Index (CombineExt 1.3.0 API)

A B C D E F G H I M P R S

A

addDefaultCollection() - Static method in class de.unirostock.sems.cbext.Iconizer: Add a default icon collection to the list of collections.
addDefaultRecognizers() - Static method in class de.unirostock.sems.cbext.Formatizer: Add all default recognizers to the list of recognizers.
addFormatRecognizer(FormatRecognizer) - Static method in class de.unirostock.sems.cbext.Formatizer: Adds another recognizer to the formatizer.
addIconCollection(IconCollection) - Static method in class de.unirostock.sems.cbext.Iconizer: Adds a icon mapper to the Iconizer

B

BioPaxRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class BioPaxFormatizer to recognize BioPax files.
BioPaxRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer
buildUri(String, String, URI) - Static method in class de.unirostock.sems.cbext.FormatRecognizer: Builds an URI as `start+end` without caring about an exception.
buildUri(String, String) - Static method in class de.unirostock.sems.cbext.FormatRecognizer: Builds an URI as `start+end` without caring about an exception.

C

CellMlRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class CellMlFormatizer to recognize cellml files.
CellMlRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.CellMlRecognizer

D

de.unirostock.sems.cbext - package de.unirostock.sems.cbext
de.unirostock.sems.cbext.collections - package de.unirostock.sems.cbext.collections
de.unirostock.sems.cbext.recognizer - package de.unirostock.sems.cbext.recognizer
DefaultIconCollection - Class in de.unirostock.sems.cbext.collections: The Class DefaultIconCollection provides you with a bunch of default icons.
DefaultIconCollection() - Constructor for class de.unirostock.sems.cbext.collections.DefaultIconCollection: Instantiates a new default icon mapper.
DefaultRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class DefaultFormatRecognizer knows some common extensions to map it to formats.
DefaultRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.DefaultRecognizer: Instantiates a new default extension mapper.

E

extractIconExample() - Method in class de.unirostock.sems.cbext.Iconizer: Example for extracting an icon.

F

format2Icon - Variable in class de.unirostock.sems.cbext.collections.DefaultIconCollection: The format2 icon.
Formatizer - Class in de.unirostock.sems.cbext: The Class Formatizer to generate format URIs for certain files.
Formatizer() - Constructor for class de.unirostock.sems.cbext.Formatizer
FormatRecognizer - Class in de.unirostock.sems.cbext: Instances of the class FormatRecognizer are able to recognise the format of files.
FormatRecognizer() - Constructor for class de.unirostock.sems.cbext.FormatRecognizer
formatToIcon(URI) - Static method in class de.unirostock.sems.cbext.Iconizer: Get an icon file name given a format, as it can be found in our jar archive.
formatToIconName(URI) - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection
formatToIconName(URI) - Method in class de.unirostock.sems.cbext.IconCollection: Get an icon file name given a format, as it can be found in our jar archive.
formatToIconStream(URI) - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection
formatToIconStream(URI) - Method in class de.unirostock.sems.cbext.IconCollection: Get an icon stream given a format.
formatToIconStream(URI) - Static method in class de.unirostock.sems.cbext.Iconizer: Get an icon stream given a format.
formatToIconUrl(URI) - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection
formatToIconUrl(URI) - Method in class de.unirostock.sems.cbext.IconCollection: Get a URL pointing to an icon in the archive.
formatToIconUrl(URI) - Static method in class de.unirostock.sems.cbext.Iconizer: Get a URL pointing to an icon in our archive.

