What are barycentric calculations used for? - math

I've been looking at XNA's Barycentric method and the descriptions I find online are pretty opaque to me. An example would be nice. Just an explanation in English would be great... what is the purpose and how could it be used?

From Wikipedia:
In geometry, the barycentric coordinate system is a coordinate system in which the location of a point is specified as the center of mass, or barycenter, of masses placed at the vertices of a simplex (a triangle, tetrahedron, etc).
They are used, I believe, for raytracing in game development.
When a ray intersects a triangle in a normal mesh, you just record it as either a hit or a miss. But if you want to implement a subsurf modifier (image below), which makes meshes much smoother, you will need the distance the ray hit from the center of the triangle (which is much easier to work with in Barycentric coordinates).
Subsurf modifiers are not that hard to visualize:
The cube is the original shape, and the smooth mesh inside is the "subsurfed" cube, I think with a recursion depth of three or four.
Actually, that might not be correct. Don't take my exact word for it, but I do know that they are used for texture mapping on geometric shapes.
Here's a little set of slides you can look at: http://www8.cs.umu.se/kurser/TDBC07/HT04/handouts/HO-lecture11.pdf

In practice the barycentric coordinates of a point P in respect of a triangle ABC are just its weights (u,v,w) according to the triangle's vertices, such that P = u*A + v*B + w*C. If the point lies within the triangle, you got u,v,w in [0,1] and u+v+w = 1.
They are used for any task involving knowledge of a point's location in respect to the vertices of a triangle, like e.g. interpolation of attributes across a triangle. For example in raytracing you got a hitpoint inside the triangle. When you want to know that point's normal or other attributes, you compute its barycentric coordinates within the triangle. Then you can use these weights to sum up the attributes of the triangle's vertices and you got the interpolated attribute.
To compute a point P's barycentric coordinates (u,v,w) within a triangle ABC you can use:
u = [PBC] / [ABC]
v = [APC] / [ABC]
w = [ABP] / [ABC]
where [ABC] denotes the area of the triangle ABC.

Related

Formula for calculating camera x,y,z position to force 3D point to appear at left side of the screen and rightmost position on the globe

I'd need a formula to calculate 3D position and direction or orientation of a camera in a following situation:
Camera starting position is looking directly into center of the Earth. Green line goes straight up to the sky
Position that camera needs to move to is looking like this
Starting position probably shouldn't matter, but the question is:
How to calculate camera position and direction given 3D coordinates of any point on the globe. In the camera final position, the distance from Earth is always fixed. From desired camera point of view, the chosen point should appear at the rightmost point of a globe.
I think what you want for camera position is a point on the intersection of a plane parallel to the tangent plane at the location, but somewhat further from the Center, and a sphere representing the fixed distance the camera should be from the center. The intersection will be a circle, so there are infinitely many camera positions that work.
Camera direction will be 1/2 determined by the location and 1/2 determined by how much earth you want in the picture.
Suppose (0,0,0) is the center of the earth, Re is the radius of the earth, and (a,b,c) is the location on the earth you want to look at. If it's in terms of latitude and longitude you should convert to Cartesian coordinates which is straightforward. Your camera should be on a plane perpendicular to the vector (a,b,c) and at a height kRe above the earth where k>1 is some number you can adjust. The equation for the plane is then ax+by+cz=d where d = kRe^2. Note that the plane passes through the point (ka,kb,kc) in space, which is what we wanted.
Since you want the camera to be at a certain height above the earth, say h*Re where 1 < k < h, you need to find points on ax+by+cz=d for which x^2+y^2+z^2 = h^2*Re^2. So we need the intersection of the plane and a sphere. It will be easier to manage if we have a coordinate system on the plane, which we get from an orthonormal system which includes (a,b,c). A good candidate for the second vector in the orthonormal system is the projection of the z-axis (polar axis, I assume). Projecting (0,0,1) onto (a,b,c),
proj_(a,b,c)(0,0,1) = (a,b,c).(0,0,1)/|(a,b,c)|^2 (a,b,c)
= c/Re^2 (a,b,c)
Then the "horizontal component" of (0,0,1) is
u = proj_Plane(0,0,1) = (0,0,1) - c/Re^2 (a,b,c)
= (-ac/Re^2,-bc/Re^2,1-c^2/Re^2)
You can normalize the vector to length 1 if you wish but there's no need. However, you do need to calculate and store the square of the length of the vector, namely
|u|^2 = ((ac)^2 + (bc)^2 + (Re^2-c^2))/Re^4
We could complicate this further by taking the cross product of (0,0,1) and the previous vector to get the third vector in the orthonormal system, then obtain a parametric equation for the intersection of the plane and sphere on which the camera lies, but if you just want the simplest answer we won't do that.
Now we need to solve for t such that
|(ka,kb,kc)+t(-ac/Re^2,-bc/Re^2,1-c^2/Re^2)|^2 = h^2 Re^2
|(ka,kb,kc)|^2 + 2t (a,b,c).u + t^2 |u|^2 = h^2 Re^2
Since (a,b,c) and u are perpendicular, the middle term drops out, and you have
t^2 = (h^2 Re^2 - k^2 Re^2)/|u|^2.
Substituting that value of t into
(ka,kb,kc)+t(-ac/Re^2,-bc/Re^2,1-c^2/Re^2)
gives the position of the camera in space.
As for direction, you'll have to experiment with that a bit. Some vector that looks like
(a,b,c) + s(-ac/Re^2,-bc/Re^2,1-c^2/Re^2)
should work. It's hard to say a priori because it depends on the camera magnification, width of the view screen, etc. I'm not sure offhand whether you'll need positive or negative values for s. You may also need to rotate the camera viewport, possibly by 90 degrees, I'm not sure.
If this doesn't work out, it's possible I made an error. Let me know how it works out and I'll check.

