package org.ngbw.web.actions.tool;
import org.ngbw.sdk.common.util.SuperString;
import org.ngbw.web.actions.ToolParameters;
@SuppressWarnings("serial")
public class mrbayes_xsede extends ToolParameters
{
// file-typed property getters and setters
public Long getInfile_()
{
return getInputDataItemId("infile_");
}
public void setInfile_(Long infile_)
{
setInputDataItem("infile_",infile_);
}
public String getMrbayesblockquery_()
{return getToolParameters().get("mrbayesblockquery_");
}
public void setMrbayesblockquery_(String mrbayesblockquery_)
{ getToolParameters().put("mrbayesblockquery_", mrbayesblockquery_);
}
public String getSet_autoclose_confirm_()
{return getToolParameters().get("set_autoclose_confirm_");
}
public void setSet_autoclose_confirm_(String set_autoclose_confirm_)
{ getToolParameters().put("set_autoclose_confirm_", set_autoclose_confirm_);
}
public String getNruns_specified_()
{return getToolParameters().get("nruns_specified_");
}
public void setNruns_specified_(String nruns_specified_)
{ getToolParameters().put("nruns_specified_", nruns_specified_);
}
public String getNchains_specified_()
{return getToolParameters().get("nchains_specified_");
}
public void setNchains_specified_(String nchains_specified_)
{ getToolParameters().put("nchains_specified_", nchains_specified_);
}
public String getRuntime_()
{return getToolParameters().get("runtime_");
}
public void setRuntime_(String runtime_)
{ getToolParameters().put("runtime_", runtime_);
}
public String getFlagdatatype_()
{return getToolParameters().get("flagdatatype_");
}
public void setFlagdatatype_(String flagdatatype_)
{ getToolParameters().put("flagdatatype_", flagdatatype_);
}
public String getSeed_()
{return getToolParameters().get("seed_");
}
public void setSeed_(String seed_)
{ getToolParameters().put("seed_", seed_);
}
public String getSwapseed_()
{return getToolParameters().get("swapseed_");
}
public void setSwapseed_(String swapseed_)
{ getToolParameters().put("swapseed_", swapseed_);
}
public String getScientific_()
{return getToolParameters().get("scientific_");
}
public void setScientific_(String scientific_)
{ getToolParameters().put("scientific_", scientific_);
}
public String getPrecision_()
{return getToolParameters().get("precision_");
}
public void setPrecision_(String precision_)
{ getToolParameters().put("precision_", precision_);
}
public String getSet_beagle_params_()
{return getToolParameters().get("set_beagle_params_");
}
public void setSet_beagle_params_(String set_beagle_params_)
{ getToolParameters().put("set_beagle_params_", set_beagle_params_);
}
public String getSet_outgroup_()
{return getToolParameters().get("set_outgroup_");
}
public void setSet_outgroup_(String set_outgroup_)
{ getToolParameters().put("set_outgroup_", set_outgroup_);
}
public String getNstopts_()
{return getToolParameters().get("nstopts_");
}
public void setNstopts_(String nstopts_)
{ getToolParameters().put("nstopts_", nstopts_);
}
public String getNucmodelopts_()
{return getToolParameters().get("nucmodelopts_");
}
public void setNucmodelopts_(String nucmodelopts_)
{ getToolParameters().put("nucmodelopts_", nucmodelopts_);
}
public String getCodonopts_()
{return getToolParameters().get("codonopts_");
}
public void setCodonopts_(String codonopts_)
{ getToolParameters().put("codonopts_", codonopts_);
}
public String getOmegavaropts_()
{return getToolParameters().get("omegavaropts_");
}
public void setOmegavaropts_(String omegavaropts_)
{ getToolParameters().put("omegavaropts_", omegavaropts_);
}
public String getPloidyopts_()
{return getToolParameters().get("ploidyopts_");
}
public void setPloidyopts_(String ploidyopts_)
{ getToolParameters().put("ploidyopts_", ploidyopts_);
}
public String getRateopts_()
{return getToolParameters().get("rateopts_");
}
public void setRateopts_(String rateopts_)
{ getToolParameters().put("rateopts_", rateopts_);
}
public String getNgammacatopts_()
{return getToolParameters().get("Ngammacatopts_");
}
public void setNgammacatopts_(String Ngammacatopts_)
{ getToolParameters().put("Ngammacatopts_", Ngammacatopts_);
}
public String getNbetacatopts_()
{return getToolParameters().get("Nbetacatopts_");
}
public void setNbetacatopts_(String Nbetacatopts_)
{ getToolParameters().put("Nbetacatopts_", Nbetacatopts_);
}
public String getCovarionopts_()
{return getToolParameters().get("Covarionopts_");
}
public void setCovarionopts_(String Covarionopts_)
{ getToolParameters().put("Covarionopts_", Covarionopts_);
}
public String getCodingopts_()
{return getToolParameters().get("codingopts_");
}
public void setCodingopts_(String codingopts_)
{ getToolParameters().put("codingopts_", codingopts_);
}
public String getParsmodelopts_()
{return getToolParameters().get("Parsmodelopts_");
}
public void setParsmodelopts_(String Parsmodelopts_)
{ getToolParameters().put("Parsmodelopts_", Parsmodelopts_);
}
public String getTratioopts_()
{return getToolParameters().get("tratioopts_");
