/ieepirzy/ieeLabTools
+Project-URL: Documentation, https://github.com/ieepirzy/ieeLabTools/blob/main/Docs/Documentation.md
+Project-URL: Source, https://github.com/ieepirzy/ieeLabTools/blob/main/Source/core.py
 Author-email: Ilari Pirkkalainen <iladevv0@gmail.com>
 License: MIT
+License-File: LICENSE
 Classifier: Intended Audience :: Education
 Classifier: Intended Audience :: Science/Research
 Classifier: License :: OSI Approved :: MIT License
@@ -48,4 +49,6 @@ This library is part of the **PhySiLight-Tools** ecosystem.
 pip install ieeLabTools
 ```
 
+>🧪 This package was originally developed to automate general uncertainty propagation for physics lab courses, reducing >manual symbolic differentiation and repetitive numeric error calculation.
+
 Part of the PhySiLight-Tools physics utilities collection.

{ieelabtools-0.1.1 → ieelabtools-0.1.3}/README.md

@@ -29,4 +29,6 @@ This library is part of the **PhySiLight-Tools** ecosystem.
 pip install ieeLabTools
 ```
 
+>🧪 This package was originally developed to automate general uncertainty propagation for physics lab courses, reducing >manual symbolic differentiation and repetitive numeric error calculation.
+
 Part of the PhySiLight-Tools physics utilities collection.

ieelabtools-0.1.3/ieeLabTools/__init__.py

@@ -0,0 +1,20 @@
+"""
+ieeLabTools
+===========
+
+Tools for symbolic and numeric uncertainty propagation
+and weighted linear regression for laboratory data analysis.
+"""
+
+
+from .core import (
+    Yvel,
+    WeightedLinregress,
+)
+
+__all__ = [
+    "Yvel",
+    "WeightedLinearRegression",
+]
+
+__version__ = "0.1.2"

{ieelabtools-0.1.1 → ieelabtools-0.1.3}/ieeLabTools/core.py

@@ -20,26 +20,34 @@ class Yvel():
         
         self.f = f
         
+        # Assign from user declared variables or find variables automatically
         if vars is not None:
             self.vars = vars
         else: 
-            self.vars = list(f.free_symbols)
-        
+            self.vars = sorted(f.free_symbols, key=lambda s: s.name)
+
+        #print(f"variables:{self.vars}") #debug print 
+
+        # Find partials with sp.diff, looping over the function with each variable 
         self.partials = []
         for v in self.vars:
             self.partials.append(sp.diff(self.f,v))
         
-        
+        #Creating sigmas for all variables
         self.sigmas = []
         for v in self.vars:
-            sigma = sp.Symbol(f"sigma_{v.name}")
+            sigma = sp.Symbol(f"σ{v.name}")
             self.sigmas.append(sigma)
-            
+        
+        # Construct symbolical sympy object
         self.symbolic_f = sp.sqrt(
             sum((partial*var)**2 for partial, var in zip(self.partials,self.sigmas))
             )
-                    
+
+        # Lambdify object to make it          
         self.fn = sp.lambdify([*self.vars, *self.sigmas], self.symbolic_f, "numpy")
+
+        # Number of variables for later
         self.k = len(self.vars)
         
     def symbolic(self):
@@ -57,27 +65,34 @@ class Yvel():
         
         Returns: numpy array length m
         """
+
+        # Assign into numpy arrays from input format
         values = np.array(values, dtype=float)
         sigmas = np.array(sigmas, dtype=float)
         
+        # Check correct shape
         if values.shape != sigmas.shape:
             raise ValueError("Measurement and uncertainty matrices must have same shape.")
         m, k = values.shape
         if k != self.k:
             raise ValueError(f"Expected {self.k} variables, got {k} columns.")
         
+        # transpose for correct internal representation
         vt = values.T
         st = sigmas.T
 
-        # build argument list
+        # build argument list, pairing value with deviation.
         args = [vt[i] for i in range(k)] + [st[i] for i in range(k)]
-
+        #print(f"arguments:{args}") #debug print
+        # pass args to lambidified sympy object, representing the function
         return self.fn(*args)
 
     def covariant_numeric(self,values,sigmas):
         return NotImplementedError
 
-class weightedLinregress():
+
+class WeightedLinregress():
+# Rework this to be stateless..
     def __init__(self, y_sigma,x,y):
         """
         Parameters
@@ -120,11 +135,8 @@ class weightedLinregress():
         Wxx = np.sum(w * self.x * self.x)
         Wxy = np.sum(w * self.x * self.y)
 
-        
-
         D = W * Wxx - Wx**2
 
-   
         slope = (W * Wxy - Wx * Wy) / D
         intercept = (Wxx * Wy - Wx * Wxy) / D
 
@@ -133,7 +145,7 @@ class weightedLinregress():
 
         return slope, intercept, slope_err, intercept_err
 
-class ortDistanceRegress():
+class OrtDistanceRegress():
     def __init__(self,x,y,x_sigma,y_sigma):
         
         """

ieelabtools-0.1.3/mytest.py

@@ -0,0 +1,22 @@
+from Source import Yvel
+import sympy as sp
+import numpy as np
+
+#Example variables and function
+U, I = sp.symbols("U I")
+R = U/I
+print(R.free_symbols)
+calc = Yvel(R)
+print(calc)
+print(calc.symbolic())
+U_vals = np.array([1,2,3,4,5,6])
+I_vals = np.array([6,5,4,3,2,1])
+U_err = U_vals*0.001
+I_err = I_vals*0.05
+#Convert to desirable input format: m x k array-like, where k is your number of variables and m is your number of measurement events.
+values = np.column_stack([U_vals, I_vals]) 
+sigmas = np.column_stack([U_err, I_err])
+
+sigma_R = calc.numeric(values, sigmas)
+
+print(sigma_R)

{ieelabtools-0.1.1 → ieelabtools-0.1.3}/pyproject.toml

@@ -1,7 +1,7 @@
 [project]
 name = "ieeLabTools"
-version = "0.1.1"
-description = "General symbolic + numeric uncertainty propagation, weighted linear regression"
+version = "0.1.3"
+description = "General linear symbolic + numeric uncertainty propagation, weighted linear regression"
 authors = [
   { name = "Ilari Pirkkalainen", email = "iladevv0@gmail.com" }
 ]
@@ -21,9 +21,9 @@ classifiers = [
 ]
 
 [project.urls]
-Homepage = "https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools"
-Documentation = "https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools/README.md"
-Source = "https://github.com/ieepirzy/PhySiLight-Tools/tree/main/Packages/ieeLabTools/ieeLabTools/core.py"
+Homepage = "https://github.com/ieepirzy/ieeLabTools"
+Documentation = "https://github.com/ieepirzy/ieeLabTools/blob/main/Docs/Documentation.md"
+Source = "https://github.com/ieepirzy/ieeLabTools/blob/main/Source/core.py"
 
 [build-system]
 requires = ["hatchling"]

ieelabtools-0.1.1/ieeLabTools/__init__.py

@@ -1,3 +0,0 @@
-from .core import Yvel, weightedLinregress, ortDistanceRegress
-
-__all__ = ["Yvel", "weightedLinregress","ortDistanceRegress"]