| /dports/biology/lamarc/lamarc-2.1.8/src/force/ |
| H A D | timemanager.cpp | 179 … const LongVec1d& lineages, const ForceParameters& fp, long& targetxpart, in TimeOfActiveCoal()
283 … const LongVec1d& lineages, const ForceParameters& fp, long& tiptrait, in TimeOfTraitMutation()
373 … const LongVec1d& lineages, const ForceParameters& fp, long& targetxpart, in TimeOfActiveCoal()
544 … const LongVec1d& lineages, const ForceParameters& fp, long& tiptrait, in TimeOfTraitMutation()
603 … const LongVec1d& lineages, const ForceParameters& fp, long& targetxpart, in TimeOfActiveCoal()
1093 … const LongVec1d& lineages, const ForceParameters& fp, long& tiptrait, in TimeOfTraitMutation()
1533 … const LongVec1d& lineages, const ForceParameters& fp, long& targetxpart, in TimeOfActiveCoal()
1715 bool StickTimeManager::MutationImpossible(const LongVec1d& lineages, in MutationImpossible()
1730 … const LongVec1d& lineages, const ForceParameters& fp, long& tiptrait, in TimeOfTraitMutation()
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| /dports/biology/migrate/migrate-3.6.11/src/ |
| H A D | skyline.c | 62 long *lineages, in waiting_theta()
89 long *lineages, in waiting_M()
232 long * lineages, in calculate_expected_values()
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| H A D | migevents.c | 336 long * lineages, long numpop, boolean is_last) in calculate_event_values()
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| H A D | tree.c | 375 long *lineages; in allocate_lineages() local
451 long *lineages; in add_partlineages() local
509 long *lineages; in add_partlineages_313() local
567 long *lineages; in add_partlineages_312() local
5635 long *lineages = world->treetimes[0].tl[interval].lineages; in sum_migprob() local
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| H A D | migration.h | 703 long *lineages; member
731 long *lineages; member
741 long *lineages; member
1132 long *lineages; member
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| /dports/biology/lamarc/lamarc-2.1.8/src/tree/ |
| H A D | treesum.cpp | 150 BranchBuffer lineages(registry.GetDataPack()); in Summarize() local
480 BranchBuffer lineages(registry.GetDataPack()); in Summarize() local
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| H A D | tree.cpp | 1215 BranchBuffer lineages(registry.GetDataPack()); in GroomForGrowth() local
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| /dports/biology/recombine/recombine1.41/ |
| H A D | jdrop.c | 1871 node *pickactive(long numalin, linlist **lineages, node *prohibited) in pickactive()
1901 linlist **lineages, long *lines, double tyme, boolean **nodenumber, in coalesce()
2133 linlist **lineages, long *lines, brlist **bigbr, double tyme, in brlistrecomb()
2282 linlist **lineages, long *lines, double tyme, long *siteptr, in recomb()
2548 boolean rootdrop(option_struct *op, data_fmt *data, tlist *t, double starttyme, linlist **lineages, in rootdrop()
2661 void finishbadtree(option_struct *op, data_fmt *data, tree *tr, linlist **lineages, long *numlins, in finishbadtree()
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