Verlet integration angular constraint in 3D - python

guys! I'm trying to code verlet physics from scratch with Python. I have already done it in two dimensional space and it works as expected. My code contains points and edges, which limit the distance between points. As you know, it's quite easy to achieve it with Verlet integration. And if we want some points to maintain certain angle between each other, we can easily add invisible edge between them and play with it's length.
Now lets imagine I have chain of 10 points in 3D, consecutively connected with edges. I need to maintain a specific angle between first and third point. And I can't figure out the way do this having three rotational axis, because as you can imagine, single invisible edge is not enough in this case. And, of course, adding two more lines from the same points will make no sense.
I also should NOT create invisible edges to non-adjastent points, because if we speak about angle between first and third point, it should not affect directly the middle or the end of the chain.

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How to select the minimal set of circles that covers another circle?

I'm looking for some solutions that, given a set S of circles with 2D-center points and radii, returns a minimal sub-set M in S that covers entirely a specific circle with 2d-center point and radius. This last circle is not in S.
I've chosen circles, but it doesn't matter if we change them to squares, hexagons, etc.
You have two distinct problems: you need to turn the geometric problem into a combinatoric problem, and then you need to solve the combinatoric problem. For the latter, you are looking at a minimum set cover problem, and there should be plenty of literature on that. Personally I like Knuth's Dancing Links approach to enumerate all solutions of a set cover, but I guess for a single minimal solution you can do better. A CPLEX formulation (to match your tag) would use a binary variable for each row, and a ≥1 constraint for each column.
So now about turning geometry into combinatorics. All the lines of all your circles divide the plane into a bunch of areas. The areas are delimited by lines. Of particular relevance are the points where two or more circles meet. The exact shape of the line between these points is less relevant, and you might imagine pulling those arcs straight to come up with a more classical planar graph representation. So compute all the pair-wise intersections between all your circles. Order all intersections of a single circle by angle and connect them with graph edges in that order. Do so for all circles. Then you can do a kind of bucket fill to determine for each circle which graph faces are within and which are outside.
Now you have your matrix for the set cover: every graph face which is inside the big circle is a column you need to cover. Every circle is a row and covers some of these faces, and you know which.

Drawing animation on torus with python?

I recently worked on a code that allowed to display a simulation of particles' motions in a periodical space. In concrete terms, it resulted in a 2D plot provided with N points (N ~ 10^4) initially gathered at the center, then spread out according to a matching velocity. As it is a periodical space, any points that would go beyond the upper limit is actually brought back to the lower limit, and vice versa. To illustrate, here are two images :
Initial positions
After a certain time
Each points are supposed to travel horizontally, either to the right or to the left (respectively positive or negative velocity).
I programmed it using Python, but now, in the scope of my project, I'd like to simulate the same thing but on a torus. To give you a good glimpse of how it looked like, please take a look at the following pic :
Transformation from a rectangle to a torus
(Imagine my initial 2D plan is the initial rectangle, which I'd like to transform into the final torus).
Therefore, in that case we would see every particle moving on the surface of the torus. The previous 1st picture would correspond to particles gathered on a "single" circus of the torus, and the previous 2nd picture would correspond to the "filling up" the entire surface of the torus.
Since my code for previous simulations was written in Python, I am wondering if I can still use it for this task. If so, I'd like to have some clues about how to do it, and otherwise, what would be the best language to use for this ?
I hope I have been clear. I apologize in advance for some mistakes I could have done with English.

Sort points in 2D space to make a spline

I have a sequence of points which are distributed in 2D space. They represent a shape but they are not ordered. So, I can plot them as points to give an idea of the shape, but if I plot the line connecting them, I miss the shape because the order of points is not the right order of connection.
I'm wondering, how can I put them in the right order such that, if I connect them one by one in sequence, I get a spline showing the shape they represent? I found and tried the convex hull in Matlab but with no results. The shape could be complex, for example a star and with convex hull I get a shape that is too much simplified (many points are not taken into account).
Thanks for help!
EDIT
Could be everything the image. I've randomly created one to show you a possible case, with some parts that are coming into the shape, and also points can have different distances.
I've tried with convex hull function in Matlab, that's what I get. Every time the contour have a "sharp corner", I miss it and the final shape is not what I'm looking for. Also, Matlab function has no parameter to set to change convex hull result (at least I can't see anything in the help).
hull = convhull(coords(:,1),coords(:,2));
plot(coords(hull,1),coords(hull,2),'.r');
You need to somehow order your points, so they can be in a sequence; in the case of your drawing example, the points can likely be ordered using the minimal distance, to the next -not yet used- point, starting at one end (you'll probably have to provide the end).
Then you can draw a spline, maybe using Chaikin's algorithm for curves that will locally approximate a bezier curve.
You need to start working on this, and post another question with your code, if you are having difficulties.
Alpha shapes may perform better than convexhulls for this problem. Alpha shapes will touch all the points in the exterior of a point cloud, even can carve out holes.
But for complicated shape reconstruction, I would recommend you to try a beta-skeleton bsed approach discussed in https://people.eecs.berkeley.edu/~jrs/meshpapers/AmentaBernEppstein.pdf
See more details on β-Skeleton at https://en.wikipedia.org/wiki/Beta_skeleton
Quote from the linked article:
The circle-based β-skeleton may be used in image analysis to reconstruct the shape of a two-dimensional object, given a set of sample points on the boundary of the object (a computational form of the connect the dots puzzle where the sequence in which the dots are to be connected must be deduced by an algorithm rather than being given as part of the puzzle).
it is possible to prove that the choice β = 1.7 will correctly reconstruct the entire boundary of any smooth surface, and not generate any edges that do not belong to the boundary, as long as the samples are generated sufficiently densely relative to the local curvature of the surface
Cheers

