/dports/lang/ferite/ferite-1.0.2/scripts/test-suite/ |
H A D | Makefile.am | 30 @(FCOUNT=0; TCOUNT=0; for file in $(testscripts); do \ 36 SOMEVALUE=$$((FCOUNT++)); \ 39 done; echo ""; echo "Result: $$FCOUNT out of $$TCOUNT tests failed") 42 @(FCOUNT=0; TCOUNT=0; for file in $(testscripts); do \ 48 SOMEVALUE=$$((FCOUNT++)); \ 51 done; echo ""; echo "Result: $$FCOUNT out of $$TCOUNT tests failed")
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/dports/biology/muscle/muscle-3.8.1551/ |
H A D | msa2.cpp | 17 FCOUNT fcCounts[], FCOUNT *ptrfcGapStart, FCOUNT *ptrfcGapEnd, in GetFractionalWeightedCounts() 18 FCOUNT *ptrfcGapExtend, FCOUNT *ptrfOcc, in GetFractionalWeightedCounts() 19 FCOUNT *ptrfcLL, FCOUNT *ptrfcLG, FCOUNT *ptrfcGL, FCOUNT *ptrfcGG) const in GetFractionalWeightedCounts() 26 FCOUNT fGap = 0; in GetFractionalWeightedCounts() 53 const FCOUNT f = w/20; in GetFractionalWeightedCounts() 101 FCOUNT fcStartCount = 0; in GetFractionalWeightedCounts() 115 FCOUNT fcEndCount = 0; in GetFractionalWeightedCounts() 129 FCOUNT LL = 0; in GetFractionalWeightedCounts() 130 FCOUNT LG = 0; in GetFractionalWeightedCounts() 131 FCOUNT GL = 0; in GetFractionalWeightedCounts() [all …]
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H A D | glbalignle.cpp | 22 FCOUNT *OccA; 23 FCOUNT *OccB; 27 FCOUNT **FreqsA; 85 DPM.OccA = new FCOUNT[uLength]; in AllocDPMem() 86 DPM.OccB = new FCOUNT[uLength]; in AllocDPMem() 109 DPM.FreqsA[i] = new FCOUNT[20]; in AllocDPMem() 131 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignLE() 142 FCOUNT *OccA = DPM.OccA; in GlobalAlignLE() 143 FCOUNT *OccB = DPM.OccB; in GlobalAlignLE() 185 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignLE() [all …]
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H A D | profile.h | 15 FCOUNT m_fcCounts[20]; 16 FCOUNT m_LL; 17 FCOUNT m_LG; 18 FCOUNT m_GL; 19 FCOUNT m_GG; 22 FCOUNT m_fOcc; 23 FCOUNT m_fcStartOcc; 24 FCOUNT m_fcEndOcc; 73 bool IsHydrophilic(const FCOUNT fcCounts[]); 103 bool IsHydrophobic(const FCOUNT fcCounts[]);
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H A D | profilefrommsa.cpp | 7 static void LogF(FCOUNT f) in LogF() 73 FCOUNT f = PP.m_fcCounts[uLetter]; in ListProfile() 138 FCOUNT f = PP.m_fcCounts[uLetter]; in ListProfile() 156 void SortCounts(const FCOUNT fcCounts[], unsigned SortOrder[]) in SortCounts() 182 static unsigned AminoGroupFromFCounts(const FCOUNT fcCounts[]) in AminoGroupFromFCounts() 228 unsigned ResidueGroupFromFCounts(const FCOUNT fcCounts[]) in ResidueGroupFromFCounts() 260 FCOUNT fcGapStart; in ProfileFromMSA() 261 FCOUNT fcGapEnd; in ProfileFromMSA() 262 FCOUNT fcGapExtend; in ProfileFromMSA() 263 FCOUNT fOcc; in ProfileFromMSA() [all …]
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H A D | msa.h | 43 FCOUNT fcCounts[], FCOUNT *ptrfcGapStart, FCOUNT *ptrfcGapEnd, 44 FCOUNT *fcGapExtend, FCOUNT *ptrfOcc, 45 FCOUNT *fcLL, FCOUNT *fcLG, FCOUNT *fcGL, FCOUNT *fcGG) const;
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H A D | scorepp.cpp | 7 FCOUNT fcMostCommon = PP.m_fcCounts[0]; in ConsensusChar() 12 const FCOUNT fc = PP.m_fcCounts[uLetter]; in ConsensusChar() 39 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2LA() 56 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2NS() 70 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2SP() 84 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2SPN()
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H A D | glbalignsp.cpp | 21 FCOUNT **FreqsA; 76 DPM.FreqsA = new FCOUNT*[uLength]; in AllocDPMem() 95 DPM.FreqsA[i] = new FCOUNT[20]; in AllocDPMem() 114 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignSP() 156 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignSP() 164 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSP() 168 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSP() 188 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSP() 192 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSP() 215 const FCOUNT *FreqsAi = *ptrFreqsA; in GlobalAlignSP() [all …]