In a TBN Matrix are the normal, tangent, and bitangent vectors always perpendicular?

This is related to a problem described in another question (images there):
Opengl shader problems - weird light reflection artifacts
I have a .obj importer that creates a data structure and calculates the tangents and bitangents. Here is the data for the first triangle in my object:
My understanding of tangent space is that the normal points outward from the vertex, the tangent is perpendicular (orthogonal?) to the normal vector and points in the direction of positive S in the texture, and the bitangent is perpendicular to both. I'm not sure what you call it but I thought that these 3 vectors formed what would look like a rotated or transformed x,y,z axis. They wouldn't be 3 randomly oriented vectors, right?
Also my understanding: The normals in a normal map provide a new normal vector. But in tangent space texture maps there is no built in orientation between the rgb encoded normal and the per vertex normal. So you use a TBN matrix to bridge the gap and get them in the same space (or get the lighting in the right space).
But then I saw the object data... My structure has 270 vertices and all of them have a 0 for the Tangent Y. Is that correct for tangent data? Are these tangents in like a vertex normal space or something? Or do they just look completely wrong? Or am I confused about how this works and my data is right?
To get closer to solving my problem in the other question I need to make sure my data is right and my understanding on how tangent space lighting math works.
The tangent and bitangent vectors point in the direction of the S and T components of the texture coordinate (U and V for people not used to OpenGL terms). So the tangent vector points along S and the bitangent points along T.
So yes, these do not have to be orthogonal to either the normal or each other. They follow the direction of the texture mapping. Indeed, that's their purpose: to allow you to transform normals from model space into the texture's space. They define a mapping from model space into the space of the texture.
The tangent and bitangent will only be orthogonal to each other if the S and T components at that vertex are orthogonal. That is, if the texture mapping has no sheering. And while most texture mapping algorithms will try to minimize sheering, they can't eliminate it. So if you want an accurate matrix, you need a non-orthogonal tangent and bitangent.

