1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
|
unit LesionStatThds;
interface
uses
SysUtils,
ComCtrls,Classes, Graphics, ExtCtrls, define_types,stats,StatThdsUtil,Brunner,lesion_pattern;
type
TLesionStatThread = class(TThread)
private
lBarX: TProgressBar;
lttestx,lBMx: boolean;
lnCritx,lBarPosX,lnPermuteX,lThreadx,lThreadStartx,lThreadEndx,lStartVoxx,lVoxPerPlankx,
lImagesCountx,lControlsx : integer;
lPlankImgx:ByteP;
lOutImgMnx,lOutImgBMx,lOutImgTx,lOutImgAUCX,lSymptomRAx: SingleP;
//lBarX: TProgressBar;
procedure DoVisualSwap;
protected
procedure Execute; override;
procedure VisualProg(lPos: Integer);
procedure Analyze(lttest,lBM: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg:bytep;lOutImgMn,lOutImgBM,lOutImgT,lOutImgAUC,lSymptomRA: SingleP); virtual; abstract;
public
constructor Create(lBar: TProgressBar;lttest,lBM: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg:ByteP;lOutImgMn,lOutImgBM,lOutImgT,lOutImgAUC,lSymptomRA: SingleP);
end;
{ Lesion - image reveals value }
TLesionContinuous = class(TLesionStatThread )
protected
procedure Analyze(lttest,lBM: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg: byteP;lOutImgMn,lOutImgBM,lOutImgT,lOutImgAUC,lSymptomRA: SingleP); override;
end;
TLesionBinom = class(TLesionStatThread )
protected
procedure Analyze(lChi2,lLieber: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg: byteP;lOutImgMn,lOutImgL,lOutImgX,lOutImgAUC,lSymptomRA: SingleP); override;
end;
implementation
(*procedure OutStr(lStr: string);
var
lOutname: string;
f: TextFile;
begin
lOutname:='c:\fx.txt';
if fileexists(lOutname) then
begin { open a text file }
AssignFile(f, lOutname);
Append(f);
Writeln(f, lStr);
Flush(f); { ensures that the text was actually written to file }
{ insert code here that would require a Flush before closing the file }
CloseFile(f);
end;
end;
*)
Const Two32 = 4294967296.0 ;
function GenRandThreaded(lRange: integer; var lRandSeed:comp): integer;
//normal random function does not work well when threaded - randseed is changed by each thread
const lFactor = $08088405 ; lTerm = 1 ;
type lT = array [0..1] of longint ;
var
lX: extended;
begin
lRandSeed := lRandSeed*lFactor + lTerm;
lT(lRandSeed)[1] := 0 ; // < May'04 was: RS := RS - Trunc(RS/Two32)*Two32 ;
lX := lRandSeed/Two32 ;
result := trunc((lRange)*lX);
end;
procedure GenPermuteThreaded (lnSubj: integer; var lOrigOrder,lRanOrder: DoubleP0; var lRandSeed:comp);
var
lInc,lRand: integer;
lSwap: double;
begin
Move(lOrigOrder^,lRanOrder^,lnSubj*sizeof(double));
for lInc := lnSubj downto 2 do begin
lRand := GenRandThreaded(lInc,lRandSeed);
lSwap := lRanOrder^[lRand];
lRanOrder^[lRand] := lRanOrder^[lInc-1];
lRanOrder^[lInc-1] := lSwap;
end;
end;
procedure StatPermuteThreaded (lttest,lBM: boolean; lnSubj, lnGroup0,lnPermute,lThread: integer;var lOrigOrder: DoubleP0);
var
lInc: integer;
lOutT,lDF,lBMz: double;
lRS: Comp;
lRanOrderp: pointer;
lRanOrder: Doublep0;
begin
if (lnSubj < 1) or (lnPermute < 1) then
