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/dports/science/jmol/jmol-14.32.7/src/org/jmol/util/
H A DC.java338 return (colix > 0 && (colix & LAST_AVAILABLE_COLIX) == LAST_AVAILABLE_COLIX); in isColixLastAvailable()
341 public static int getArgb(short colix) { in getArgb() argument
342 return argbs[colix & OPAQUE_MASK]; in getArgb()
346 switch (colix) { in isColixColorInherited()
370 int c = colix & TRANSLUCENT_MASK; in renderPass2()
375 return ((colix & TRANSLUCENT_MASK) != 0); in isColixTranslucent()
379 return (colix >= 0 ? -1 : (short) (colix & UNMASK_CHANGEABLE_TRANSLUCENT)); in getChangeableColixIndex()
385 colix &= ~TRANSLUCENT_MASK; in getColixTranslucent3()
386 if (colix == INHERIT_ALL) in getColixTranslucent3()
387 colix = INHERIT_COLOR; in getColixTranslucent3()
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H A DGData.java172 if (colix < 0) in getColorArgbOrGray()
173 colix = changeableColixMap[colix & C.UNMASK_CHANGEABLE_TRANSLUCENT]; in getColorArgbOrGray()
174 return (inGreyscaleMode ? C.getArgbGreyscale(colix) : C.getArgb(colix)); in getColorArgbOrGray()
177 public int[] getShades(short colix) { in getShades() argument
178 if (colix < 0) in getShades()
179 colix = changeableColixMap[colix & C.UNMASK_CHANGEABLE_TRANSLUCENT]; in getShades()
181 .getShades(colix)); in getShades()
543 jmolRenderer.drawLineBits(colix, colix, screenA, screenB); in drawQuadrilateralBits()
544 jmolRenderer.drawLineBits(colix, colix, screenB, screenC); in drawQuadrilateralBits()
545 jmolRenderer.drawLineBits(colix, colix, screenC, screenD); in drawQuadrilateralBits()
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/dports/science/jmol/jmol-14.32.7/src/org/jmol/export/
H A D__RayTracerExporter.java96 short colix); in outputSphere() argument
103 short colix, boolean isBarb); in outputCone() argument
135 outputCircle(x, y, z, radius, colix, doFill); in drawCircle()
140 short colix, boolean doFill) { in drawEllipse() argument
146 void drawPixel(short colix, int x, int y, int z, int scale) { in drawPixel() argument
148 outputSphere(x, y, z, 0.75f * scale, colix); in drawPixel()
198 int madBond, short colix, in fillConicalCylinder() argument
245 void fillSphere(short colix, int diameter, P3 pt) { in fillSphere() argument
246 outputSphere(pt.x, pt.y, pt.z, diameter / 2f, colix); in fillSphere()
251 outputTriangle(ptA, ptB, ptC, colix); in fillTriangle()
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H A D_TachyonExporter.java149 outputTexture2(rgbFractionalFromColix(colix), in outputTexture()
150 opacityFractionalFromColix(colix), useTexDef); in outputTexture()
181 outputRing(x, y, z, tempV1, radius, colix, doFill); in outputCircle()
185 short colix, boolean doFill) { in outputRing() argument
186 outputTexture(colix, true); in outputRing()
205 export3D.drawSurface(getConeMesh(tempP1, matRotateScale, colix), colix); in outputCone() local
211 outputTexture(colix, true); in outputCylinder()
265 outputTriangle(tempP1, tempP2, tempP3, colix); in outputSurface()
297 short colix) { in outputSphere() argument
299 outputTexture(colix, true); in outputSphere()
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H A D__CartesianExporter.java175 short colix); in outputEllipsoid() argument
182 short colix); in outputTriangle() argument
209 short colix = atom.colixAtom; in drawAtom() local
210 …utputSphere(atom, radius == 0 ? atom.madAtom / 2000f : radius, colix, C.isColixTranslucent(colix)); in drawAtom()
244 outputSphere(tempP1, 0.02f * scale, colix, true); in drawPixel()
263 outputCone(tempP1, tempP2, radius, colix); in fillConeScreen()
311 drawCylinder(ptA, ptB, colix, colix, endcaps, Math.round(radius * 2000f), -1); in fillCylinderScreen()
325 outputEllipsoid(center, points, colix); in fillEllipsoid()
329 void fillSphere(short colix, int diameter, P3 pt) { in fillSphere() argument
354 outputSolidPlate(tempP1, tempP2, tempP3, colix); in fillTriangle()
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H A D_ObjExporter.java166 short colix) { in outputCone() argument
296 outputTriangle1(pt1, pt2, pt3, colix); in outputTriangle()
368 boolean isSolidColor = (colix != 0); in drawSurface()
526 addTexture(colix, null); in outputCircle1()
545 short colix) { in outputCone1() argument
548 addTexture(colix, null); in outputCone1()
572 addTexture(colix, null); in outputEllipse1()
