Package pl.poznan.put.pdb.analysis

Class ImmutableDefaultPdbModel.Builder

java.lang.Object

pl.poznan.put.pdb.analysis.ImmutableDefaultPdbModel.Builder

Enclosing class:

ImmutableDefaultPdbModel

@NotThreadSafe
public static final class ImmutableDefaultPdbModel.Builder
extends Object

Builds instances of type ImmutableDefaultPdbModel. Initialize attributes and then invoke the build() method to create an immutable instance.

Builder is not thread-safe and generally should not be stored in a field or collection, but instead used immediately to create instances.

Method Summary

Modifier and Type	Method	Description
final ImmutableDefaultPdbModel.Builder	addAllAtoms(Iterable<? extends PdbAtomLine> elements)	Adds elements to atoms list.
final ImmutableDefaultPdbModel.Builder	addAllChainTerminatedAfter(Iterable<? extends PdbResidueIdentifier> elements)	Adds elements to chainTerminatedAfter set.
final ImmutableDefaultPdbModel.Builder	addAllMissingResidues(Iterable<? extends PdbRemark465Line> elements)	Adds elements to missingResidues list.
final ImmutableDefaultPdbModel.Builder	addAllModifiedResidues(Iterable<? extends PdbModresLine> elements)	Adds elements to modifiedResidues list.
final ImmutableDefaultPdbModel.Builder	addAtoms(PdbAtomLine element)	Adds one element to atoms list.
final ImmutableDefaultPdbModel.Builder	addAtoms(PdbAtomLine... elements)	Adds elements to atoms list.
final ImmutableDefaultPdbModel.Builder	addChainTerminatedAfter(PdbResidueIdentifier element)	Adds one element to chainTerminatedAfter set.
final ImmutableDefaultPdbModel.Builder	addChainTerminatedAfter(PdbResidueIdentifier... elements)	Adds elements to chainTerminatedAfter set.
final ImmutableDefaultPdbModel.Builder	addMissingResidues(PdbRemark465Line element)	Adds one element to missingResidues list.
final ImmutableDefaultPdbModel.Builder	addMissingResidues(PdbRemark465Line... elements)	Adds elements to missingResidues list.
final ImmutableDefaultPdbModel.Builder	addModifiedResidues(PdbModresLine element)	Adds one element to modifiedResidues list.
final ImmutableDefaultPdbModel.Builder	addModifiedResidues(PdbModresLine... elements)	Adds elements to modifiedResidues list.
final ImmutableDefaultPdbModel.Builder	atoms(Iterable<? extends PdbAtomLine> elements)	Sets or replaces all elements for atoms list.
ImmutableDefaultPdbModel	build()	Builds a new ImmutableDefaultPdbModel.
final ImmutableDefaultPdbModel.Builder	chainTerminatedAfter(Iterable<? extends PdbResidueIdentifier> elements)	Sets or replaces all elements for chainTerminatedAfter set.
final ImmutableDefaultPdbModel.Builder	experimentalData(PdbExpdtaLine experimentalData)	Initializes the value for the experimentalData attribute.
final ImmutableDefaultPdbModel.Builder	from(AbstractPdbModel instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.AbstractPdbModel instance.
final ImmutableDefaultPdbModel.Builder	from(DefaultPdbModel instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.DefaultPdbModel instance.
final ImmutableDefaultPdbModel.Builder	from(PdbModel instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.PdbModel instance.
final ImmutableDefaultPdbModel.Builder	header(PdbHeaderLine header)	Initializes the value for the header attribute.
final ImmutableDefaultPdbModel.Builder	missingResidues(Iterable<? extends PdbRemark465Line> elements)	Sets or replaces all elements for missingResidues list.
final ImmutableDefaultPdbModel.Builder	modelNumber(int modelNumber)	Initializes the value for the modelNumber attribute.
final ImmutableDefaultPdbModel.Builder	modifiedResidues(Iterable<? extends PdbModresLine> elements)	Sets or replaces all elements for modifiedResidues list.
final ImmutableDefaultPdbModel.Builder	resolution(PdbRemark2Line resolution)	Initializes the value for the resolution attribute.
final ImmutableDefaultPdbModel.Builder	title(String title)	Initializes the value for the title attribute.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details

from

public final ImmutableDefaultPdbModel.Builder from(AbstractPdbModel instance)

Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.AbstractPdbModel instance.

Parameters:

instance - The instance from which to copy values

Returns:

this builder for use in a chained invocation

from

public final ImmutableDefaultPdbModel.Builder from(PdbModel instance)

Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.PdbModel instance.

Parameters:

instance - The instance from which to copy values

Returns:

this builder for use in a chained invocation

from

public final ImmutableDefaultPdbModel.Builder from(DefaultPdbModel instance)

Fill a builder with attribute values from the provided pl.poznan.put.pdb.analysis.DefaultPdbModel instance.

Parameters:

instance - The instance from which to copy values

Returns:

this builder for use in a chained invocation

header

public final ImmutableDefaultPdbModel.Builder header(PdbHeaderLine header)

Initializes the value for the header attribute.

Parameters:

header - The value for header

Returns:

this builder for use in a chained invocation

experimentalData

public final ImmutableDefaultPdbModel.Builder experimentalData(PdbExpdtaLine experimentalData)

Initializes the value for the experimentalData attribute.

