Searched refs:getResetAlignmentsNew (Results 1 – 4 of 4) sorted by relevance
119 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in align()344 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in sequencesAlignToProfile()491 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in profileAlign()655 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in doGuideTreeOnly()716 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in doGuideTreeOnly()763 if(userParameters->getResetAlignmentsNew() || userParameters->getResetAlignmentsAll()) in doAlignUseOldTree()
162 if (userParameters->getResetAlignmentsNew()) in multipleAlignMenu()222 if (userParameters->getResetAlignmentsNew() == true) in multipleAlignMenu()
120 bool getResetAlignmentsNew(){return resetAlignmentsNew;}; in getResetAlignmentsNew() function
51 bool _resetAlignNew = userParameters->getResetAlignmentsNew(); in resetProfile1()126 bool _resetAlignNew = userParameters->getResetAlignmentsNew(); in resetProfile2()621 bool _resetAlignNew = userParameters->getResetAlignmentsNew(); in resetAlign()