ExperimentServiceImpl (SeqWare 1.1.2 API)

java.lang.Object
- net.sourceforge.seqware.common.business.impl.ExperimentServiceImpl

All Implemented Interfaces:

ExperimentService
```
public class ExperimentServiceImpl
extends Object
implements ExperimentService
```
ExperimentServiceImpl class.

Version:

$Id: $Id

Author:

boconnor

Field Summary
- Fields inherited from interface net.sourceforge.seqware.common.business.ExperimentService
  NAME

Constructor Summary

Constructors
Constructor and Description

ExperimentServiceImpl()
Constructor for ExperimentServiceImpl.

Constructors
Constructor and Description
`ExperimentServiceImpl()` Constructor for ExperimentServiceImpl.

Method Summary

Methods
Modifier and Type	Method and Description
`void`	`delete(Experiment experiment, boolean deleteRealFiles)` delete.
`List<Experiment>`	`findByCriteria(String criteria, boolean isCaseSens)` findByCriteria.
`Experiment`	`findByID(Integer expID)` findByID.
`List<Experiment>`	`findByOwnerID(Integer registrationID)` findByOwnerID.
`Experiment`	`findBySWAccession(Integer swAccession)` findBySWAccession.
`Experiment`	`findByTitle(String title)` findByTitle.
`List<File>`	`getFiles(Integer experimentId)` getFiles.
`List<File>`	`getFiles(Integer studyId, String metaType)` getFiles.
`boolean`	`hasTitleBeenUsed(String oldTitle, String newTitle)` hasTitleBeenUsed.
`Integer`	`insert(Experiment experiment)` insert.
`Integer`	`insert(Registration registration, Experiment experiment)` insert.
`boolean`	`isHasFile(Integer experimentId)` isHasFile.
`boolean`	`isHasFile(Integer studyId, String metaType)` isHasFile.
`List<Experiment>`	`list()` list.
`List<Experiment>`	`list(Registration registration)` list.
`List<Experiment>`	`list(Study study)` list.
`SortedSet<Experiment>`	`listWithHasFile(SortedSet<Experiment> list, String metaType)` listWithHasFile.
`void`	`merge(Experiment experiment)` merge.
`void`	`setExperimentDAO(ExperimentDAO experimentDAO)` setExperimentDAO.
`void`	`setFileDAO(FileDAO fileDAO)` Sets a private member variable with an instance of an implementation of FileDAO.
`SortedSet<Experiment>`	`setWithHasFile(SortedSet<Experiment> list)` setWithHasFile.
`void`	`update(Experiment experiment)` update.
`void`	`update(Registration registration, Experiment experiment)` update.
`Experiment`	`updateDetached(Experiment experiment)` updateDetached.
`Experiment`	`updateDetached(Registration registration, Experiment experiment)` updateDetached.

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - ExperimentServiceImpl
```
public ExperimentServiceImpl()
```
    Constructor for ExperimentServiceImpl.
- Method Detail
  - setExperimentDAO
```
public void setExperimentDAO(ExperimentDAO experimentDAO)
```
    setExperimentDAO.
    Sets a private member variable with an instance of an implementation of ExperimentDAO. This method is called by the Spring framework at run time.
    
    Specified by:
    
    setExperimentDAO in interface ExperimentService
    
    Parameters:
    experimentDAO - a ExperimentDAO object.
    See Also:
    ExperimentDAO
  - setFileDAO
```
public void setFileDAO(FileDAO fileDAO)
```
    Sets a private member variable with an instance of an implementation of FileDAO. This method is called by the Spring framework at run time.
    
    Parameters:
    fileDAO - implementation of FileDAO
    See Also:
    FileDAO
  - insert
```
public Integer insert(Experiment experiment)
```
    insert.
    Inserts an instance of Experiment into the database.
    
    Specified by:
    
    insert in interface ExperimentService
    
    Parameters:
    experiment - a Experiment object.
    
    Returns:
    a Integer object.
  - update
```
public void update(Experiment experiment)
```
    update.
    Updates an instance of Experiment in the database.
    
    Specified by:
    
    update in interface ExperimentService
    
    Parameters:
    experiment - a Experiment object.
  - merge
```
public void merge(Experiment experiment)
```
    merge.
    
    Specified by:
    
    merge in interface ExperimentService
    
    Parameters:
    experiment - a Experiment object.
  - delete
```
public void delete(Experiment experiment,
          boolean deleteRealFiles)
```
    delete.
    
    Specified by:
    
    delete in interface ExperimentService
    
    Parameters:
    experiment -
    deleteRealFiles -
  - list
```
public List<Experiment> list(Registration registration)
```
    list.
    
    Specified by:
    
    list in interface ExperimentService
    
    Parameters:
    registration - a Registration object.
    
    Returns:
    a List object.
  - list
```
public List<Experiment> list(Study study)
```
    list.
    
    Specified by:
    
    list in interface ExperimentService
    
    Parameters:
    study - a Study object.
    
    Returns:
    a List object.
  - getFiles
```
public List<File> getFiles(Integer experimentId)
```
    getFiles.
    
