SampleReportDAOHibernate (SeqWare 1.1.2 API)

java.lang.Object
- org.springframework.dao.support.DaoSupport
- - org.springframework.orm.hibernate3.support.HibernateDaoSupport
  - - net.sourceforge.seqware.common.dao.hibernate.SampleReportDAOHibernate

All Implemented Interfaces:

SampleReportDAO, org.springframework.beans.factory.InitializingBean
```
public class SampleReportDAOHibernate
extends org.springframework.orm.hibernate3.support.HibernateDaoSupport
implements SampleReportDAO
```
SampleReportDAOHibernate class.

Version:

$Id: $Id

Author:

boconnor

Field Summary
- Fields inherited from class org.springframework.dao.support.DaoSupport
  logger

Constructor Summary

Constructors
Constructor and Description

SampleReportDAOHibernate()

Constructors
Constructor and Description
`SampleReportDAOHibernate()`

Method Summary

Methods
Modifier and Type	Method and Description
`int`	`countOfRows(SequencerRun seqRun)` countOfRows.
`int`	`countOfStatus(SequencerRun seqRun, SampleReportService.Status status)` countOfStatus.
`int`	`countOfStatus(SequencerRun seqRun, Workflow workflow, SampleReportService.Status status)` countOfStatus.
`int`	`countOfStatus(Study study, SampleReportService.Status status)` countOfStatus.
`int`	`countOfStatus(Study study, Workflow workflow, SampleReportService.Status status)` countOfStatus.
`List<Sample>`	`getChildSamples(Study study)` getChildSamples.
`List<SampleReportRow>`	`getRowsForSequencerRun(SequencerRun sr)` getRowsForSequencerRun.
`List<SampleReportRow>`	`getRowsWithSequencerRuns()` getRowsWithSequencerRuns.
`List<SequencerRunReportId>`	`getSequencerRunReportIds(SequencerRun seqRun)` getSequencerRunReportIds.
`List<SequencerRunReportId>`	`getSequencerRunReportIds(SequencerRun seqRun, String sortField, String sortOrder, int offset, int limit)` getSequencerRunReportIds.
`SampleReportService.Status`	`getStatus(Study study, Sample sample, IUS ius, Lane lane, SequencerRun seqRun, Workflow workflow)` getStatus.
`SampleReportService.Status`	`getStatus(Study study, Sample childSample, Workflow workflow)` getStatus.
`List<SampleReportService.Status>`	`getStatusesForSequencerRun(SequencerRun seqRun)` getStatusesForSequencerRun.
`List<SampleReportService.Status>`	`getStatusesForStudy(Study study)` getStatusesForStudy.
`List<SampleReportService.Status>`	`getStatusesForWorkflow(SequencerRun seqRun, Workflow workflow)` getStatusesForWorkflow.
`List<SampleReportService.Status>`	`getStatusesForWorkflow(Study study, Workflow workflow)` getStatusesForWorkflow.
`List<Workflow>`	`getWorkflows(SequencerRun seqRun)` getWorkflows.
`List<Workflow>`	`getWorkflowsForStudy(Study study)` getWorkflowsForStudy.

Methods inherited from class org.springframework.orm.hibernate3.support.HibernateDaoSupport
checkDaoConfig, convertHibernateAccessException, createHibernateTemplate, getHibernateTemplate, getSession, getSession, getSessionFactory, releaseSession, setHibernateTemplate, setSessionFactory

Methods inherited from class org.springframework.dao.support.DaoSupport
afterPropertiesSet, initDao

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

- Constructor Detail
  - SampleReportDAOHibernate
```
public SampleReportDAOHibernate()
```
- Method Detail
  - getStatusesForStudy
```
public List<SampleReportService.Status> getStatusesForStudy(Study study)
```
    getStatusesForStudy.
    
    Specified by:
    
    getStatusesForStudy in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    
    Returns:
    a List object.
  - getStatusesForWorkflow
```
public List<SampleReportService.Status> getStatusesForWorkflow(Study study,
                                                      Workflow workflow)
```
    getStatusesForWorkflow.
    
    Specified by:
    
    getStatusesForWorkflow in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    workflow - a Workflow object.
    
    Returns:
    a List object.
  - getWorkflowsForStudy
```
public List<Workflow> getWorkflowsForStudy(Study study)
```
    getWorkflowsForStudy.
    
    Specified by:
    
    getWorkflowsForStudy in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    
    Returns:
    a List object.
  - getWorkflows
```
public List<Workflow> getWorkflows(SequencerRun seqRun)
```
    getWorkflows.
    
    Specified by:
    
    getWorkflows in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    
    Returns:
    a List object.
  - countOfStatus
```
public int countOfStatus(Study study,
                SampleReportService.Status status)
```
    countOfStatus.
    
    Specified by:
    
    countOfStatus in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    status - a String object.
    