Projection matrix point to sphere surface

I need to project a 3D object onto a sphere's surface (uhm.. like casting a shadow).
AFAIR this should be possible with a projection matrix.
If the "shadow receiver" was a plane, then my projection matrix would be a 3D to 2D-plane projection, but my receiver in this case is a 3D spherical surface.
So given sphere1(centerpoint,radius),sphere2(othercenter,otherradius) and an eyepoint how can I compute a matrix that projects all points from sphere2 onto sphere1 (like casting a shadow).
Do you mean that given a vertex v you want the following projection:
v'= centerpoint + (v - centerpoint) * (radius / |v - centerpoint|)
This is not possible with a projection matrix. You could easily do it in a shader though.
Matrixes are commonly used to represent linear operations, like projection onto a plane.
In your case, the resulting vertices aren't deduced from input using a linear function, so this projection is not possible using a matrix.
If the sphere1 is sphere((0,0,0),1), that is, the sphere of radius 1 centered at the origin, then you're in effect asking for a way to convert any location (x,y,z) in 3D to a corresponding location (x', y', z') on the unit sphere. This is equivalent to vector renormalization: (x',y',z') = (x,y,z)/sqrt(x^2+y^2+z^2).
If sphere1 is not the unit sphere, but is say sphere((a,b,c),R) you can do mostly the same thing:
(x',y',z') = R*(x-a,y-b,z-c) / sqrt((x-a)^2+(y-b)^2+(z-c)^2) + (a,b,c). This is equivalent to changing coordinates so the first sphere is the unit sphere, solving the problem, then changing coordinates back.
As people have pointed out, these functions are nonlinear, so the projection cannot be called a "matrix." But if you prefer for some reason to start with a projection matrix, you could project first from 3D to a plane, then from a plane to the sphere. I'm not sure if that would be any better though.
Finally, let me point out that linear maps don't produce division-by-zero errors, but if you look closely at the formulas above, you'll see that this map can. Geometrically, that's because it's hard to project the center point of a sphere to its boundary.

