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Packages that use Parser | |
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sbrt.shell.io | Provides classes and interfaces for reading and writing files. |
sbrt.shell.text | Provides classes and interfaces for defining formats for basic objects. |
sbrt.shell.text.chem | Provides classes and interfaces for defining formats for chemistry related objects. |
sbrt.shell.text.fba | Provides classes and interfaces for defining formats for objects relevant to Flux Balance Analysis. |
sbrt.shell.text.math | Provides classes and interfaces for defining formats for mathematical objects. |
Uses of Parser in sbrt.shell.io |
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Methods in sbrt.shell.io that return Parser | |
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Parser<E> |
TextInputFile.getLineFormat()
Returns the format used to parse lines of this file. |
Constructors in sbrt.shell.io with parameters of type Parser | |
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TextInputFile(java.lang.String fileName,
FileFormat fileFormat,
Parser<E> fileLineFormat)
Constructs a new text input file using the provided arguments. |
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TextInputFile(java.lang.String fileName,
FileFormat fileFormat,
Parser<E> fileLineFormat,
java.util.Collection<java.lang.Character> commentCharacters)
Constructs a new text input file using the provided arguments. |
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TextInputFile(java.lang.String fileName,
Parser<E> fileLineFormat)
Constructs a new text input file using the provided arguments. |
Uses of Parser in sbrt.shell.text |
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Subinterfaces of Parser in sbrt.shell.text | |
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interface |
BooleanFormat
This interface is used to represent a format for boolean values. |
interface |
CollectionFormat<E>
This interface is used to represent collection formats. |
interface |
DoubleFormat
This interface is used to represent a format for double precision numbers. |
interface |
IntegerFormat
This interface is used to represent a format for integers. |
interface |
LinkedHashSetFormat<E>
This interface is used to represent LinkedHashSet
formats. |
interface |
ListFormat<E>
This interface is used to represent list formats. |
interface |
LongFormat
This interface is used to represent a format for longs. |
interface |
PercentFormat
This interface is used to represent a format for percentages. |
interface |
SimpleFormat<T>
This interface is used to represent simple formats. |
Classes in sbrt.shell.text that implement Parser | |
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class |
AbstractLinkedHashSetFormat<E>
This abstract class is a skeleton implementation of LinkedHashSetFormat. |
class |
AbstractListFormat<E>
This abstract class is a skeleton implementation of ListFormat. |
class |
AmpersandSetFormat<E>
This class is used to define a format for ampersand-delimited sets. |
class |
BoolRelFormatV1<E>
This interface is used to represent boolean relationship formats. |
class |
DoubleFormatV1
This class is a concrete implementation of DoubleFormat. |
class |
DoubleFormatV2
This class is a concrete implementation of DoubleFormat. |
class |
FileFormatFormat
This class is used to represent formats for types of file formats. |
class |
IntegerFormatV1
This class is a concrete implementation of IntegerFormat. |
class |
LongFormatV1
This class is a concrete implementation of LongFormat. |
class |
NonEmptyStringFormat
This class is used to define a format for String
objects. |
class |
PercentFormatVersion1
This class is a concrete implementation of PercentFormat. |
class |
PipeListFormat<E>
This class is used to define a format for pipe-delimited lists. |
class |
PipeSetFormat<E>
This class is used to define a format for pipe-delimited sets. |
class |
SimpleListFormat<E>
This interface is used to wrap ListFormat objects as SimpleFormat
objects. |
class |
SimpleSetFormat<E>
This interface is used to wrap ListFormat objects as SimpleFormat
objects. |
class |
StringFormat
This class is used to define a format for String
objects. |
class |
TabListFormat<E>
This class is used to define a format for tab-delimited lists. |
class |
TabSetFormat<E>
This class is used to define a format for tab-delimited sets. |
class |
TrueFalseFormat
This class is used to define a format for true/false values. |
class |
WhitespaceListFormat<E>
This class is used to define a format for whitespace-delimited lists. |
class |
WhitespaceSetFormat<E>