}
public void setTratioopts_(String tratioopts_)
{ getToolParameters().put("tratioopts_", tratioopts_);
}
public String getBetameanx_()
{return getToolParameters().get("betameanx_");
}
public void setBetameanx_(String betameanx_)
{ getToolParameters().put("betameanx_", betameanx_);
}
public String getBetavary_()
{return getToolParameters().get("betavary_");
}
public void setBetavary_(String betavary_)
{ getToolParameters().put("betavary_", betavary_);
}
public String getTratiofixed_()
{return getToolParameters().get("tratiofixed_");
}
public void setTratiofixed_(String tratiofixed_)
{ getToolParameters().put("tratiofixed_", tratiofixed_);
}
public String getRevmatpropts_()
{return getToolParameters().get("revmatpropts_");
}
public void setRevmatpropts_(String revmatpropts_)
{ getToolParameters().put("revmatpropts_", revmatpropts_);
}
public String getAtocrate_()
{return getToolParameters().get("atocrate_");
}
public void setAtocrate_(String atocrate_)
{ getToolParameters().put("atocrate_", atocrate_);
}
public String getAtograte_()
{return getToolParameters().get("atograte_");
}
public void setAtograte_(String atograte_)
{ getToolParameters().put("atograte_", atograte_);
}
public String getAtotrate_()
{return getToolParameters().get("atotrate_");
}
public void setAtotrate_(String atotrate_)
{ getToolParameters().put("atotrate_", atotrate_);
}
public String getCtograte_()
{return getToolParameters().get("ctograte_");
}
public void setCtograte_(String ctograte_)
{ getToolParameters().put("ctograte_", ctograte_);
}
public String getCtotrate_()
{return getToolParameters().get("ctotrate_");
}
public void setCtotrate_(String ctotrate_)
{ getToolParameters().put("ctotrate_", ctotrate_);
}
public String getGtotrate_()
{return getToolParameters().get("gtotrate_");
}
public void setGtotrate_(String gtotrate_)
{ getToolParameters().put("gtotrate_", gtotrate_);
}
public String getFixedatocrate_()
{return getToolParameters().get("fixedatocrate_");
}
public void setFixedatocrate_(String fixedatocrate_)
{ getToolParameters().put("fixedatocrate_", fixedatocrate_);
}
public String getFixedatograte_()
{return getToolParameters().get("fixedatograte_");
}
public void setFixedatograte_(String fixedatograte_)
{ getToolParameters().put("fixedatograte_", fixedatograte_);
}
public String getFixedatotrate_()
{return getToolParameters().get("fixedatotrate_");
}
public void setFixedatotrate_(String fixedatotrate_)
{ getToolParameters().put("fixedatotrate_", fixedatotrate_);
}
public String getFixedctograte_()
{return getToolParameters().get("fixedctograte_");
}
public void setFixedctograte_(String fixedctograte_)
{ getToolParameters().put("fixedctograte_", fixedctograte_);
}
public String getFixedctotrate_()
{return getToolParameters().get("fixedctotrate_");
}
public void setFixedctotrate_(String fixedctotrate_)
{ getToolParameters().put("fixedctotrate_", fixedctotrate_);
}
public String getFixedgtotrate_()
{return getToolParameters().get("fixedgtotrate_");
}
public void setFixedgtotrate_(String fixedgtotrate_)
{ getToolParameters().put("fixedgtotrate_", fixedgtotrate_);
}
public String getAamodelpropts_()
{return getToolParameters().get("aamodelpropts_");
}
public void setAamodelpropts_(String aamodelpropts_)
{ getToolParameters().put("aamodelpropts_", aamodelpropts_);
}
public String getOmegapropts_()
{return getToolParameters().get("omegapropts_");
}
public void setOmegapropts_(String omegapropts_)
{ getToolParameters().put("omegapropts_", omegapropts_);
}
public String getOmegaprdir1_()
{return getToolParameters().get("omegaprdir1_");
}
public void setOmegaprdir1_(String omegaprdir1_)
{ getToolParameters().put("omegaprdir1_", omegaprdir1_);
}
public String getOmegaprdir2_()
{return getToolParameters().get("omegaprdir2_");
}
public void setOmegaprdir2_(String omegaprdir2_)
{ getToolParameters().put("omegaprdir2_", omegaprdir2_);
}
public String getOmegaprexponential_()
{return getToolParameters().get("omegaprexponential_");
}
public void setOmegaprexponential_(String omegaprexponential_)
{ getToolParameters().put("omegaprexponential_", omegaprexponential_);
}
public String getOmegafixed_()
{return getToolParameters().get("omegafixed_");
}
public void setOmegafixed_(String omegafixed_)
{ getToolParameters().put("omegafixed_", omegafixed_);
}
public String getNy98omega1propts_()
{return getToolParameters().get("ny98omega1propts_");
}
public void setNy98omega1propts_(String ny98omega1propts_)
{ getToolParameters().put("ny98omega1propts_", ny98omega1propts_);
}
public String getNy98omega1prbeta1_()
{return getToolParameters().get("ny98omega1prbeta1_");
}
public void setNy98omega1prbeta1_(String ny98omega1prbeta1_)
{ getToolParameters().put("ny98omega1prbeta1_", ny98omega1prbeta1_);
}
public String getNy98omega1prbeta2_()
{return getToolParameters().get("ny98omega1prbeta2_");
}
public void setNy98omega1prbeta2_(String ny98omega1prbeta2_)