circles and triangles problem

I have an interesting problem here I've been trying to solve for the last little while:
I have 3 circles on a 2D xy plane, each with the same known radius. I know the coordinates of each of the three centers (they are arbitrary and can be anywhere).
What is the largest triangle that can be drawn such that each vertex of the triangle sits on a separate circle, what are the coordinates of those verticies?
I've been looking at this problem for hours and asked a bunch of people but so far only one person has been able to suggest a plausible solution (though I have no way of proving it).
The solution that we have come up with involves first creating a triangle about the three circle centers. Next we look at each circle individually and calculate the equation of a line that passes through the circle's center and is perpendicular to the opposite edge. We then calculate two intersection points of the circle. This is then done for the next two circles with a result of 6 points. We iterate over the 8 possible 3 point triangles that these 6 points create (the restriction is that each point of the big triangle must be on a separate circle) and find the maximum size.
The results look reasonable (at least when drawn out on paper) and it passes the special case of when the centers of the circles all fall on a straight line (gives a known largest triangle). Unfortunate i have no way of proving this is correct or not.
I'm wondering if anyone has encountered a problem similar to this and if so, how did you solve it?
Note: I understand that this is mostly a math question and not programming, however it is going to be implemented in code and it must be optimized to run very fast and efficient. In fact, I already have the above solution in code and tested to be working, if you would like to take a look, please let me know, i chose not to post it because its all in vector form and pretty much impossible to figure out exactly what is going on (because it's been condensed to be more efficient).
Lastly, yes this is for school work, though it is NOT a homework question/assignment/project. It's part of my graduate thesis (abet a very very small part, but still technically is part of it).
Thanks for your help.
Edit: Heres a new algorithm that i came up with a little while ago.
Starting at a circle's centre, draw a line to the other two centres. Calculate the line that bisects the angle created and calculate the intersections between the circle and the line that passes through the centre of your circle. You will get 2 results. Repeat this for the other two circles to get a total of 6 points. Iterate over these 6 points and get 8 possible solutions. Find the maximum of the 8 solutions.
This algorithm will deal with the collinear case if you draw your lines in one "direction" about the three points.
From the few random trials i have attempted using CAD software to figure out the geometries for me, this method seems to outperform all other methods previously stated However, it has already been proven to not be an optimal solution by one of Victor's counter examples.
I'll code this up tomorrow, for some reason I've lost remote access to my university computer and most things are on it.
I've taken the liberty of submitting a second answer, because my original answer referred to an online app that people could play with to get insight. The answer here is more a geometric argument.
The following diagram illuminates, I hope, what is going on. Much of this was inspired by #Federico Ramponi's observation that the largest triangle is characterized by the tangent at each vertex being parallel to the opposite side.
(source: brainjam.ca)
The picture was produced using a trial version of the excellent desktop program Geometry Expressions. The diagram shows the three circles centered at points A,E, and C. They have equal radii, but the picture doesn't really depend on the radii being equal, so the solution generalizes to circles of different radii. The lines MN, NO, and OM are tangent to the circles, and touch the circles at the points I,H, and G respectively. The latter points form the inner triangle IHG which is the triangle whose size we want to maximize.
There is also an exterior triangle MNO which is homethetic to the interior triangle, meaning that its sides are parallel to that of IHG.
#Federico observed that IHG has maximal area because moving any of its vertices along the corresponding circle will result an a triangle that has the same base but less height, therefore less area. To put it in slightly more technical terms, if the triangle is parameterized by angles t1,t2,t3 on the three circles (as pointed out by #Charles Stewart, and as used in my steepest descent canvas app), then the gradient of the area w.r.t to (t1,t2,t3) is (0,0,0), and the area is extremal (maximal in the diagram).
So how is this diagram computed? I'll admit in advance that I don't quite have the full story, but here's a start. Given the three circles, select a point M. Draw tangents to the circles centered at E and C, and designate the tangent points as G and I. Draw a tangent OHN to the circle centered at A that is parallel to GI. These are fairly straightforward operations both algebraically and geometrically.
But we aren't finished. So far we only have the condition that OHN is parallel to GI. We have no guarantee that MGO is parallel to IH or that MIN is parallel to GH. So we have to go back and refine M. In an interactive geometry program it's no big deal to set this up and then move M until the latter parallel conditions are met (by eyeballs, anyways). Geometry Expressions created the diagram, but I used a bit of a cheat to get it to do so, because its constraint solver was apparently not powerful enough to do the job. The algebraic expressions for G, I, and H are reasonably straightforward, so it should be possible to solve for M based on the fact that MIHG is a parallelogram, either explicitly or numerically.