    Specified by:
    
    getFiles in interface ExperimentService
    
    Parameters:
    experimentId -
    
    Returns:
    a List object.
  - isHasFile
```
public boolean isHasFile(Integer experimentId)
```
    isHasFile.
    
    Specified by:
    
    isHasFile in interface ExperimentService
    
    Parameters:
    experimentId -
    
    Returns:
    a boolean.
  - getFiles
```
public List<File> getFiles(Integer studyId,
                  String metaType)
```
    getFiles.
    
    Specified by:
    
    getFiles in interface ExperimentService
    
    Parameters:
    studyId - a Integer object.
    metaType - a String object.
    
    Returns:
    a List object.
  - isHasFile
```
public boolean isHasFile(Integer studyId,
                String metaType)
```
    isHasFile.
    
    Specified by:
    
    isHasFile in interface ExperimentService
    
    Parameters:
    studyId - a Integer object.
    metaType - a String object.
    
    Returns:
    a boolean.
  - setWithHasFile
```
public SortedSet<Experiment> setWithHasFile(SortedSet<Experiment> list)
```
    setWithHasFile.
    
    Specified by:
    
    setWithHasFile in interface ExperimentService
    
    Parameters:
    list - a SortedSet object.
    
    Returns:
    a SortedSet object.
  - listWithHasFile
```
public SortedSet<Experiment> listWithHasFile(SortedSet<Experiment> list,
                                    String metaType)
```
    listWithHasFile.
    
    Specified by:
    
    listWithHasFile in interface ExperimentService
    
    Parameters:
    list - a SortedSet object.
    metaType - a String object.
    
    Returns:
    a SortedSet object.
  - findByTitle
```
public Experiment findByTitle(String title)
```
    findByTitle.
    Finds an instance of Experiment in the database by the Experiment emailAddress, and copies the Experiment properties to an instance of Experiment.
    
    Specified by:
    
    findByTitle in interface ExperimentService
    
    Parameters:
    title -
    
    Returns:
    a Experiment object.
  - findByID
```
public Experiment findByID(Integer expID)
```
    findByID.
    
    Specified by:
    
    findByID in interface ExperimentService
    
    Parameters:
    expID - a Integer object.
    
    Returns:
    a Experiment object.
  - findBySWAccession
```
public Experiment findBySWAccession(Integer swAccession)
```
    findBySWAccession.
    
    Specified by:
    
    findBySWAccession in interface ExperimentService
    
    Parameters:
    swAccession - a Integer object.
    
    Returns:
    a Experiment object.
  - hasTitleBeenUsed
```
public boolean hasTitleBeenUsed(String oldTitle,
                       String newTitle)
```
    hasTitleBeenUsed.
    Determines if an email address has already been used.
    
    Specified by:
    
    hasTitleBeenUsed in interface ExperimentService
    
    Parameters:
    oldTitle -
    newTitle -
    
    Returns:
    a boolean.
  - updateDetached
```
public Experiment updateDetached(Experiment experiment)
```
    updateDetached.
    
    Specified by:
    
    updateDetached in interface ExperimentService
    
    Parameters:
    experiment - a Experiment object.
    
    Returns:
    a Experiment object.
  - findByOwnerID
```
public List<Experiment> findByOwnerID(Integer registrationID)
```
    findByOwnerID.
    
    Specified by:
    
    findByOwnerID in interface ExperimentService
    
    Parameters:
    registrationID - a Integer object.
    
    Returns:
    a List object.
  - findByCriteria
```
public List<Experiment> findByCriteria(String criteria,
                              boolean isCaseSens)
```
    findByCriteria.
    
    Specified by:
    
    findByCriteria in interface ExperimentService
    
    Parameters:
    criteria - a String object.
    isCaseSens - a boolean.
    
    Returns:
    a List object.
  - list
```
public List<Experiment> list()
```
    list.
    
    Specified by:
    
    list in interface ExperimentService
    
    Returns:
    a List object.
  - update
```
public void update(Registration registration,
          Experiment experiment)
```
    update.
    
    Specified by:
    
    update in interface ExperimentService
    
    Parameters:
    registration - a Registration object.
    experiment - a Experiment object.
  - insert
```
public Integer insert(Registration registration,
             Experiment experiment)
```
    insert.
    
    Specified by:
    
    insert in interface ExperimentService
    
    Parameters:
    registration - a Registration object.
    experiment - a Experiment object.
    
    Returns:
    a Integer object.
  - updateDetached
```
public Experiment updateDetached(Registration registration,
                        Experiment experiment)
```
    updateDetached.
    
    Specified by:
    
    updateDetached in interface ExperimentService
    
    Parameters:
    registration - a Registration object.
    experiment - a Experiment object.
    
    Returns:
    a Experiment object.

Class ExperimentServiceImpl

Field Summary

Fields inherited from interface net.sourceforge.seqware.common.business.ExperimentService

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

ExperimentServiceImpl

Method Detail

setExperimentDAO

setFileDAO

insert

update

merge

delete

list

list

getFiles

isHasFile

getFiles

isHasFile

setWithHasFile

listWithHasFile

findByTitle

findByID

findBySWAccession

hasTitleBeenUsed

updateDetached

findByOwnerID

findByCriteria

list

update

insert

updateDetached