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Packages that use RichSeqIOListener | |
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org.biojavax.bio.seq.io | Classes to support the I/O of RichSequence and Bioentry objects. |
Uses of RichSeqIOListener in org.biojavax.bio.seq.io |
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Subinterfaces of RichSeqIOListener in org.biojavax.bio.seq.io | |
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interface |
RichSequenceBuilder
An interface for objects that can build RichSequences. |
Classes in org.biojavax.bio.seq.io that implement RichSeqIOListener | |
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class |
DebuggingRichSeqIOListener
This is purely for debugging purposes. |
class |
RichSeqIOAdapter
This class implements all methods of RichSeqIOListener and takes no action. |
class |
SimpleRichSequenceBuilder
Constructs BioEntry objects by listening to events. |
Methods in org.biojavax.bio.seq.io with parameters of type RichSeqIOListener | |
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void |
FastaFormat.processHeader(String line,
RichSeqIOListener rsiol,
Namespace ns)
Parse the Header information from the Fasta Description line |
boolean |
UniProtXMLFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. If namespace is null, then the namespace of the sequence in the fasta is used. |
boolean |
UniProtFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
boolean |
RichSequenceFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener listener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
boolean |
INSDseqFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
boolean |
GenbankFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
boolean |
FastaFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rsiol,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. If namespace is null, then the namespace of the sequence in the fasta is used. |
boolean |
EMBLxmlFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
boolean |
EMBLFormat.readRichSequence(BufferedReader reader,
SymbolTokenization symParser,
RichSeqIOListener rlistener,
Namespace ns)
Reads a sequence from the given buffered reader using the given tokenizer to parse sequence symbols. |
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