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track.pas
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unit track;
{$mode objfpc}{$H+}
{$Include opts.inc}
interface
uses
{$IFDEF DGL} dglOpenGL, {$ELSE DGL} {$IFDEF COREGL}glcorearb, {$ELSE} gl,glext, {$ENDIF} {$ENDIF DGL}
{$ifndef isTerminalApp}
ClipBrd,dialogs,colorTable,
{$endif}
trx, Classes, SysUtils, math, define_types, matmath, track_simplify, zstream, strutils;
{$DEFINE RESTARTIDX}
Type
// const
// kMaxScalars = 3; //maximum number of properties/scalars from TRK file, e.g. FA, pval, pval_corr
TScalar = record
mn, mx: single; //full range of scalar
mnView, mxView: single; //selected window for displaying scalar, e.g. if 0..1 with a grayscale color table than values <0 will be black and >1 will be white
scalar: array of float;
name: string;
end;
TTrack = class
//utime: QWord;
scale, minFiberLength, ditherColorFrac, maxObservedFiberLength, restrictAngle : single;
origin, mxV, mnV, restrictXYZ : TPoint3f;
isBusy, isRebuildList, isTubes, isWorldSpaceMM: boolean;
TrackTubeSlices, //e.g. if 5 then cross section of fiber is pentagon
n_count, n_faces, n_vertices, n_indices, minFiberLinks, LineWidth: integer;
{$IFDEF COREGL}
vao, vbo : GLuint;
{$ELSE}
displayListTrack : GLuint;
{$IFDEF LEGACY_INDEXING}
index_vboTrack, vertex_vboTrack: GLuint;
{$ENDIF}
{$ENDIF}
{$IFDEF RESTARTIDX}
tracks: array of single;
{$ELSE}
lineVtx: array of TPoint3f;
lineFinalVertex: array of Uint32;
{$ENDIF}
scalarLUT: TLUT;
scalarSelected: integer;
scalars: array of TScalar;
private
function LoadNimlTract(const FileName: string): boolean;
function LoadBfloat(const FileName: string): boolean;
function LoadDat(const FileName: string): boolean;
function LoadPdb(const FileName: string): boolean;
function LoadTck(const FileName: string): boolean;
function LoadTrx(const FileName: string): boolean;
function LoadTrk(const FileName: string): boolean;
function LoadVtkASCII(const FileName: string): boolean;
function LoadVtk(const FileName: string): boolean;
procedure SetDescriptives;
procedure SetScalarDescriptives;
{$ifndef isTerminalApp}
procedure BuildListStrip;
procedure BuildListTubes ;
{$endif}
public
constructor Create;
{$ifndef isTerminalApp}
function HasScalarPerFiberColor: boolean;
{$endif}
function SimplifyMM(Tol, minLength: float): boolean;
function LoadFromFile(const FileName: string): boolean;
procedure SaveBfloat(const FileName: string);
procedure SaveVtk(const FileName: string);
procedure SaveTrk(const FileName: string);
procedure Save(FileName: string);
function Smooth: boolean;
function SimplifyRemoveRedundant(Tol: float): boolean;
procedure Close;
{$ifndef isTerminalApp}
procedure DrawGL;
{$endif}
//procedure CenterX;
destructor Destroy; override;
end;
implementation
{$ifndef isTerminalApp}
uses {$IFDEF FASTGZ}SynZip, {$ENDIF}mainunit, shaderu, {$IFDEF COREGL} gl_core_3d {$ELSE} gl_legacy_3d {$ENDIF};
{$else}
{$IFDEF FASTGZ}uses SynZip; {$ENDIF}
{$endif}
{$IFDEF FASTGZ}
function ExtractGz(fnm: string; var mStream : TMemoryStream; magic: word = 0): boolean;
//if magic <> 0, then a file that starts with magic will assume to uncompressed
//if magic = 0, a file will be assumed to be uncompressed if first two bytes are not $8B1F
var
gz: TGZRead;
sig: word;
F : File Of byte;
src : array of byte;
cSz : int64; //uncompressed, compressed size
begin
if not fileexists(fnm) then exit(false);
FileMode := fmOpenRead;
Assign (F, fnm);
Reset (F);
cSz := FileSize(F);
blockread(F, sig, SizeOf(sig) );
seek(F,0);
//n.b. GZ header/footer is ALWAYS little-endian
{$IFDEF ENDIAN_BIG}
sig := Swap(sig);
{$ENDIF}
if ( ((magic = 0) and (sig <> $8B1F)) or ((magic <> 0) and (sig = magic)) ) then begin //hex: 1F 8B : gzip specific: will reject zlib format
Close (F);
mStream.LoadFromFile(fnm);
exit(true);
end;
setlength(src, cSz);
blockread(f, src[0], cSz );
CloseFile(f);
result := gz.Init(@src[0], cSz);
if not result then begin
src := nil;
exit;
end;
gz.ToStream(mStream, cSz);
src := nil;
gz.ZStreamDone;
end;
{$ELSE}
function ExtractGz(fnm: string; var mStream : TMemoryStream; magic: word = 0): boolean;
const
kChunkSize = 65535;
var
zStream : TGZFileStream;
bytes : array of byte;
i: integer;
begin
zStream := TGZFileStream.create(fnm, gzopenread);
result := (zStream <> nil);
setlength(bytes, kChunkSize);
repeat
i := zStream.read(bytes[0],kChunkSize);
mStream.Write(bytes[0],i) ;
until i < kChunkSize;
zStream.Free;
end;
{$ENDIF}
(*procedure TTrack.CenterX;
var
offset: single;
i, m, mi: integer;
mn, mx, pt : TPoint3f;
begin
maxObservedFiberLength := 0;
if (n_count < 1) or (length(tracks) < 4) then exit;
mn := ptf(Infinity,Infinity,Infinity);
mx := ptf(-Infinity, -Infinity, -Infinity);
i := 0;
while i < length(tracks) do begin
m := asInt( tracks[i]); inc(i);
for mi := 1 to m do begin
pt.X := tracks[i];
i := i + 3;
minmax(pt, mn,mx);
end;
end;
if (mn.X >= mx.X) then exit;
offset := (mn.X + mx.X)/ 2;
showmessage(floattostr(mn.X)+'..'+floattostr(mx.X)+' : '+floattostr(offset));
i := 0;
while i < length(tracks) do begin
m := asInt( tracks[i]); inc(i);
for mi := 1 to m do begin
tracks[i] := tracks[i] - offset;
i := i + 3;
end;
end;
setDescriptives;
end; // CenterX() *)
procedure TTrack.Close;
var i: integer;
begin
i := 1;
{$ifndef isTerminalApp}
scalarLUT := UpdateTransferFunction(i, false); //red-yellow
{$endif}
scalarSelected := -1; //none: color based on direction
n_count := 0;
n_vertices := 0;
n_faces := 0;
n_indices := 0;
{$IFDEF RESTARTIDX}
setlength(tracks, 0);
{$ELSE}
setlength(lineVtx, 0);
setlength(lineFinalVertex, 0);
{$ENDIF}
if scalars <> nil then begin //close all open properties/scalars
for i := 0 to (length(scalars)-1) do begin
scalars[i].scalar := nil;
scalars[i].name := '';
end;
scalars := nil;
end;
end;
function vector2RGB(pt1, pt2: TPoint3F; out len: single): TPoint3f;
begin
len := sqrt (sqr(pt1.X - pt2.X) + sqr(pt1.Y - pt2.Y) + sqr(pt1.Z - pt2.Z) );
if (len = 0) then begin
result := ptf(0,0,0);
exit;
end;
result.X := (abs(pt1.X - pt2.X)/len);
result.Y := (abs(pt1.Y - pt2.Y)/len);
result.Z := (abs(pt1.Z - pt2.Z)/len);
end;
{$ifndef isTerminalApp}
function RGBA2pt3f(RGBA: TRGBA): TPoint3f;
begin
result.X := RGBA.R/255;
result.Y := RGBA.G/255;
result.Z := RGBA.B/255;
end;
function mixRandRGBA(RGBin: TPoint3f; randAmount: single): TRGBA;
//randAmount 0..1 mix this proportion of random (grayscale) intensity
var
s: single;
v: TPoint3f;
begin
v := RGBin;
if (randAmount < 0) or (randAmount > 1.0) then randAmount := 0;
s := random();
v.X := (randAmount * s) + ((1-randAmount) * v.X);
v.Y := (randAmount * s) + ((1-randAmount) * v.Y);
v.Z := (randAmount * s) + ((1-randAmount) * v.Z);
result.R := round(UnitBound(v.X) * 255);
result.G := round(UnitBound(v.Y) * 255);
result.B := round(UnitBound(v.Z) * 255);
result.A := 255;
end;
{$IFDEF RESTARTIDX}
procedure TTrack.BuildListStrip;
// create displaylist where tracks are drawn as connected line segments
var
vRGBA: TVertexRGBA;
Indices,vType: TInts;
Verts, vNorms: TVertices;
normRGB: TPoint3f;
normRGBA : TRGBA;
pts, norms: array of TPoint3f;
len: single;
maxLinks, m, mi, i,j, ntracks, nfiber, nvertex: integer;
trackLinks : array of integer;
startPt, endPt:TPoint3f;
isScalarPerFiberColor : boolean = false;
isScalarPerVertexColor: boolean = false;
hideFiber: boolean;
restrictRadians: single;
begin
randomize;
restrictRadians := 3.0;
if (RestrictAngle < 90) and (RestrictAngle > 0) then
restrictRadians := DegToRad(RestrictAngle); //0..1.57
//if length(Scalars) > 0 then
// GLForm1.Caption := format('selected %d available %d count %d streamline count %d',[ScalarSelected,length(Scalars), length(Scalars[0].scalar), n_count ]);
if (ScalarSelected >= 0) and (length(Scalars) > ScalarSelected) then begin
