feat: added biology view to dashboard - Ref gestion-de-projet#2678 (#…

…1049)

src/components/DataTable/DataTableObservation.tsx

@@ -1,6 +1,8 @@
 import React, { useContext } from 'react'
 
-import { CircularProgress, Grid, Typography, TableRow } from '@mui/material'
+import { CircularProgress, Grid, Typography, TableRow, IconButton } from '@mui/material'
+import SearchIcon from 'assets/icones/search.svg?react'
+
 import { TableCellWrapper } from 'components/ui/TableCell/styles'
 
 import DataTable from 'components/DataTable/DataTable'
@@ -20,6 +22,8 @@ type DataTableObservationProps = {
   page?: number
   setPage?: (page: number) => void
   total?: number
+  showIpp?: boolean
+  groupId?: string
 }
 const DataTableObservation: React.FC<DataTableObservationProps> = ({
   loading,
@@ -29,32 +33,40 @@ const DataTableObservation: React.FC<DataTableObservationProps> = ({
   setOrderBy,
   page,
   setPage,
-  total
+  total,
+  showIpp,
+  groupId
 }) => {
   const { classes } = useStyles()
 
   const columns: Column[] = [
-    { label: `NDA${deidentified ? ' chiffré' : ''}`, align: 'left' },
+    ...(showIpp ? [{ label: `IPP${deidentified ? ' chiffré' : ''}`, align: 'left' }] : []),
+    { label: `NDA${deidentified ? ' chiffré' : ''}`, align: showIpp ? 'center' : 'left' },
     { label: 'Date de prélèvement', code: Order.DATE },
     { label: 'ANABIO', code: Order.ANABIO },
     { label: 'LOINC', code: Order.LOINC },
     { label: 'Résultat' },
     { label: 'Valeurs de référence' },
     { label: 'Unité exécutrice' }
-  ]
+  ].filter((elem) => elem !== null) as Column[]
 
   return (
     <DataTable columns={columns} order={orderBy} setOrder={setOrderBy} page={page} setPage={setPage} total={total}>
       {!loading && observationsList?.length > 0 && (
         <>
           {observationsList.map((observation) => (
-            <DataTableObservationLine key={observation.id} observation={observation} />
+            <DataTableObservationLine
+              key={observation.id}
+              observation={observation}
+              showIpp={showIpp}
+              groupId={groupId}
+            />
           ))}
         </>
       )}
       {!loading && observationsList?.length < 1 && (
         <TableRow className={classes.emptyTableRow}>
-          <TableCellWrapper colSpan={7} align="left">
+          <TableCellWrapper colSpan={columns.length} align="left">
             <Grid container justifyContent="center">
               <Typography variant="button">Aucun résultat de biologie à afficher</Typography>
             </Grid>
@@ -63,7 +75,7 @@ const DataTableObservation: React.FC<DataTableObservationProps> = ({
       )}
       {loading && (
         <TableRow className={classes.emptyTableRow}>
-          <TableCellWrapper colSpan={7} align="left">
+          <TableCellWrapper colSpan={columns.length} align="left">
             <Grid container justifyContent="center">
               <CircularProgress />
             </Grid>
@@ -76,17 +88,20 @@ const DataTableObservation: React.FC<DataTableObservationProps> = ({
 
 const formatValueRange = (value?: string | number, valueUnit?: string): string => {
   if (value) {
-    return `${value} ${valueUnit || ''}`
+    return `${value} ${valueUnit ?? ''}`
   }
   return '_'
 }
 
 const DataTableObservationLine: React.FC<{
   observation: CohortObservation
-}> = ({ observation }) => {
+  showIpp?: boolean
+  groupId?: string
+}> = ({ observation, showIpp, groupId }) => {
   const { classes } = useStyles()
   const appConfig = useContext(AppConfig)
 
+  const ipp = observation.IPP
   const nda = observation.NDA
   const date = observation.effectiveDateTime
   const libelleANABIO = observation.code?.coding?.find(
@@ -100,7 +115,7 @@ const DataTableObservationLine: React.FC<{
   )?.display
   const result =
     observation.valueQuantity?.value !== null
-      ? `${observation.valueQuantity?.value} ${observation.valueQuantity?.unit || ''}`
+      ? `${observation.valueQuantity?.value} ${observation.valueQuantity?.unit ?? ''}`
       : '-'
   const valueUnit = observation.valueQuantity?.unit ?? ''
   const serviceProvider = observation.serviceProvider
@@ -111,10 +126,22 @@ const DataTableObservationLine: React.FC<{
         valueUnit
       )}`
     : '-'
+  const groupIdSearch = groupId ? `?groupId=${groupId}` : ''
 