Parameters:

experimentalData - The value for experimentalData

Returns:

this builder for use in a chained invocation

resolution

public final ImmutableDefaultPdbModel.Builder resolution(PdbRemark2Line resolution)

Initializes the value for the resolution attribute.

Parameters:

resolution - The value for resolution

Returns:

this builder for use in a chained invocation

modelNumber

public final ImmutableDefaultPdbModel.Builder modelNumber(int modelNumber)

Initializes the value for the modelNumber attribute.

Parameters:

modelNumber - The value for modelNumber

Returns:

this builder for use in a chained invocation

addAtoms

public final ImmutableDefaultPdbModel.Builder addAtoms(PdbAtomLine element)

Adds one element to atoms list.

Parameters:

element - A atoms element

Returns:

this builder for use in a chained invocation

addAtoms

public final ImmutableDefaultPdbModel.Builder addAtoms(PdbAtomLine... elements)

Adds elements to atoms list.

Parameters:

elements - An array of atoms elements

Returns:

this builder for use in a chained invocation

atoms

public final ImmutableDefaultPdbModel.Builder atoms(Iterable<? extends PdbAtomLine> elements)

Sets or replaces all elements for atoms list.

Parameters:

elements - An iterable of atoms elements

Returns:

this builder for use in a chained invocation

addAllAtoms

public final ImmutableDefaultPdbModel.Builder addAllAtoms(Iterable<? extends PdbAtomLine> elements)

Adds elements to atoms list.

Parameters:

elements - An iterable of atoms elements

Returns:

this builder for use in a chained invocation

addModifiedResidues

public final ImmutableDefaultPdbModel.Builder addModifiedResidues(PdbModresLine element)

Adds one element to modifiedResidues list.

Parameters:

element - A modifiedResidues element

Returns:

this builder for use in a chained invocation

addModifiedResidues

public final ImmutableDefaultPdbModel.Builder addModifiedResidues(PdbModresLine... elements)

Adds elements to modifiedResidues list.

Parameters:

elements - An array of modifiedResidues elements

Returns:

this builder for use in a chained invocation

modifiedResidues

public final ImmutableDefaultPdbModel.Builder modifiedResidues(Iterable<? extends PdbModresLine> elements)

Sets or replaces all elements for modifiedResidues list.

Parameters:

elements - An iterable of modifiedResidues elements

Returns:

this builder for use in a chained invocation

addAllModifiedResidues

public final ImmutableDefaultPdbModel.Builder addAllModifiedResidues(Iterable<? extends PdbModresLine> elements)

Adds elements to modifiedResidues list.

Parameters:

elements - An iterable of modifiedResidues elements

Returns:

this builder for use in a chained invocation

addMissingResidues

public final ImmutableDefaultPdbModel.Builder addMissingResidues(PdbRemark465Line element)

Adds one element to missingResidues list.

Parameters:

element - A missingResidues element

Returns:

this builder for use in a chained invocation

addMissingResidues

public final ImmutableDefaultPdbModel.Builder addMissingResidues(PdbRemark465Line... elements)

Adds elements to missingResidues list.

Parameters:

elements - An array of missingResidues elements

Returns:

this builder for use in a chained invocation

missingResidues

public final ImmutableDefaultPdbModel.Builder missingResidues(Iterable<? extends PdbRemark465Line> elements)

Sets or replaces all elements for missingResidues list.

Parameters:

elements - An iterable of missingResidues elements

Returns:

this builder for use in a chained invocation

addAllMissingResidues

public final ImmutableDefaultPdbModel.Builder addAllMissingResidues(Iterable<? extends PdbRemark465Line> elements)

Adds elements to missingResidues list.

Parameters:

elements - An iterable of missingResidues elements

Returns:

this builder for use in a chained invocation

title

public final ImmutableDefaultPdbModel.Builder title(String title)

Initializes the value for the title attribute.

Parameters:

title - The value for title

Returns:

this builder for use in a chained invocation

addChainTerminatedAfter

public final ImmutableDefaultPdbModel.Builder addChainTerminatedAfter(PdbResidueIdentifier element)

Adds one element to chainTerminatedAfter set.

Parameters:

element - A chainTerminatedAfter element

Returns:

this builder for use in a chained invocation

addChainTerminatedAfter

public final ImmutableDefaultPdbModel.Builder addChainTerminatedAfter(PdbResidueIdentifier... elements)

Adds elements to chainTerminatedAfter set.

Parameters:

elements - An array of chainTerminatedAfter elements

Returns:

this builder for use in a chained invocation

chainTerminatedAfter

public final ImmutableDefaultPdbModel.Builder chainTerminatedAfter(Iterable<? extends PdbResidueIdentifier> elements)

Sets or replaces all elements for chainTerminatedAfter set.

Parameters:

elements - An iterable of chainTerminatedAfter elements

Returns:

this builder for use in a chained invocation

addAllChainTerminatedAfter

public final ImmutableDefaultPdbModel.Builder addAllChainTerminatedAfter(Iterable<? extends PdbResidueIdentifier> elements)

Adds elements to chainTerminatedAfter set.

Parameters:

elements - An iterable of chainTerminatedAfter elements

Returns:

this builder for use in a chained invocation

build

public ImmutableDefaultPdbModel build()

Builds a new ImmutableDefaultPdbModel.

Returns:

An immutable instance of DefaultPdbModel

Throws:

IllegalStateException - if any required attributes are missing