|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Objectorg.biomage.Common.Extendable
org.biomage.Common.Describable
org.biomage.Common.Identifiable
org.biomage.BioAssay.Image
public class Image
An image is created by an imageAcquisition event, typically by scanning the hybridized array (the PhysicalBioAssay).
Nested Class Summary |
---|
Nested classes/interfaces inherited from interface org.biomage.Interface.HasChannels |
---|
HasChannels.Channels_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasAuditTrail |
---|
HasAuditTrail.AuditTrail_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasDescriptions |
---|
HasDescriptions.Descriptions_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets |
---|
HasPropertySets.PropertySets_list |
Field Summary | |
---|---|
protected java.util.List |
channels
The channels captured in this image. |
protected OntologyEntry |
format
The file format of the image typically a TIF or a JPEG. |
Fields inherited from class org.biomage.Common.Describable |
---|
security |
Fields inherited from class org.biomage.Common.Extendable |
---|
editable, id, securedElementId |
Constructor Summary | |
---|---|
Image()
Default constructor. |
|
Image(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
---|---|
void |
addToChannels(Channel channel)
Method to add Channel to Channels_list |
void |
addToChannels(int position,
Channel channel)
Method to add Channel at position to Channels_list |
boolean |
emptyMAGEobject()
|
HasChannels.Channels_list |
getChannels()
Get method for channels |
OntologyEntry |
getFormat()
Get method for format |
Channel |
getFromChannels(int position)
Method to get Channel from Channels_list |
java.lang.String |
getModelClassName()
|
java.lang.String |
getURI()
Get method for URI |
void |
removeElementAtFromChannels(int position)
Method to remove by position from Channels_list |
void |
removeFromChannels(Channel channel)
Method to remove first Channel from Channels_list |
void |
setAttributes(org.xml.sax.Attributes atts)
|
void |
setChannels(HasChannels.Channels_list channels)
Set method for channels |
void |
setFormat(OntologyEntry format)
Set method for format |
void |
setURI(java.lang.String URI)
Set method for URI |
void |
writeAssociations(java.io.Writer out)
writeAssociations This method is responsible for assembling the association data into XML. |
void |
writeAttributes(java.io.Writer out)
writeAttributes This method is responsible for assembling the attribute data into XML. |
void |
writeMAGEML(java.io.Writer out)
writeMAGEML This method is responsible for assembling the attribute and association data into XML. |
Methods inherited from class org.biomage.Common.Identifiable |
---|
getIdentifier, getName, setIdentifier, setName, toString |
Methods inherited from class org.biomage.Common.Describable |
---|
addToAuditTrail, addToAuditTrail, addToDescriptions, addToDescriptions, getAuditTrail, getDescriptions, getFromAuditTrail, getFromDescriptions, getSecurity, removeElementAtFromAuditTrail, removeElementAtFromDescriptions, removeFromAuditTrail, removeFromDescriptions, setAuditTrail, setDescriptions, setSecurity |
Methods inherited from class org.biomage.Common.Extendable |
---|
addToPropertySets, addToPropertySets, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setId, setIsEditable, setPropertySets, setSecuredElementId |
Methods inherited from class java.lang.Object |
---|
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
---|
protected java.util.List channels
protected OntologyEntry format
Constructor Detail |
---|
public Image()
public Image(org.xml.sax.Attributes atts)
atts:
- the attribute list.Method Detail |
---|
public void setAttributes(org.xml.sax.Attributes atts)
setAttributes
in class Identifiable
public void writeMAGEML(java.io.Writer out) throws java.io.IOException
writeMAGEML
in class Identifiable
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
writeAttributes
in class Identifiable
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
writeAssociations
in class Identifiable
java.io.IOException
public void setURI(java.lang.String URI)
value
- to setpublic java.lang.String getURI()
public java.lang.String getModelClassName()
getModelClassName
in class Identifiable
public void setChannels(HasChannels.Channels_list channels)
setChannels
in interface HasChannels
value
- to setpublic HasChannels.Channels_list getChannels()
getChannels
in interface HasChannels
public void addToChannels(Channel channel)
addToChannels
in interface HasChannels
public void addToChannels(int position, Channel channel)
addToChannels
in interface HasChannels
public Channel getFromChannels(int position)
getFromChannels
in interface HasChannels
public void removeElementAtFromChannels(int position)
removeElementAtFromChannels
in interface HasChannels
public void removeFromChannels(Channel channel)
removeFromChannels
in interface HasChannels
public void setFormat(OntologyEntry format)
setFormat
in interface HasFormat
value
- to setpublic OntologyEntry getFormat()
getFormat
in interface HasFormat
|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |