| Interface | Description |
|---|---|
| CommandLineParser.ClpEnum | |
| CommandLineProgramGroup |
Interface for groups of CommandLinePrograms.
|
| Class | Description |
|---|---|
| ClassFinder |
Utility class that can scan for classes in the classpath and find all the ones
annotated with a particular annotation.
|
| CommandLineDefaults |
Embodies defaults for global values that affect how the Picard Command Line operates.
|
| CommandLineParser |
Annotation-driven utility for parsing command-line arguments, checking for errors, and producing usage message.
|
| CommandLineParser.OptionDefinition | |
| CommandLineParser.OptionDefinitionByPrintOrderComparator | |
| CommandLineProgram |
Abstract class to facilitate writing command-line programs.
|
| CreateHtmlDocForProgram |
Print out the usage for one or more CommandLinePrograms in a form close to what is used in the Sourceforge Picard website.
|
| CreateHtmlDocForStandardOptions | |
| PicardCommandLine |
This is the main class of Picard and is the way of executing individual command line programs.
|
| StandardOptionDefinitions |
A set of String constants in which the name of the constant (minus the _SHORT_NAME suffix)
is the standard long Option name, and the value of the constant is the standard shortName.
|
| Exception | Description |
|---|---|
| CommandLineParseException | |
| CommandLineParserDefinitionException |
| Annotation Type | Description |
|---|---|
| CommandLineProgramProperties |
Annotates a command line program with various properties, such as usage (short and long),
as well as to which program group it belongs.
|
| NestedOptions |
Used to annotate a field in a CommandLineProgram that holds a instance containing @Option-annotated
fields.
|
| Option |
Used to annotate which fields of a CommandLineProgram are options given at the command line.
|
| PositionalArguments |
Used to annotate which field of a CommandLineProgram should store parameters given at the
command line which are not options.
|