596 addTexture(colix, null); in outputEllipsoid1()
628 addTexture(colix, null); in outputCylinder1()
659 addTexture(colix, null); in outputTriangle1()
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H A D_PovrayExporter.java332 private String color4(short colix) { in color4() argument
333 return rgbFractionalFromColix(colix) + "," in color4()
334 + translucencyFractionalFromColix(colix); in color4()
370 + color4(colix) + ")\n"); in outputCircle()
394 String color = color4(colix); in outputCylinder()
404 + radius2 + "," + color4(colix) + ")\n"); in outputCylinderConical()
412 + coef[8] + "," + coef[9] + "," + color4(colix); in outputEllipsoid()
493 output("pigment{rgbt<" + color4(colix) + ">}\n"); in outputSurface()
535 short colix) { in outputSphere() argument
537 + color4(colix) + ")\n"); in outputSphere()
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H A DJSExporter.java176 protected void outputSphere(P3 ptCenter, float radius, short colix, in outputSphere() argument
183 boolean found = useTable.getDefRet("S" + colix + "_" + iRad, ret); in outputSphere()
189 o = new Object[] { getColor(colix), Float.valueOf(radius) }); in outputSphere()
205 "C" + colix + "_" + Math.round(length * 100) + "_" + radius + "_" in outputCylinder()
213 o = new Object[] { getColor(colix), Float.valueOf(length), in outputCylinder()
220 protected void outputCircle(P3 pt1, P3 pt2, float radius, short colix, in outputCircle() argument
226 protected void outputEllipsoid(P3 center, P3[] points, short colix) { in outputEllipsoid() argument
236 private Integer getColor(short colix) { in getColor() argument
237 return Integer.valueOf(gdata.getColorArgbOrGray(colix)); in getColor()
245 int faceVertexMax, short colix, in outputSurface() argument
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H A D_IdtfExporter.java576 addColix(colix, false); in outputEllipsoid()
582 addShader(key, colix); in outputEllipsoid()
692 addColix(colix, false); in outputCylinder()
747 addColix(colix, false); in outputEllipse()
753 addShader(key, colix); in outputEllipse()
771 addColix(colix, false); in outputCircle()
777 addShader(key, colix); in outputCircle()
932 addShader(key, colix); in outputSurface()
976 addColix(colix, false); in outputCone()
1031 addColix(colix, false); in outputTriangle()
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H A DExport3D.java51 private short colix; field in Export3D
313 exporter.fillSphere(colix, diameter, center); in fillSphereBits()
431 exporter.drawPixel(colix, x, y, z, 1); in plotPixelClipped()
450 exporter.drawPixel(colix, x, y, z, scale); in drawPoints()
648 exporter.fillTriangle(colix, a, b, c, true); in fillTriangleTwoSided()
680 exporter.drawSurface(meshSurface, colix); in drawSurface()
731 public boolean setC(short colix) { in setC() argument
732 this.colix = colix; in setC()
733 gdata.setC(colix); in setC()
813 short colix = this.colix; in drawHermite7() local
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H A D_VrmlExporter.java301 outputAppearance(colix, false); in outputCircle()
313 short colix) { in outputCone() argument
328 outputAppearance(colix, false); in outputCone()
377 outputCylinderChildScaled(colix, endcaps); in outputCylinder()
404 outputAppearance(colix, false); in outputCylinderChildScaled()
494 outputAppearance(colix, false); in outputSphereChildScaled()
546 8, null, 3, colix, null, null, null); in outputSolidPlate()
567 outputAppearance(colix, false); in outputSurface()
678 outputAppearance(colix, false); in outputTriangle()
724 setFont(colix, text, font3d); in plotText()
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H A D___Exporter.java326 protected String rgbFractionalFromColix(short colix) { in rgbFractionalFromColix() argument
327 return rgbFractionalFromArgb(gdata.getColorArgbOrGray(colix)); in rgbFractionalFromColix()
351 return round(C.getColixTranslucencyFractional(colix)); in translucencyFractionalFromColix()
354 protected static String opacityFractionalFromColix(short colix) { in opacityFractionalFromColix() argument
355 return round(1 - C.getColixTranslucencyFractional(colix)); in opacityFractionalFromColix()
405 ms.colix = colix; in getConeMesh()
471 short colix, boolean doFill); in drawEllipse() argument
473 void drawSurface(MeshSurface meshSurface, short colix) { in drawSurface() argument
