org.dishevelled.bio.tools

Class FilterGfa2

java.lang.Object

org.dishevelled.bio.tools.AbstractFilter

org.dishevelled.bio.tools.FilterGfa2

All Implemented Interfaces:

Callable<Integer>

public final class FilterGfa2
extends AbstractFilter

Filter assembly in GFA 2.0 format.

Since:

1.3

Author:

Michael Heuer

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
(package private) static interface	FilterGfa2.Filter Filter.
static class	FilterGfa2.ScriptFilter Script filter.

Constructor Summary

Constructors

Constructor and Description
FilterGfa2(List<FilterGfa2.Filter> filters, File inputGfa2File, File outputGfa2File) Filter assembly in GFA2 format.
FilterGfa2(List<FilterGfa2.Filter> filters, Path inputGfa2Path, File outputGfa2File) Filter assembly in GFA2 format.

Method Summary

Modifier and Type	Method and Description
Integer	call()
static void	main(String[] args) Main.

Methods inherited from class org.dishevelled.bio.tools.AbstractFilter

createScriptEngine

Methods inherited from class java.lang.Object

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

Constructor Detail

FilterGfa2

public FilterGfa2(List<FilterGfa2.Filter> filters,
                  File inputGfa2File,
                  File outputGfa2File)

Filter assembly in GFA2 format.

Parameters:

filters - list of filters, must not be null

inputGfa2File - input GFA2 file, if any

outputGfa2File - output GFA2 file, if any

FilterGfa2

public FilterGfa2(List<FilterGfa2.Filter> filters,
                  Path inputGfa2Path,
                  File outputGfa2File)

Filter assembly in GFA2 format.

Parameters:

filters - list of filters, must not be null

inputGfa2Path - input GFA2 path, if any

outputGfa2File - output GFA2 file, if any

Since:

2.1

Method Detail

call

public Integer call()
             throws Exception

Throws:

Exception

main

public static void main(String[] args)

Main.

Parameters:

args - command line args