exit;
createArray64(lRanOrderp,lRanOrder,lnSubj);
lRS := 128;
for lInc := 1 to lnPermute do begin
GenPermuteThreaded(lnSubj, lOrigOrder,lRanOrder,lRS); //generate random order of participants
if lttest then begin
TStat2 (lnSubj, lnGroup0, lRanOrder, lOutT);
if lOutT > gPermuteMaxT[lThread,lInc] then
gPermuteMaxT[lThread,lInc] := lOutT;
if lOutT < gPermuteMinT[lThread,lInc] then
gPermuteMinT[lThread,lInc] := lOutT;
end; //compute ttest
if lBM then begin
//BMTest (lnSubj, lnGroup0, lRanOrder,lOutT);
tBM (lnSubj, lnGroup0, lRanOrder,lBMz,lDF);
lBMz := BMzVal (lnSubj, lnGroup0,lBMz,lDF);
if lBMz > gPermuteMaxBM[lThread,lInc] then
gPermuteMaxBM[lThread,lInc] := lBMz;
if lBMz < gPermuteMinBM[lThread,lInc] then
gPermuteMinBM[lThread,lInc] := lBMz;
end; //compute BM
end;
freemem(lRanOrderp);
end;
procedure GenPermuteThreadedBinom (lnSubj: integer; var lOrigOrder,lRanOrder: ByteP0; var lRandSeed:comp);
var
lInc,lRand: integer;
lSwap: byte;
begin
Move(lOrigOrder^,lRanOrder^,lnSubj);
for lInc := lnSubj downto 2 do begin
lRand := GenRandThreaded(lInc,lRandSeed);
lSwap := lRanOrder^[lRand];
lRanOrder^[lRand] := lRanOrder^[lInc-1];
lRanOrder^[lInc-1] := lSwap;
end;
end;
procedure StatPermuteBinomialThreaded (lnSubj, lnGroup0,lnPermute,lThread: integer;var lOrigOrder: ByteP0);
var
lInc: integer;
lOutP: double;
lRS: Comp;
lRanOrder: byteP0;
//lRanOrderp: pointer;
//lRanOrder: Doublep0;
begin
if (lnSubj < 1) or (lnPermute < 1) then
exit;
//createArray64(lRanOrderp,lRanOrder,lnSubj);
getmem(lRanOrder,lnSubj);
lRS := 128;
for lInc := 1 to lnPermute do begin
GenPermuteThreadedBinom(lnSubj, lOrigOrder,lRanOrder,lRS); //generate random order of participants
(*if lChi2 then begin
Chi2 (lnSubj, lnGroup0, lRanOrder, lOutT);
if lOutT > gPermuteMaxT[lThread,lInc] then
gPermuteMaxT[lThread,lInc] := lOutT;
if lOutT < gPermuteMinT[lThread,lInc] then
gPermuteMinT[lThread,lInc] := lOutT;
end; //compute ttest
if lLieber then begin*)
//Liebermeister2bP (lnSubj, lnGroup0, lRanOrder,lOutP);
Liebermeister2bP (lnSubj, lnGroup0, lRanOrder,lOutP);
if (lOutP > 0) and (lOutP < gPermuteMinT[lThread,lInc]) then begin //negative correlation
//fx(lOutP, gPermuteMinBM[lThread,lInc]);
gPermuteMinT[lThread,lInc] := lOutP;
end;
if (lOutP < 0) and ( lOutP > gPermuteMaxT[lThread,lInc]) then //negative correlation
gPermuteMaxT[lThread,lInc] := lOutP;
//end; //compute BM
end;
freemem(lRanOrder);
end;
procedure TLesionStatThread .DoVisualSwap;
begin
lBarX.Position := lBarPosX;
end;
procedure TLesionStatThread .VisualProg(lPos: Integer);
begin
lBarPosX := lPos;
{$IFDEF FPC}Synchronize(@DoVisualSwap); {$ELSE} Synchronize(DoVisualSwap);{$ENDIF}
end;
constructor TLesionStatThread .Create(lBar: TProgressBar; lttest,lBM: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg: byteP;lOutImgMn,lOutImgBM,lOutImgT,lOutImgAUC,lSymptomRA: SingleP);
begin
lBarX := lBar;
lttestx := lttest;
lBMx:= lBM;
lThreadX := lThread;
lThreadStartX := lThreadStart;
lThreadEndX := lThreadEnd;
