TranSMARTService

Abstract Value Members

abstract def createClinicalDataAndMappingFiles(delimiter: String, newLine: String, replacements: Iterable[(String, String)])(items: Traversable[JsObject], dataFileName: String, keyField: String, visitField: Option[String], fieldCategoryMap: Map[String, Category], rootCategory: Category, fields: Traversable[Field]): (String, String)

Deprecated.
Deprecated. Process input items to create clinical and mapping file. Replace substrings and symbols if necessary, map columns to tranSMART properties and fields.
delimiter
String to use as entry delimiter.
newLine
String to use as line delimiter.
replacements
List of pairs for replacing strings and symbols of format: (input string, replacement).
items
Items to be written into output file. May be modified with respect to the other parameters.
dataFileName
Name of output file.
keyField
Field for use as unique key for tranSMART mapping file.
visitField
Field to be used as visit field in tranSMART mapping file.
fieldCategoryMap
Define which field names map to which tranSMART categories.
rootCategory
Category to be used as tranSMART root.
fields
The list of fields.
returns
Pair containing the content for the tranSMART datafile and the tranSMART mapping file.

See also
createClinicalMapping()
createClinicalData()
abstract def createClinicalDataFile(delimiter: String, newLine: String, replacements: Iterable[(String, String)])(items: Traversable[JsObject], keyFieldName: String, visitFieldName: Option[String], fieldNameCategoryMap: Map[String, Category], nameFieldTypeMap: Map[String, FieldType[_]]): String

Generates the content for the clinical data file.
Generates the content for the clinical data file. Replace substrings and symbols if necessary, map columns to tranSMART properties and fields.
delimiter
String to use as entry delimiter.
newLine
String to use as line delimiter.
replacements
List of pairs for replacing strings and symbols of format: (input string, replacement).
items
Items to be written into output file. May be modified with respect to the other parameters.
keyFieldName
Field for use as unique key for tranSMART mapping file.
visitFieldName
Field to be used as visit field in tranSMART mapping file.
fieldNameCategoryMap
Define which field names map to which tranSMART categories.
abstract def createClinicalMapping(dataFileName: String, keyField: String, visitField: Option[String], fieldsInOrder: Iterable[String], fieldCategoryMap: Map[String, Category], rootCategory: Category, fieldNameLabelMap: Map[String, Option[String]]): Traversable[JsObject]

Creates a template for the clinical mapping
Creates a template for the clinical mapping
dataFileName
Name of output file.
keyField
Field for use as unique key for tranSMART mapping file.
visitField
Field to be used as visit field in tranSMART mapping file.
fieldsInOrder
Filtered input fields.
fieldCategoryMap
Define which field names map to which tranSMART categories.
rootCategory
Category to be used as tranSMART root.
fieldNameLabelMap
(Re)map field to labels in tranSMART file.
returns
Items containing the values for the clinical mapping file.
abstract def createMappingFile(delimiter: String, newLine: String, replacements: Iterable[(String, String)])(dataFileName: String, keyField: String, visitField: Option[String], fieldCategoryMap: Map[String, Category], rootCategory: Category, fieldNameLabelMap: Map[String, Option[String]]): String

Generate the content for the data mapping file.
Generate the content for the data mapping file. Replace substrings and symbols if necessary, map columns to tranSMART properties and fields.
delimiter
String to use as entry delimiter.
newLine
String to use as line delimiter.
replacements
List of pairs for replacing strings and symbols of format: (input string, replacement).
dataFileName
Name of output file.
keyField
Field for use as unique key for tranSMART mapping file.
visitField
Field to be used as visit field in tranSMART mapping file.
fieldCategoryMap
Define which field names map to which tranSMART categories.
rootCategory
Category to be used as tranSMART root.
fieldNameLabelMap
(Re)map field to labels in tranSMART file.

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Related Doc: package importers

trait TranSMARTService extends AnyRef

Abstract Value Members

abstract def createClinicalDataFile(delimiter: String, newLine: String, replacements: Iterable[(String, String)])(items: Traversable[JsObject], keyFieldName: String, visitFieldName: Option[String], fieldNameCategoryMap: Map[String, Category], nameFieldTypeMap: Map[String, FieldType[_]]): String

abstract def createClinicalMapping(dataFileName: String, keyField: String, visitField: Option[String], fieldsInOrder: Iterable[String], fieldCategoryMap: Map[String, Category], rootCategory: Category, fieldNameLabelMap: Map[String, Option[String]]): Traversable[JsObject]

abstract def createMappingFile(delimiter: String, newLine: String, replacements: Iterable[(String, String)])(dataFileName: String, keyField: String, visitField: Option[String], fieldCategoryMap: Map[String, Category], rootCategory: Category, fieldNameLabelMap: Map[String, Option[String]]): String

Concrete Value Members

final def !=(arg0: Any): Boolean

final def ##(): Int

final def ==(arg0: Any): Boolean

final def asInstanceOf[T0]: T0

def clone(): AnyRef

final def eq(arg0: AnyRef): Boolean

def equals(arg0: Any): Boolean

def finalize(): Unit

final def getClass(): Class[_]

def hashCode(): Int

final def isInstanceOf[T0]: Boolean

final def ne(arg0: AnyRef): Boolean

final def notify(): Unit

final def notifyAll(): Unit

final def synchronized[T0](arg0: ⇒ T0): T0

def toString(): String

final def wait(): Unit

final def wait(arg0: Long, arg1: Int): Unit

final def wait(arg0: Long): Unit

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