This class is used to define a format for whitespace-delimited sets. |
class |
YesNoFormat
This class is used to define a format for yes/no values. |
Methods in sbrt.shell.text that return Parser | |
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Parser<E> |
ListFormat.getElementParser()
Returns the parser for the elements of this list format. |
Parser<E> |
AbstractListFormat.getElementParser()
Returns the parser for the elements of this set format. |
Parser<E> |
BoolRelFormatV1.getElementParser()
Returns the parser for the elements of this set format. |
Parser<E> |
SimpleSetFormat.getElementParser()
Returns the parser for the elements of this set format. |
Parser<E> |
SimpleListFormat.getElementParser()
Returns the parser for the elements of this list format. |
Parser<E> |
AbstractLinkedHashSetFormat.getElementParser()
Returns the parser for the elements of this set format. |
Parser<E> |
LinkedHashSetFormat.getElementParser()
Returns the parser for the elements of this set format. |
Parser<K> |
AbstractMapFormat.getKeyParser()
Returns the parser used for keys. |
Parser<V> |
AbstractMapFormat.getValueParser()
Returns the parser used for values. |
Constructors in sbrt.shell.text with parameters of type Parser | |
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AbstractLinkedHashSetFormat(java.lang.String delimiter,
java.util.regex.Pattern regex,
Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new LinkedHashSet format from
the provided arguments. |
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AbstractListFormat(java.lang.String delimiter,
java.util.regex.Pattern regex,
Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new list format from the provided arguments. |
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AmpersandSetFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new ampersand-delimited set format with the provided element format. |
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EqualsMapFormatV1(Formatter<K> keyFormatter,
Parser<K> keyParser,
Formatter<V> valueFormatter,
Parser<V> valueParser)
Constructs a new map format using the provided key and value formats. |
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EqualsMapFormatV1(Formatter<K> keyFormatter,
Parser<K> keyParser,
Formatter<V> valueFormatter,
Parser<V> valueParser)
Constructs a new map format using the provided key and value formats. |
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PipeListFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new pipe-delimited list format with the provided element format. |
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PipeSetFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new pipe-delimited set format with the provided element format. |
|
TabListFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new tab-delimited list format with the provided element format. |
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TabSetFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new tab-delimited set format with the provided element format. |
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WhitespaceListFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new whitespace-delimited list format with the provided element format. |
|
WhitespaceSetFormat(Formatter<E> elementFormatter,
Parser<E> elementParser)
Constructs a new whitespace-delimited set format with the provided element format. |
Uses of Parser in sbrt.shell.text.chem |
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Subinterfaces of Parser in sbrt.shell.text.chem | |
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interface |
CatalystFormat
This interface is used to represent the formats of catalysts in chemical reactions. |
interface |
ChemSpeciesFormat
This interface is used to represent the formats of chemical species. |
interface |
RxnNameFormat<T>
This interface is used to represent formats for the names of chemical reactions. |
Classes in sbrt.shell.text.chem that implement Parser | |
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class |
CatalystFormatV1
This class is a concrete implementation of CatalystFormat. |
class |
CatalystFormatV2
This class is a concrete implementation of CatalystFormat. |
class |
ChemSpeciesFormatV1
This class is a concrete implemenation of ChemSpeciesFormat. |
class |
IrrevRxnFormatV1
This class is used to format irreversible chemical reactions. |
class |
RevRxnFormatV1
This class is used to format reversible chemical reactions. |
class |
RxnNameFormatV1
This class is a concrete implementation of RxnNameFormat. |
Uses of Parser in sbrt.shell.text.fba |
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Subinterfaces of Parser in sbrt.shell.text.fba | |