lStartVoxx := lStartVox;
lVoxPerPlankx := lVoxPerPlank;
lImagesCountX := lImagesCount;
lControlsX := lControlsIn;
lPlankImgx := lPlankImg;
lOutImgMnx := lOutImgMn;
lOutImgBMx := lOutImgBM;
lOutImgTx := lOutImgT;
lOutImgAUCx := lOutImgAUC;
lSymptomRAx := lSymptomRA;
lnPermuteX := lnPermute;
lnCritX := lnCrit;
FreeOnTerminate := True;
inherited Create(False);
end;
{ The Execute method is called when the thread starts }
procedure TLesionStatThread .Execute;
begin
Analyze(lttestx,lBMx, lnCritX,lnPermuteX,lThreadx,lThreadStartx,lThreadEndx,lStartVoxx,lVoxPerPlankx,lImagesCountx,lControlsx,lPlankImgX,lOutImgMnx,lOutImgBMx,lOutImgTx,lOutImgAUCx,lSymptomRAx);
end;
procedure TLesionContinuous.Analyze (lttest,lBM: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIN : integer; lPlankImg:bytep;lOutImgMn,lOutImgBM,lOutImgT,lOutImgAUC,lSymptomRA: SingleP);
//pattern variables
const
knPrevPattern = 10;
var
lPrevPatternRA: array[1..knPrevPattern] of TLesionPattern;
lPattern: TLesionPattern;
lPrevZValsT,lPrevZValsBM,lPrevAUCVals: array [1..knPrevPattern] of Single;
lPatternPos: integer;
lLesionOrderp: bytep;
//standard variables
var
lStr: string;
lObstp,lObsp: pointer;
lObst,lObs: Doublep0;
lT,lBMz,lDF: Double;
lObsB: bytep0;
lnLesion,lnNoLesion,lPosPct,lPos,lPos2,lPos2Offset,lnControl,
lnControlsPlusLesion,lnControlsPlusPatients : integer;
begin //statthread
//init patterns
lnControl := abs(lControlsIn);
if lControlsIn < 0 then begin //binomial
getmem(lObsB, lImagesCount+lnControl);
end;
lnControlsPlusPatients := lImagesCount+lnControl;
for lPatternPos := 1 to knPrevPattern do
lPrevPatternRA[lPatternPos] := EmptyOrder;
lPatternPos := 1;
//lMaxLesion := lImagesCount-lnCrit;
getmem(lLesionOrderp, lImagesCount *sizeof(byte));
//now init standard variables
createArray64(lObsp,lObs,lnControlsPlusPatients);
lPosPct := (lThreadEnd-lThreadStart) div 100;
//if lThread = 1 then
// OutStr( inttostr(lThreadStart)+':'+inttostr(lThreadEnd)); //xxxxx
for lPos2 := lThreadStart to lThreadEnd do begin
if (lThread = 1) and ((lPos2 mod lPosPct) = 0) then
VisualProg(round((lPos2/(lThreadEnd-lThreadStart))*100));
if Terminated then exit; //goto 345;//abort
lPos2Offset := lPos2+lStartVox-1;
lnLesion := 0;
lnNoLesion := 0;
for lPos := 1 to lImagesCount do begin
if lPlankImg^[((lPos-1)* lVoxPerPlank)+lPos2] = 0 then begin
//no lesion
inc(lnNoLesion);
lLesionOrderp^[lPos] := 0;
lObs^[lnNoLesion-1] := lSymptomRA^[lPos];
end else begin
//lesion
inc(lnLesion);
lLesionOrderp^[lPos] := 1;
//lObs^[lImagesCount-lnLesion] := lSymptomRA^[lPos]; //note: lObs indexed from zero!
lObs^[lImagesCount-lPos+lnNoLesion] := lSymptomRA^[lPos]; //note: lObs indexed from zero!
end;
end;
lOutImgMn^[lPos2Offset] := lnLesion;///lImages.Count;
if (lnLesion >= lnCrit) and (lnLesion > 0) and (lnLesion < lImagesCount) then begin
//when there are 0 lesions or all lesions there is no variability!
inc(gnVoxTestedRA[lThread]);
//now check if we have seen this precise lesion order recently...
