Uses of Class
org.biojava.nbio.core.util.PrettyXMLWriter

Packages that use PrettyXMLWriter

Package	Description
org.biojava.nbio.protmod.io
org.biojava.nbio.structure.align.xml	Serialization and deserialization for structure alignment results (as AFPChain object) to XML.
org.biojava.nbio.structure.quaternary

Uses of PrettyXMLWriter in org.biojava.nbio.protmod.io

Methods in org.biojava.nbio.protmod.io with parameters of type PrettyXMLWriter

Modifier and Type	Method	Description
static void	ComponentXMLConverter.toXML(Component component, PrettyXMLWriter xml)
static void	StructureAtomXMLConverter.toXML(StructureAtom atom, PrettyXMLWriter xml)
static void	StructureGroupXMLConverter.toXML(StructureGroup group, PrettyXMLWriter xml)

Uses of PrettyXMLWriter in org.biojava.nbio.structure.align.xml

Methods in org.biojava.nbio.structure.align.xml with parameters of type PrettyXMLWriter

Modifier and Type	Method	Description
static void	MultipleAlignmentXMLConverter.printXMLalignment(PrettyXMLWriter xml, MultipleAlignment msa)
static void	MultipleAlignmentXMLConverter.printXMLblock(PrettyXMLWriter xml, Block b)
static void	MultipleAlignmentXMLConverter.printXMLblockSet(PrettyXMLWriter xml, BlockSet bs)
static void	MultipleAlignmentXMLConverter.printXMLensemble(PrettyXMLWriter xml, MultipleAlignmentEnsemble ensemble)
static void	AFPChainXMLConverter.printXMLEQRInferPositions(PrettyXMLWriter xml, AFPChain afpChain, int bk, Atom[] ca1, Atom[] ca2)
static void	MultipleAlignmentXMLConverter.printXMLheader(PrettyXMLWriter xml, MultipleAlignmentEnsemble ensemble)
static void	AFPChainXMLConverter.printXMLHeader(PrettyXMLWriter xml, AFPChain afpChain)
static void	MultipleAlignmentXMLConverter.printXMLmatrix4d(PrettyXMLWriter xml, javax.vecmath.Matrix4d transform)
static void	MultipleAlignmentXMLConverter.printXMLscoresCache(PrettyXMLWriter xml, ScoresCache cache)

Uses of PrettyXMLWriter in org.biojava.nbio.structure.quaternary

Methods in org.biojava.nbio.structure.quaternary with parameters of type PrettyXMLWriter

Modifier and Type	Method	Description
void	BiologicalAssemblyTransformation.toXML(PrettyXMLWriter xml)