| /dports/biology/viennarna/ViennaRNA-2.4.18/src/Kinwalker/ |
| H A D | options.c | 12 static OptionS OptS; variable
53 return (&OptS); in decodeCML()
90 OptS.ExeName); in usage()
97 OptS.barrier_heuristic,OptS.dangle, OptS.grouping, OptS.lookahead); in usage()
104 … OptS.maxkeep,OptS.noLonelyPairs,OptS.transcribed, OptS.transcription_rate,OptS.windowsize); in usage()
134 OptS.printfront=0; in initializeOptions()
140 OptS.dangle=0; in initializeOptions()
142 OptS.lookahead=1; in initializeOptions()
144 OptS.maxkeep = 1; in initializeOptions()
172 OptS.testseq = 1; in processOptions()
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| H A D | main.cpp | 28 OptionS* OptS; in main() local
29 OptS = decodeCML(argc, argv); in main()
36 Node::ProcessOptions(OptS); in main()
37 InitializeEnergyModel(OptS,Node::sequence); in main()
38 …if(OptS->init_structure) Node:: trajectory.push_back(Node::front_structure+" "+Str(Node::Evaluate(… in main()
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| H A D | Node.cpp | 55 OptionS* Node::OptS=NULL; member in Node
113 Node::OptS=OptS; in ProcessOptions()
120 Node::verbose = OptS->verbose; in ProcessOptions()
121 Node::lookahead = OptS->lookahead; in ProcessOptions()
125 Node::windowsize=OptS->windowsize; in ProcessOptions()
128 Node::transcribed=OptS->transcribed; in ProcessOptions()
135 if(OptS->init_structure) { in ProcessOptions()
287 if(OptS->barrier_heuristic=='M') in CalculateFoldingPath()
331 OptS->barrier_heuristic='M'; in CalculatePathAndSaddle()
336 OptS->barrier_heuristic='S'; in CalculatePathAndSaddle()
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| H A D | Energy.cpp | 83 InitializeEnergyModel(OptionS* OptS, std::string sequence) in InitializeEnergyModel() argument
86 InitializeViennaRNA(sequence,OptS->dangle,OptS->transcribed); in InitializeEnergyModel()
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| H A D | Node.h | 76 static OptionS* OptS; variable
132 static void ProcessOptions(OptionS* OptS);
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| H A D | Energy.h | 32 InitializeEnergyModel(OptionS* OptS, std::string sequence);
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| H A D | MorganHiggs.cpp | 2161 OptionS* OptS; in main() local
2162 OptS = decodeCML(argc, argv); in main()
2172 OptS->transcribed=src.size(); in main()
2173 InitializeEnergyModel(OptS,sequence); in main()
2182 if(OptS->barrier_heuristic=='M'){ in main()
2183 path=MorganHiggsEnergy(sequence,src,tgt,saddlE,OptS->lookahead,OptS->grouping); in main()
2185 else if(OptS->barrier_heuristic=='S'){ in main()
2186 path=MorganHiggsStudlaEnergy(sequence,src,tgt,saddlE,OptS->lookahead,OptS->grouping); in main()
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| /dports/science/afni/afni-AFNI_21.3.16/src/SUMA/ |
| H A D | SUMA_NikoMap.c | 359 char *stmp = NULL, *nameout = NULL, *histnote=NULL, sbuf[500], OptS[]={"DoProp"}; in main() local
368 if (SUMA_iswordin(OptS,"DoProp") == 1) { in main()
423 OffS_out = SUMA_FormNeighbOffset (SO, Opt->r, OptS, NULL, -1.0); in main()
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| /dports/lang/oo2c/oo2c_64-2.1.11/lib/src/XML/ |
| H A D | Parser.Mod | 1300 END OptS;
1305 OptS (FALSE)
1314 OptS (TRUE)
1487 OptS (TRUE); CheckChar ("="); OptS (TRUE)
1553 OptS (TRUE);
2321 OptS (TRUE);
2547 OptS (FALSE);
2832 OptS (FALSE);
2861 OptS (FALSE);
3035 OptS (FALSE);
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| /dports/emulators/ucon64/ucon64-2.2.2-src/src/backup/ |
| H A D | fal.c | 1290 int OptS = 0; in fal_main() local
1367 OptS = 1; in fal_main()
1490 if (OptS) in fal_main()
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| /dports/graphics/xfractint/xfractint-20.04p16/common/ |
| H A D | comwin.mak | 27 Optsize = $(CC) /I$(HFD) $(OptS) $*.c >> f_errs.txt
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| H A D | common.mak | 29 Optsize = $(CC) /I$(HFD) $(OptS) $*.c >> f_errs.txt
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