lPattern := SetOrderX (lLesionOrderp,lImagesCount);
lPos := 1;
while (lPos <= knPrevPattern) and not (SameOrder(lPattern,lPrevPatternRA[lPos],lImagesCount)) do
inc(lPos);
if SameOrder(lPattern,lPrevPatternRA[lPos],lImagesCount) then begin //lesion pattern is not novel
if lttest then
lOutImgT^[lPos2Offset] := lPrevZvalsT[lPos];
if lBM then
lOutImgBM^[lPos2Offset] := lPrevZvalsBM[lPos];
if lOutImgAUC <> nil then
lOutImgAUC^[lPos2Offset] := lPrevAUCvals[lPos];
end else begin //lesion pattern is novel
//record novel pattern
inc(lPatternPos);
if lPatternPos > knPrevPattern then
lPatternPos := 1;
lPrevPatternRA[lPatternPos] := lPattern;
lnControlsPlusLesion := lnControlsPlusPatients;
if (lControlsIn > 0) {and (lnLesion > 0)} then begin //anaCOm
createArray64(lObstp,lObst,lImagesCount);
for lPos := 1 to lImagesCount do
lObst^[lPos-1] := lObs^[lPos-1];
for lPos := 1 to lnLesion do
lObs^[lPos-1+lnControl] := lObst^[lPos-1+lnNoLesion];
freemem(lObstP);
for lPos := 1 to lnControl do
lObs^[lPos-1] := lSymptomRA^[lPos+lImagesCount];
lnControlsPlusLesion := lnControl+lnLesion;
lnNoLesion := {lnNoLesion +} lnControl;
end;//controls
(*if lPos2 = 2570879 then begin //xxxx
for lPos := 1 to lImagesCount do begin
outstr(inttostr(lPos)+'>'+floattostr(lObs^[lPos-1]) );
end;
end;*)
if lttest then begin
if lControlsIn > 0 then begin//anacom
TStat2Z (lnControlsPlusLesion, lnControl {lnNoLesion},lObs,lT);
(* if lPos2 = 2570879 then begin
outstr( floattostr(lT)+ ' '+inttostr(lnControl)); //xxxx
for lPos := 1 to lnControlsPlusLesion do begin
outstr(inttostr(lPos)+', '+floattostr(lObs^[lPos-1]) );
end;
end; *)
end else
TStat2 (lnControlsPlusLesion, lnNoLesion, lObs,lT);
lOutImgT^[lPos2Offset] := lT;
lPrevZValsT[lPatternPos] := lT;
end;
if lBM then begin
tBM (lnControlsPlusLesion, lnNoLesion, lObs,lBMz,lDF);
lBMz := BMzVal (lnControlsPlusPatients, lnNoLesion,lBMz,lDF);
lOutImgBM^[lPos2Offset] := lBMz;
lPrevZValsBM[lPatternPos] := lBMz;
end;
if lOutImgAUC <> nil then begin
lOutImgAUC^[lPos2Offset] := continROC (lnControlsPlusLesion, lnNoLesion, lObs);
lPrevAUCVals[lPatternPos] := lOutImgAUC^[lPos2Offset];
end;
StatPermuteThreaded (lttest,lBM,lImagesCount, lnNoLesion,lnPermute,lThread, lObs);
end; //novel lesion pattern
end; //in brain mask - compute
end; //for each voxel
freemem(lObsP);
freemem(lLesionOrderp);
if lControlsIn < 0 then //binomial
freemem(lObsB);
end;
procedure TLesionBinom.Analyze (lChi2,lLieber: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lControlsIn : integer; lPlankImg: bytep;lOutImgMn,lOutImgL,lOutImgX,lOutImgAUC,lSymptomRA: SingleP);
//procedure TLesionBinomial.Analyze (lChi2,lLieber: boolean; lnCrit,lnPermute,lThread,lThreadStart,lThreadEnd,lStartVox,lVoxPerPlank,lImagesCount,lnGroup1 : integer; lMaskImg,lPlankImg,lOutImgMn,lOutImgL,lOutImgX,lSymptomRA: SingleP);
//pattern variables
const