if length(Scalars[ScalarSelected].scalar) = n_count then
isScalarPerFiberColor := true //one color per fiber
else
isScalarPerVertexColor := true;
{$IFDEF UNIX}writeln(format('ScalarSelected %d Scalars %d Fibers %d',[ScalarSelected, length(Scalars[ScalarSelected].scalar), n_count]));{$ENDIF}
end;
// exit;
maxLinks := 0;
n_faces := 0;
n_vertices := 0;
n_indices := 0;
TrackTubeSlices := 5;
if (length(tracks) < 4) then exit;
//if minFiberLinks < 3 then minFiberLinks := 3; //minimum to compute normal;
ntracks := length(tracks);
//uTime := GetTickCount64();
{$DEFINE TWOPASS_STRIP} //two passes is ~2 times quicker as we do not waste time re-allocating memory
{$IFDEF TWOPASS_STRIP}
//first pass: find mesh size
setlength(trackLinks, ntracks);
i := 0;
nfiber := 0;
while i < ntracks do begin
trackLinks[i] := 0;
m := asInt( tracks[i]);
if m >= minFiberLinks then begin
startPt.X := tracks[i+1];
startPt.Y := tracks[i+2];
startPt.Z := tracks[i+3];
j := (3 * (m-1));
endPt.X := tracks[j+i+1];
endPt.Y := tracks[j+i+2];
endPt.Z := tracks[j+i+3];
normRGB := vector2RGB(startPt, endPt, len);
hideFiber := false;
if (restrictRadians < 2.0) then
if Arccos(abs(vectorDot(normRGB, restrictXYZ))) > restrictRadians then
hideFiber := true;
if len < minFiberLength then hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideDarkTracks) and (Scalars[ScalarSelected].scalar[nfiber] < Scalars[ScalarSelected].mnView) then
hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideBrightTracks) and (Scalars[ScalarSelected].scalar[nfiber] > Scalars[ScalarSelected].mxView) then
hideFiber := true;
if not hideFiber then begin
trackLinks[i] := m;
n_vertices := n_vertices + 2*m+8; //Duplicate vertices + 8 for the Begin and End Imposter
n_indices := n_indices + 2*m+11; //Same as Above + 3 Primitive Restart
{$IFDEF COREGL}
n_faces := n_faces + 2*m + 3;//adjacent start + adjacent end + primitive restart!
{$ELSE}
n_faces := n_faces + m + 1;//primitive restart!
{$ENDIF}
if (m > maxLinks) then
maxLinks := m;
end;
end; //len >= minFiberLength
i := i + 1 + (3 * m);
nfiber := nfiber + 1;
end;
if (maxLinks < 1) then exit;
//allocate memory
//GLForm1.Caption := format('%d %d %d %d', [maxLinks, n_vertices, n_indices, random(9)]);
setlength(pts, maxLinks);
setlength(norms, maxLinks);
setlength(vRGBA, n_vertices);
setlength(vType, n_vertices);
setlength(Verts, n_vertices);
setlength(vNorms, n_vertices);
setlength(Indices, n_indices);
//second pass: fill arrays
i := 0;
n_vertices := 0;
n_faces := 0;
n_indices := 0;
nfiber := 0;
nvertex := 0;
while i < ntracks do begin
m := asInt( tracks[i]);
if trackLinks[i] >= minFiberLinks then begin
inc(i);
for mi := 0 to (m-1) do begin
pts[mi].X := tracks[i]; inc(i);
pts[mi].Y := tracks[i]; inc(i);
pts[mi].Z := tracks[i]; inc(i);
end;
if isScalarPerFiberColor then begin
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nfiber], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
normRGB := RGBA2pt3f(normRGBA);
end else
normRGB := vector2RGB(pts[0], pts[m-1], len);
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
for mi := 0 to (m-2) do begin
norms[mi] := normalDirection(pts[mi], pts[mi+1]); //line does not have a surface normal, but a direction
end;
//Add the first end imposter
for mi:=0 to 3 do begin
Verts[n_vertices] := pts[0];
vNorms[n_vertices].x := -norms[0].x;
vNorms[n_vertices].y := -norms[0].y;
vNorms[n_vertices].z := -norms[0].z;
if mi>1 then
vType[n_vertices] := 1
else
vType[n_vertices] := 2;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
//Duplicate every vertice
for mi := 0 to (m-2) do begin
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex+mi], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
Verts[n_vertices] := pts[mi];
vNorms[n_vertices] := norms[mi];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Verts[n_vertices] := pts[mi];
