Package org.anchoranalysis.io.output.bean.path.prefixer

Class PathPrefixer

Object

org.anchoranalysis.bean.AnchorBean<PathPrefixer>

org.anchoranalysis.io.output.bean.path.prefixer.PathPrefixer

Direct Known Subclasses:

PathPrefixerAvoidResolve

public abstract class PathPrefixer
extends org.anchoranalysis.bean.AnchorBean<PathPrefixer>

Base classes for methods to determine an output directory and associated file prefix.

This is derived from an identifier for an experiment, and input paths.

Author:

Owen Feehan

Constructor Summary

Constructors

Constructor	Description
PathPrefixer()

Method Summary

Modifier and Type	Method	Description
abstract DirectoryWithPrefix	outFilePrefix(NamedPath path, Optional<String> experimentIdentifier, PathPrefixerContext context)	Provides a prefix which can be prepended to all output files.
protected Path	resolvePath(String pathToResolve)	Like resolvePath(Path) but accepts a String as the path.
protected Path	resolvePath(Path pathToResolve)	Converts a relative-path to an absolute-path (relative to the file-path associated with this current bean)
abstract DirectoryWithPrefix	rootDirectoryPrefix(Optional<String> experimentIdentifier, PathPrefixerContext context)	Provides a prefix that becomes the root-folder.

Methods inherited from class org.anchoranalysis.bean.AnchorBean

checkMisconfigured, describeBean, describeChildren, duplicateBean, fields, findFieldsOfClass, getBeanName, getLocalPath, localise, toString

Methods inherited from class java.lang.Object

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

Constructor Details

PathPrefixer

public PathPrefixer()

Method Details

outFilePrefix

public abstract DirectoryWithPrefix outFilePrefix(NamedPath path, Optional<String> experimentIdentifier, PathPrefixerContext context) throws PathPrefixerException

Provides a prefix which can be prepended to all output files. The prefix should be an absolute path.

Parameters:

path - an input to derive a prefix from

experimentIdentifier - if defined, an identifier for the experiment, to be included in the directory root.

context - the context in which prefixing of paths occurs.

Returns:

a directory with an associated prefix.

Throws:

PathPrefixerException - if unable to successfully determine a prefix.

rootDirectoryPrefix

public abstract DirectoryWithPrefix rootDirectoryPrefix(Optional<String> experimentIdentifier, PathPrefixerContext context) throws PathPrefixerException

Provides a prefix that becomes the root-folder. The prefix should be an absolute path.

Parameters:

experimentIdentifier - if defined, an identifier for the experiment, to be included in the directory root.

context - the context in which prefixing of paths occurs.

Returns:

a directory with an associated prefix.

Throws:

PathPrefixerException - if unable to successfully determine a prefix.

resolvePath

protected Path resolvePath(String pathToResolve)

Like resolvePath(Path) but accepts a String as the path.

Parameters:

pathToResolve - input-path that is relative.

Returns:

the converted path (relative to the localizedPath of the current file)

resolvePath

protected Path resolvePath(Path pathToResolve)

Converts a relative-path to an absolute-path (relative to the file-path associated with this current bean)

If there is no file-path associated with the current bean, then we throw an error if it is a relative path, or otherwise it remains unchanged

If the pathToResolve is already absolute, then we return it as-is

Parameters:

pathToResolve - input-path that is relative.

Returns:

the converted path (relative to the localizedPath of the current file)