G

GENERIC_UNKNOWN - Static variable in class de.unirostock.sems.cbext.Formatizer: The generic unknown format URI.
GENERIC_UNKNOWN - Static variable in class de.unirostock.sems.cbext.Iconizer: The Constant GENERIC_UNKNOWN representing the icon file for unknown file types.
getAvailableFormatIcons() - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection: Get a list of formats for that we have an icon.
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.FormatRecognizer: Parses the given file and tries to determine the format, such as purl.org or identifiers.org URI.
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.SbolRecognizer
getFormatByParsing(File, String) - Method in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer
getFormatFromExtension(String) - Static method in class de.unirostock.sems.cbext.Formatizer: Gets the format given a file extension.
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.FormatRecognizer: Tries to map the given file extension to a format.
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.SbolRecognizer
getFormatFromExtension(String) - Method in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer
getFormatFromMime(String) - Static method in class de.unirostock.sems.cbext.Formatizer: Gets the format given a mime type.
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.FormatRecognizer: Tries to map the given mime type to a format.
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.SbolRecognizer
getFormatFromMime(String) - Method in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection
getPriority() - Method in class de.unirostock.sems.cbext.FormatRecognizer: Returns the priority of this format recognizer.
getPriority() - Method in class de.unirostock.sems.cbext.IconCollection: Defines the priority of this collection.
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.SbolRecognizer
getPriority() - Method in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer
guessFormat(File) - Static method in class de.unirostock.sems.cbext.Formatizer: Guess format given a file.

H

hasIcon(URI) - Method in class de.unirostock.sems.cbext.collections.DefaultIconCollection
hasIcon(URI) - Method in class de.unirostock.sems.cbext.IconCollection: Returns true, if the given format is available in this collection.

I

IconCollection - Class in de.unirostock.sems.cbext: Interface for extending the collection of known icons.
IconCollection() - Constructor for class de.unirostock.sems.cbext.IconCollection
Iconizer - Class in de.unirostock.sems.cbext: The Class Iconizer helps you retrieving icons for common file types.
Iconizer() - Constructor for class de.unirostock.sems.cbext.Iconizer
IDENTIFIERS_BASE - Static variable in class de.unirostock.sems.cbext.FormatRecognizer: identifiers.org base uri.

M

main(String[]) - Static method in class de.unirostock.sems.cbext.ResourcesGenerator

P

priority - Static variable in class de.unirostock.sems.cbext.collections.DefaultIconCollection: priority for this icon collection
priority - Static variable in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.SbolRecognizer: priority for this format recognizer
priority - Static variable in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer: priority for this format recognizer
PURL_BASE - Static variable in class de.unirostock.sems.cbext.FormatRecognizer: purl.org base uri.

R

removeCollections() - Static method in class de.unirostock.sems.cbext.Iconizer: Remove all collections that we know so far.
removeRecognizers() - Static method in class de.unirostock.sems.cbext.Formatizer: Remove all recognizers that we know so far.
resortCollections() - Static method in class de.unirostock.sems.cbext.Iconizer: Resort known icon collections.
resortRecognizers() - Static method in class de.unirostock.sems.cbext.Formatizer: Resort known format recognizers.
ResourcesGenerator - Class in de.unirostock.sems.cbext
ResourcesGenerator() - Constructor for class de.unirostock.sems.cbext.ResourcesGenerator

S

SbgnRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class SbgnFormatizer to recognize sbgn files.
SbgnRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.SbgnRecognizer
SbmlRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class SbmlFormatizer to recognize sbml files.
SbmlRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.SbmlRecognizer
SbolRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class SbolFormatizer to recognize sbol files.
SbolRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.SbolRecognizer
SedMlRecognizer - Class in de.unirostock.sems.cbext.recognizer: The Class SedMlFormatizer to recognize sed-ml files.
SedMlRecognizer() - Constructor for class de.unirostock.sems.cbext.recognizer.SedMlRecognizer
setPriority(int) - Static method in class de.unirostock.sems.cbext.collections.DefaultIconCollection: Sets the priority of this icon collection and triggers a resort of all icon collection.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.BioPaxRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.CellMlRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.DefaultRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.SbgnRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.SbmlRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.SbolRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.
setPriority(int) - Static method in class de.unirostock.sems.cbext.recognizer.SedMlRecognizer: Sets the priority of this format recognizer and triggers a resort of all format recognizers.

A B C D E F G H I M P R S