    Returns:
    a int.
  - countOfStatus
```
public int countOfStatus(Study study,
                Workflow workflow,
                SampleReportService.Status status)
```
    countOfStatus.
    
    Specified by:
    
    countOfStatus in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    workflow - a Workflow object.
    status - a String object.
    
    Returns:
    a int.
  - countOfStatus
```
public int countOfStatus(SequencerRun seqRun,
                Workflow workflow,
                SampleReportService.Status status)
```
    countOfStatus.
    
    Specified by:
    
    countOfStatus in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    workflow - a Workflow object.
    status - a String object.
    
    Returns:
    a int.
  - countOfStatus
```
public int countOfStatus(SequencerRun seqRun,
                SampleReportService.Status status)
```
    countOfStatus.
    
    Specified by:
    
    countOfStatus in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    status - a String object.
    
    Returns:
    a int.
  - countOfRows
```
public int countOfRows(SequencerRun seqRun)
```
    countOfRows.
    
    Specified by:
    
    countOfRows in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    
    Returns:
    a int.
  - getChildSamples
```
public List<Sample> getChildSamples(Study study)
```
    getChildSamples.
    
    Specified by:
    
    getChildSamples in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    
    Returns:
    a List object.
  - getStatus
```
public SampleReportService.Status getStatus(Study study,
                                   Sample childSample,
                                   Workflow workflow)
```
    getStatus.
    
    Specified by:
    
    getStatus in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    childSample - a Sample object.
    workflow - a Workflow object.
    
    Returns:
    a String object.
  - getStatus
```
public SampleReportService.Status getStatus(Study study,
                                   Sample sample,
                                   IUS ius,
                                   Lane lane,
                                   SequencerRun seqRun,
                                   Workflow workflow)
```
    getStatus.
    
    Specified by:
    
    getStatus in interface SampleReportDAO
    
    Parameters:
    study - a Study object.
    sample - a Sample object.
    ius - a IUS object.
    lane - a Lane object.
    seqRun - a SequencerRun object.
    workflow - a Workflow object.
    
    Returns:
    a String object.
  - getRowsForSequencerRun
```
public List<SampleReportRow> getRowsForSequencerRun(SequencerRun sr)
```
    getRowsForSequencerRun.
    
    Specified by:
    
    getRowsForSequencerRun in interface SampleReportDAO
    
    Parameters:
    sr - a SequencerRun object.
    
    Returns:
    a List object.
  - getRowsWithSequencerRuns
```
public List<SampleReportRow> getRowsWithSequencerRuns()
```
    getRowsWithSequencerRuns.
    
    Specified by:
    
    getRowsWithSequencerRuns in interface SampleReportDAO
    
    Returns:
    a List object.
  - getStatusesForSequencerRun
```
public List<SampleReportService.Status> getStatusesForSequencerRun(SequencerRun seqRun)
```
    getStatusesForSequencerRun.
    
    Specified by:
    
    getStatusesForSequencerRun in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    
    Returns:
    a List object.
  - getStatusesForWorkflow
```
public List<SampleReportService.Status> getStatusesForWorkflow(SequencerRun seqRun,
                                                      Workflow workflow)
```
    getStatusesForWorkflow.
    
    Specified by:
    
    getStatusesForWorkflow in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    workflow - a Workflow object.
    
    Returns:
    a List object.
  - getSequencerRunReportIds
```
public List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun,
                                                  String sortField,
                                                  String sortOrder,
                                                  int offset,
                                                  int limit)
```
    getSequencerRunReportIds.
    
    Specified by:
    
    getSequencerRunReportIds in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    sortField - a String object.
    sortOrder - a String object.
    offset - a int.
    limit - a int.
    
    Returns:
    a List object.
  - getSequencerRunReportIds
```
public List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun)
```
    getSequencerRunReportIds.
    
    Specified by:
    
    getSequencerRunReportIds in interface SampleReportDAO
    
    Parameters:
    seqRun - a SequencerRun object.
    
    Returns:
    a List object.

Class SampleReportDAOHibernate

Field Summary

Fields inherited from class org.springframework.dao.support.DaoSupport

Constructor Summary

Method Summary

Methods inherited from class org.springframework.orm.hibernate3.support.HibernateDaoSupport

Methods inherited from class org.springframework.dao.support.DaoSupport

Methods inherited from class java.lang.Object

Constructor Detail

SampleReportDAOHibernate

Method Detail

getStatusesForStudy

getStatusesForWorkflow

getWorkflowsForStudy

getWorkflows

countOfStatus

countOfStatus

countOfStatus

countOfStatus

countOfRows

getChildSamples

getStatus

getStatus

getRowsForSequencerRun

getRowsWithSequencerRuns

getStatusesForSequencerRun

getStatusesForWorkflow

getSequencerRunReportIds

getSequencerRunReportIds