vNorms[n_vertices] := norms[mi];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex+m-1], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
//The normal for the last vestice is different
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
//Add the Last end imposter
for mi:=0 to 3 do begin
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
if mi>1 then begin vType[n_vertices] := 1;
end else vType[n_vertices] := 2;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
end else
i := i + 1 + (3 * m);
nfiber := nfiber + 1;
nvertex := nvertex + m;
end;
{$ELSE}
{$IFDEF COREGL} Use two pass or change code below for GL_LINE_STRIP_ADJACENCY {$ENDIF}
i := 0;
while i < ntracks do begin
m := asInt( tracks[i]); inc(i);
if m >= minFiberLinks then begin
setlength(pts, m);
setlength(norms, m);
for mi := 0 to (m-1) do begin
pts[mi].X := tracks[i]; inc(i);
pts[mi].Y := tracks[i]; inc(i);
pts[mi].Z := tracks[i]; inc(i);
end;
normRGB := vector2RGB(pts[0], pts[m-1], len);
if len >= minFiberLength then begin
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
for mi := 1 to (m-2) do
norms[mi] := normalDirection(pts[mi-1], pts[mi+1]); //line does not have a surface normal, but a direction
setlength(vRGBA, n_vertices + m);
setlength(Verts, n_vertices + m);
setlength(vNorms, n_vertices + m);
setlength(Indices, n_faces + m + 1);
//create as line strip - repeat start/end to end primitive
for mi := 0 to (m-1) do begin
vRGBA[mi+n_vertices] := normRGBA;
Verts[mi+n_vertices] := pts[mi];
vNorms[mi+n_vertices] := norms[mi];
Indices[mi+n_faces] := mi+n_vertices;
end;
Indices[m+n_faces] := kPrimitiveRestart;
n_vertices := n_vertices + m ;
n_faces := n_faces + m + 1;
end;
end else
i := i + (3 * m);
end;
{$ENDIF}
{$IFDEF COREGL}
BuildDisplayListStrip(Indices, Verts, vNorms, vRGBA, vType, LineWidth, vao, vbo);
{$ELSE}
displayListTrack := BuildDisplayListStrip(Indices, Verts, vNorms, vRGBA, LineWidth);
{$ENDIF}
n_indices := length(Indices);
n_vertices := 0;
n_faces := 0;
end; // BuildList()
procedure TTrack.BuildListTubes ;
// create displaylist where tracks are drawn as connected cylinders
//const
// kSlices = 5; //the cylinder is a pie cut into this many slices: fewer = simpler, more = less boxy
var
vRGBA: TVertexRGBA;
normRGB: TPoint3f;
normRGBA: TRGBA;
pts: array of TPoint3f;
len, radius: single;
numCylVert, numVert, mprev, m, mi, i, j, ntracks, nfiber, nvtx: integer;
vertices: TVertices;
faces, cylFace: TFaces;
numFaces, numCylFace, maxLinks: integer;
cylVert: TVertices;
B, startPt, endPt: TPoint3f;
trackLinks : array of integer;
perVertexScalars: array of single;
isScalarPerFiberColor : boolean = false;
isScalarPerVertexColor: boolean = false;
restrictRadians: single;
hideFiber : boolean;
begin
restrictRadians := 3.0;
if (RestrictAngle < 90) and (RestrictAngle > 0) then
restrictRadians := DegToRad(RestrictAngle); //0..1.57
if (ScalarSelected >= 0) and (length(Scalars) > ScalarSelected) then begin
if length(Scalars[ScalarSelected].scalar) = n_count then
isScalarPerFiberColor := true //one color per fiber
else
isScalarPerVertexColor := true;
end;
//tm := gettickcount64();
n_indices := 0;
n_faces := 0;
n_vertices := 0;
maxLinks := 0;
if (length(tracks) < 4) then exit;
//if minFiberLinks < 3 then minFiberLinks := 3; //minimum to compute normal;
MakeCylinder( 1, 71, cylFace, cylVert, TrackTubeSlices);
numCylFace := length(cylFace);
numCylVert := TrackTubeSlices;//numCylVert div 2; //number of faces for half of cylinder (top or bottom disk)
ntracks := length(tracks);
radius := LineWidth * 0.25;
normRGBA := RGBA(0,0,0,255);;
{$DEFINE TWOPASS} //two passes is ~4 times quicker as we do not waste time re-allocating memory
{$IFDEF TWOPASS}
//first pass: find mesh size
setlength(trackLinks, ntracks);
i := 0;
nfiber := 0;
while i < ntracks do begin
trackLinks[i] := 0;
m := asInt( tracks[i]);
if m >= minFiberLinks then begin
startPt.X := tracks[i+1];
startPt.Y := tracks[i+2];
