Searched refs:nexusFile (Results 1 – 4 of 4) sorted by relevance
/dports/biology/clustalw/clustalw-2.1/src/tree/ |
H A D | ClusterTree.h | 53 … clustalw::OutputFile* nexusFile, clustalw::TreeNames* treeNames, string* path); 55 … clustalw::OutputFile* distFile, clustalw::OutputFile* nexusFile, clustalw::OutputFile* pimFile, 58 ofstream* nexusFile, ofstream* pimFile, 62 ofstream* nexusFile, clustalw::Alignment* alignPtr,
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H A D | ClusterTree.cpp | 761 … clustalw::OutputFile* nexusFile, clustalw::TreeNames* treeNames, string* path) in openFilesForBootstrap() argument 783 if(!nexusFile || !nexusFile->openFile(&(treeNames->nexusName), in openFilesForBootstrap() 793 …File* phylipFile, clustalw::OutputFile* distFile, clustalw::OutputFile* nexusFile, clustalw::Outpu… in openFilesForTreeFromAlignment() argument 828 if(!nexusFile || !nexusFile->openFile(&(treeNames->nexusName), in openFilesForTreeFromAlignment() 849 ofstream* nexusFile, ofstream* pimFile, ofstream* distFile, in calcQuickDistMatForAll() argument 855 overspill = calcQuickDistMatForSubSet(clustalFile, phylipFile, nexusFile, alignPtr); in calcQuickDistMatForAll() 889 ofstream* nexusFile, clustalw::Alignment* alignPtr, in calcQuickDistMatForSubSet() argument 928 if (nexusFile && clustalw::userParameters->getOutputTreeNexus()) in calcQuickDistMatForSubSet() 933 overspill = dnaDistanceMatrix(nexusFile, alignPtr); in calcQuickDistMatForSubSet() 937 overspill = protDistanceMatrix(nexusFile, alignPtr); in calcQuickDistMatForSubSet()
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/dports/biology/clustalw/clustalw-2.1/src/general/ |
H A D | clustalw.h | 72 string nexusFile; member
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/dports/biology/clustalw/clustalw-2.1/src/alignment/ |
H A D | AlignmentOutput.cpp | 257 && fileNames.gdeFile == "" && fileNames.nexusFile == "" && fileNames.nrbfFile == "" in QTOpenFilesForOutput() 296 if(fileNames.nexusFile != "") in QTOpenFilesForOutput() 298 nexusOutName = fileNames.nexusFile; in QTOpenFilesForOutput()
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