| /dports/biology/muscle/muscle-3.8.1551/ |
| H A D | glbalignle.cpp | 14 SCORE *MPrev; member
57 delete[] DPM.MPrev; in AllocDPMem()
92 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
133 SCORE *MPrev = DPM.MPrev; in GlobalAlignLE() local
203 MPrev[0] = -2.5; in GlobalAlignLE()
209 MPrev[0] = (logf(scoreSum) - g_scoreCenter); in GlobalAlignLE()
236 MPrev[j] = -2.5; in GlobalAlignLE()
315 SCORE *ptrMPrev_j = MPrev; in GlobalAlignLE()
393 Rotate(MPrev, MCurr, MWork); in GlobalAlignLE()
404 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignLE()
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| H A D | glbalignss.cpp | 24 SCORE *MPrev; member
56 delete[] DPM.MPrev; in AllocDPMem()
70 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
124 SCORE *MPrev = DPM.MPrev; in GlobalAlignSS() local
148 MPrev[0] = MxRowA[0][LettersB[0]]; in GlobalAlignSS()
162 MPrev[j] = MxRowA[0][uLetterB] + g_scoreGapOpen/2; // term gaps half in GlobalAlignSS()
203 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSS()
276 Rotate(MPrev, MCurr, MWork); in GlobalAlignSS()
287 SCORE INew = MPrev[j-1]; in GlobalAlignSS()
296 SCORE scoreMax = MPrev[uLengthB-1]; in GlobalAlignSS()
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| H A D | glbalignspn.cpp | 12 SCORE *MPrev; member
42 delete[] DPM.MPrev; in FreeDPMemSPN()
83 delete[] DPM.MPrev; in AllocDPMem()
110 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
151 SCORE *MPrev = DPM.MPrev; in GlobalAlignSPN() local
208 MPrev[0] = scoreSum - g_scoreCenter; in GlobalAlignSPN()
232 MPrev[j] = scoreSum - g_scoreCenter + GapOpenB[0] + GapCloseB[j-1]; in GlobalAlignSPN()
289 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSPN()
367 Rotate(MPrev, MCurr, MWork); in GlobalAlignSPN()
378 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignSPN()
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| H A D | glbalignsp.cpp | 12 SCORE *MPrev; member
51 delete[] DPM.MPrev; in AllocDPMem()
78 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
116 SCORE *MPrev = DPM.MPrev; in GlobalAlignSP() local
173 MPrev[0] = scoreSum - g_scoreCenter; in GlobalAlignSP()
197 MPrev[j] = scoreSum - g_scoreCenter + GapOpenB[0] + GapCloseB[j-1]; in GlobalAlignSP()
254 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSP()
332 Rotate(MPrev, MCurr, MWork); in GlobalAlignSP()
343 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignSP()
352 SCORE scoreMax = MPrev[uLengthB-1]; in GlobalAlignSP()
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| H A D | nwsmall.cpp | 68 SCORE MD = MPrev[j] + PA[i-1].m_scoreGapOpen;\
513 SCORE *MPrev = CacheMPrev; in NWSmall() local
540 MPrev[0] = 0; in NWSmall()
541 SetDPM(0, 0, MPrev[0]); in NWSmall()
544 MPrev[j] = MINUS_INFINITY; in NWSmall()
545 SetDPM(0, j, MPrev[j]); in NWSmall()
607 Rotate(MPrev, MCurr, MNext); in NWSmall()
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| H A D | nwdasmall.cpp | 93 SCORE MD = MPrev[j] + PA[i-1].m_scoreGapOpen;\
111 SCORE ME = MPrev[j] + PA[i-1].m_scoreGapOpen2;\
704 SCORE *MPrev = new SCORE[uPrefixCountB]; in NWDASmall() local
751 MPrev[0] = 0; in NWDASmall()
752 SetDPM(0, 0, MPrev[0]); in NWDASmall()
755 MPrev[j] = MINUS_INFINITY; in NWDASmall()
756 SetDPM(0, j, MPrev[j]); in NWDASmall()
849 Rotate(MPrev, MCurr, MNext); in NWDASmall()
938 delete[] MPrev; in NWDASmall()
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| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/umuscle/src/muscle/ |
| H A D | glbalignle.cpp | 66 delete[] DPM.MPrev; in AllocDPMem()
101 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
146 SCORE *MPrev = DPM.MPrev; in GlobalAlignLE() local
216 MPrev[0] = -2.5; in GlobalAlignLE()
222 MPrev[0] = (logf(scoreSum) - g_scoreCenter); in GlobalAlignLE()
249 MPrev[j] = -2.5; in GlobalAlignLE()
256 MPrev[j] = (logf(scoreSum) - g_scoreCenter) + in GlobalAlignLE()