startPt.Z := tracks[i+3];
j := (3 * (m-1));
endPt.X := tracks[j+i+1];
endPt.Y := tracks[j+i+2];
endPt.Z := tracks[j+i+3];
normRGB := vector2RGB(startPt, endPt, len); //here only used for length
hideFiber := false;
if (restrictRadians < 2.0) then
if Arccos(abs(vectorDot(normRGB, restrictXYZ))) > restrictRadians then
hideFiber := true;
if len < minFiberLength then hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideDarkTracks) and (Scalars[ScalarSelected].scalar[nfiber] < Scalars[ScalarSelected].mnView) then
hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideBrightTracks) and (Scalars[ScalarSelected].scalar[nfiber] > Scalars[ScalarSelected].mxView) then
hideFiber := true;
if not HideFiber then begin
trackLinks[i] := m;
n_vertices := n_vertices + (m * numCylVert);
n_faces := n_faces + ((m - 1) * numCylFace); //fence post problem
if (m > maxLinks) then
maxLinks := m;
end;
end; //len >= minFiberLength
i := i + 1 + (3 * m);
nfiber := nfiber + 1;
end;
//GLForm1.Caption := inttostr(n_faces);
if (n_faces < 1) then exit;
//allocate memory
setlength(vertices, n_vertices); //each node as 1 disk (bottom of cylinder)
setlength(vRGBA, n_vertices); //each node as 1 disk (bottom of cylinder)
setlength(faces, n_faces);
setlength(pts, maxLinks);
setlength(perVertexScalars, maxLinks);
//second pass - load geometry for links that are long enough
n_vertices := 0;
n_faces := 0;
nfiber := 0;
nvtx := 0;
i := 0;
while i < ntracks do begin
m := asInt( tracks[i]);
if (trackLinks[i] >= minFiberLinks) then begin
inc(i);
for mi := 0 to (m-1) do begin
pts[mi].X := tracks[i]; inc(i);
pts[mi].Y := tracks[i]; inc(i);
pts[mi].Z := tracks[i]; inc(i);
if isScalarPerVertexColor then
perVertexScalars[mi] := Scalars[ScalarSelected].scalar[nvtx+mi];
end;
normRGB := vector2RGB(pts[0], pts[m-1], len);
numFaces := 0;
numVert := 0;
mprev := 0; //location of previous vertex
B := ptf(0,0,0); //need to generate random binormal
for mi := 0 to (m-2) do begin
makeCylinderEnd(radius, pts[mprev], pts[mi], pts[mi+1], cylVert, B, TrackTubeSlices);
for j := 0 to (numCylFace - 1) do //add this cylinder
faces[j+numFaces+n_faces] := vectorAdd(cylFace[j], numVert+n_vertices);
numFaces := numFaces + numCylFace;
for j := 0 to (numCylVert - 1) do //add bottom of this cylinder
vertices[j+numVert+n_vertices] := cylVert[j];
if isScalarPerVertexColor then begin
normRGBA := inten2rgb1(perVertexScalars[mi], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
for j := 0 to (numCylVert - 1) do
vRGBA[j+numVert+n_vertices] := normRGBA;
end;
numVert := numVert + numCylVert;
mprev := mi;
end;
//faces[numFaces+n_faces-1] := vectorAdd(cylFace[j], 0);
makeCylinderEnd(radius, pts[m-2], pts[m-1], pts[m-1], cylVert, B, TrackTubeSlices);
for j := 0 to (numCylVert - 1) do //add top of last cylinder
vertices[j+numVert+n_vertices] := cylVert[j];
if isScalarPerVertexColor then begin
normRGBA := inten2rgb1(perVertexScalars[m-1], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
for j := 0 to (numCylVert - 1) do
vRGBA[j+numVert+n_vertices] := normRGBA;
end;
numVert := numVert + numCylVert;
if not isScalarPerVertexColor then begin
if isScalarPerFiberColor then begin
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nfiber], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
normRGB := RGBA2pt3f(normRGBA);
end;
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
for j := 0 to ((m * numCylVert) -1) do
vRGBA[j+n_vertices] := normRGBA;
end;
n_vertices := n_vertices + (m * numCylVert); //each node as 1 disk (bottom of cylinder)
n_faces := n_faces + (m - 1) * numCylFace; //-1: fencepost error
end else //len >= minFiberLength
i := i + 1 + (3 * m);
nfiber := nfiber + 1;
nvtx := nvtx + m;
end;
(*AssignFile(f, '~/Test.txt');
ReWrite(f);
writeln(f, floattostr(radius),' -> ',inttostr(TrackTubeSlices));
i := 0;