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H A D | glbalignspn.cpp | 21 FCOUNT **FreqsA; 108 DPM.FreqsA = new FCOUNT*[uLength]; in AllocDPMem() 127 DPM.FreqsA[i] = new FCOUNT[4]; in AllocDPMem() 149 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignSPN() 191 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignSPN() 199 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSPN() 203 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSPN() 223 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSPN() 227 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSPN() 250 const FCOUNT *FreqsAi = *ptrFreqsA; in GlobalAlignSPN() [all …]
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H A D | tomhydro.cpp | 57 bool IsHydrophilic(const FCOUNT fcCounts[]) in IsHydrophilic() 65 static double HydrophilicFraction(const FCOUNT fcCounts[]) in HydrophilicFraction() 71 FCOUNT Freq = fcCounts[uLetter]; in HydrophilicFraction()
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H A D | spfast.cpp | 91 static SCORE SPGapFreqs(const FCOUNT Freqs[]) in SPGapFreqs() 105 const FCOUNT fi = Freqs[i]; in SPGapFreqs() 141 static SCORE SPFreqs(const FCOUNT Freqs[]) in SPFreqs() 155 const FCOUNT fi = Freqs[i]; in SPFreqs() 193 FCOUNT Freqs[20]; in ObjScoreSPCol() 194 FCOUNT GapFreqs[4]; in ObjScoreSPCol()
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/dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/umuscle/src/muscle/ |
H A D | msa2.cpp | 22 FCOUNT fcCounts[], FCOUNT *ptrfcGapStart, FCOUNT *ptrfcGapEnd, in GetFractionalWeightedCounts() 23 FCOUNT *ptrfcGapExtend, FCOUNT *ptrfOcc, in GetFractionalWeightedCounts() 24 FCOUNT *ptrfcLL, FCOUNT *ptrfcLG, FCOUNT *ptrfcGL, FCOUNT *ptrfcGG, in GetFractionalWeightedCounts() 37 FCOUNT fGap = 0; in GetFractionalWeightedCounts() 64 const FCOUNT f = w/20; in GetFractionalWeightedCounts() 112 FCOUNT fcStartCount = 0; in GetFractionalWeightedCounts() 126 FCOUNT fcEndCount = 0; in GetFractionalWeightedCounts() 140 FCOUNT LL = 0; in GetFractionalWeightedCounts() 141 FCOUNT LG = 0; in GetFractionalWeightedCounts() 142 FCOUNT GL = 0; in GetFractionalWeightedCounts() [all …]
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H A D | profile.h | 15 FCOUNT m_fcCounts[20]; 16 FCOUNT m_LL; 17 FCOUNT m_LG; 18 FCOUNT m_GL; 19 FCOUNT m_GG; 22 FCOUNT m_fOcc; 23 FCOUNT m_fcStartOcc; 24 FCOUNT m_fcEndOcc; 80 bool IsHydrophilic(const FCOUNT fcCounts[]); 110 bool IsHydrophobic(const FCOUNT fcCounts[]);
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H A D | glbalignle.cpp | 94 DPM.OccA = new FCOUNT[uLength]; in AllocDPMem() 95 DPM.OccB = new FCOUNT[uLength]; in AllocDPMem() 99 DPM.FreqsA = new FCOUNT*[uLength]; in AllocDPMem() 118 DPM.FreqsA[i] = new FCOUNT[20]; in AllocDPMem() 144 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignLE() 155 FCOUNT *OccA = DPM.OccA; in GlobalAlignLE() 156 FCOUNT *OccB = DPM.OccB; in GlobalAlignLE() 198 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignLE() 206 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignLE() 239 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignLE() [all …]
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H A D | profilefrommsa.cpp | 11 static void LogF(FCOUNT f) in LogF() 81 FCOUNT f = PP.m_fcCounts[uLetter]; in ListProfile() 150 FCOUNT f = PP.m_fcCounts[uLetter]; in ListProfile() 194 static unsigned AminoGroupFromFCounts(const FCOUNT fcCounts[]) in AminoGroupFromFCounts() 217 static unsigned NucleoGroupFromFCounts(const FCOUNT fcCounts[]) in NucleoGroupFromFCounts() 240 unsigned ResidueGroupFromFCounts(const FCOUNT fcCounts[]) in ResidueGroupFromFCounts() 281 FCOUNT fcGapStart; in ProfileFromMSA() 282 FCOUNT fcGapEnd; in ProfileFromMSA() 283 FCOUNT fcGapExtend; in ProfileFromMSA() 284 FCOUNT fOcc; in ProfileFromMSA() [all …]
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H A D | msa.h | 46 FCOUNT fcCounts[], FCOUNT *ptrfcGapStart, FCOUNT *ptrfcGapEnd, 47 FCOUNT *fcGapExtend, FCOUNT *ptrfOcc, 48 FCOUNT *fcLL, FCOUNT *fcLG, FCOUNT *fcGL, FCOUNT *fcGG,
