580 lines
19 KiB
Go
580 lines
19 KiB
Go
// THIS FILE IS GENERATED BY https://github.com/fastenhealth/fasten-onprem/blob/main/backend/pkg/models/database/generate.go
|
|
// PLEASE DO NOT EDIT BY HAND
|
|
|
|
package database
|
|
|
|
import (
|
|
"encoding/json"
|
|
"fmt"
|
|
goja "github.com/dop251/goja"
|
|
models "github.com/fastenhealth/fastenhealth-onprem/backend/pkg/models"
|
|
datatypes "gorm.io/datatypes"
|
|
"time"
|
|
)
|
|
|
|
type FhirSpecimen struct {
|
|
models.ResourceBase
|
|
// The accession number associated with the specimen
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Accession datatypes.JSON `gorm:"column:accession;type:text;serializer:json" json:"accession,omitempty"`
|
|
// The code for the body site from where the specimen originated
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Bodysite datatypes.JSON `gorm:"column:bodysite;type:text;serializer:json" json:"bodysite,omitempty"`
|
|
// The date the specimen was collected
|
|
// https://hl7.org/fhir/r4/search.html#date
|
|
Collected *time.Time `gorm:"column:collected;type:datetime" json:"collected,omitempty"`
|
|
// Who collected the specimen
|
|
// https://hl7.org/fhir/r4/search.html#reference
|
|
Collector datatypes.JSON `gorm:"column:collector;type:text;serializer:json" json:"collector,omitempty"`
|
|
// The kind of specimen container
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Container datatypes.JSON `gorm:"column:container;type:text;serializer:json" json:"container,omitempty"`
|
|
// The unique identifier associated with the specimen container
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
ContainerId datatypes.JSON `gorm:"column:containerId;type:text;serializer:json" json:"containerId,omitempty"`
|
|
// The unique identifier associated with the specimen
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Identifier datatypes.JSON `gorm:"column:identifier;type:text;serializer:json" json:"identifier,omitempty"`
|
|
// Language of the resource content
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Language datatypes.JSON `gorm:"column:language;type:text;serializer:json" json:"language,omitempty"`
|
|
// When the resource version last changed
|
|
// https://hl7.org/fhir/r4/search.html#date
|
|
LastUpdated *time.Time `gorm:"column:lastUpdated;type:datetime" json:"lastUpdated,omitempty"`
|
|
// The parent of the specimen
|
|
// https://hl7.org/fhir/r4/search.html#reference
|
|
Parent datatypes.JSON `gorm:"column:parent;type:text;serializer:json" json:"parent,omitempty"`
|
|
// Profiles this resource claims to conform to
|
|
// https://hl7.org/fhir/r4/search.html#reference
|
|
Profile datatypes.JSON `gorm:"column:profile;type:text;serializer:json" json:"profile,omitempty"`
|
|
// available | unavailable | unsatisfactory | entered-in-error
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Status datatypes.JSON `gorm:"column:status;type:text;serializer:json" json:"status,omitempty"`
|
|
// The subject of the specimen
|
|
// https://hl7.org/fhir/r4/search.html#reference
|
|
Subject datatypes.JSON `gorm:"column:subject;type:text;serializer:json" json:"subject,omitempty"`
|
|
// Tags applied to this resource
|
|
// https://hl7.org/fhir/r4/search.html#token
|
|
Tag datatypes.JSON `gorm:"column:tag;type:text;serializer:json" json:"tag,omitempty"`
|
|
// Text search against the narrative
|
|
// https://hl7.org/fhir/r4/search.html#string
|
|
Text datatypes.JSON `gorm:"column:text;type:text;serializer:json" json:"text,omitempty"`
|
|
// A resource type filter
|
|
// https://hl7.org/fhir/r4/search.html#special
|
|
Type datatypes.JSON `gorm:"column:type;type:text;serializer:json" json:"type,omitempty"`
|
|
}
|
|
|
|
func (s *FhirSpecimen) GetSearchParameters() map[string]string {
|
|
searchParameters := map[string]string{
|
|
"accession": "token",
|
|
"bodysite": "token",
|
|
"collected": "date",
|
|
"collector": "reference",
|
|
"container": "token",
|
|
"containerId": "token",
|
|
"identifier": "token",
|
|
"language": "token",
|
|
"lastUpdated": "date",
|
|
"parent": "reference",
|
|
"profile": "reference",
|
|
"status": "token",
|
|