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interface |
CatalystListFormat
This interface is used to represent the formats of lists of catalyst names. |
interface |
CatalystSetFormat
This interface is used to represent the formats of sets of enzyme names. |
interface |
FbaOptHeaderParser
This interface is used to represent parsers for headers used in writing files of FBA optimization data. |
interface |
RxnNameExprFormat<E extends MathExpr<S>,S>
This interface is used to represent formats for mathematical expressions of reaction names. |
interface |
RxnNameListFormat
This interface is used to represent the formats of collections of reaction names. |
interface |
RxnNameOrExprFormat
This interface is used to represent formats for reaction names and mathematical expressions of reaction names. |
interface |
RxnNameSetFormat
This interface is used to represent the formats of collections of reaction names. |
Classes in sbrt.shell.text.fba that implement Parser | |
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class |
CatalystListFormatV1
This class is a concrete implemenation of CatalystListFormat. |
class |
CatalystSetFormatV1
This class is a concrete implemenation of CatalystSetFormat. |
class |
CatalystVerifier
This class is used to ensure catalysts exist in a given CatalyzedFluxome . |
class |
ChemSpeciesVerifier
This class is used to ensure chemical species exist in a given Fluxome . |
class |
FbaOptHeaderParserV1
This class is a concrete implemenation of FbaOptHeaderParser. |
class |
IrrevRxnFormatV2
This class is used to format irreversible reactions for use in flux balance analysis. |
class |
RevRxnFormatV2
This class is used to format reversible reactions for use in flux balance analysis. |
class |
RxnFormatV1
This class is used to format reactions for use in flux balance analysis. |
class |
RxnNameExprFormatV1
This class is used to format linear combinations of reaction names. |
class |
RxnNameListFormatV1
This class is a concrete implemenation of RxnNameListFormat. |
class |
RxnNameOrExprFormatV1
This class is a concrete implemenation of RxnNameOrExprFormat. |
class |
RxnNameSetFormatV1
This class is a concrete implemenation of RxnNameSetFormat. |
class |
RxnNameVerifier
This class is used to ensure reaction names exist in a given Fluxome . |
Uses of Parser in sbrt.shell.text.math |
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Subinterfaces of Parser in sbrt.shell.text.math | |
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interface |
CoeffFormat
This interface is used to represent the format of coefficients of mathematical expressions. |
interface |
DirEdgeFormat<N>
This interface is used to represent formats for the edges of directed graphs. |
interface |
IndexPairFormat<R,C>
This interface is used to represent formats for pairs of indices. |
interface |
IntervalFormat
This interface is used to represent formats for intervals. |
interface |
LinearCombFormat<V>
This interface is used to represent formats for linear combinations. |
interface |
LinearCombTermFormat<V>
This interface is used to represent the formats of terms from linear combinations. |
interface |
MathExprFormat<E extends MathExpr<V>,V>
This interface is used to represent formats for linear combinations. |
interface |
MatrixElementFormat<R,C,E>
This interface is used to represent formats for matrix elements. |
Classes in sbrt.shell.text.math that implement Parser | |
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class |
BoundedIntervalFormatV1
This class is a concrete implementation of IntervalFormat. |
class |
CoeffFormatV1
This class is a concrete implementation of CoeffFormat. |
class |
CoeffFormatV2
This class is a concrete implementation of CoeffFormat. |
class |
DirEdgeFormatV1<N>
This class is a concrete implementation of DirEdgeFormat. |
class |
IndexPairFormatV1<R,C>
This class is a concrete implementation of IndexPairFormat. |
class |
IntervalFormatV1
This class is a concrete implementation of IntervalFormat. |
class |
LinCombTermFormatV1<V>
This class is a concrete implementation of LinearCombTermFormat. |
class |
LinCombTermFormatV2<V>
This class is a concrete implementation of LinearCombTermFormat. |
class |
LinearCombFormatV1<V>
This class is a concrete implementation of LinearCombFormat. |
class |
LinearCombFormatV2<V>
This class is a concrete implementation of LinearCombFormat. |
class |
MatrixElementFormatV1<R,C>
This class is a concrete implementation of MatrixElementFormat. |
class |
SenseFormat
This class is used to represent formats of optimization senses. |
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