Package pal.util
Interface XMLConstants
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- All Known Implementing Classes:
BLOSUM62,CPREV,Dayhoff,ElementFactory,ElementParser,F81,F84,GTR,HKY,JTT,MTREV24,TN,TwoStateModel,VT,WAG,YangCodonModel
public interface XMLConstantsconstants (strings and numbers) relating to reading and writing XML. These constants should avoid the use of < and > and other special XML characters as much as possible.- Version:
- $Id: XMLConstants.java,v 1.11 2002/06/03 09:18:04 alexi Exp $
- Author:
- Alexei Drummond
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Field Summary
Fields Modifier and Type Field Description static java.lang.StringA_TO_Cstatic java.lang.StringA_TO_Gstatic java.lang.StringA_TO_Tstatic java.lang.StringALIGNMENTstatic java.lang.StringALPHAstatic java.lang.StringANCESTRAL_MU_RATEstatic java.lang.StringANCESTRAL_POP_SIZEstatic java.lang.StringATTRIBUTEstatic java.lang.StringBACKWARDSstatic java.lang.StringBLOSUM62static java.lang.StringC_TO_Gstatic java.lang.StringC_TO_Tstatic java.lang.StringCOALESCENTstatic java.lang.StringCONST_EXP_CONSTstatic java.lang.StringCONST_EXP_GROWTHstatic java.lang.StringCONSTANT_MUTATION_RATEstatic java.lang.StringCONSTANT_POPULATIONconstant population demographic model typestatic java.lang.StringCPREVstatic java.lang.StringCURRENT_POP_SIZE_DURATIONstatic java.lang.StringDATA_TYPEstatic java.lang.StringDATA_TYPE_IDstatic java.lang.StringDAYHOFFstatic java.lang.StringDAYSstatic java.lang.StringDEMOGRAPHIC_MODELstatic java.lang.StringDIRECTIONstatic java.lang.StringEDGEstatic java.lang.StringEXPANDING_POPULATIONstatic java.lang.StringEXPONENTIAL_GROWTHstatic java.lang.StringF81static java.lang.StringF84static java.lang.StringFREQUENCIESstatic java.lang.StringG_TO_Tstatic java.lang.StringGAMMA_ALPHAstatic java.lang.StringGAMMA_DISTRIBUTIONstatic java.lang.StringGENERATIONSstatic java.lang.StringGROWTH_PHASE_DURATIONstatic java.lang.StringGROWTH_RATEstatic java.lang.StringGTRstatic java.lang.StringHEIGHTstatic java.lang.StringHKYstatic java.lang.StringIDstatic java.lang.StringJCstatic java.lang.StringJTTstatic java.lang.StringKAPPAstatic java.lang.StringLENGTHstatic java.lang.StringMISSINGstatic java.lang.StringMODELstatic java.lang.StringMONTHSstatic java.lang.StringMTREV24static java.lang.StringMU_STEP_TIMEstatic java.lang.StringMUTATION_RATEstatic java.lang.StringMUTATION_RATE_MODELstatic java.lang.StringMUTATIONSstatic java.lang.StringNAMEstatic java.lang.StringNODEstatic java.lang.StringNUMBER_CATEGORIESstatic java.lang.StringOMEGAstatic java.lang.StringORIGINstatic java.lang.StringPARAMETERstatic java.lang.StringPOPULATION_SIZEstatic java.lang.StringPYRIMIDINE_PURINE_RATIOstatic java.lang.StringRATE_DISTRIBUTIONstatic java.lang.StringRATE_MATRIXstatic java.lang.StringSEQUENCEstatic intSPACES_PER_LEVELstatic java.lang.StringSTEPPED_MUTATION_RATEstatic java.lang.StringTIMEstatic java.lang.StringTIME_DATAstatic java.lang.StringTNstatic java.lang.StringTREEstatic java.lang.StringTS_TV_RATIOstatic java.lang.StringTWO_STATEstatic java.lang.StringTYPEstatic java.lang.StringUNIFORMstatic java.lang.StringUNIFORM_RATE_DISTRIBUTIONstatic java.lang.StringUNITSstatic java.lang.StringUNKNOWNstatic java.lang.StringVALUEstatic java.lang.StringVTstatic java.lang.StringWAGstatic java.lang.StringYANG_CODON_MODELstatic java.lang.StringYEARS
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Field Detail
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SPACES_PER_LEVEL
static final int SPACES_PER_LEVEL
- See Also:
- Constant Field Values
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DEMOGRAPHIC_MODEL
static final java.lang.String DEMOGRAPHIC_MODEL
- See Also:
- Constant Field Values
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MUTATION_RATE_MODEL
static final java.lang.String MUTATION_RATE_MODEL
- See Also:
- Constant Field Values
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RATE_MATRIX
static final java.lang.String RATE_MATRIX
- See Also:
- Constant Field Values
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TREE
static final java.lang.String TREE
- See Also:
- Constant Field Values
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FREQUENCIES
static final java.lang.String FREQUENCIES
- See Also:
- Constant Field Values
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PARAMETER
static final java.lang.String PARAMETER
- See Also:
- Constant Field Values
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NODE
static final java.lang.String NODE
- See Also:
- Constant Field Values
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EDGE
static final java.lang.String EDGE
- See Also:
- Constant Field Values
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ALIGNMENT
static final java.lang.String ALIGNMENT
- See Also:
- Constant Field Values
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SEQUENCE
static final java.lang.String SEQUENCE
- See Also:
- Constant Field Values
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TIME