I should point out that in general if you follow the construction starting from M, you have two choices of tangent for each circle, and therefore eight possible solutions. As in the other attempted answers to the question, unless you have a good heuristic to help you choose in advance which of the tangents to compute, you should probably compute all eight possible triangles and find the one with maximum area. The other seven will be extremal in the sense of being minimal area or saddle points.
That's it. This answer is not quite complete in that it leaves the final computation of M somewhat open ended. But it's reduced to either a 2D search space or the solution of an ornery but not humongous equation.
Finally, I have to disagree with #Federico's conclusion that this confirms that the solution proposed by the OP is optimal. It's true that if you draw perpendiculars from the circle centers to the opposite edge of the inner triangle, those perpendiculars intersect the circle to give you the triangle vertex. E.g. H lies on the line through A perpendicular to GI), but this is not the same as in the original proposed solution (which was to take the line through A and perpendicular to EC - in general EC is not parallel to GI).
I've created an HTML5 canvas app that may be useful for people to play with. It's pretty basic (and the code is not beautiful), but it lets you move three circles of equal radius, and then calculates a maximal triangle using gradient/steepest descent. You can also save bitmaps of the diagram. The diagram also shows the triangle whose vertices are the circle centers, and one of the altitudes. Edit1: the "altitude" is really just a line segment through one of the circle centers and perpendicular to the opposite edge of the triangle joining the centers. It's there because some of the suggested constructions use it. Edit2: the steepest descent method sometimes gets stuck in a local maximum. You can get out of that maximum by moving a circle until the black triangle flips and then bringing the circle back to its original position. Working on how to find the global maximum.
This won't work in IE because it doesn't support canvas, but most other "modern" browsers should work.
I did this partially because I found some of the arguments on this page questionable, and partially because I've never programmed a steepest descent and wanted to see how that worked. Anyways, I hope this helps, and I hope to weigh in with some more comments later.
Edit: I've looked at the geometry a little more and have written up my findings in a separate answer.
Let A, B, C be the vertexes of your triangle, and suppose they are placed as in your solution.
Notice that the key property of your construction is that each of the vertexes lies on a tangent to its circle which is parallel to the opposite side of the triangle. Obviously, the circle itself lies entirely on one side of the tangent, and in the optimal solution each tangent leaves its circle on the same side as the other vertexes.
Consider AB as the "base" of the triangle, and let C float in its circle. If you move C to another position C' within the circle, you will obtain another triangle ABC' with the same base but a smaller height, hence also with a smaller area:
figure 1 http://control.ee.ethz.ch/~ramponif/stuff/circles1.png
For the same reason, you can easily see that any position of the vertexes that doesn't follow your construction cannot be optimal. Suppose, for instance, that each one of the vertexes A', B', C' does not lie on a tangent parallel to the side connecting the other two.
Then, constructing the tangent to the circle that contains (say) C', which is parallel to A'B' and leaves the circle on the same side as A'B', and moving C' to the point of tangency C, it is always possible to construct a triangle A'B'C which has the same base, but a greater height, hence also a greater area:
figure 2 http://control.ee.ethz.ch/~ramponif/stuff/circles2.png
Since any triangle that does not follow your construction cannot be optimal, I do believe that your construction is optimal. In the case when the centers of the circles are aligned I'm a bit confused, but I guess that it is possible to prove optimality along the same lines.
I believe this is a convex optimization problem (no it's not, see below), and hence can be solved efficiently using well known methods.
You essentially want to solve the problem:
maximize: area(v1,v2,v3) ~ |cross((v2-v1), (v3-v1))|
such that: v1 in C1, v2 in C2, v3 in C3 (i.e., v_i-c_i)^2 - r_i^2 <= 0)
Each of the constraints are convex, and the area function is convex as well. Now, I don't know if there is a more efficient formulation, but you can at least use an interior point method with derivatives since the derivative of the area with respect to each vertex position can be worked out analytically (I have it written down somewhere...).
Edit: grad(area(v1,v2,v3))(v_i) = rot90(vec(vj,vk)), where vec(a,b) is making a 2D vector starting at a and ending at b, and rot90 means a positive orientation rotation by 90 degrees, assuming (vi,vj,vk) was positively oriented.
Edit 2: The problem is not convex, as should be obvious considering the collinear case; two degenerate solutions is a sure sign of non-convexity. However, the configuration starting at the circle centers should be in the globally optimal local maximum.
Not optimal, works well when all three are not colinear:
I don't have a proof (and therefore don't know if it's guaranteed to be biggest). Maybe I'll work on one. But:
We have three circles with radius R with positions (from center) P0, P1, and P2. We wish to find the vertices of a triangle such that the area of the triangle is maximum, and the vertices lie on any point of the circles edges.
Find the center of all the circles and call that C. Then C = (P0 + P1 + P2) / 3. Then we find the point on each circle farthest from C.
Find vectors V0, V1, and V2, where Vi = Pi - C. Then find points Q0, Q1, and Q2, where Qi = norm(Vi) * R + Pi. Where norm indicates normalization of a vector, norm(V) = V / |V|.
Q0, Q1, and Q2 are the vertices of the triangle. I assume this is optimal because this is the farthest the vertices could be from each other. (I think.)
My first thought is that you should be able to find an analytic solution.
Then the equations of the circles are:
(x1-h1)^2 + (y1-k1)^2 = r^2
(x2-h2)^2 + (y2-k2)^2 = r^2
(x3-h3)^2 + (y3-k3)^2 = r^2
The vertices of your triangle are (x1, y1), (x2, y2), and (x3, y3). The side lengths of your triangle are
A = sqrt((x1-x2)^2 + (y1-y2)^2)
B = sqrt((x1-x3)^2 + (y1-y3)^2)
C = sqrt((x2-x3)^2 + (y2-y3)^2)
So the area of the triangle is (using Heron's formula)
S = (A+B+C)/2
area = sqrt(S(S-A)(S-B)(S-C))
So area is a function of 6 variables.
At this point I realize this is not a fruitful line of reasoning. This is more like something I'd drop into a simulated annealing system.
So my second thought is to choose the point on circle with centre A as follows: Construct line BC joining the centres of the other two circles, then construct the line AD that is perpendicular to BC and passes through A. One vertex of the triangle is the intersection of AD and circle with centre A. Likewise for the other vertices. I can't prove this but I think it gives different results than the simple "furthest from the centre of all the circles" method, and for some reason it feels better to me. I know, not very mathematical, but then I'm a programmer.
Let's assume the center of the circles to be C0,C1 and C2; and the radius R.
Since the area of a triangle is .5*base*height, let's first find the maximum base that can be constructed with the circles.
Base = Max {(|C0-C1|+2R),(|C1-C2|+2R,(|C2-C0|+2R}
Once the base length is determined between 2 circles, then we can find the farthest perpendicular point from the base line to the third circle. (product of the their slopes is -1)
For special cases such as circles aligned in a single line, we need to perform additional checks at the time of determining the base line.
It appears that finding the largest Apollonius circle for the three circles and then inscribing an equilateral triangle in that circle would be a solution. Proof left as an exercise ;).
EDIT
This method has issues for collinear circles like other solutions here, too and doesn't work.
Some initial thoughts.
Definition Call the sought-after triangle, the maximal triangle. Note that this might not be unique: if the circles all have the same centre, then there are infinitely many maximal triangles obtained by rotation around the center, and if the centres are colinear, then there will be two maximal triangles, each a mirror image of the other.
Definition Call the triangle (possibly, degenerately, either a point or a line) whose vertices are the centres of the circles the interior triangle.
Observation The solution can be expressed as three angles, indicating where on the circumference of each circle the triangle is to be found.
Observation Given two exterior vertices, we can determine a third vertex that gives the maximal area: draw the altitude of the triangle between the two exterior vertices and the centre of the other circle. This line intersects the circumference in two places; the further away point is the maximising choice of third vertex. (Fixed incorrect algorithm, Federico's argument can be adapted to show correctness of this observation)
Consequence The problem is reduced to from a problem in three angles to one in two.
Conjecture Imagine the diagram is a pinboard, with three pins at the three centres of the circles. Imagine also a closed loop of string of length equal to the perimiter of the interior triangle, plus the radius of a circle, and we place this loop around the pins. Take an imaginary pen and imaginarily draw the looping figure where the loop is always tight. I conjecture that the points of the maximal triangle will all lie on this looping figure, and that in the case where the interior triangle is not degenerate, the vertices of the maximal triangle will be the three points where the looping figure intersects one of the circle circumferences. Many counterexamples
More to follow when I can spare time to think about it.
This is just a thought, no proof or math to go along with the construction just yet. It requires that the circle centers not be colinear if the radii are the same for each circle. This restriction can be relaxed if the radii are different.
Construction:
(1) Construct a triangle such that each side of the triangle is tangent to two circles, and therefore, each circle has a tangent point on two sides of the triangle.
(2) Draw the chord between these two tangent points on each circle
(3) Find the point on the boundary of the circle on the extended ray starting at the circle's center through the midpoint of the chord. There should be one such point on each of the three circles.
(4) Connect them three points of (3) to fom a triangle.
At that point I don't know if it's the largest such triangle, but if you're looking for something approximate, this might be it.
Later: You might be able to find an approximate answer for the degenerate case by perturbing the "middle" circle slightly in a direction perpendicular to the line connecting the three circles.