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H A D | scorepp.cpp | 16 FCOUNT fcMostCommon = PP.m_fcCounts[0]; in ConsensusChar() 21 const FCOUNT fc = PP.m_fcCounts[uLetter]; in ConsensusChar() 48 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2LA() 65 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2NS() 79 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2SP() 93 const FCOUNT fcLetter = PPA.m_fcCounts[uLetter]; in ScoreProfPos2SPN()
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H A D | glbalignsp.cpp | 85 DPM.FreqsA = new FCOUNT*[uLength]; in AllocDPMem() 104 DPM.FreqsA[i] = new FCOUNT[20]; in AllocDPMem() 127 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignSP() 169 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignSP() 177 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSP() 181 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSP() 201 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSP() 205 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSP() 228 const FCOUNT *FreqsAi = *ptrFreqsA; in GlobalAlignSP() 239 const FCOUNT fcLetter = FreqsAi[uLetter]; in GlobalAlignSP()
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H A D | glbalignspn.cpp | 121 DPM.FreqsA = new FCOUNT*[uLength]; in AllocDPMem() 140 DPM.FreqsA[i] = new FCOUNT[4]; in AllocDPMem() 167 FCOUNT **FreqsA = DPM.FreqsA; in GlobalAlignSPN() 209 FCOUNT **ptrFreqsA = FreqsA; in GlobalAlignSPN() 217 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSPN() 221 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSPN() 241 FCOUNT *ptrFreqsAi = FreqsA[0]; in GlobalAlignSPN() 245 const FCOUNT fcLetter = ptrFreqsAi[uLetter]; in GlobalAlignSPN() 268 const FCOUNT *FreqsAi = *ptrFreqsA; in GlobalAlignSPN() 279 const FCOUNT fcLetter = FreqsAi[uLetter]; in GlobalAlignSPN()
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H A D | tomhydro.cpp | 58 bool IsHydrophilic(const FCOUNT fcCounts[]) in IsHydrophilic() 66 static double HydrophilicFraction(const FCOUNT fcCounts[]) in HydrophilicFraction() 72 FCOUNT Freq = fcCounts[uLetter]; in HydrophilicFraction()
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H A D | spfast.cpp | 97 static SCORE SPGapFreqs(const FCOUNT Freqs[]) in SPGapFreqs() 113 const FCOUNT fi = Freqs[i]; in SPGapFreqs() 149 static SCORE SPFreqs(const FCOUNT Freqs[]) in SPFreqs() 165 const FCOUNT fi = Freqs[i]; in SPFreqs() 207 FCOUNT Freqs[20]; in ObjScoreSPCol() 208 FCOUNT GapFreqs[4]; in ObjScoreSPCol()
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H A D | muscle_context.h | 284 FCOUNT **FreqsA; 307 FCOUNT **FreqsA; 349 FCOUNT *OccA; 350 FCOUNT *OccB; 354 FCOUNT **FreqsA;
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H A D | aligngivenpath.cpp | 72 FCOUNT s1 = PP.m_LL + PP.m_LG + PP.m_GL + PP.m_GG; in ValidateProf() 78 FCOUNT s2 = PPPrev.m_LL + PPPrev.m_GL; in ValidateProf() 79 FCOUNT s3 = PP.m_LL + PP.m_LG; in ValidateProf() 85 FCOUNT s4 = PP.m_LL + PP.m_GL; in ValidateProf() 86 FCOUNT s5 = PPNext.m_LL + PPNext.m_LG; in ValidateProf() 115 FCOUNT fcOpen = PP.m_LG; in ScoresFromFreqsPos() 120 FCOUNT fcClose; in ScoresFromFreqsPos() 637 const FCOUNT fA = PPA.m_fOcc*wA/(wA + wB); in SetFreqs() 638 const FCOUNT fB = PPB.m_fOcc*wB/(wA + wB); in SetFreqs() 639 FCOUNT fTotal = 0; in SetFreqs() [all …]
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/dports/science/kst2/kst-plot-38eddb5322a1d557f9d86ea95d456d76272941e3/old_tests/dirfile_maker/ |
H A D | dirfile_maker.c | 16 #define FCOUNT 1 macro 71 for (i=0; i<df[FCOUNT].spf; i++) { in main() 72 x = count*df[FCOUNT].spf+i; in main() 73 write(df[FCOUNT].fp, &x, sizeof(float)); in main()
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/dports/science/kst2/kst-plot-38eddb5322a1d557f9d86ea95d456d76272941e3/tests/dirfile_maker/ |
H A D | dirfile_maker.c | 20 #define FCOUNT 1 macro 116 for (i=0; i<df[FCOUNT].spf; i++) { in main() 117 x = count*df[FCOUNT].spf+i; in main() 118 nw = write(df[FCOUNT].fp, &x, sizeof(float)); in main()
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