set the maximum nr of times the slow optimiziation of alignment should iterate . default : unlimited concode_field_sep double rmsdThrJoin concode_elem_sep int maxGapSize concode_elem_sep double DEFAULT_GAP_OPEN concode_elem_sep double DISTANCE_INCREMENT concode_elem_sep double distanceIncrement concode_elem_sep int sideChainScoringType concode_elem_sep double oRmsdThr concode_elem_sep int maxNrIterationsForOptimization concode_elem_sep double DEFAULT_GAP_EXTENSION concode_elem_sep ScoringStrategy scoringStrategy concode_elem_sep double maxOptRMSD concode_elem_sep SubstitutionMatrix<AminoAcidCompound> substitutionMatrix concode_elem_sep boolean showAFPRanges concode_elem_sep double DEFAULT_oRmsdThr concode_elem_sep double gapOpen concode_elem_sep String name concode_elem_sep double gapExtension concode_elem_sep ScoringStrategy DEFAULT_SCORING_STRATEGY concode_elem_sep int winSize concode_elem_sep double rmsdThr concode_elem_sep double seqWeight concode_field_sep int getMaxNrIterationsForOptimization concode_elem_sep Double getMaxOptRMSD concode_elem_sep void setShowAFPRanges concode_elem_sep void setGapOpen concode_elem_sep Double getRmsdThr concode_elem_sep Double getGapOpen concode_elem_sep void setORmsdThr concode_elem_sep void setSubstitutionMatrix concode_elem_sep void setRmsdThr concode_elem_sep List<String> getUserConfigParameterNames concode_elem_sep double getSeqWeight concode_elem_sep void setSeqWeight concode_elem_sep Integer getMaxGapSize concode_elem_sep Double getGapExtension concode_elem_sep void setWinSize concode_elem_sep ScoringStrategy getScoringStrategy concode_elem_sep List<String> getUserConfigHelp concode_elem_sep SubstitutionMatrix<AminoAcidCompound> getSubstitutionMatrix concode_elem_sep void setMaxGapSize concode_elem_sep List<Class> getUserConfigTypes concode_elem_sep void setRmsdThrJoin concode_elem_sep void setMaxOptRMSD concode_elem_sep void setGapExtension concode_elem_sep Double getORmsdThr concode_elem_sep void setScoringStrategy concode_elem_sep boolean isShowAFPRanges concode_elem_sep Integer getWinSize concode_elem_sep Double getRmsdThrJoin concode_elem_sep Double getDistanceIncrement concode_elem_sep List<String> getUserConfigParameters concode_elem_sep void reset concode_elem_sep String toString concode_elem_sep String toString concode_elem_sep void setDistanceIncrement
void function ( int arg0 ) { this . maxNrIterationsForOptimization = arg0 ; }