writeln(f, floattostr(pts[i].X),kTab, floattostr(pts[i].Y),kTab, floattostr(pts[i].Z) );
i :=1;
writeln(f, floattostr(pts[i].X),kTab, floattostr(pts[i].Y),kTab, floattostr(pts[i].Z) );
writeln(f,'xxx');
for i := 0 to (length(vertices)-1) do
writeln(f, floattostr(vertices[i].X),kTab, floattostr(vertices[i].Y),kTab, floattostr(vertices[i].Z) );
CloseFile(f); *)
setlength(trackLinks,0);
setlength(pts, 0);
{$ELSE}
i := 0;
while i < ntracks do begin
m := asInt( tracks[i]); inc(i);
if m >= minFiberLinks then begin
setlength(pts, m);
for mi := 0 to (m-1) do begin
pts[mi].X := tracks[i]; inc(i);
pts[mi].Y := tracks[i]; inc(i);
pts[mi].Z := tracks[i]; inc(i);
end;
normRGB := vector2RGB(pts[0], pts[m-1], len);
if len >= minFiberLength then begin
setlength(vertices, n_vertices + (m * numCylVert) ); //each node as 1 disk (bottom of cylinder)
setlength(faces, n_faces + ((m - 1) * numCylFace) ); //-1: fencepost error
numFaces := 0;
numVert := 0;
mprev := 0; //location of previous vertex
for mi := 0 to (m-2) do begin
makeCylinderEnd(radius, pts[mprev], pts[mi], pts[mi+1], cylVert, kSlices);
for j := 0 to (numCylFace - 1) do //add this cylinder
//faces[j+numFaces+n_faces] := pti(cylFace[j].X+numVert, cylFace[j].Y+numVert, cylFace[j].Z+numVert) ;
faces[j+numFaces+n_faces] := vectorAdd(cylFace[j], numVert+n_vertices);
numFaces := numFaces + numCylFace;
for j := 0 to (numCylVert - 1) do //add bottom of this cylinder
vertices[j+numVert+n_vertices] := cylVert[j];
numVert := numVert + numCylVert;
mprev := mi;
end;
makeCylinderEnd(radius, pts[m-2], pts[m-1], pts[m-1], cylVert, kSlices);
for j := 0 to (numCylVert - 1) do //add top of last cylinder
vertices[j+numVert+n_vertices] := cylVert[j];
numVert := numVert + numCylVert;
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
setlength(vRGBA, n_vertices + (m * numCylVert) ); //each node as 1 disk (bottom of cylinder)
for j := 0 to ((m * numCylVert) -1) do
vRGBA[j+n_vertices] := normRGBA;
n_vertices := n_vertices + (m * numCylVert); //each node as 1 disk (bottom of cylinder)
n_faces := n_faces + (m - 1) * numCylFace; //-1: fencepost error
end; //len >= minFiberLength
end else
i := i + (3 * m);
end;
{$ENDIF}
//utime := gettickcount64() - tm;
{$IFDEF COREGL}
BuildDisplayList(faces, vertices, vRGBA, vao, vbo, normRGBA);
{$ELSE}
{$IFDEF LEGACY_INDEXING}
BuildDisplayListIndexed(faces, vertices, vRGBA, index_vboTrack, vertex_vboTrack, normRGBA);
//SetVertexAttrib(gShader.programTrackIdxID, vertex_vboTrack);
{$ELSE}
displayListTrack := BuildDisplayList(faces, vertices, vRGBA, normRGBA);
{$ENDIF}
{$ENDIF}
end;
{$ELSE}
procedure TTrack.BuildListStrip;
// create displaylist where tracks are drawn as connected line segments
var
vRGBA: TVertexRGBA;
Indices,vType: TInts;
Verts, vNorms: TVertices;
normRGB: TPoint3f;
normRGBA : TRGBA;
pts, norms: array of TPoint3f;
len: single;
lineStart, lineEnd, m, ntracks, maxLinks, mi, i,j, nfiber, nvertex: integer;
fiberSurvives: array of boolean;
startPt, endPt:TPoint3f;
isScalarPerFiberColor : boolean = false;
isScalarPerVertexColor: boolean = false;
hideFiber: boolean;
begin
randomize;
//if length(Scalars) > 0 then
// GLForm1.Caption := format('selected %d available %d count %d streamline count %d',[ScalarSelected,length(Scalars), length(Scalars[0].scalar), n_count ]);
if (ScalarSelected >= 0) and (length(Scalars) > ScalarSelected) then begin
if length(Scalars[ScalarSelected].scalar) = n_count then
isScalarPerFiberColor := true //one color per fiber
else
isScalarPerVertexColor := true;
{$IFDEF UNIX}writeln(format('ScalarSelected %d Scalars %d Fibers %d',[ScalarSelected, length(Scalars[ScalarSelected].scalar), n_count]));{$ENDIF}
end;
// exit;
maxLinks := 0;
n_faces := 0;
n_vertices := 0;
n_indices := 0;
TrackTubeSlices := 5;
if (length(lineVtx) < 2) or (length(lineFinalVertex) < 1) then exit;
//if minFiberLinks < 3 then minFiberLinks := 3; //minimum to compute normal;
