return getPointAt(getTValue(pt));
}
- PVector rotatePoint(final PVector pt, final float rads) {
- Vec3D axisVec3D = new Vec3D(vector.x, vector.y, vector.z);
- Vec3D originVec3D = new Vec3D(origin.x, origin.y, origin.z);
- Matrix4x4 mat = new Matrix4x4().identity()
- .rotateAroundAxis(axisVec3D, rads);
- Vec3D ptVec3D = new Vec3D(pt.x, pt.y, pt.z).sub(originVec3D);
- Vec3D rotatedPt = mat.applyTo(ptVec3D).add(originVec3D);
- return new PVector(rotatedPt.x, rotatedPt.y, rotatedPt.z);
+ PVector rotatePoint(final PVector p, final float t) {
+ final PVector o = origin;
+ final PVector v = vector;
+
+ final float cost = cos(t);
+ final float sint = sin(t);
+
+ float x = (o.x*(v.y*v.y + v.z*v.z) - v.x*(o.y*v.y + o.z*v.z - v.x*p.x - v.y*p.y - v.z*p.z))*(1 - cost) + p.x*cost + (-o.z*v.y + o.y*v.z - v.z*p.y + v.y*p.z)*sint;
+ float y = (o.y*(v.x*v.x + v.z*v.z) - v.y*(o.x*v.x + o.z*v.z - v.x*p.x - v.y*p.y - v.z*p.z))*(1 - cost) + p.y*cost + (o.z*v.x - o.x*v.z + v.z*p.x - v.x*p.z)*sint;
+ float z = (o.z*(v.x*v.x + v.y*v.y) - v.z*(o.x*v.x + o.y*v.y - v.x*p.x - v.y*p.y - v.z*p.z))*(1 - cost) + p.z*cost + (-o.y*v.x + o.x*v.y - v.y*p.x + v.x*p.y)*sint;
+ return new PVector(x, y, z);
}
}
Line getAxis() {
return axis;
}
+
+ PVector getPhaseNormal() {
+ return phaseNormal;
+ }
+
+ float getPhase() {
+ return phase;
+ }
- void step(int deltaMs) {
+ void step(double deltaMs) {
// Rotate
if (rotationPeriod != 0) {
this.phase = (phase + ((float)deltaMs / (float)rotationPeriod) * TWO_PI);
PVector middle = PVector.add(p, phaseNormal);
return axis.rotatePoint(middle, (t / period) * TWO_PI + phase);
}
+
+ private float myDist(PVector p1, PVector p2) {
+ final float x = p2.x-p1.x;
+ final float y = p2.y-p1.y;
+ final float z = p2.z-p1.z;
+ return sqrt(x*x + y*y + z*z);
+ }
color colorOfPoint(final PVector p) {
- float t = axis.getTValue(p);
+ final float t = axis.getTValue(p);
+ final PVector axisPoint = axis.getPointAt(t);
// For performance reasons, cut out points that are outside of
// the tube where the toroidal coil lives.
- if (abs(PVector.dist(p, axis.getPointAt(t)) - radius) > girth*.5f) {
- return color(0,0,0);
+ if (abs(myDist(p, axisPoint) - radius) > girth*.5f) {
+ return lx.hsb(0,0,0);
}
// Find the appropriate point for the current rotation
// of the helix.
- PVector toroidPoint = pointOnToroidalAxis(t);
+ PVector toroidPoint = axisPoint;
+ toroidPoint.add(phaseNormal);
+ toroidPoint = axis.rotatePoint(toroidPoint, (t / period) * TWO_PI + phase);
// The rotated point represents the middle of the girth of
// the helix. Figure out if the current point is inside that
// region.
