pro.fessional.meepo.sack

Class Gene

java.lang.Object

pro.fessional.meepo.sack.Gene

public class Gene
extends Object

Since:

2020-10-15

Author:

trydofor

Field Summary

Fields

Modifier and Type	Field and Description
long	born
List<Exon>	exon
Set<String>	rngs

Constructor Summary

Constructors

Constructor and Description
Gene(List<Exon> xna, Set<String> rng)

Method Summary

Modifier and Type	Method and Description
@NotNull String	build() Build back to the raw template or escaped text via gene.
String	graph() Print the syntax tree and check for edge continuity.
static int	graph(Writer buff, List<Exon> exon, int level, int start) Print the syntax tree and check for edge continuity.
@NotNull String	merge(Map<String,Object> ctx) Merge with the context, and output as string.
@NotNull String	merge(Map<String,Object> ctx, int len) Merge with the context, and output as string.
void	merge(Map<String,Object> ctx, Writer out) Merge with the context, and output to the Writer.

Methods inherited from class java.lang.Object

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

Field Detail

born

public final long born

exon

public final List<Exon> exon

rngs

public final Set<String> rngs

Constructor Detail

Gene

public Gene(List<Exon> xna,
            Set<String> rng)

Method Detail

merge

@NotNull
public @NotNull String merge(Map<String,Object> ctx)

Merge with the context, and output as string.

merge

@NotNull
public @NotNull String merge(Map<String,Object> ctx,
                                      int len)

Merge with the context, and output as string.

Parameters:

ctx - the context

len - Estimate the size of the result to avoid buffer expansion.

Returns:

result

merge

public void merge(Map<String,Object> ctx,
                  Writer out)

Merge with the context, and output to the Writer.

build

@NotNull
public @NotNull String build()

Build back to the raw template or escaped text via gene. usually for debugging.

graph

public String graph()

Print the syntax tree and check for edge continuity. `#` means an intersection

Returns:

syntax tree

graph

public static int graph(Writer buff,
                        List<Exon> exon,
                        int level,
                        int start)

Print the syntax tree and check for edge continuity. `#` means an intersection

Parameters:

buff - the buffer to print

exon - list of exon

level - level, 1-base

start - start point (include), 0-base

Returns:

end point of checking (exclude)