Corner detection in an array of points

I get a pointcloud from my lidar which is basically an numpy array of points in 2D cartesian coordinates. Is there any efficient way to detect corners formed by such 2D points?
What I tried until now was to detect clusters, then apply RANSAC on each cluster to detect two lines and then estimate the intersection point of those two lines. This method works well when I know how many clusters I have (in this case I put 3 boxes in front of my robot) and when the surrounding of the robot is free and no other objects are detected.
What I would like to do is run a general corner detection, then take the points surrounding each corner and check if lines are orthogonal. If it is the case then I can consider this corner as feature. This would make my algorithm more flexible when it comes to the surrounding environment.
Here is a visualization of the data I get:
There are many many ways to do this. First thing I'd try in your case would be to chain with a reasonable distance threshold for discontinuities, using the natural lidar scan ordering of the points. Then it become a problem of either estimating local curature or, as you have done, grow and merge linear segments.

Pipeline to create Voronoi Meshes

I would like to implement a Maya plugin (this question is independent from Maya) to create 3D Voronoi patterns, Something like
I just know that I have to start from point sampling (I implemented the adaptive poisson sampling algorithm described in this paper).
I thought that, from those points, I should create the 3D wire of the mesh applying Voronoi but the result was something different from what I expected.
Here are a few example of what I get handling the result i get from scipy.spatial.Voronoi like this (as suggested here):
vor = Voronoi(points)
for vpair in vor.ridge_vertices:
for i in range(len(vpair) - 1):
if all(x >= 0 for x in vpair):
v0 = vor.vertices[vpair[i]]
v1 = vor.vertices[vpair[i+1]]
create_line(v0.tolist(), v1.tolist())
The grey vertices are the sampled points (the original shape was a simple sphere):
Here is a more complex shape (an arm)
I am missing something? Can anyone suggest the proper pipeline and algorithms I have to implement to create such patterns?
I saw your question since you posted it but didn’t have a real answer for you, however as I see you still didn’t get any response I’ll at least write down some ideas from me. Unfortunately it’s still not a full solution for your problem.
For me it seems you’re mixing few separate problems in this question so it would help to break it down to few pieces:
Voronoi diagram:
The diagram is by definition infinite, so when you draw it directly you should expect a similar mess you’ve got on your second image, so this seems fine. I don’t know how the SciPy does that, but the implementation I’ve used flagged some edge ends as ‘infinite’ and provided me the edges direction, so I could clip it at some distance by myself. You’ll need to check the exact data you get from SciPy.
In the 3D world you’ll almost always want to remove such infinite areas to get any meaningful rendering, or at least remove the area that contains your camera.
Points generation:
The Poisson disc is fine as some sample data or for early R&D but it’s also the most boring one :). You’ll need more ways to generate input points.
I tried to imagine the input needed for your ball-like example and I came up with something like this:
Create two spheres of points, with the same center but different radius.
When you create a Voronoi diagram out of it and remove infinite areas you should end up with something like a football ball.
If you created both spheres randomly you’ll get very irregular boundaries of the ‘ball’, but if you scale the points of one sphere, to use for the 2nd one you should get a regular mesh, similar to ball. You can also use similar points, but add some random offset to control the level of surface irregularity.
Get your computed diagram and for each edge create few points along this edge - this will give you small areas building up the edges of bigger areas. Play with random offsets again. Try to ignore edges, that doesn't touch any infinite region to get result similar to your image.
Get the points from both stages and compute the diagram once more.
Mesh generation:
Up to now it didn’t look like your target images. In fact it may be really hard to do it with production quality (for a Maya plugin) but I see some tricks that may help.
What I would try first would be to get all my edges and extrude some circle along them. You may modulate circle size to make it slightly bigger at the ends. Then do Boolean ‘OR’ between all those meshes and some Mesh Smooth at the end.
This way may give you similar results but you’ll need to be careful at mesh intersections, they can get ugly and need some special treatment.

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