{ getToolParameters().put("ny98omega1prbeta2_", ny98omega1prbeta2_);
}
public String getNy98omega1prfix1_()
{return getToolParameters().get("ny98omega1prfix1_");
}
public void setNy98omega1prfix1_(String ny98omega1prfix1_)
{ getToolParameters().put("ny98omega1prfix1_", ny98omega1prfix1_);
}
public String getNy98omega3propts_()
{return getToolParameters().get("ny98omega3propts_");
}
public void setNy98omega3propts_(String ny98omega3propts_)
{ getToolParameters().put("ny98omega3propts_", ny98omega3propts_);
}
public String getNy98omega3pruni1_()
{return getToolParameters().get("ny98omega3pruni1_");
}
public void setNy98omega3pruni1_(String ny98omega3pruni1_)
{ getToolParameters().put("ny98omega3pruni1_", ny98omega3pruni1_);
}
public String getNy98omega3pruni2_()
{return getToolParameters().get("ny98omega3pruni2_");
}
public void setNy98omega3pruni2_(String ny98omega3pruni2_)
{ getToolParameters().put("ny98omega3pruni2_", ny98omega3pruni2_);
}
public String getNy98omega3prexp1_()
{return getToolParameters().get("ny98omega3prexp1_");
}
public void setNy98omega3prexp1_(String ny98omega3prexp1_)
{ getToolParameters().put("ny98omega3prexp1_", ny98omega3prexp1_);
}
public String getNy98omega3prfix1_()
{return getToolParameters().get("ny98omega3prfix1_");
}
public void setNy98omega3prfix1_(String ny98omega3prfix1_)
{ getToolParameters().put("ny98omega3prfix1_", ny98omega3prfix1_);
}
public String getM3omega3propts_()
{return getToolParameters().get("M3omega3propts_");
}
public void setM3omega3propts_(String M3omega3propts_)
{ getToolParameters().put("M3omega3propts_", M3omega3propts_);
}
public String getM3omega3prfix1_()
{return getToolParameters().get("M3omega3prfix1_");
}
public void setM3omega3prfix1_(String M3omega3prfix1_)
{ getToolParameters().put("M3omega3prfix1_", M3omega3prfix1_);
}
public String getM3omega3prfix2_()
{return getToolParameters().get("M3omega3prfix2_");
}
public void setM3omega3prfix2_(String M3omega3prfix2_)
{ getToolParameters().put("M3omega3prfix2_", M3omega3prfix2_);
}
public String getM3omega3prfix3_()
{return getToolParameters().get("M3omega3prfix3_");
}
public void setM3omega3prfix3_(String M3omega3prfix3_)
{ getToolParameters().put("M3omega3prfix3_", M3omega3prfix3_);
}
public String getCodoncatfreqsopts_()
{return getToolParameters().get("codoncatfreqsopts_");
}
public void setCodoncatfreqsopts_(String codoncatfreqsopts_)
{ getToolParameters().put("codoncatfreqsopts_", codoncatfreqsopts_);
}
public String getCodoncatfreqsdir1_()
{return getToolParameters().get("codoncatfreqsdir1_");
}
public void setCodoncatfreqsdir1_(String codoncatfreqsdir1_)
{ getToolParameters().put("codoncatfreqsdir1_", codoncatfreqsdir1_);
}
public String getCodoncatfreqsdir2_()
{return getToolParameters().get("codoncatfreqsdir2_");
}
public void setCodoncatfreqsdir2_(String codoncatfreqsdir2_)
{ getToolParameters().put("codoncatfreqsdir2_", codoncatfreqsdir2_);
}
public String getCodoncatfreqsdir3_()
{return getToolParameters().get("codoncatfreqsdir3_");
}
public void setCodoncatfreqsdir3_(String codoncatfreqsdir3_)
{ getToolParameters().put("codoncatfreqsdir3_", codoncatfreqsdir3_);
}
public String getCodoncatfreqsfix1_()
{return getToolParameters().get("codoncatfreqsfix1_");
}
public void setCodoncatfreqsfix1_(String codoncatfreqsfix1_)
{ getToolParameters().put("codoncatfreqsfix1_", codoncatfreqsfix1_);
}
public String getCodoncatfreqsfix2_()
{return getToolParameters().get("codoncatfreqsfix2_");
}
public void setCodoncatfreqsfix2_(String codoncatfreqsfix2_)
{ getToolParameters().put("codoncatfreqsfix2_", codoncatfreqsfix2_);
}
public String getCodoncatfreqsfix3_()
{return getToolParameters().get("codoncatfreqsfix3_");
}
public void setCodoncatfreqsfix3_(String codoncatfreqsfix3_)
{ getToolParameters().put("codoncatfreqsfix3_", codoncatfreqsfix3_);
}
public String getStatewfreqpropts_()
{return getToolParameters().get("statewfreqpropts_");
}
public void setStatewfreqpropts_(String statewfreqpropts_)
{ getToolParameters().put("statewfreqpropts_", statewfreqpropts_);
}
public String getStatewfreqprdir1_()
{return getToolParameters().get("statewfreqprdir1_");
}
public void setStatewfreqprdir1_(String statewfreqprdir1_)
{ getToolParameters().put("statewfreqprdir1_", statewfreqprdir1_);
}
public String getShapepropts_()
{return getToolParameters().get("shapepropts_");
}
public void setShapepropts_(String shapepropts_)
{ getToolParameters().put("shapepropts_", shapepropts_);
}
public String getShapepruni1_()
{return getToolParameters().get("shapepruni1_");
}
public void setShapepruni1_(String shapepruni1_)
{ getToolParameters().put("shapepruni1_", shapepruni1_);
}
public String getShapeprdir2_()
{return getToolParameters().get("shapeprdir2_");
}
public void setShapeprdir2_(String shapeprdir2_)
{ getToolParameters().put("shapeprdir2_", shapeprdir2_);
}
public String getShapeprexp1_()
{return getToolParameters().get("shapeprexp1_");
}
public void setShapeprexp1_(String shapeprexp1_)