"subject": "reference",
|
|
"tag": "token",
|
|
"text": "string",
|
|
"type": "special",
|
|
}
|
|
return searchParameters
|
|
}
|
|
func (s *FhirSpecimen) PopulateAndExtractSearchParameters(resourceRaw json.RawMessage) error {
|
|
s.ResourceRaw = datatypes.JSON(resourceRaw)
|
|
// unmarshal the raw resource (bytes) into a map
|
|
var resourceRawMap map[string]interface{}
|
|
err := json.Unmarshal(resourceRaw, &resourceRawMap)
|
|
if err != nil {
|
|
return err
|
|
}
|
|
if len(fhirPathJs) == 0 {
|
|
return fmt.Errorf("fhirPathJs script is empty")
|
|
}
|
|
vm := goja.New()
|
|
// setup the global window object
|
|
vm.Set("window", vm.NewObject())
|
|
// set the global FHIR Resource object
|
|
vm.Set("fhirResource", resourceRawMap)
|
|
// compile the fhirpath library
|
|
fhirPathJsProgram, err := goja.Compile("fhirpath.min.js", fhirPathJs, true)
|
|
if err != nil {
|
|
return err
|
|
}
|
|
// add the fhirpath library in the goja vm
|
|
_, err = vm.RunProgram(fhirPathJsProgram)
|
|
if err != nil {
|
|
return err
|
|
}
|
|
// execute the fhirpath expression for each search parameter
|
|
// extracting Accession
|
|
accessionResult, err := vm.RunString(`
|
|
AccessionResult = window.fhirpath.evaluate(fhirResource, 'Specimen.accessionIdentifier')
|
|
AccessionProcessed = AccessionResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(AccessionProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(AccessionProcessed)
|
|
}
|
|
`)
|
|
if err == nil && accessionResult.String() != "undefined" {
|
|
s.Accession = []byte(accessionResult.String())
|
|
}
|
|
// extracting Bodysite
|
|
bodysiteResult, err := vm.RunString(`
|
|
BodysiteResult = window.fhirpath.evaluate(fhirResource, 'Specimen.collection.bodySite')
|
|
BodysiteProcessed = BodysiteResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(BodysiteProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(BodysiteProcessed)
|
|
}
|
|
`)
|
|
if err == nil && bodysiteResult.String() != "undefined" {
|
|
s.Bodysite = []byte(bodysiteResult.String())
|
|
}
|
|
// extracting Collected
|
|
collectedResult, err := vm.RunString("window.fhirpath.evaluate(fhirResource, 'Specimen.collection.collected')[0]")
|
|
if err == nil && collectedResult.String() != "undefined" {
|
|
t, err := time.Parse(time.RFC3339, collectedResult.String())
|
|
if err == nil {
|
|
s.Collected = &t
|
|
} else if err != nil {
|
|
d, err := time.Parse("2006-01-02", collectedResult.String())
|
|
if err == nil {
|
|
s.Collected = &d
|
|
}
|
|
}
|
|
}
|
|
// extracting Collector
|
|
collectorResult, err := vm.RunString(`
|
|
CollectorResult = window.fhirpath.evaluate(fhirResource, 'Specimen.collection.collector')
|
|
|
|
if(CollectorResult.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(CollectorResult)
|
|
}
|
|
`)
|
|
if err == nil && collectorResult.String() != "undefined" {
|
|
s.Collector = []byte(collectorResult.String())
|
|
}
|
|
// extracting Container
|
|
containerResult, err := vm.RunString(`
|
|
ContainerResult = window.fhirpath.evaluate(fhirResource, 'Specimen.container.type')
|
|
ContainerProcessed = ContainerResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(ContainerProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(ContainerProcessed)
|
|
}
|
|
`)
|
|
if err == nil && containerResult.String() != "undefined" {
|
|
s.Container = []byte(containerResult.String())
|
|
}
|
|
// extracting ContainerId
|
|
containerIdResult, err := vm.RunString(`
|
|
ContainerIdResult = window.fhirpath.evaluate(fhirResource, 'Specimen.container.identifier')
|
|
ContainerIdProcessed = ContainerIdResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(ContainerIdProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(ContainerIdProcessed)
|
|
}
|
|
`)
|
|
if err == nil && containerIdResult.String() != "undefined" {
|
|
s.ContainerId = []byte(containerIdResult.String())
|
|
}
|
|
// extracting Identifier
|
|
identifierResult, err := vm.RunString(`
|
|
IdentifierResult = window.fhirpath.evaluate(fhirResource, 'Specimen.identifier')
|
|
IdentifierProcessed = IdentifierResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(IdentifierProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(IdentifierProcessed)
