ambit2.base.data.study

Class ProtocolApplication<PROTOCOL,PARAMS,ENDPOINT,CONDITIONS,UNIT>

java.lang.Object

ambit2.base.data.study.ProtocolApplication<PROTOCOL,PARAMS,ENDPOINT,CONDITIONS,UNIT>

Type Parameters:

PROTOCOL -

PARAMS -

ENDPOINT -

CONDITIONS -

UNIT - Typical use: new ProtocolApplication<Protocol, Params,String,Params,String>

 {
     "uuid": "IUC4-0034ab78-402a-3c80-9455-54046c02469a",
     "owner": {
         "substance": {
             "uuid": "IUC4-efdb21bb-e79f-3286-a988-b6f6944d3734"
         },
         "company": {
             "uuid": "IUC4-44bf02d8-47c5-385d-b203-9a8f315911cb",
             "name": "OECD/Paris/France"
         }
     },
     "citation": {
         "title": "Chang,J.C.F.etal.: Toxicol.Appl.Pharmacol.61,451-459|(1981)",
         "year": "0",
         "owner": ""
     },
     "protocol": {
         "topcategory": "TOX",
         "category": {
             "code": "TO_ACUTE_INHAL_SECTION",
             "title": "7.2.2Acutetoxicity-inhalation"
         },
         "endpoint": "Acutetoxicity: inhalation,IUC4#10/Ch.5.1.2",
         "guideline": [
             "Method: other: sensoryirritationaccordingtoAlarie,Y.;(nofurtherdata)"
         ]
     },
     "parameters": {
         "Species": "guinea pig",
         "Type of method": null,
         "Type of study": "CPA/FCA - Test"
     },
     "reliability": {
         "r_isRobustStudy": "false",
         "r_isUsedforClassification": "false",
         "r_isUsedforMSDS": "false",
         "r_purposeFlag": "",
         "r_studyResultType": "",
         "r_value": ""
     },
     "interpretation": {
         "result": "",
         "criteria": ""
     },
     "effects": [
         {
             "endpoint": "RD50",
             "conditions": {
                 "Metabolic activation": "with and without",
                 "Species": "Salmonella typhimurium; no data on tester strain"
             },
             "result": {
                 "unit": "mg/Lair",
                 "loValue": 0.006
             }
         }
     ]
 }
            

All Implemented Interfaces:

Serializable

Direct Known Subclasses:

ProtocolApplicationAnnotated

public class ProtocolApplication<PROTOCOL,PARAMS,ENDPOINT,CONDITIONS,UNIT>
extends Object
implements Serializable

Author:

nina

See Also:

Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	ProtocolApplication._fields

Field Summary

Fields

Modifier and Type	Field and Description
protected UUID	assayUUID
protected String	companyName
protected String	companyUUID
static SimpleDateFormat	dateformatter
protected String	documentUUID
protected List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>>	effects
protected String	interpretationCriteria
protected String	interpretationResult
protected UUID	investigationUUID
protected PARAMS	parameters
protected PROTOCOL	protocol
protected ambit2.base.data.study.Citation	reference
protected String	referenceSubstanceUUID
protected ReliabilityParams	reliability
protected String	substanceUUID
protected Date	updated

Constructor Summary

Constructors

Constructor and Description
ProtocolApplication(PROTOCOL protocol)

Method Summary

Modifier and Type	Method and Description
void	addEffect(EffectRecord<ENDPOINT,CONDITIONS,UNIT> effect)
void	clear()
UUID	getAssayUUID()
String	getCompanyName()
String	getCompanyUUID()
String	getDocumentUUID() in ProtocolApplication JSON:
List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>>	getEffects() "effects": []
String	getInterpretationCriteria()
String	getInterpretationResult() "interpretation": {}
UUID	getInvestigationUUID()
PARAMS	getParameters() "parameters": {}
PROTOCOL	getProtocol() "protocol": { ...
String	getReference()
String	getReferenceOwner()
String	getReferenceSubstanceUUID()
String	getReferenceYear()
ReliabilityParams	getReliability() "reliability": {}
String	getSubstanceUUID()
Date	getUpdated()
int	hashCode()
void	setAssayUUID(String assayUUID)
void	setAssayUUID(UUID assayUUID)
void	setCompanyName(String companyName)
void	setCompanyUUID(String companyUUID)
void	setDocumentUUID(String documentUUID)
void	setEffects(List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>> effects)
void	setInterpretationCriteria(String interpretationCriteria)
void	setInterpretationResult(String interpretationResult)
void	setInvestigationUUID(String investigationUUID)
void	setInvestigationUUID(UUID investigationUUID)
void	setParameters(PARAMS parameters)
void	setProtocol(PROTOCOL protocol)
void	setReference(String reference) "citation": { "title": "ABCDE", "year": "2014", "owner": "" },
void	setReferenceOwner(String owner)
void	setReferenceSubstanceUUID(String referenceSubstanceUUID)
void	setReferenceYear(String year)
void	setReliability(ReliabilityParams reliability)
void	setSubstanceUUID(String substanceUUID)
void	setUpdated(Date updated)
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