{ getToolParameters().put("shapeprexp1_", shapeprexp1_);
}
public String getShapeprfix1_()
{return getToolParameters().get("shapeprfix1_");
}
public void setShapeprfix1_(String shapeprfix1_)
{ getToolParameters().put("shapeprfix1_", shapeprfix1_);
}
public String getPinvarpropts_()
{return getToolParameters().get("pinvarpropts_");
}
public void setPinvarpropts_(String pinvarpropts_)
{ getToolParameters().put("pinvarpropts_", pinvarpropts_);
}
public String getPinvarpruni1_()
{return getToolParameters().get("pinvarpruni1_");
}
public void setPinvarpruni1_(String pinvarpruni1_)
{ getToolParameters().put("pinvarpruni1_", pinvarpruni1_);
}
public String getPinvarpruni2_()
{return getToolParameters().get("pinvarpruni2_");
}
public void setPinvarpruni2_(String pinvarpruni2_)
{ getToolParameters().put("pinvarpruni2_", pinvarpruni2_);
}
public String getPinvarprfix1_()
{return getToolParameters().get("pinvarprfix1_");
}
public void setPinvarprfix1_(String pinvarprfix1_)
{ getToolParameters().put("pinvarprfix1_", pinvarprfix1_);
}
public String getRatecorrpropts_()
{return getToolParameters().get("ratecorrpropts_");
}
public void setRatecorrpropts_(String ratecorrpropts_)
{ getToolParameters().put("ratecorrpropts_", ratecorrpropts_);
}
public String getRatecorrpruni1_()
{return getToolParameters().get("ratecorrpruni1_");
}
public void setRatecorrpruni1_(String ratecorrpruni1_)
{ getToolParameters().put("ratecorrpruni1_", ratecorrpruni1_);
}
public String getRatecorrpruni2_()
{return getToolParameters().get("ratecorrpruni2_");
}
public void setRatecorrpruni2_(String ratecorrpruni2_)
{ getToolParameters().put("ratecorrpruni2_", ratecorrpruni2_);
}
public String getRatecorrprfix1_()
{return getToolParameters().get("ratecorrprfix1_");
}
public void setRatecorrprfix1_(String ratecorrprfix1_)
{ getToolParameters().put("ratecorrprfix1_", ratecorrprfix1_);
}
public String getCovswitchpropts_()
{return getToolParameters().get("covswitchpropts_");
}
public void setCovswitchpropts_(String covswitchpropts_)
{ getToolParameters().put("covswitchpropts_", covswitchpropts_);
}
public String getCovswitchuni1_()
{return getToolParameters().get("covswitchuni1_");
}
public void setCovswitchuni1_(String covswitchuni1_)
{ getToolParameters().put("covswitchuni1_", covswitchuni1_);
}
public String getCovswitchuni2_()
{return getToolParameters().get("covswitchuni2_");
}
public void setCovswitchuni2_(String covswitchuni2_)
{ getToolParameters().put("covswitchuni2_", covswitchuni2_);
}
public String getCovswitchexp1_()
{return getToolParameters().get("covswitchexp1_");
}
public void setCovswitchexp1_(String covswitchexp1_)
{ getToolParameters().put("covswitchexp1_", covswitchexp1_);
}
public String getCovswitchfix1_()
{return getToolParameters().get("covswitchfix1_");
}
public void setCovswitchfix1_(String covswitchfix1_)
{ getToolParameters().put("covswitchfix1_", covswitchfix1_);
}
public String getCovswitchfix2_()
{return getToolParameters().get("covswitchfix2_");
}
public void setCovswitchfix2_(String covswitchfix2_)
{ getToolParameters().put("covswitchfix2_", covswitchfix2_);
}
public String getSymdirihyperpropts_()
{return getToolParameters().get("symdirihyperpropts_");
}
public void setSymdirihyperpropts_(String symdirihyperpropts_)
{ getToolParameters().put("symdirihyperpropts_", symdirihyperpropts_);
}
public String getSymdiruni1_()
{return getToolParameters().get("symdiruni1_");
}
public void setSymdiruni1_(String symdiruni1_)
{ getToolParameters().put("symdiruni1_", symdiruni1_);
}
public String getSymdiruni2_()
{return getToolParameters().get("symdiruni2_");
}
public void setSymdiruni2_(String symdiruni2_)
{ getToolParameters().put("symdiruni2_", symdiruni2_);
}
public String getSymdirexp1_()
{return getToolParameters().get("symdirexp1_");
}
public void setSymdirexp1_(String symdirexp1_)
{ getToolParameters().put("symdirexp1_", symdirexp1_);
}
public String getSymdirfix1_()
{return getToolParameters().get("symdirfix1_");
}
public void setSymdirfix1_(String symdirfix1_)
{ getToolParameters().put("symdirfix1_", symdirfix1_);
}
public String getTopologypropts_()
{return getToolParameters().get("topologypropts_");
}
public void setTopologypropts_(String topologypropts_)
{ getToolParameters().put("topologypropts_", topologypropts_);
}
public String getConstraintnames1_()
{return getToolParameters().get("constraintnames1_");
}
public void setConstraintnames1_(String constraintnames1_)
{ getToolParameters().put("constraintnames1_", constraintnames1_);
}
public String getBrlenspropts_()
{return getToolParameters().get("brlenspropts_");
}
public void setBrlenspropts_(String brlenspropts_)
{ getToolParameters().put("brlenspropts_", brlenspropts_);
}
public String getBrlenspruni2_()
{return getToolParameters().get("brlenspruni2_");
}
public void setBrlenspruni2_(String brlenspruni2_)
{ getToolParameters().put("brlenspruni2_", brlenspruni2_);
}