ntracks := length(lineFinalVertex);
//uTime := GetTickCount64();
{$DEFINE TWOPASS_STRIP} //two passes is ~2 times quicker as we do not waste time re-allocating memory
{$IFDEF TWOPASS_STRIP}
//first pass: find mesh size
setlength(fiberSurvives, ntracks); //
nfiber := 0;
lineStart := 0;
for i := 0 to (ntracks - 1) do begin
fiberSurvives[i] := false;
lineEnd := lineFinalVertex[i];
m := lineEnd-lineStart+1;
if m >= minFiberLinks then begin
startPt := lineVtx[lineStart];
endPt := lineVtx[lineEnd];
normRGB := vector2RGB(startPt, endPt, len);
hideFiber := false;
if len < minFiberLength then hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideDarkTracks) and (Scalars[ScalarSelected].scalar[nfiber] < Scalars[ScalarSelected].mnView) then
hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideBrightTracks) and (Scalars[ScalarSelected].scalar[nfiber] > Scalars[ScalarSelected].mxView) then
hideFiber := true;
if not hideFiber then begin
fiberSurvives[i] := false;
n_vertices := n_vertices + 2*m+8; //Duplicate vertices + 8 for the Begin and End Imposter
n_indices := n_indices + 2*m+11; //Same as Above + 3 Primitive Restart
{$IFDEF COREGL}
n_faces := n_faces + 2*m + 3;//adjacent start + adjacent end + primitive restart!
{$ELSE}
n_faces := n_faces + m + 1;//primitive restart!
{$ENDIF}
if (m > maxLinks) then
maxLinks := m;
end;
lineStart := lineEnd + 1;
end; //len >= minFiberLength
end;
if (maxLinks < 1) then exit;
setlength(pts, maxLinks);
setlength(norms, maxLinks);
setlength(vRGBA, n_vertices);
setlength(vType, n_vertices);
setlength(Verts, n_vertices);
setlength(vNorms, n_vertices);
setlength(Indices, n_indices);
//second pass: fill arrays
n_vertices := 0;
n_faces := 0;
n_indices := 0;
nfiber := 0;
nvertex := 0;
lineStart := 0;
for i := 0 to (ntracks - 1) do begin
lineEnd := lineFinalVertex[i];
if not fiberSurvives[i] then begin
lineStart := lineEnd + 1;
continue;
end;
m := lineEnd - lineStart + 1;
for mi := 0 to (m-1) do
pts[mi] := lineVtx[mi+lineStart];
if isScalarPerFiberColor then begin
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nfiber], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
normRGB := RGBA2pt3f(normRGBA);
end else
normRGB := vector2RGB(pts[0], pts[m-1], len);
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
for mi := 0 to (m-2) do
norms[mi] := normalDirection(pts[mi], pts[mi+1]); //line does not have a surface normal, but a direction
//Add the first end imposter
for mi:=0 to 3 do begin
Verts[n_vertices] := pts[0];
vNorms[n_vertices].x := -norms[0].x;
vNorms[n_vertices].y := -norms[0].y;
vNorms[n_vertices].z := -norms[0].z;
if mi>1 then
vType[n_vertices] := 1
else
vType[n_vertices] := 2;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
//Duplicate every vertice
for mi := 0 to (m-2) do begin
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex+mi], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
Verts[n_vertices] := pts[mi];
vNorms[n_vertices] := norms[mi];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Verts[n_vertices] := pts[mi];
vNorms[n_vertices] := norms[mi];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
if isScalarPerVertexColor then
normRGBA := inten2rgb1(Scalars[ScalarSelected].scalar[nvertex+m-1], Scalars[ScalarSelected].mnView, Scalars[ScalarSelected].mxView, scalarLUT );
//The normal for the last vestice is different
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
vType[n_vertices] := 0;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
//Add the Last end imposter
for mi:=0 to 3 do begin
Verts[n_vertices] := pts[m-1];
vNorms[n_vertices] := norms[m-2];
if mi>1 then begin vType[n_vertices] := 1;
end else vType[n_vertices] := 2;
vRGBA[n_vertices] := normRGBA;
Indices[n_indices] := n_vertices;inc(n_indices);
inc(n_vertices);
end;
Indices[n_indices] := kPrimitiveRestart;inc(n_indices);
nfiber := nfiber + 1;