reliability

protected ReliabilityParams reliability

interpretationResult

protected String interpretationResult

interpretationCriteria

protected String interpretationCriteria

parameters

protected PARAMS parameters

reference

protected ambit2.base.data.study.Citation reference

effects

protected List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>> effects

companyName

protected String companyName

protocol

protected PROTOCOL protocol

substanceUUID

protected String substanceUUID

companyUUID

protected String companyUUID

documentUUID

protected String documentUUID

investigationUUID

protected UUID investigationUUID

assayUUID

protected UUID assayUUID

updated

protected Date updated

dateformatter

public static final SimpleDateFormat dateformatter

referenceSubstanceUUID

protected String referenceSubstanceUUID

Constructor Detail

ProtocolApplication

public ProtocolApplication(PROTOCOL protocol)

Method Detail

getUpdated

public Date getUpdated()

setUpdated

public void setUpdated(Date updated)

getInvestigationUUID

public UUID getInvestigationUUID()

setInvestigationUUID

public void setInvestigationUUID(String investigationUUID)

setInvestigationUUID

public void setInvestigationUUID(UUID investigationUUID)

getAssayUUID

public UUID getAssayUUID()

setAssayUUID

public void setAssayUUID(UUID assayUUID)

setAssayUUID

public void setAssayUUID(String assayUUID)

hashCode

public int hashCode()

Overrides:

hashCode in class Object

getReliability

public ReliabilityParams getReliability()

  "reliability": {}
 

setReliability

public void setReliability(ReliabilityParams reliability)

getReferenceSubstanceUUID

public String getReferenceSubstanceUUID()

setReferenceSubstanceUUID

public void setReferenceSubstanceUUID(String referenceSubstanceUUID)

getCompanyUUID

public String getCompanyUUID()

setCompanyUUID

public void setCompanyUUID(String companyUUID)

getCompanyName

public String getCompanyName()

setCompanyName

public void setCompanyName(String companyName)

getSubstanceUUID

public String getSubstanceUUID()

setSubstanceUUID

public void setSubstanceUUID(String substanceUUID)

getInterpretationResult

public String getInterpretationResult()

 "interpretation": {}
 

setInterpretationResult

public void setInterpretationResult(String interpretationResult)

getInterpretationCriteria

public String getInterpretationCriteria()

setInterpretationCriteria

public void setInterpretationCriteria(String interpretationCriteria)

getDocumentUUID

public String getDocumentUUID()

in ProtocolApplication JSON:

 "uuid": "IUC4-0034ab78-402a-3c80-9455-54046c02469a",
 

Returns:

setDocumentUUID

public void setDocumentUUID(String documentUUID)

getProtocol

public PROTOCOL getProtocol()

   "protocol": { ... }
 

        "protocol": {
         "topcategory": "TOX",
         "category": {
             "code": "TO_ACUTE_INHAL_SECTION",
             "title": "7.2.2Acutetoxicity-inhalation"
         },
         "endpoint": "Acute toxicity: inhalation,IUC4#10/Ch.5.1.2",
         "guideline": [
             "Method: other: sensoryirritationaccordingtoAlarie,Y.;(nofurtherdata)"
         ]
     }
 

Returns:

setProtocol

public void setProtocol(PROTOCOL protocol)

getParameters

public PARAMS getParameters()

 "parameters": {}
 

setParameters

public void setParameters(PARAMS parameters)

getReference

public String getReference()

setReference

public void setReference(String reference)

 "citation": {
         "title": "ABCDE",
         "year": "2014",
         "owner": ""
     },
 

Parameters:

reference -

getReferenceYear

public String getReferenceYear()

setReferenceYear

public void setReferenceYear(String year)

getReferenceOwner

public String getReferenceOwner()

setReferenceOwner

public void setReferenceOwner(String owner)

getEffects

public List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>> getEffects()

  "effects": []
 

setEffects

public void setEffects(List<EffectRecord<ENDPOINT,CONDITIONS,UNIT>> effects)

addEffect

public void addEffect(EffectRecord<ENDPOINT,CONDITIONS,UNIT> effect)

clear

public void clear()

toString

public String toString()

Overrides:

toString in class Object