public String getBrlensprexp1_()
{return getToolParameters().get("brlensprexp1_");
}
public void setBrlensprexp1_(String brlensprexp1_)
{ getToolParameters().put("brlensprexp1_", brlensprexp1_);
}
public String getTreeheightpropts_()
{return getToolParameters().get("treeheightpropts_");
}
public void setTreeheightpropts_(String treeheightpropts_)
{ getToolParameters().put("treeheightpropts_", treeheightpropts_);
}
public String getTreeheightsprgamma1_()
{return getToolParameters().get("treeheightsprgamma1_");
}
public void setTreeheightsprgamma1_(String treeheightsprgamma1_)
{ getToolParameters().put("treeheightsprgamma1_", treeheightsprgamma1_);
}
public String getTreeheightsprgamma2_()
{return getToolParameters().get("treeheightsprgamma2_");
}
public void setTreeheightsprgamma2_(String treeheightsprgamma2_)
{ getToolParameters().put("treeheightsprgamma2_", treeheightsprgamma2_);
}
public String getTreeheightsprexp1_()
{return getToolParameters().get("treeheightsprexp1_");
}
public void setTreeheightsprexp1_(String treeheightsprexp1_)
{ getToolParameters().put("treeheightsprexp1_", treeheightsprexp1_);
}
public String getTreeheightsprfx1_()
{return getToolParameters().get("treeheightsprfx1_");
}
public void setTreeheightsprfx1_(String treeheightsprfx1_)
{ getToolParameters().put("treeheightsprfx1_", treeheightsprfx1_);
}
public String getRatepropts_()
{return getToolParameters().get("ratepropts_");
}
public void setRatepropts_(String ratepropts_)
{ getToolParameters().put("ratepropts_", ratepropts_);
}
public String getSpeciationpropts_()
{return getToolParameters().get("speciationpropts_");
}
public void setSpeciationpropts_(String speciationpropts_)
{ getToolParameters().put("speciationpropts_", speciationpropts_);
}
public String getSpeciationpruni1_()
{return getToolParameters().get("speciationpruni1_");
}
public void setSpeciationpruni1_(String speciationpruni1_)
{ getToolParameters().put("speciationpruni1_", speciationpruni1_);
}
public String getSpeciationpruni2_()
{return getToolParameters().get("speciationpruni2_");
}
public void setSpeciationpruni2_(String speciationpruni2_)
{ getToolParameters().put("speciationpruni2_", speciationpruni2_);
}
public String getSpeciationprexp1_()
{return getToolParameters().get("speciationprexp1_");
}
public void setSpeciationprexp1_(String speciationprexp1_)
{ getToolParameters().put("speciationprexp1_", speciationprexp1_);
}
public String getSpeciationprfix1_()
{return getToolParameters().get("speciationprfix1_");
}
public void setSpeciationprfix1_(String speciationprfix1_)
{ getToolParameters().put("speciationprfix1_", speciationprfix1_);
}
public String getExtinctionpropts_()
{return getToolParameters().get("extinctionpropts_");
}
public void setExtinctionpropts_(String extinctionpropts_)
{ getToolParameters().put("extinctionpropts_", extinctionpropts_);
}
public String getExtinctionpruni1_()
{return getToolParameters().get("extinctionpruni1_");
}
public void setExtinctionpruni1_(String extinctionpruni1_)
{ getToolParameters().put("extinctionpruni1_", extinctionpruni1_);
}
public String getExtinctionpruni2_()
{return getToolParameters().get("extinctionpruni2_");
}
public void setExtinctionpruni2_(String extinctionpruni2_)
{ getToolParameters().put("extinctionpruni2_", extinctionpruni2_);
}
public String getExtinctionprfix1_()
{return getToolParameters().get("extinctionprfix1_");
}
public void setExtinctionprfix1_(String extinctionprfix1_)
{ getToolParameters().put("extinctionprfix1_", extinctionprfix1_);
}
public String getSampleprobopts_()
{return getToolParameters().get("sampleprobopts_");
}
public void setSampleprobopts_(String sampleprobopts_)
{ getToolParameters().put("sampleprobopts_", sampleprobopts_);
}
public String getThetapropts_()
{return getToolParameters().get("thetapropts_");
}
public void setThetapropts_(String thetapropts_)
{ getToolParameters().put("thetapropts_", thetapropts_);
}
public String getThetapruni1_()
{return getToolParameters().get("thetapruni1_");
}
public void setThetapruni1_(String thetapruni1_)
{ getToolParameters().put("thetapruni1_", thetapruni1_);
}
public String getThetapruni2_()
{return getToolParameters().get("thetapruni2_");
}
public void setThetapruni2_(String thetapruni2_)
{ getToolParameters().put("thetapruni2_", thetapruni2_);
}
public String getThetaprexp1_()
{return getToolParameters().get("thetaprexp1_");
}
public void setThetaprexp1_(String thetaprexp1_)
{ getToolParameters().put("thetaprexp1_", thetaprexp1_);
}
public String getThetaprfix1_()
{return getToolParameters().get("thetaprfix1_");
}
public void setThetaprfix1_(String thetaprfix1_)
{ getToolParameters().put("thetaprfix1_", thetaprfix1_);
}
public String getDatabreaksopts_()
{return getToolParameters().get("databreaksopts_");
}
public void setDatabreaksopts_(String databreaksopts_)
{ getToolParameters().put("databreaksopts_", databreaksopts_);
}
public String getPairsopts_()
{return getToolParameters().get("pairsopts_");