static final java.lang.String TIME
- See Also:
- Constant Field Values
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TIME_DATA
static final java.lang.String TIME_DATA
- See Also:
- Constant Field Values
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ATTRIBUTE
static final java.lang.String ATTRIBUTE
- See Also:
- Constant Field Values
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TYPE
static final java.lang.String TYPE
- See Also:
- Constant Field Values
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NAME
static final java.lang.String NAME
- See Also:
- Constant Field Values
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VALUE
static final java.lang.String VALUE
- See Also:
- Constant Field Values
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UNITS
static final java.lang.String UNITS
- See Also:
- Constant Field Values
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MODEL
static final java.lang.String MODEL
- See Also:
- Constant Field Values
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ID
static final java.lang.String ID
- See Also:
- Constant Field Values
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HEIGHT
static final java.lang.String HEIGHT
- See Also:
- Constant Field Values
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LENGTH
static final java.lang.String LENGTH
- See Also:
- Constant Field Values
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DATA_TYPE
static final java.lang.String DATA_TYPE
- See Also:
- Constant Field Values
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DATA_TYPE_ID
static final java.lang.String DATA_TYPE_ID
- See Also:
- Constant Field Values
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DIRECTION
static final java.lang.String DIRECTION
- See Also:
- Constant Field Values
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ORIGIN
static final java.lang.String ORIGIN
- See Also:
- Constant Field Values
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MISSING
static final java.lang.String MISSING
- See Also:
- Constant Field Values
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COALESCENT
static final java.lang.String COALESCENT
- See Also:
- Constant Field Values
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CONSTANT_POPULATION
static final java.lang.String CONSTANT_POPULATION
constant population demographic model type- See Also:
- Constant Field Values
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EXPONENTIAL_GROWTH
static final java.lang.String EXPONENTIAL_GROWTH
- See Also:
- Constant Field Values
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CONST_EXP_GROWTH
static final java.lang.String CONST_EXP_GROWTH
- See Also:
- Constant Field Values
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EXPANDING_POPULATION
static final java.lang.String EXPANDING_POPULATION
- See Also:
- Constant Field Values
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CONST_EXP_CONST
static final java.lang.String CONST_EXP_CONST
- See Also:
- Constant Field Values
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CONSTANT_MUTATION_RATE
static final java.lang.String CONSTANT_MUTATION_RATE
- See Also:
- Constant Field Values
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STEPPED_MUTATION_RATE
static final java.lang.String STEPPED_MUTATION_RATE
- See Also:
- Constant Field Values
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UNIFORM
static final java.lang.String UNIFORM
- See Also:
- Constant Field Values
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MUTATION_RATE
static final java.lang.String MUTATION_RATE
- See Also:
- Constant Field Values
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ANCESTRAL_MU_RATE
static final java.lang.String ANCESTRAL_MU_RATE
- See Also:
- Constant Field Values
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MU_STEP_TIME
static final java.lang.String MU_STEP_TIME
- See Also:
- Constant Field Values
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POPULATION_SIZE
static final java.lang.String POPULATION_SIZE
- See Also:
- Constant Field Values
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GROWTH_RATE
static final java.lang.String GROWTH_RATE
- See Also:
- Constant Field Values
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ALPHA
static final java.lang.String ALPHA
- See Also:
- Constant Field Values
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ANCESTRAL_POP_SIZE
static final java.lang.String ANCESTRAL_POP_SIZE
- See Also:
- Constant Field Values
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CURRENT_POP_SIZE_DURATION
static final java.lang.String CURRENT_POP_SIZE_DURATION
- See Also:
- Constant Field Values
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GROWTH_PHASE_DURATION
static final java.lang.String GROWTH_PHASE_DURATION
- See Also:
- Constant Field Values
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GENERATIONS
static final java.lang.String GENERATIONS
