# Questions tagged [python]

A general purpose high-level programming language that emphasizes ease of code syntax and readability.

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### How to get ODE solution at specified time points?

The code below basically illustrates my problem. It is a test code for a pendulum. I solve it using a method suggested on https://stackoverflow.com/questions/12926393/using-adaptive-step-sizes-with-...
751 views

### Poor SVD reconstruction of singular matrix

I am trying to calculate the singular value decomposition of this matrix using numpy.linalg.svd . However, reconstructing the matrix from the SVD gives a poor ...
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### LCM builtin in Python / Numpy

I can write a function to find LCM (lowest common multiple) of an array of integers, but I thought it must have been implemented in numpy or scipy and was expecting something like ...
9k views

### How to implement Gauss-Laguerre Quadrature in Python?

To get the hang of Gauss-Laguerre integration I have decided to calculate the following integral numerically, which can be compared to the known analytical solution: \begin{align} \int_0^{\infty} s^...
721 views

### literature on scientific computing

Maybe, this is a dump question. But anyway. I developed a finite difference code for a class of problems in dynamo theory. I used GNU Octave (MATLAB) which is good for testing. The problem size ...
11k views

### Consistent handling of division by zero in numpy array

I want to populate a numpy array with values from the smooth bump function f(x) = exp ( - 1 / (1 - x^2) ) if |x| < 1, f(x) = 0 otherwise Currently I ...
166 views

### I wrote a 2D Finite Element program for Axial Loaded Plates, but the results are unexpected

TLDR: I used Python to write a 2D Finite Element program using 'Constant Strain Triangles' and my beam keeps pointing slightly upwards instead of straight sideways (like the force). I'm new to FEA and ...
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### ODE system with discontinuous right-hand-side

I have a 1st order ODE system. One of the equations is piecewise function of 2 of the dependent variables. I try to solve it in Python environment. \begin{align}\dot x_1 &= x_2 - x_3\\ \dot x_2 &...
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### What determines the usual chemistry textbook plots of atom orbitals?

In elementary chemistry textbooks you often have pictures like the following one: Are there any conventions how to get them? I am not sure, but I guess that it are contour plots with only one iso-...
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### divide an array using a changing length sequence of boolean var as index

i have an array of boolean variables. The array has a sort of structure, it's formed of many sequences of zeros and ones, sequences of different length. such as: [...
249 views

### Meshing surface of a sphere with a subdomain

I am trying to build a triangle mesh of the surface of a sphere which also includes a subdomain defined by a 'polygon'. Here is a successful example (subdomain defined by the red dots): Note that the ...
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### compute max(||u||) for vector field

Given a vector-valued Dolfin function u from the function space V*V with ...
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### Computation of the tensor of curvature on surface mesh

Is there a formula which enables the computation the tensor of curvature knowing the following at each vertex and cell of a triangulated mesh: Normal vector Two arbitrary vectors in the tangent space ...
289 views

### Efficiently generate a random subgraph (Gs) with maximum degree K, using only edges from an existing graph G

I am looking find a way of efficiently generating a random, undirected subgraph $G_s$ with $N$ vertices, using a subset of edges from an exisiting undirected graph $G$, also of size $N$, where the ...
107 views

### How to read the number of periods of this complicated graph?

I have two data sets that are quasi-periodic. They have the same period and can be seen clearly by eye. For example when $x\in(100,200)$, both of them have about 32 periods. Below is a zoom-in of the ...
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### Numerically solve a PDE in Python with a term calculated by coarse-graining

I'm trying to solve a PDE in Python of the form, $\dfrac{\partial c(\mathbf{x}, t)}{\partial t} = \mathrm{D} \nabla^2 c(\mathbf{x}, t) -\gamma \rho(\mathbf{x}, t) c(\mathbf{x}, t)$ where $c$ ...
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### TypeError from scipy.optimize.curve_fit

I am trying to fit a data set to an exponential model using scipy. However, the covariance matrix that is returned is 'inf' and I receive the following error: Traceback (most recent call last): ...
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### Solving multiple linear regression in parallel

I am working on a problem where I need to solve approximately 500 Million Linear Regressions (OLS). What would be the most efficient way to do this (e.g. using GPU or a some framework that can do this ...
654 views

### FEM Python book

Is there any book or site available with Finite element Method for partial differential equations with python code apart from Fenics?
553 views

### Solving a PDE implicitly by iteration in python

Connected to this question here on Computational Science, I've posted a follow-up question on how to solve a PDE using an implicit scheme like Crank-Nicholson in general in this question on SO. But I ...
478 views

### Large meshing with tetgen [closed]

So I have a point cloud that I am creating a 3D flat rectangular surface from. I'm then turning it into a hollow box and connecting the corners by just dropping this surface mesh down. I need it to ...