492 boolean colorSolid = (colix != 0); in drawSurface()
557 abstract void fillEllipsoid(P3 center, P3[] points, short colix, in fillEllipsoid() argument
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H A D_X3dExporter.java133 protected void outputAppearance(short colix, boolean isText) { in outputAppearance() argument
134 String def = getDef((isText ? "T" : "") + colix); in outputAppearance()
137 String color = rgbFractionalFromColix(colix); in outputAppearance()
143 output(color + "' transparency='" + translucencyFractionalFromColix(colix) + "'/>" ); in outputAppearance()
209 protected void outputTriangle(T3 pt1, T3 pt2, T3 pt3, short colix) { in outputTriangle() argument
223 outputAppearance(colix, false); in outputTriangle()
229 protected void outputCircle(P3 pt1, P3 pt2, float radius, short colix, in outputCircle() argument
246 outputCylinderChildScaled(colix, GData.ENDCAPS_FLAT); in outputCircle()
256 String child = getDef("C" + colix + "_" + radius); in outputCircle()
281 outputAppearance(colix, false); in outputCircle()
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H A D_MayaExporter.java107 protected boolean outputCylinder(P3 ptCenter, P3 pt1, P3 pt2, short colix, in outputCylinder() argument
141 protected void outputSphere(P3 pt, float radius, short colix, boolean checkRadius) { in outputSphere() argument
176 int faceVertexMax, short colix, in outputSurface() argument
182 short colix) { in outputTriangle() argument
189 short colix, boolean doFill) { in outputCircle() argument
196 short colix) { in outputCone() argument
202 protected void outputEllipsoid(P3 center, P3[] points, short colix) { in outputEllipsoid() argument
/dports/science/jmol/jmol-14.32.7/src/org/jmol/shape/
H A DShape.java338 return getColixA(colix, paletteID, ms.at[atomIndex]); in getColixI()
343 paletteID) : colix); in getColixA()
348 pid) : colix); in getColixB()
369 return getColorCommand(type, PAL.UNKNOWN.id, colix, in getColorCommandUnk()
375 if (pid == PAL.UNKNOWN.id && colix == C.INHERIT_ALL) in getColorCommand()
381 .getPaletteName(pid) : encodeColor(colix))); in getColorCommand()
385 public static String encodeColor(short colix) { in encodeColor() argument
387 return (C.isColixColorInherited(colix) ? "none" : C in encodeColor()
388 .getHexCode(colix)); in encodeColor()
391 public static String getTranslucentLabel(short colix) { in getTranslucentLabel() argument
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H A DAtomShape.java124 short colix = C.getColixO(value); in setPropAS() local
126 int n = checkColixLength(colix, bs.length()); in setPropAS()
128 setColixAndPalette(colix, pid, i); in setPropAS()
150 short colix = (colixes == null ? 0 : colixes[pt]); in setPropAS() local
155 colix = C.getColixTranslucent3(colix, true, f); in setPropAS()
156 setColixAndPalette(colix, PAL.UNKNOWN.id, i); in setPropAS()
195 protected int checkColixLength(short colix, int n) { in checkColixLength() argument
197 if (colix == C.INHERIT_ALL) in checkColixLength()
208 protected void setColixAndPalette(short colix, byte paletteID, int atomIndex) { in setColixAndPalette() argument
212 colixes[atomIndex] = colix = getColixI(colix, paletteID, atomIndex); in setColixAndPalette()
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H A DBalls.java67 short colix = C.getColixO(value); in setProperty() local
68 if (colix == C.INHERIT_ALL) in setProperty()
69 colix = C.USE_PALETTE; in setProperty()
75 atom.colixAtom = getColixA(colix, pid, atom); in setProperty()
76 bsColixSet.setBitTo(i, colix != C.USE_PALETTE in setProperty()
94 short colix = C.getColixO(color); in setProperty() local
95 if (colix == C.INHERIT_ALL) in setProperty()
96 colix = C.USE_PALETTE; in setProperty()
99 atom.colixAtom = getColixA(colix, pid, atom); in setProperty()
100 bsColixSet.setBitTo(i, colix != C.USE_PALETTE in setProperty()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/render/
H A DHalosRenderer.java67 if (colix == C.INHERIT_ALL) { in render()
71 colix = halos.colixSelection; in render()
73 if (colix == C.USE_PALETTE) in render()
74 colix = C.GOLD; in render()
75 else if (colix == C.INHERIT_ALL) in render()
76 colix = C.getColixInherited(colix, atom.colixAtom); in render()
80 colix = C.getColixInherited(colix, atom.colixAtom); in render()
88 colix = halos.colixHighlight; in render()
99 if (!g3d.setC(colix)) { in render1()
