SampleReportService (SeqWare 1.1.2 API)

All Known Implementing Classes:

SampleReportServiceImpl
```
public interface SampleReportService
```
SampleReportService interface.

Version:

$Id: $Id

Author:

boconnor

Nested Class Summary

Nested Classes
Modifier and Type Interface and Description

static class SampleReportService.Status

Nested Classes
Modifier and Type	Interface and Description
`static class`	`SampleReportService.Status`

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 orderType)` 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.

Method Detail

getStatusesForStudy
```
List<SampleReportService.Status> getStatusesForStudy(Study study)
```
getStatusesForStudy.

Parameters:
study - a Study object.

Returns:
a List object.

getStatusesForWorkflow

List<SampleReportService.Status> getStatusesForWorkflow(Study study,
                                                      Workflow workflow)

getStatusesForWorkflow.

Parameters:: study - a Study object.; workflow - a Workflow object.
Returns:: a List object.

getWorkflowsForStudy
```
List<Workflow> getWorkflowsForStudy(Study study)
```
getWorkflowsForStudy.

Parameters:
study - a Study object.

Returns:
a List object.

countOfStatus

int countOfStatus(Study study,
                SampleReportService.Status status)

countOfStatus.

Parameters:: study - a Study object.; status - a String object.
Returns:: a int.

getChildSamples
```
List<Sample> getChildSamples(Study study)
```
getChildSamples.

Parameters:
study - a Study object.

Returns:
a List object.

getStatus

SampleReportService.Status getStatus(Study study,
                                   Sample childSample,
                                   Workflow workflow)

getStatus.

Parameters:: study - a Study object.; childSample - a Sample object.; workflow - a Workflow object.
Returns:: a String object.

countOfStatus

int countOfStatus(Study study,
                Workflow workflow,
                SampleReportService.Status status)

countOfStatus.

Parameters:: study - a Study object.; workflow - a Workflow object.; status - a String object.
Returns:: a int.

getRowsForSequencerRun
```
List<SampleReportRow> getRowsForSequencerRun(SequencerRun sr)
```
getRowsForSequencerRun.

Parameters:
sr - a SequencerRun object.

Returns:
a List object.

getRowsWithSequencerRuns
```
List<SampleReportRow> getRowsWithSequencerRuns()
```
getRowsWithSequencerRuns.

Returns:
a List object.

getStatusesForWorkflow

List<SampleReportService.Status> getStatusesForWorkflow(SequencerRun seqRun,
                                                      Workflow workflow)

getStatusesForWorkflow.

Parameters:: seqRun - a SequencerRun object.; workflow - a Workflow object.
Returns:: a List object.

getStatusesForSequencerRun
```
List<SampleReportService.Status> getStatusesForSequencerRun(SequencerRun seqRun)
```
getStatusesForSequencerRun.

Parameters:
seqRun - a SequencerRun object.

Returns:
a List object.

countOfStatus

int countOfStatus(SequencerRun seqRun,
                SampleReportService.Status status)

countOfStatus.

Parameters:: seqRun - a SequencerRun object.; status - a String object.
Returns:: a int.

countOfStatus

int countOfStatus(SequencerRun seqRun,
                Workflow workflow,
                SampleReportService.Status status)

countOfStatus.

Parameters:: seqRun - a SequencerRun object.; workflow - a Workflow object.; status - a String object.
Returns:: a int.

countOfRows
```
int countOfRows(SequencerRun seqRun)
```
countOfRows.

Parameters:
seqRun - a SequencerRun object.

Returns:
a int.

getWorkflows
```
List<Workflow> getWorkflows(SequencerRun seqRun)
```
getWorkflows.

Parameters:
seqRun - a SequencerRun object.

Returns:
a List object.

getStatus

SampleReportService.Status getStatus(Study study,
                                   Sample sample,
                                   IUS ius,
                                   Lane lane,
                                   SequencerRun seqRun,
                                   Workflow workflow)

getStatus.

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.

getSequencerRunReportIds

List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun,
                                                  String sortField,
                                                  String sortOrder,
                                                  int offset,
                                                  int limit)

getSequencerRunReportIds.

Parameters:: seqRun - a SequencerRun object.; sortField - a String object.; sortOrder - a String object.; offset - a int.; limit - a int.
Returns:: a List object.

getSequencerRunReportIds
```
List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun)
```
getSequencerRunReportIds.

Parameters:
seqRun - a SequencerRun object.

Returns:
a List object.

getSequencerRunReportIds

List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun,
                                                  String sortField,
                                                  String orderType)

getSequencerRunReportIds.

Parameters:: seqRun - a SequencerRun object.; sortField - a String object.; orderType - a String object.
Returns:: a List object.

Interface SampleReportService

Nested Class Summary

Method Summary

Method Detail

getStatusesForStudy

getStatusesForWorkflow

getWorkflowsForStudy

countOfStatus

getChildSamples

getStatus

countOfStatus

getRowsForSequencerRun

getRowsWithSequencerRuns

getStatusesForWorkflow

getStatusesForSequencerRun

countOfStatus

countOfStatus

countOfRows

getWorkflows

getStatus

getSequencerRunReportIds

getSequencerRunReportIds

getSequencerRunReportIds