org.biojava3.ws.alignment
Interface RemotePairwiseAlignmentProperties

All Superinterfaces:

java.io.Serializable

All Known Implementing Classes:

NCBIQBlastAlignmentProperties

public interface RemotePairwiseAlignmentProperties
extends java.io.Serializable

RemotePairwiseAlignmentProperties is a interface that contains the barest of methods for setting and getting Alignment properties. Ideally, one would extend this class if creating a service by creating wrapper methods that actually call either getAlignementOption or setAlignementOption with specific values for parameter names and checking values for options. For an example, go see NCBIQBlastProperties

Since:

Biojava 3

Author:

Sylvain Foisy, Diploide BioIT

Field Summary

static long

serialVersionUID

Method Summary

java.lang.String	getAlignmentOption(java.lang.String key) Method that returns the value associated with the key given in parameter.
java.util.Set<java.lang.String>	getAlignmentOptions() Method to get all keys to the information stored in this object.
void	setAlignementOption(java.lang.String key, java.lang.String val) Method to set the value for a specific alignment parameter using a key to store in a map.

Field Detail

serialVersionUID

static final long serialVersionUID

See Also:

Constant Field Values

Method Detail

getAlignmentOption

java.lang.String getAlignmentOption(java.lang.String key)
                                    throws java.lang.Exception

Method that returns the value associated with the key given in parameter.

Parameters:

key - :a String with the required key for this map.

Returns:

a String with the value associated with this key

Throws:

java.lang.Exception - if key is not in the map of output options.

setAlignementOption

void setAlignementOption(java.lang.String key,
                         java.lang.String val)

Method to set the value for a specific alignment parameter using a key to store in a map.

Parameters:

key - :the key use to designate the value to be stored

val - :the actual value matched to key

getAlignmentOptions

java.util.Set<java.lang.String> getAlignmentOptions()

Method to get all keys to the information stored in this object.

Returns:

a Set with all keys held in this instance of the object