101 colix = 0; in render1()
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H A DMeshRenderer.java145 mesh.colix = c; in renderMesh2()
244 colix = C.getColixTranslucent3(colix, true, 0.8f); in setColix()
245 this.colix = colix; in setColix()
334 colix = (isGhostPass ? mesh.slabColix : mesh.colix); in renderTriangles()
337 colix = C.copyColixTranslucency(mesh.slabColix, mesh.colix); in renderTriangles()
338 g3d.setC(colix); in renderTriangles()
372 p3Screens[iB], colix, normix, p3Screens[iC], colix, normix, true); in renderTriangles()
408 colix, nB, p3Screens[iC], colix, nC, false); in renderTriangles()
415 drawTriangleBits(p3Screens[iA], colix, p3Screens[iB], colix, in renderTriangles()
434 colix, nB, p3Screens[iC], colix, nC, false); in renderTriangles()
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H A DTextRenderer.java40 boolean showText = g3d.setC(text.colix); in render()
49 showBox(g3d, text.colix, (int) text.boxX, (int) text.boxY in render()
72 && text.bgcolix != 0 ? text.bgcolix : text.colix)) in render()
91 String strLabel, short colix, short bgcolix, in renderSimpleLabel() argument
111 showBox(g3d, colix, (int) x, (int) y, z, zSlab, (int) boxWidth, in renderSimpleLabel()
114 g3d.setC(colix); in renderSimpleLabel()
129 private static void showBox(JmolRendererInterface g3d, short colix, in showBox() argument
134 g3d.setC(colix); in showBox()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/renderspecial/
H A DPolyhedraRenderer.java75 short colix; in render1() local
81 colix = C.getColixInherited(colix, p.centralAtom.colixAtom); in render1()
83 colix = p.colix; in render1()
87 if (C.renderPass2(colix)) { in render1()
89 } else if (!g3d.setC(colix)) { in render1()
142 g3d.setC(colix); in render1()
148 g3d.setC(colix); in render1()
170 g3d.drawSurface(meshSurface, colix); in render1()
190 colix = C.GOLD; in render1()
192 colix = p.colixEdge; in render1()
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H A DGeoSurfaceRenderer.java68 protected void renderConvex(short colix, BS visibilityMap, int nPoints) { in renderConvex() argument
69 this.colix = colix; in renderConvex()
71 if (g3d.setC(colix)) in renderConvex()
108 g3d.fillTriangle3CNBits(facePt1, colix, p1, facePt2, colix, p2, facePt3, in renderSurface()
109 colix, p3, false); in renderSurface()
H A DDipolesRenderer.java97 colixA = (dipole.bond == null ? dipole.colix : C.getColixInherited( in renderDipoleVector()
98 dipole.colix, dipole.bond.colix)); in renderDipoleVector()
181 colix = colixA; in renderVector()
182 if (colix == colixB) { in renderVector()
183 if (!g3d.setC(colix)) in renderVector()
195 if (g3d.setC(colix)) { in renderVector()
204 colix = colixB; in renderVector()
205 if (g3d.setC(colix)) { in renderVector()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/shapesurface/
H A DIsosurfaceMesh.java124 vcs[i] = colix; in allocVertexColixes()
160 colix = C.getColixTranslucent3(colix, isTranslucent, iLevel); in setTranslucent()
538 vcs[i] = C.copyColixTranslucency(this.colix, colix); in setVertexColixesForAtoms()
552 colix = C.copyColixTranslucency(this.colix, colix); in colorVertices()
560 vcs[i] = colix; in colorVertices()
683 if (colix == 0) in setColorsFromJvxlData()
684 colix = C.ORANGE; in setColorsFromJvxlData()
685 colix = C.getColixTranslucent3(colix, jvxlData.translucency != 0, in setColorsFromJvxlData()
716 short colix = C.copyColixTranslucency(this.colix, in setColorsFromJvxlData() local
750 colix = C.getColixTranslucent3(colix, true, translucentLevel); in remapColors()
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/dports/science/jmol/jmol-14.32.7/src/org/jmol/rendersurface/
H A DIsosurfaceRenderer.java265 if (!g3d.setC(colix)) in renderContourLines()
367 colix = (isGhostPass ? mesh.slabColix in renderTriangles()
372 colix = C.copyColixTranslucency(mesh.slabColix, mesh.colix); in renderTriangles()
373 g3d.setC(colix); in renderTriangles()
389 short colix = this.colix; in renderTriangles() local
392 colix = C.BLACK; in renderTriangles()
435 colix = c; in renderTriangles()
438 colix = (short) (Math.round(Math.random()*10)+ 5); in renderTriangles()
439 colixA = colixB = colixC = colix; in renderTriangles()
507 drawTriangle(pt1i, colix, pt2i, colix, pt3i, colix, check, diam); in renderTriangles()
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