- See Also:
- Constant Field Values
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DAYS
static final java.lang.String DAYS
- See Also:
- Constant Field Values
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MONTHS
static final java.lang.String MONTHS
- See Also:
- Constant Field Values
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YEARS
static final java.lang.String YEARS
- See Also:
- Constant Field Values
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MUTATIONS
static final java.lang.String MUTATIONS
- See Also:
- Constant Field Values
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TWO_STATE
static final java.lang.String TWO_STATE
- See Also:
- Constant Field Values
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JC
static final java.lang.String JC
- See Also:
- Constant Field Values
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F81
static final java.lang.String F81
- See Also:
- Constant Field Values
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F84
static final java.lang.String F84
- See Also:
- Constant Field Values
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HKY
static final java.lang.String HKY
- See Also:
- Constant Field Values
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GTR
static final java.lang.String GTR
- See Also:
- Constant Field Values
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TN
static final java.lang.String TN
- See Also:
- Constant Field Values
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WAG
static final java.lang.String WAG
- See Also:
- Constant Field Values
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JTT
static final java.lang.String JTT
- See Also:
- Constant Field Values
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VT
static final java.lang.String VT
- See Also:
- Constant Field Values
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CPREV
static final java.lang.String CPREV
- See Also:
- Constant Field Values
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BLOSUM62
static final java.lang.String BLOSUM62
- See Also:
- Constant Field Values
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MTREV24
static final java.lang.String MTREV24
- See Also:
- Constant Field Values
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DAYHOFF
static final java.lang.String DAYHOFF
- See Also:
- Constant Field Values
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YANG_CODON_MODEL
static final java.lang.String YANG_CODON_MODEL
- See Also:
- Constant Field Values
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A_TO_C
static final java.lang.String A_TO_C
- See Also:
- Constant Field Values
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A_TO_G
static final java.lang.String A_TO_G
- See Also:
- Constant Field Values
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A_TO_T
static final java.lang.String A_TO_T
- See Also:
- Constant Field Values
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C_TO_G
static final java.lang.String C_TO_G
- See Also:
- Constant Field Values
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C_TO_T
static final java.lang.String C_TO_T
- See Also:
- Constant Field Values
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G_TO_T
static final java.lang.String G_TO_T
- See Also:
- Constant Field Values
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KAPPA
static final java.lang.String KAPPA
- See Also:
- Constant Field Values
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OMEGA
static final java.lang.String OMEGA
- See Also:
- Constant Field Values
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PYRIMIDINE_PURINE_RATIO
static final java.lang.String PYRIMIDINE_PURINE_RATIO
- See Also:
- Constant Field Values
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TS_TV_RATIO
static final java.lang.String TS_TV_RATIO
- See Also:
- Constant Field Values
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UNKNOWN
static final java.lang.String UNKNOWN
- See Also:
- Constant Field Values
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BACKWARDS
static final java.lang.String BACKWARDS
- See Also:
- Constant Field Values
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UNIFORM_RATE_DISTRIBUTION
static final java.lang.String UNIFORM_RATE_DISTRIBUTION
- See Also:
- Constant Field Values
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GAMMA_DISTRIBUTION
static final java.lang.String GAMMA_DISTRIBUTION
- See Also:
- Constant Field Values
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RATE_DISTRIBUTION
static final java.lang.String RATE_DISTRIBUTION
- See Also:
- Constant Field Values
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NUMBER_CATEGORIES
static final java.lang.String NUMBER_CATEGORIES
- See Also:
- Constant Field Values
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GAMMA_ALPHA
static final java.lang.String GAMMA_ALPHA
- See Also:
- Constant Field Values
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