}
public void setPairsopts_(String pairsopts_)
{ getToolParameters().put("pairsopts_", pairsopts_);
}
public String getNocharsets_()
{return getToolParameters().get("nocharsets_");
}
public void setNocharsets_(String nocharsets_)
{ getToolParameters().put("nocharsets_", nocharsets_);
}
public String getCharset1_()
{return getToolParameters().get("charset1_");
}
public void setCharset1_(String charset1_)
{ getToolParameters().put("charset1_", charset1_);
}
public String getCharset1range_()
{return getToolParameters().get("charset1range_");
}
public void setCharset1range_(String charset1range_)
{ getToolParameters().put("charset1range_", charset1range_);
}
public String getCharset2_()
{return getToolParameters().get("charset2_");
}
public void setCharset2_(String charset2_)
{ getToolParameters().put("charset2_", charset2_);
}
public String getCharset2range_()
{return getToolParameters().get("charset2range_");
}
public void setCharset2range_(String charset2range_)
{ getToolParameters().put("charset2range_", charset2range_);
}
public String getCharset3_()
{return getToolParameters().get("charset3_");
}
public void setCharset3_(String charset3_)
{ getToolParameters().put("charset3_", charset3_);
}
public String getCharset3range_()
{return getToolParameters().get("charset3range_");
}
public void setCharset3range_(String charset3range_)
{ getToolParameters().put("charset3range_", charset3range_);
}
public String getCharset4_()
{return getToolParameters().get("charset4_");
}
public void setCharset4_(String charset4_)
{ getToolParameters().put("charset4_", charset4_);
}
public String getCharset4range_()
{return getToolParameters().get("charset4range_");
}
public void setCharset4range_(String charset4range_)
{ getToolParameters().put("charset4range_", charset4range_);
}
public String getCharset5_()
{return getToolParameters().get("charset5_");
}
public void setCharset5_(String charset5_)
{ getToolParameters().put("charset5_", charset5_);
}
public String getCharset5range_()
{return getToolParameters().get("charset5range_");
}
public void setCharset5range_(String charset5range_)
{ getToolParameters().put("charset5range_", charset5range_);
}
public String getCharset6_()
{return getToolParameters().get("charset6_");
}
public void setCharset6_(String charset6_)
{ getToolParameters().put("charset6_", charset6_);
}
public String getCharset6range_()
{return getToolParameters().get("charset6range_");
}
public void setCharset6range_(String charset6range_)
{ getToolParameters().put("charset6range_", charset6range_);
}
public String getCharset7_()
{return getToolParameters().get("charset7_");
}
public void setCharset7_(String charset7_)
{ getToolParameters().put("charset7_", charset7_);
}
public String getCharset7range_()
{return getToolParameters().get("charset7range_");
}
public void setCharset7range_(String charset7range_)
{ getToolParameters().put("charset7range_", charset7range_);
}
public String getCharset8_()
{return getToolParameters().get("charset8_");
}
public void setCharset8_(String charset8_)
{ getToolParameters().put("charset8_", charset8_);
}
public String getCharset8range_()
{return getToolParameters().get("charset8range_");
}
public void setCharset8range_(String charset8range_)
{ getToolParameters().put("charset8range_", charset8range_);
}
public String getExcludeopts_()
{return getToolParameters().get("excludeopts_");
}
public void setExcludeopts_(String excludeopts_)
{ getToolParameters().put("excludeopts_", excludeopts_);
}
public String getNgenval_()
{return getToolParameters().get("ngenval_");
}
public void setNgenval_(String ngenval_)
{ getToolParameters().put("ngenval_", ngenval_);
}
public String getNrunsval_()
{return getToolParameters().get("nrunsval_");
}
public void setNrunsval_(String nrunsval_)
{ getToolParameters().put("nrunsval_", nrunsval_);
}
public String getNchainsval_()
{return getToolParameters().get("nchainsval_");
}
public void setNchainsval_(String nchainsval_)
{ getToolParameters().put("nchainsval_", nchainsval_);
}
public String getTempval_()
{return getToolParameters().get("tempval_");
}
public void setTempval_(String tempval_)
{ getToolParameters().put("tempval_", tempval_);
}
public String getSwapfreqval_()
{return getToolParameters().get("swapfreqval_");
}
public void setSwapfreqval_(String swapfreqval_)
{ getToolParameters().put("swapfreqval_", swapfreqval_);
}
public String getNswapsval_()
{return getToolParameters().get("nswapsval_");
}
public void setNswapsval_(String nswapsval_)
{ getToolParameters().put("nswapsval_", nswapsval_);
}
public String getSamplefreqval_()
{return getToolParameters().get("samplefreqval_");
}
public void setSamplefreqval_(String samplefreqval_)
{ getToolParameters().put("samplefreqval_", samplefreqval_);
}
public String getMcmcdiagnval_()
{return getToolParameters().get("mcmcdiagnval_");
}
public void setMcmcdiagnval_(String mcmcdiagnval_)