|
|
}
|
|
`)
|
|
if err == nil && identifierResult.String() != "undefined" {
|
|
s.Identifier = []byte(identifierResult.String())
|
|
}
|
|
// extracting Language
|
|
languageResult, err := vm.RunString(`
|
|
LanguageResult = window.fhirpath.evaluate(fhirResource, 'language')
|
|
LanguageProcessed = LanguageResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(LanguageProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(LanguageProcessed)
|
|
}
|
|
`)
|
|
if err == nil && languageResult.String() != "undefined" {
|
|
s.Language = []byte(languageResult.String())
|
|
}
|
|
// extracting LastUpdated
|
|
lastUpdatedResult, err := vm.RunString("window.fhirpath.evaluate(fhirResource, 'meta.lastUpdated')[0]")
|
|
if err == nil && lastUpdatedResult.String() != "undefined" {
|
|
t, err := time.Parse(time.RFC3339, lastUpdatedResult.String())
|
|
if err == nil {
|
|
s.LastUpdated = &t
|
|
} else if err != nil {
|
|
d, err := time.Parse("2006-01-02", lastUpdatedResult.String())
|
|
if err == nil {
|
|
s.LastUpdated = &d
|
|
}
|
|
}
|
|
}
|
|
// extracting Parent
|
|
parentResult, err := vm.RunString(`
|
|
ParentResult = window.fhirpath.evaluate(fhirResource, 'Specimen.parent')
|
|
|
|
if(ParentResult.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(ParentResult)
|
|
}
|
|
`)
|
|
if err == nil && parentResult.String() != "undefined" {
|
|
s.Parent = []byte(parentResult.String())
|
|
}
|
|
// extracting Profile
|
|
profileResult, err := vm.RunString(`
|
|
ProfileResult = window.fhirpath.evaluate(fhirResource, 'meta.profile')
|
|
|
|
if(ProfileResult.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(ProfileResult)
|
|
}
|
|
`)
|
|
if err == nil && profileResult.String() != "undefined" {
|
|
s.Profile = []byte(profileResult.String())
|
|
}
|
|
// extracting Status
|
|
statusResult, err := vm.RunString(`
|
|
StatusResult = window.fhirpath.evaluate(fhirResource, 'Specimen.status')
|
|
StatusProcessed = StatusResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(StatusProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(StatusProcessed)
|
|
}
|
|
`)
|
|
if err == nil && statusResult.String() != "undefined" {
|
|
s.Status = []byte(statusResult.String())
|
|
}
|
|
// extracting Subject
|
|
subjectResult, err := vm.RunString(`
|
|
SubjectResult = window.fhirpath.evaluate(fhirResource, 'Specimen.subject')
|
|
|
|
if(SubjectResult.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(SubjectResult)
|
|
}
|
|
`)
|
|
if err == nil && subjectResult.String() != "undefined" {
|
|
s.Subject = []byte(subjectResult.String())
|
|
}
|
|
// extracting Tag
|
|
tagResult, err := vm.RunString(`
|
|
TagResult = window.fhirpath.evaluate(fhirResource, 'meta.tag')
|
|
TagProcessed = TagResult.reduce((accumulator, currentValue) => {
|
|
if (currentValue.coding) {
|
|
//CodeableConcept
|
|
currentValue.coding.map((coding) => {
|
|
accumulator.push({
|
|
"code": coding.code,
|
|
"system": coding.system,
|
|
"text": currentValue.text
|
|
})
|
|
})
|
|
} else if (currentValue.value) {
|
|
//ContactPoint, Identifier
|
|
accumulator.push({
|
|
"code": currentValue.value,
|
|
"system": currentValue.system,
|
|
"text": currentValue.type?.text
|
|
})
|
|
} else if (currentValue.code) {
|
|
//Coding
|
|
accumulator.push({
|
|
"code": currentValue.code,
|
|
"system": currentValue.system,
|
|
"text": currentValue.display
|
|
})
|
|
} else if ((typeof currentValue === 'string') || (typeof currentValue === 'boolean')) {
|
|
//string, boolean
|
|
accumulator.push({
|
|
"code": currentValue,
|
|
})
|
|
}
|
|
return accumulator
|
|
}, [])
|
|
|
|
|
|
if(TagProcessed.length == 0) {
|
|
"undefined"
|
|
}
|
|
else {
|
|
JSON.stringify(TagProcessed)
|
|
}
|
|
`)
|
|
if err == nil && tagResult.String() != "undefined" {
|
|
s.Tag = []byte(tagResult.String())
|
|
}
|
|
return nil
|
|
}
|
|
|
|
// TableName overrides the table name from fhir_observations (pluralized) to `fhir_observation`. https://gorm.io/docs/conventions.html#TableName
|
|
func (s *FhirSpecimen) TableName() string {
|
|
return "fhir_specimen"
|
|
}
|