Package pal.util
Interface XMLConstants
-
- All Known Implementing Classes:
BLOSUM62
,CPREV
,Dayhoff
,ElementFactory
,ElementParser
,F81
,F84
,GTR
,HKY
,JTT
,MTREV24
,TN
,TwoStateModel
,VT
,WAG
,YangCodonModel
public interface XMLConstants
constants (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
-
-
Field Summary
Fields Modifier and Type Field Description static java.lang.String
A_TO_C
static java.lang.String
A_TO_G
static java.lang.String
A_TO_T
static java.lang.String
ALIGNMENT
static java.lang.String
ALPHA
static java.lang.String
ANCESTRAL_MU_RATE
static java.lang.String
ANCESTRAL_POP_SIZE
static java.lang.String
ATTRIBUTE
static java.lang.String
BACKWARDS
static java.lang.String
BLOSUM62
static java.lang.String
C_TO_G
static java.lang.String
C_TO_T
static java.lang.String
COALESCENT
static java.lang.String
CONST_EXP_CONST
static java.lang.String
CONST_EXP_GROWTH
static java.lang.String
CONSTANT_MUTATION_RATE
static java.lang.String
CONSTANT_POPULATION
constant population demographic model typestatic java.lang.String
CPREV
static java.lang.String
CURRENT_POP_SIZE_DURATION
static java.lang.String
DATA_TYPE
static java.lang.String
DATA_TYPE_ID
static java.lang.String
DAYHOFF
static java.lang.String
DAYS
static java.lang.String
DEMOGRAPHIC_MODEL
static java.lang.String
DIRECTION
static java.lang.String
EDGE
static java.lang.String
EXPANDING_POPULATION
static java.lang.String
EXPONENTIAL_GROWTH
static java.lang.String
F81
static java.lang.String
F84
static java.lang.String
FREQUENCIES
static java.lang.String
G_TO_T
static java.lang.String
GAMMA_ALPHA
static java.lang.String
GAMMA_DISTRIBUTION
static java.lang.String
GENERATIONS
static java.lang.String
GROWTH_PHASE_DURATION
static java.lang.String
GROWTH_RATE
static java.lang.String
GTR
static java.lang.String
HEIGHT
static java.lang.String
HKY
static java.lang.String
ID
static java.lang.String
JC
static java.lang.String
JTT
static java.lang.String
KAPPA
static java.lang.String
LENGTH
static java.lang.String
MISSING
static java.lang.String
MODEL
static java.lang.String
MONTHS
static java.lang.String
MTREV24
static java.lang.String
MU_STEP_TIME
static java.lang.String
MUTATION_RATE
static java.lang.String
MUTATION_RATE_MODEL
static java.lang.String
MUTATIONS
static java.lang.String
NAME
static java.lang.String
NODE
static java.lang.String
NUMBER_CATEGORIES
static java.lang.String
OMEGA
static java.lang.String
ORIGIN
static java.lang.String
PARAMETER
static java.lang.String
POPULATION_SIZE
static java.lang.String
PYRIMIDINE_PURINE_RATIO
static java.lang.String
RATE_DISTRIBUTION
static java.lang.String
RATE_MATRIX
static java.lang.String
SEQUENCE
static int
SPACES_PER_LEVEL
static java.lang.String
STEPPED_MUTATION_RATE
static java.lang.String
TIME
static java.lang.String
TIME_DATA
static java.lang.String
TN
static java.lang.String
TREE
static java.lang.String
TS_TV_RATIO
static java.lang.String
TWO_STATE
static java.lang.String
TYPE
static java.lang.String
UNIFORM
static java.lang.String
UNIFORM_RATE_DISTRIBUTION
static java.lang.String
UNITS
static java.lang.String
UNKNOWN
static java.lang.String
VALUE
static java.lang.String
VT
static java.lang.String
WAG
static java.lang.String
YANG_CODON_MODEL
static java.lang.String
YEARS
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-
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Field Detail
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SPACES_PER_LEVEL
static final int SPACES_PER_LEVEL
- See Also:
- Constant Field Values
-
DEMOGRAPHIC_MODEL
static final java.lang.String DEMOGRAPHIC_MODEL
- See Also:
- Constant Field Values
-
MUTATION_RATE_MODEL
static final java.lang.String MUTATION_RATE_MODEL
- See Also:
- Constant Field Values
-
RATE_MATRIX
static final java.lang.String RATE_MATRIX
- See Also:
- Constant Field Values
-
TREE
static final java.lang.String TREE
- See Also:
- Constant Field Values
-
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
-
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
-
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
-
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
-
MONTHS
static final java.lang.String MONTHS
- See Also:
- Constant Field Values
-
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
-
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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