Searched refs:bionj (Results 1 – 8 of 8) sorted by relevance
/dports/biology/phyml/phyml-3.3.20200621/src/ |
H A D | Makefile.am | 104 bionj.c bionj.h\ 140 bionj.c bionj.h\ 202 bionj.c bionj.h\ 225 bionj.c bionj.h\ 251 bionj.c bionj.h\ 287 bionj.c bionj.h\ 324 bionj.c bionj.h\ 360 bionj.c bionj.h\ 396 bionj.c bionj.h\ 429 bionj.c bionj.h\ [all …]
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H A D | Makefile_r.am | 4 rwrapper_SOURCES = main.c utilities.c optimiz.c lk.c bionj.c models.c free.c\ 6 rwrapper_LDADD = main.o utilities.o optimiz.o lk.o bionj.o models.o free.o\ 36 bionj.o: bionj.c bionj.h 37 $(SCOMPILE) -c bionj.c
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H A D | Makefile_mc.am | 21 mc_SOURCES = main.c utilities.c optimiz.c lk.c bionj.c models.c free.c\
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/dports/biology/seaview/seaview/ |
H A D | Makefile | 43 …parser.o md5.o zsockr.o misc_acnuc.o dnapars.o protpars.o seq.o phylip.o lwl.o bionj.o phyml_util.o
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H A D | trees.cxx | 252 static Fl_Round_Button *bionj; in distance_method_dialog() local 269 bionj = new Fl_Round_Button(nj->x() + nj->w() + 10, nj->y(), nj->w(), nj->h(), "BioNJ"); in distance_method_dialog() 270 bionj->type(FL_RADIO_BUTTON); in distance_method_dialog() 271 …savetofile = new Fl_Round_Button(bionj->x() + bionj->w() + 10, nj->y(), 110, nj->h(), "Save to Fil… in distance_method_dialog() 304 bionj->setonly(); in distance_method_dialog() 343 if (usertree->value()) bionj->setonly(); in distance_method_dialog() 353 else if(o == usertree || o == nj || o == bionj || o == savetofile) { in distance_method_dialog() 380 … char *tree = run_distance_method(view, distance_choice, ignore_all_gaps->value(), bionj->value(), in distance_method_dialog() 384 const char *choice = bionj->value()? "BioNJ_tree" : "NJ_tree"; in distance_method_dialog()
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/dports/biology/fasttree/FastTree-2.1.10_5/ |
H A D | FastTree-2.1.10.c | 815 int bionj = 0; variable 1734 bionj = 0; in main() 1736 bionj = 1; in main() 1985 bionj ? "weighted" : "balanced" , in main() 2842 if (bionj && join.weight > 0.01 && varIJ > 0.001) { in FastNJ() 2924 bionj ? bionjWeight : /*noweight*/-1.0); in FastNJ() 6799 if (useML || !bionj) { in RecomputeProfile() 6837 if (!bionj) in QuartetWeight()
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/dports/biology/phyml/phyml-3.3.20200621/doc/ |
H A D | phyml-manual.tex | 1646 \item \x{init.tree="bionj"|"user"|"random"}. Starting tree. Default is \x{bionj}. 1661 <instance id="T1" init.tree="bionj" optimise.tree="true" \ 1928 <instance id="T1" init.tree="bionj" optimise.tree="yes" \ 2078 <instance id="T1" init.tree="bionj" optimise.tree="yes" \ 2154 <instance id="T1" init.tree="bionj" optimise.tree="yes" \ 2371 <instance id="T1" init.tree="bionj" optimise.tree="yes"/>
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/dports/biology/iqtree/IQ-TREE-2.0.6/tree/ |
H A D | phylotree.cpp | 3268 BioNj bionj; in computeBioNJ() local 3269 bionj.create(dist_file.c_str(), bionj_file.c_str()); in computeBioNJ()
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