{ getToolParameters().put("mcmcdiagnval_", mcmcdiagnval_);
}
public String getMinpartfreqval_()
{return getToolParameters().get("minpartfreqval_");
}
public void setMinpartfreqval_(String minpartfreqval_)
{ getToolParameters().put("minpartfreqval_", minpartfreqval_);
}
public String getAllchainsval_()
{return getToolParameters().get("allchainsval_");
}
public void setAllchainsval_(String allchainsval_)
{ getToolParameters().put("allchainsval_", allchainsval_);
}
public String getRelburninval_()
{return getToolParameters().get("relburninval_");
}
public void setRelburninval_(String relburninval_)
{ getToolParameters().put("relburninval_", relburninval_);
}
public String getBurninfracval_()
{return getToolParameters().get("burninfracval_");
}
public void setBurninfracval_(String burninfracval_)
{ getToolParameters().put("burninfracval_", burninfracval_);
}
public String getBurninval_()
{return getToolParameters().get("burninval_");
}
public void setBurninval_(String burninval_)
{ getToolParameters().put("burninval_", burninval_);
}
public String getStopruleval_()
{return getToolParameters().get("stopruleval_");
}
public void setStopruleval_(String stopruleval_)
{ getToolParameters().put("stopruleval_", stopruleval_);
}
public String getStopval_()
{return getToolParameters().get("stopval_");
}
public void setStopval_(String stopval_)
{ getToolParameters().put("stopval_", stopval_);
}
public String getNpertsval_()
{return getToolParameters().get("npertsval_");
}
public void setNpertsval_(String npertsval_)
{ getToolParameters().put("npertsval_", npertsval_);
}
public String getSbrlensval_()
{return getToolParameters().get("sbrlensval_");
}
public void setSbrlensval_(String sbrlensval_)
{ getToolParameters().put("sbrlensval_", sbrlensval_);
}
public String getOrdertaxaval_()
{return getToolParameters().get("ordertaxaval_");
}
public void setOrdertaxaval_(String ordertaxaval_)
{ getToolParameters().put("ordertaxaval_", ordertaxaval_);
}
public String getTratioval_()
{return getToolParameters().get("tratioval_");
}
public void setTratioval_(String tratioval_)
{ getToolParameters().put("tratioval_", tratioval_);
}
public String getRevmatopts_()
{return getToolParameters().get("revmatopts_");
}
public void setRevmatopts_(String revmatopts_)
{ getToolParameters().put("revmatopts_", revmatopts_);
}
public String getReportancstateopts_()
{return getToolParameters().get("reportancstateopts_");
}
public void setReportancstateopts_(String reportancstateopts_)
{ getToolParameters().put("reportancstateopts_", reportancstateopts_);
}
public String getReportsiterateopts_()
{return getToolParameters().get("reportsiterateopts_");
}
public void setReportsiterateopts_(String reportsiterateopts_)
{ getToolParameters().put("reportsiterateopts_", reportsiterateopts_);
}
public String getReportposselopts_()
{return getToolParameters().get("reportposselopts_");
}
public void setReportposselopts_(String reportposselopts_)
{ getToolParameters().put("reportposselopts_", reportposselopts_);
}
public String getSumtburnin_()
{return getToolParameters().get("sumtburnin_");
}
public void setSumtburnin_(String sumtburnin_)
{ getToolParameters().put("sumtburnin_", sumtburnin_);
}
public String getSumt_relburnin_()
{return getToolParameters().get("sumt_relburnin_");
}
public void setSumt_relburnin_(String sumt_relburnin_)
{ getToolParameters().put("sumt_relburnin_", sumt_relburnin_);
}
public String getSumt_burninfrac_()
{return getToolParameters().get("sumt_burninfrac_");
}
public void setSumt_burninfrac_(String sumt_burninfrac_)
{ getToolParameters().put("sumt_burninfrac_", sumt_burninfrac_);
}
public String getSumtnruns_()
{return getToolParameters().get("sumtnruns_");
}
public void setSumtnruns_(String sumtnruns_)
{ getToolParameters().put("sumtnruns_", sumtnruns_);
}
public String getSumtntrees_()
{return getToolParameters().get("sumtntrees_");
}
public void setSumtntrees_(String sumtntrees_)
{ getToolParameters().put("sumtntrees_", sumtntrees_);
}
public String getSumtdisplaygeq_()
{return getToolParameters().get("sumtdisplaygeq_");
}
public void setSumtdisplaygeq_(String sumtdisplaygeq_)
{ getToolParameters().put("sumtdisplaygeq_", sumtdisplaygeq_);
}
public String getSumtcontype_()
{return getToolParameters().get("sumtcontype_");
}
public void setSumtcontype_(String sumtcontype_)
{ getToolParameters().put("sumtcontype_", sumtcontype_);
}
public String getSumt_conformat_()
{return getToolParameters().get("sumt_conformat_");
}
public void setSumt_conformat_(String sumt_conformat_)
{ getToolParameters().put("sumt_conformat_", sumt_conformat_);
}
public String getSumtshowtreeprobs_()
{return getToolParameters().get("sumtshowtreeprobs_");
}
public void setSumtshowtreeprobs_(String sumtshowtreeprobs_)
{ getToolParameters().put("sumtshowtreeprobs_", sumtshowtreeprobs_);
}
public String getSumpburnin_()
{return getToolParameters().get("sumpburnin_");
}
public void setSumpburnin_(String sumpburnin_)