328 SCORE *ptrMPrev_j = MPrev; in GlobalAlignLE()
406 Rotate(MPrev, MCurr, MWork); in GlobalAlignLE()
417 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignLE()
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| H A D | glbalignss.cpp | 66 delete[] DPM.MPrev; in AllocDPMem()
80 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
144 SCORE *MPrev = DPM.MPrev; in GlobalAlignSS() local
168 MPrev[0] = MxRowA[0][LettersB[0]]; in GlobalAlignSS()
182 MPrev[j] = MxRowA[0][uLetterB] + g_scoreGapOpen/2; // term gaps half in GlobalAlignSS()
222 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSS()
295 Rotate(MPrev, MCurr, MWork); in GlobalAlignSS()
306 SCORE INew = MPrev[j-1]; in GlobalAlignSS()
315 SCORE scoreMax = MPrev[uLengthB-1]; in GlobalAlignSS()
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| H A D | glbalignspn.cpp | 52 delete[] DPM.MPrev; in FreeDPMemSPN()
96 delete[] DPM.MPrev; in AllocDPMem()
123 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
169 SCORE *MPrev = DPM.MPrev; in GlobalAlignSPN() local
226 MPrev[0] = scoreSum - g_scoreCenter; in GlobalAlignSPN()
250 MPrev[j] = scoreSum - g_scoreCenter + GapOpenB[0] + GapCloseB[j-1]; in GlobalAlignSPN()
307 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSPN()
385 Rotate(MPrev, MCurr, MWork); in GlobalAlignSPN()
396 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignSPN()
405 SCORE scoreMax = MPrev[uLengthB-1]; in GlobalAlignSPN()
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| H A D | glbalignsp.cpp | 60 delete[] DPM.MPrev; in AllocDPMem()
87 DPM.MPrev = new SCORE[uLength]; in AllocDPMem()
129 SCORE *MPrev = DPM.MPrev; in GlobalAlignSP() local
186 MPrev[0] = scoreSum - g_scoreCenter; in GlobalAlignSP()
210 MPrev[j] = scoreSum - g_scoreCenter + GapOpenB[0] + GapCloseB[j-1]; in GlobalAlignSP()
267 SCORE *ptrMPrev_j = MPrev; in GlobalAlignSP()
345 Rotate(MPrev, MCurr, MWork); in GlobalAlignSP()
356 SCORE INew = MPrev[j-1] + GapOpenB[j]; in GlobalAlignSP()
365 SCORE scoreMax = MPrev[uLengthB-1]; in GlobalAlignSP()
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| H A D | muscle_context.h | 275 SCORE *MPrev; member
298 SCORE *MPrev; member
317 SCORE *MPrev; member
341 SCORE *MPrev; member
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| H A D | nwsmall.cpp | 69 SCORE MD = MPrev[j] + PA[i-1].m_scoreGapOpen;\
520 SCORE *MPrev = ctx->nwsmalls[workerID].CacheMPrev; in NWSmall() local
547 MPrev[0] = 0; in NWSmall()
548 SetDPM(0, 0, MPrev[0]); in NWSmall()
551 MPrev[j] = MINUS_INFINITY; in NWSmall()
552 SetDPM(0, j, MPrev[j]); in NWSmall()
614 Rotate(MPrev, MCurr, MNext); in NWSmall()
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| H A D | nwdasmall.cpp | 93 SCORE MD = MPrev[j] + PA[i-1].m_scoreGapOpen;\
111 SCORE ME = MPrev[j] + PA[i-1].m_scoreGapOpen2;\
704 SCORE *MPrev = new SCORE[uPrefixCountB]; in NWDASmall() local
751 MPrev[0] = 0; in NWDASmall()
752 SetDPM(0, 0, MPrev[0]); in NWDASmall()
755 MPrev[j] = MINUS_INFINITY; in NWDASmall()
756 SetDPM(0, j, MPrev[j]); in NWDASmall()
849 Rotate(MPrev, MCurr, MNext); in NWDASmall()
938 delete[] MPrev; in NWDASmall()
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| H A D | muscle_context.cpp | 433 delete[] glbalignsp.DPM.MPrev; in ~MuscleContext()
465 delete[] glbalignspn.DPM.MPrev; in ~MuscleContext()
492 delete[] glbalignle.DPM.MPrev; in ~MuscleContext()
519 delete[] glbalignss.DPM.MPrev; in ~MuscleContext()
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| /dports/games/vavoom/vavoom-1.33/source/ |
| H A D | vc_class.cpp | 1561 VMethod* MPrev = NULL; in InitNetFields() local
1564 MPrev = ParentClass->FindMethod(M->Name); in InitNetFields()
1566 if (MPrev) in InitNetFields()
1568 M->NetIndex = MPrev->NetIndex; in InitNetFields()
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