How to compute a pair of closest points on two 3d circles?

I have two 2d circles in 3d space (defined by a center, normal, and radius) and I'm trying to come up with a pair of points that is one of the set of closest pairs of points. I know that there are anywhere from 1 to an infinite number of point pairs, I just need a single matching pair.
Is there a simple way to do that? Precision is not essential. The radius of both circles are the same, non-zero value.
In case the background is helpful, my overall algorithm takes in a NURBS curve in space and extrudes a 2d polygon along the curve, yielding a deformed cylinder. I just sample several points along the curve. The normal of each circle is the NURBS curve tangent, and I'm trying to figure out how to align adjacent samples, so I don't get weird twisting. It seems that the closest points on adjacent samples should be aligned.
Thanks for all the responses here.. this part of the project got a little delayed, which is why I haven't tested all the answers yet. I'll be sure to toss up some images here and mark an answer when I get to work on this again.
What you are really trying to compute is the pair of points that minimizes the distance between points that lie on 2 different circles in 3 dimensions. The method that you should be employing to find the exact solution (as in almost all optimization problems) is to represent the distance as a function of all possible points and to take its derivate with respect to the independent variables and set the resulting expressions to 0. Since you have 2 circles, you will have 2 independent variables (ie. the angle of a point on one circle and one on the other circle). Once you have solved the minimization equations you would have also found the points on the circles that will satisfy your constraint. (Basically you will find the angles on the circles for the pair of points you are looking for.)
I have found a paper online (at this site) that rigorously goes through with the calculations but the end result is solving an 8th order polynomial equation. You might try to simplify the equations and come up with a less exact solution that satisfies your needs.
There is also an paper that claims to have a much faster algorithm for finding the distance between two circles in 3d; however, I cannot view the contents and, thus, cannot tell if it also gives you the pair of points that satisfy that condition.
UPDATE: Having re-read your question, I see that even though you are asking for a way to find the closest pair of points on two circles in 3 dimensions, I think, you should pay more attention to the properties of the NURBS curve that you are trying to extrude the 2D polygon along. You mention that the orientation of the circle at a given point on the curve is specified by the tangent vector at that point. However, there is more to 3D curves than just the tangent vector; there is the normal (or curvature) vector that points towards the center of curvature of the curve at a given point and then there is the torsion vector that basically specifies the amount of "lift" of the curve from the plane given by the tangent and the normal vectors. All of these define a (what is called) Frenet frame. You can read up more on these at the Wikipedia article.
My suspicion is that you can achieve the effect you desire by joining the points of consecutive circles that each lie along the the normal vector direction of the underlying 3D curve. That way, you will have twisting only when the curve is actually twisting, ie when the torsion vector is non-zero and the normal vector is changing direction as well. In other circumstances, this should satisfy your actual need.
You probably don't need the overkill of finding closest points on consecutive circles.
For what you describe, it is sufficient to select a point on the perimeter of the first circle and find the point on the perimeter of each circle along that is closest to the one selected for the previous circle; this will completely constrain the polygonization, with no twisting, and should be much easier to solve than the general case - simply find the point on the plane containing the second circle that is closest to that selected in the first, and intersect the line passing through that point and the second circle's center with the second circle's perimeter.
However, this might not yield as pleasing a polygonisation for the extruded cylinder as keeping the polygon area constant as possible, and to do that will require some twisting between adjacent circles.
Yikes, unless the circles happen to be on the same plane or parallel planes I think the only way to do it is to find a minimum on the equation of the distance between two points on the circle.
http://www.physicsforums.com/showthread.php?t=123168
That link shows how to get the equation of each circle in 3D space, then minimize for the distance formula between those equations. Not pretty though, hopefully someone will come up with something more clever.
I think with the two closest points you might still get weird twisting... An extreme example: Let's assume both circles have the R=1. If the first circle's centre is O, and it is sitting on X-Y plane, and the second circle's centre is sitting at X=1,Y=0,Z=0.01, and it just slightly tilted in the growing direction of X, the closest points on the two circles will for sure get the "weird twist" you are trying to avoid. Since the closest points would not get you the weird twist in case the second circle is at X=0,Y=0,Z=0.01 and is equally tilted, then at some point the statements "aligned to two closest points on two circles" and "no weird twisting seen" no longer correspond to each other.
Assuming this can happen within the constraint of NURBS, here's another idea. In the start, take the three points on the NURBS curve - two that belong to the centers of your circles, and the third one precisely inbetween. Draw a plane between the three. This plane will cross the two circles at 4 points. Two of these points will be on the same "side" of the line that connects the centers of the circles - they are your alignment points.
For the next alignment points you would take the alignment point of the "previous circle", and draw the plane between the center of the "previous circle", this alignment point, and the center of the "new circle". From this you get the "next alignment point" based on the intersection with the other circle.
Next step - "previous circle" = "new circle", and the "new circle" - your next one according to the NURBS curve.
If the radii from the centers of the circles to the selected alignment points cross, you know you the picture will look a bit ugly - that's the scenario where with the "closest point" algorithm you'd still get the weird twisting.
I think the coordinates of the point on the circle that is intersection with the plane going via its center should be easy to calculate (it's a point on the line made by intersection of the two planes, one of the circle and the target plane; at the distance R from the center).
I don't have the rigorous proof to fully assert or deny the above - but hopefully it helps at all, and I think it should be quick enough to verify, compared to calculating the closet points on the two circles... (If there are any flaws in my logic, the corrections in the comments are very welcome).
The thread here, mentioned in another answer gives the parameterization formula for a 3D circle: P = R cos(t) u + R sin(t) nxu + c, where u is a unit vector from the centre of the circle to any point on the circumference; R is the radius; n is a unit vector perpendicular to the plane and c is the centre of the circle, t goes from 0 to 2pi, and by nxu I mean "n cross u". Parameterize one circle this way, and another similarly with a different parameter, say s. Then each point Pt on the first circle will have coordinates in the variable t, and each point Ps on the second circle will have coordinates in the variable s.
Write the distance function d(s,t) between Ps and Pt in the usual way (or better, the square of the Euclidean distance so you don't have to mess with the square root when you take derivatives). The graph of this function d of two variables is a surface over a 2pi by 2pi square in the s,t plane, and it's minimum is what you're after. You can determine it with the standard calculus methods, e.g. as explained here.
Extend the circles to planes (using the center points and normals). If the planes are parallel, then any points will do. If the planes are not parallel, then they intersect in a line. Construct the plane through the two centers of the circles perpendicular to the line. The two circles intersect this new plane in four points. These four points are the two nearest points and the two farthest points on the circles.
Isn't this just a matter of constructing the line between the two centers of the circles/spheres and finding the intersection of the line and the circles? The solutions that are closest are it (unless the circle intersect, then the answer depends on how you want to interpret that case).

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