{ getToolParameters().put("sumpburnin_", sumpburnin_);
}
public String getSump_relburnin_()
{return getToolParameters().get("sump_relburnin_");
}
public void setSump_relburnin_(String sump_relburnin_)
{ getToolParameters().put("sump_relburnin_", sump_relburnin_);
}
public String getSump_burninfrac_()
{return getToolParameters().get("sump_burninfrac_");
}
public void setSump_burninfrac_(String sump_burninfrac_)
{ getToolParameters().put("sump_burninfrac_", sump_burninfrac_);
}
public String getSumpnruns_()
{return getToolParameters().get("sumpnruns_");
}
public void setSumpnruns_(String sumpnruns_)
{ getToolParameters().put("sumpnruns_", sumpnruns_);
}
// this method pre-populates the form with default values
public void reset() {
super.reset();
setMrbayesblockquery_("false");
setSet_autoclose_confirm_("false");
setNruns_specified_("2");
setNchains_specified_("4");
setRuntime_("0.5");
setFlagdatatype_( "dna" );
setSeed_("1116355510");
setSwapseed_("1116355510");
setScientific_("false");
setPrecision_("15");
setSet_beagle_params_("true");
setNstopts_( "1" );
setNucmodelopts_( "4by4" );
setCodonopts_( "Universal" );
setOmegavaropts_( "equal" );
setPloidyopts_( "Diploid" );
setRateopts_( "equal" );
setNgammacatopts_("4");
setNbetacatopts_("5");
setCovarionopts_("false");
setCodingopts_( "all" );
setParsmodelopts_("false");
setTratioopts_( "beta" );
setBetameanx_("1.0");
setBetavary_("1.0");
setTratiofixed_("1.0");
setRevmatpropts_( "dirichlet" );
setAtocrate_("1.0");
setAtograte_("1.0");
setAtotrate_("1.0");
setCtograte_("1.0");
setCtotrate_("1.0");
setGtotrate_("1.0");
setFixedatocrate_("1.0");
setFixedatograte_("1.0");
setFixedatotrate_("1.0");
setFixedctograte_("1.0");
setFixedctotrate_("1.0");
setFixedgtotrate_("1.0");
setAamodelpropts_( "fixed(poisson)" );
setOmegapropts_( "uniform" );
setOmegaprdir1_("1.0");
setOmegaprdir2_("1.0");
setOmegaprexponential_("1.0");
setOmegafixed_("1.0");
setNy98omega1propts_( "beta" );
setNy98omega1prbeta1_("1.0");
setNy98omega1prbeta2_("1.0");
setNy98omega1prfix1_("1.0");
setNy98omega3propts_( "exponential" );
setNy98omega3pruni1_("1.0");
setNy98omega3pruni2_("1.0");
setNy98omega3prexp1_("1.0");
setNy98omega3prfix1_("1.0");
setM3omega3propts_( "exponential" );
setM3omega3prfix1_("1.0");
setM3omega3prfix2_("1.0");
setM3omega3prfix3_("1.0");
setCodoncatfreqsopts_( "dirichlet" );
setCodoncatfreqsdir1_("1.0");
setCodoncatfreqsdir2_("1.0");
setCodoncatfreqsdir3_("1.0");
setStatewfreqpropts_( "dirichlet" );
setStatewfreqprdir1_("1.0");
setShapepropts_( "uniform" );
setShapepruni1_("0.0");
setShapeprdir2_("50.0");
setShapeprexp1_("1.0");
setShapeprfix1_("1.0");
setPinvarpropts_( "uniform" );
setPinvarpruni1_("0.0");
setPinvarpruni2_("1.0");
setPinvarprfix1_("1.0");
setRatecorrpropts_( "uniform" );
setRatecorrpruni1_("-1.0");
setRatecorrpruni2_("1.0");
setRatecorrprfix1_("1.0");
setCovswitchpropts_( "uniform" );
setCovswitchuni1_("0.0");
setCovswitchuni2_("100.0");
setCovswitchexp1_("1.0");
setCovswitchfix1_("1.0");
setCovswitchfix2_("1.0");
setSymdirihyperpropts_( "fixed(infinity)" );
setSymdiruni1_("1.0");
setSymdiruni2_("1.0");
setSymdirexp1_("1.0");
setSymdirfix1_("1.0");
setTopologypropts_( "uniform" );
setBrlenspropts_( "unconstrained:exponential" );
setBrlenspruni2_("1.0");
setBrlensprexp1_("10.0");
setTreeheightpropts_( "exponential" );
setTreeheightsprgamma1_("1.0");
setTreeheightsprgamma2_("1.0");
setTreeheightsprexp1_("1.0");
setTreeheightsprfx1_("1.0");
setRatepropts_( "fixed" );
setSpeciationpropts_( "uniform" );
setSpeciationpruni1_("0.0");
setSpeciationpruni2_("10.0");
setSpeciationprexp1_("1.0");
setSpeciationprfix1_("1.0");
setExtinctionpropts_( "uniform" );
setExtinctionpruni1_("1.0");
setExtinctionpruni2_("1.0");
setExtinctionprfix1_("1.0");
setSampleprobopts_("1.0");
setThetapropts_( "uniform" );
setThetapruni1_("0.0");
setThetapruni2_("10.0");
setThetaprexp1_("1.0");
setThetaprfix1_("1.0");
setNocharsets_( "0" );
setNgenval_("5000");
setNrunsval_("2");
setNchainsval_("4");
setTempval_("0.200");
setSwapfreqval_("1");
setNswapsval_("1");
setSamplefreqval_("1000");
setMcmcdiagnval_( "mcmcdiagn=Yes" );
setMinpartfreqval_("0.1");
setAllchainsval_( "allchains=No" );
setRelburninval_( "relburnin=Yes" );
setBurninfracval_("0.25");
setBurninval_("0");
setStopruleval_( "stoprule=Yes" );
setStopval_("0.01");
setNpertsval_("0");
setSbrlensval_( "Savebrlens=Yes" );
setOrdertaxaval_( "Ordertaxa=Yes" );
setTratioval_( "ratio" );
setRevmatopts_( "dir" );
setReportancstateopts_("false");
setReportsiterateopts_("false");
setReportposselopts_("false");
setSumtburnin_("10");
setSumt_relburnin_( "Yes" );
setSumt_burninfrac_("0.25");
setSumtnruns_("2");
setSumtntrees_("1");
setSumtdisplaygeq_("0.05");
setSumtcontype_( "contype=Halfcompat" );
setSumt_conformat_( "Figtree" );
setSumtshowtreeprobs_( "showtreeprobs=No" );
setSumpburnin_("10");
setSump_relburnin_( "Yes" );
setSump_burninfrac_("0.25");
setSumpnruns_("2");
}
}