- float d = PVector.dist(p, toroidPoint);
+ float d = myDist(p, toroidPoint);
// Soften edges by fading brightness.
float b = constrain(100*(1 - ((d-.5*girth)/(girth*.5))), 0, 100);
- return color((lx.getBaseHuef() + (360*(phase / TWO_PI)))%360, 80, b);
+ return lx.hsb((lx.getBaseHuef() + (360*(phase / TWO_PI)))%360, 80, b);
+ }
+ }
+
+ private class BasePairInfo {
+ Line line;
+ float colorPhase1;
+ float colorPhase2;
+
+ BasePairInfo(Line line, float colorPhase1, float colorPhase2) {
+ this.line = line;
+ this.colorPhase1 = colorPhase1;
+ this.colorPhase2 = colorPhase2;
}
}
private final Helix h1;
private final Helix h2;
+ private final BasePairInfo[] basePairs;
private final BasicParameter helix1On = new BasicParameter("H1ON", 1);
private final BasicParameter helix2On = new BasicParameter("H2ON", 1);
-
private final BasicParameter basePairsOn = new BasicParameter("BPON", 1);
- private final BasicParameter spokePeriodParam = new BasicParameter("SPPD", 0.40);
- private final BasicParameter spokePhaseParam = new BasicParameter("SPPH", 0.25);
private static final float helixCoilPeriod = 100;
- private static final float helixCoilRadius = 45;
- private static final float helixCoilGirth = 20;
- private static final float helixCoilRotationPeriod = 10000;
+ private static final float helixCoilRadius = 50;
+ private static final float helixCoilGirth = 30;
+ private static final float helixCoilRotationPeriod = 5000;
+
+ private static final float spokePeriod = 40;
+ private static final float spokeGirth = 20;
+ private static final float spokePhase = 10;
+ private static final float spokeRadius = helixCoilRadius - helixCoilGirth*.5f;
+
+ private static final float tMin = -200;
+ private static final float tMax = 200;
public HelixPattern(GLucose glucose) {
super(glucose);
addParameter(helix1On);
addParameter(helix2On);
addParameter(basePairsOn);
- addParameter(spokePhaseParam);
- addParameter(spokePeriodParam);
- PVector origin = new PVector(100, 50, 45);
+ PVector origin = new PVector(100, 50, 55);
PVector axis = new PVector(1,0,0);
h1 = new Helix(
helixCoilGirth,
PI,
helixCoilRotationPeriod);
+
+ basePairs = new BasePairInfo[(int)floor((tMax - tMin)/spokePeriod)];
+ }
+
+ private void calculateSpokes() {
+ float colorPhase = PI/6;
+ for (float t = tMin + spokePhase; t < tMax; t += spokePeriod) {
+ int spokeIndex = (int)floor((t - tMin)/spokePeriod);
+ PVector h1point = h1.pointOnToroidalAxis(t);
+ PVector spokeCenter = h1.getAxis().getPointAt(t);
+ PVector spokeVector = PVector.sub(h1point, spokeCenter);
+ Line spokeLine = new Line(spokeCenter, spokeVector);
+ basePairs[spokeIndex] = new BasePairInfo(spokeLine, colorPhase * spokeIndex, colorPhase * (spokeIndex + 1));
+ }
+ }
+
+ private color calculateSpokeColor(final PVector pt) {
+ // Find the closest spoke's t-value and calculate its
+ // axis. Until everything animates in the model reference
+ // frame, this has to be calculated at every step because
+ // the helices rotate.