knPrevPattern = 10;
var
lPrevPatternRA: array[1..knPrevPattern] of TLesionPattern;
lPattern: TLesionPattern;
lPrevZValsL ,lPrevAUCVals: array [1..knPrevPattern] of Single;
lPatternPos: integer;
lLesionOrderp: bytep;
//standard variables
var
//lObsp: pointer;
//lObs: Doublep0; lPrevZVals
lObs: ByteP0;
lAUC,lZ: Double;
lnLesion,lPosPct,lPos,lPos2,lPos2Offset,lnVoxTested: integer;
begin //Binomial StatThread
//init patterns
for lPatternPos := 1 to knPrevPattern do
lPrevPatternRA[lPatternPos] := EmptyOrder;
lPatternPos := 1;
getmem(lLesionOrderp, lImagesCount *sizeof(byte));
//now init standard variables
//createArray64(lObsp,lObs,lImagesCount);
getmem(lObs,lImagesCount);
lPosPct := (lThreadEnd-lThreadStart) div 100;
for lPos2 := lThreadStart to lThreadEnd do begin
if (lThread = 1) and ((lPos2 mod lPosPct) = 0) then
VisualProg(round((lPos2/(lThreadEnd-lThreadStart))*100));
if Terminated then exit; //goto 345;//abort
lPos2Offset := lPos2+lStartVox-1;
lnLesion := 0;
for lPos := 1 to lImagesCount do begin
if ((gScaleRA[lPos]*lPlankImg^[((lPos-1)* lVoxPerPlank)+lPos2])+gInterceptRA[lPos]) = 0 then begin
//no lesion
lObs^[lImagesCount-lPos+lnLesion] := round(lSymptomRA^[lPos]);
lLesionOrderp^[lPos] := 0;
end else begin
//lesion
inc(lnLesion);
lLesionOrderp^[lPos] := 1;
lObs^[lnLesion-1] := round(lSymptomRA^[lPos]); //note: lObs indexed from zero!
end;
end;
lOutImgMn^[lPos2Offset] := lnLesion;///lImages.Count;
if (lnLesion >= lnCrit) and (lnLesion > 0) and (lnLesion < lImagesCount) then begin
//when there are 0 lesions or all lesions there is no variability!
inc(gnVoxTestedRA[lThread]);
//next check patterns
lPattern := SetOrderX (lLesionOrderp,lImagesCount);
lPos := 1;
while (lPos <= knPrevPattern) and not (SameOrder(lPattern,lPrevPatternRA[lPos],lImagesCount)) do
inc(lPos);
if SameOrder(lPattern,lPrevPatternRA[lPos],lImagesCount) then begin //lesion pattern is not novel
//if lChi2 then
// lOutImgX^[lPos2Offset] := lPrevZvalsX[lPos];
//if lLieber then
lOutImgL^[lPos2Offset] := lPrevZvalsL[lPos];
if lOutImgAUC <> nil then
lOutImgAUC^[lPos2Offset] := lPrevAUCvals[lPos];
end else begin //lesion pattern is novel
//record novel pattern
inc(lPatternPos);
if lPatternPos > knPrevPattern then
lPatternPos := 1;
lPrevPatternRA[lPatternPos] := lPattern;
{if lChi2 then begin
Chi2 (lImagesCount, lnLesion, lObs,lT);
lOutImgX^[lPos2Offset] := lT;//lT;
lPrevZValsX[lPatternPos] := lT;
end;
if lLieber then begin}
Liebermeister2b(lImagesCount, lnLesion, lObs,lAUC,lZ);
if lOutImgAUC <> nil then
lOutImgAUC^[lPos2Offset] := lAUC;
lPrevAUCVals[lPatternPos] := lAUC;
lOutImgL^[lPos2Offset] := lZ;
lPrevZValsL[lPatternPos] := lZ;
//end;
StatPermuteBinomialThreaded (lImagesCount, lnLesion,lnPermute,lThread, lObs);
end;
end; //in brain mask - compute
end; //for each voxel
freemem(lObs);
freemem(lLesionOrderp)
end;
end.
|