nvertex := nvertex + m;
lineStart := lineEnd + 1;
end;
{$ELSE}
{$IFDEF COREGL} Use two pass or change code below for GL_LINE_STRIP_ADJACENCY {$ENDIF}
i := 0;
while i < ntracks do begin
m := asInt( tracks[i]); inc(i);
if m >= minFiberLinks then begin
setlength(pts, m);
setlength(norms, m);
for mi := 0 to (m-1) do begin
pts[mi].X := tracks[i]; inc(i);
pts[mi].Y := tracks[i]; inc(i);
pts[mi].Z := tracks[i]; inc(i);
end;
normRGB := vector2RGB(pts[0], pts[m-1], len);
if len >= minFiberLength then begin
normRGBA := mixRandRGBA(normRGB, ditherColorFrac);
for mi := 1 to (m-2) do
norms[mi] := normalDirection(pts[mi-1], pts[mi+1]); //line does not have a surface normal, but a direction
setlength(vRGBA, n_vertices + m);
setlength(Verts, n_vertices + m);
setlength(vNorms, n_vertices + m);
setlength(Indices, n_faces + m + 1);
//create as line strip - repeat start/end to end primitive
for mi := 0 to (m-1) do begin
vRGBA[mi+n_vertices] := normRGBA;
Verts[mi+n_vertices] := pts[mi];
vNorms[mi+n_vertices] := norms[mi];
Indices[mi+n_faces] := mi+n_vertices;
end;
Indices[m+n_faces] := kPrimitiveRestart;
n_vertices := n_vertices + m ;
n_faces := n_faces + m + 1;
end;
end else
i := i + (3 * m);
end;
{$ENDIF}
{$IFDEF COREGL}
BuildDisplayListStrip(Indices, Verts, vNorms, vRGBA, vType, LineWidth, vao, vbo);
{$ELSE}
displayListTrack := BuildDisplayListStrip(Indices, Verts, vNorms, vRGBA, LineWidth);
{$ENDIF}
n_indices := length(Indices);
n_vertices := 0;
n_faces := 0;
end; // BuildList()
procedure TTrack.BuildListTubes ;
// create displaylist where tracks are drawn as connected cylinders
//const
// kSlices = 5; //the cylinder is a pie cut into this many slices: fewer = simpler, more = less boxy
var
vRGBA: TVertexRGBA;
normRGB: TPoint3f;
normRGBA: TRGBA;
pts: array of TPoint3f;
len, radius: single;
numCylVert, numVert, mprev, m, mi, i, j, ntracks, nfiber, nvtx: integer;
vertices: TVertices;
faces, cylFace: TFaces;
numFaces, numCylFace, maxLinks: integer;
cylVert: TVertices;
B, startPt, endPt: TPoint3f;
trackLinks : array of integer;
perVertexScalars: array of single;
isScalarPerFiberColor : boolean = false;
isScalarPerVertexColor: boolean = false;
hideFiber : boolean;
begin
if (ScalarSelected >= 0) and (length(Scalars) > ScalarSelected) then begin
if length(Scalars[ScalarSelected].scalar) = n_count then
isScalarPerFiberColor := true //one color per fiber
else
isScalarPerVertexColor := true;
end;
//tm := gettickcount64();
n_indices := 0;
n_faces := 0;
n_vertices := 0;
maxLinks := 0;
if (length(tracks) < 4) then exit;
//if minFiberLinks < 3 then minFiberLinks := 3; //minimum to compute normal;
MakeCylinder( 1, 71, cylFace, cylVert, TrackTubeSlices);
numCylFace := length(cylFace);
numCylVert := TrackTubeSlices;//numCylVert div 2; //number of faces for half of cylinder (top or bottom disk)
ntracks := length(tracks);
radius := LineWidth * 0.25;
normRGBA := RGBA(0,0,0,255);;
{$DEFINE TWOPASS} //two passes is ~4 times quicker as we do not waste time re-allocating memory
{$IFDEF TWOPASS}
//first pass: find mesh size
setlength(trackLinks, ntracks);
i := 0;
nfiber := 0;
while i < ntracks do begin
trackLinks[i] := 0;
m := asInt( tracks[i]);
if m >= minFiberLinks then begin
startPt.X := tracks[i+1];
startPt.Y := tracks[i+2];
startPt.Z := tracks[i+3];
j := (3 * (m-1));
endPt.X := tracks[j+i+1];
endPt.Y := tracks[j+i+2];
endPt.Z := tracks[j+i+3];
normRGB := vector2RGB(startPt, endPt, len); //here only used for length
hideFiber := false;
if len < minFiberLength then hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideDarkTracks) and (Scalars[ScalarSelected].scalar[nfiber] < Scalars[ScalarSelected].mnView) then
hideFiber := true;
if (isScalarPerFiberColor) and (gPrefs.HideBrightTracks) and (Scalars[ScalarSelected].scalar[nfiber] > Scalars[ScalarSelected].mxView) then
hideFiber := true;
if not HideFiber then begin
trackLinks[i] := m;