+ Line axis = h1.getAxis();
+ float t = axis.getTValue(pt) + spokePhase;
+ int spokeIndex = (int)floor((t - tMin + spokePeriod/2) / spokePeriod);
+ if (spokeIndex < 0 || spokeIndex >= basePairs.length) {
+ return lx.hsb(0,0,0);
+ }
+ BasePairInfo basePair = basePairs[spokeIndex];
+ Line spokeLine = basePair.line;
+ PVector pointOnSpoke = spokeLine.projectPoint(pt);
+ float d = PVector.dist(pt, pointOnSpoke);
+ float b = (PVector.dist(pointOnSpoke, spokeLine.getPoint()) < spokeRadius) ? constrain(100*(1 - ((d-.5*spokeGirth)/(spokeGirth*.5))), 0, 100) : 0.f;
+ float phase = spokeLine.getTValue(pointOnSpoke) < 0 ? basePair.colorPhase1 : basePair.colorPhase2;
+ return lx.hsb((lx.getBaseHuef() + (360*(phase / TWO_PI)))%360, 80.f, b);
}
- void run(int deltaMs) {
+ void run(double deltaMs) {
boolean h1on = helix1On.getValue() > 0.5;
boolean h2on = helix2On.getValue() > 0.5;
boolean spokesOn = (float)basePairsOn.getValue() > 0.5;
- float spokePeriod = (float)spokePeriodParam.getValue() * 100 + 1;
- float spokeGirth = 10;
- float spokePhase = (float)spokePhaseParam.getValue() * spokePeriod;
- float spokeRadius = helixCoilRadius - helixCoilGirth*.5f;
h1.step(deltaMs);
h2.step(deltaMs);
+ calculateSpokes();
- for (Point p : model.points) {
+ for (LXPoint p : model.points) {
PVector pt = new PVector(p.x,p.y,p.z);
color h1c = h1.colorOfPoint(pt);
color h2c = h2.colorOfPoint(pt);
-
- // Find the closest spoke's t-value and calculate its
- // axis. Until everything animates in the model reference
- // frame, this has to be calculated at every step because
- // the helices rotate.
- float t = h1.getAxis().getTValue(pt) + spokePhase;
- float spokeAxisTValue = floor(((t + spokePeriod/2) / spokePeriod)) * spokePeriod;
- PVector h1point = h1.pointOnToroidalAxis(spokeAxisTValue);
- PVector h2point = h2.pointOnToroidalAxis(spokeAxisTValue);
- PVector spokeVector = PVector.sub(h2point, h1point);
- spokeVector.normalize();
- Line spokeLine = new Line(h1point, spokeVector);
- float spokeLength = PVector.dist(h1point, h2point);
- // TODO(shaheen) investigate why h1.getAxis().getPointAt(spokeAxisTValue) doesn't quite
- // have the same value.
- PVector spokeCenter = PVector.add(h1point, PVector.mult(spokeVector, spokeLength/2.f));
- PVector spokeStart = PVector.add(spokeCenter, PVector.mult(spokeLine.getVector(), -spokeRadius));
- PVector spokeEnd = PVector.add(spokeCenter, PVector.mult(spokeLine.getVector(), spokeRadius));
- float spokeStartTValue = spokeLine.getTValue(spokeStart);
- float spokeEndTValue = spokeLine.getTValue(spokeEnd);
- PVector pointOnSpoke = spokeLine.projectPoint(pt);
- float projectedTValue = spokeLine.getTValue(pointOnSpoke);
- float percentage = constrain(PVector.dist(pointOnSpoke, spokeStart) / spokeLength, 0.f, 1.f);
- float b = ((PVector.dist(pt, pointOnSpoke) < spokeGirth) && (PVector.dist(pointOnSpoke, spokeCenter) < spokeRadius)) ? 100.f : 0.f;
-
- color spokeColor;
-
- if (spokeStartTValue < spokeEndTValue) {
- spokeColor = lerpColor(h1c, h2c, percentage);
- } else {
- spokeColor = lerpColor(h2c, h1c, percentage);
- }
-
- spokeColor = color(hue(spokeColor), 80.f, b);
+ color spokeColor = calculateSpokeColor(pt);
if (!h1on) {
- h1c = color(0,0,0);
+ h1c = lx.hsb(0,0,0);
}
if (!h2on) {
- h2c = color(0,0,0);
+ h2c = lx.hsb(0,0,0);
}
if (!spokesOn) {
- spokeColor = color(0,0,0);
+ spokeColor = lx.hsb(0,0,0);
}
// The helices are positioned to not overlap. If that changes,