   return (
     <TableRow className={classes.tableBodyRows} key={observation.id}>
-      <TableCellWrapper align="left">{nda ?? 'Inconnu'}</TableCellWrapper>
+      {showIpp && (
+        <TableCellWrapper style={{ minWidth: 150 }}>
+          {ipp}
+          <IconButton
+            onClick={() => window.open(`/patients/${observation.idPatient}${groupIdSearch}`, '_blank')}
+            className={classes.searchIcon}
+          >
+            <SearchIcon height="15px" fill="#ED6D91" className={classes.iconMargin} />
+          </IconButton>
+        </TableCellWrapper>
+      )}
+      <TableCellWrapper align={showIpp ? 'center' : 'left'}>{nda ?? 'Inconnu'}</TableCellWrapper>
       <TableCellWrapper>{date ? new Date(date).toLocaleDateString('fr-FR') : 'Date inconnue'}</TableCellWrapper>
       <TableCellWrapper>
         <Typography className={classes.libelle}>

src/mappers/filters.ts

@@ -132,7 +132,8 @@ export enum ObservationParamsKeys {
   DATE = 'date',
   VALUE = 'value-quantity',
   EXECUTIVE_UNITS = 'encounter.encounter-care-site',
-  ENCOUNTER_STATUS = 'encounter.status'
+  ENCOUNTER_STATUS = 'encounter.status',
+  IPP = 'subject.identifier'
 }
 
 export enum ImagingParamsKeys {

src/services/aphp/callApi.ts

@@ -672,6 +672,8 @@ type fetchObservationProps = {
   signal?: AbortSignal
   executiveUnits?: string[]
   encounterStatus?: string[]
+  uniqueFacet?: 'subject'[]
+  'patient-identifier'?: string
 }
 export const fetchObservation = async (args: fetchObservationProps): FHIR_Bundle_Promise_Response<Observation> => {
   const {
@@ -693,12 +695,14 @@ export const fetchObservation = async (args: fetchObservationProps): FHIR_Bundle
     encounterStatus
   } = args
   const _sortDirection = sortDirection === Direction.DESC ? '-' : ''
-  let { _list } = args
+  let { _list, uniqueFacet } = args
+  const patientIdentifier = args['patient-identifier']
 
   _list = _list ? _list.filter(uniq) : []
+  uniqueFacet = uniqueFacet ? uniqueFacet.filter(uniq) : []
 
   // By default, all the calls to `/Observation` will have 'value-quantity-value=ge0,le0' and 'patient.active=true' in the parameters
-  let options: string[] = ['value-quantity=ge0,le0', 'subject.active=true']
+  let options: string[] = [`${ObservationParamsKeys.VALUE}=ge0,le0`, 'subject.active=true']
   if (id) options = [...options, `_id=${id}`]
   if (size !== undefined) options = [...options, `_count=${size}`]
   if (offset) options = [...options, `_offset=${offset}`]
@@ -715,9 +719,12 @@ export const fetchObservation = async (args: fetchObservationProps): FHIR_Bundle
   if (maxDate) options = [...options, `${ObservationParamsKeys.DATE}=le${maxDate}`] // eslint-disable-line
   if (rowStatus) options = [...options, `${ObservationParamsKeys.VALIDATED_STATUS}=${BiologyStatus.VALIDATED}`] // eslint-disable-line
   if (executiveUnits && executiveUnits.length > 0)
-    options = [...options, `encounter.encounter-care-site=${executiveUnits}`]
+    options = [...options, `${ObservationParamsKeys.EXECUTIVE_UNITS}=${executiveUnits}`]
   if (encounterStatus && encounterStatus.length > 0)
     options = [...options, `${ObservationParamsKeys.ENCOUNTER_STATUS}=${encounterStatus}`]
+  if (patientIdentifier) options = [...options, `${ObservationParamsKeys.IPP}=${patientIdentifier}`]
+  if (uniqueFacet && uniqueFacet.length > 0)
+    options = [...options, `unique-facet=${uniqueFacet.reduce(paramValuesReducer, '')}`]
 
   if (_list && _list.length > 0) options = [...options, `_list=${_list.reduce(paramValuesReducer)}`]
 

src/services/aphp/serviceCohorts.ts

@@ -16,7 +16,9 @@ import {
   FHIR_Bundle_Response,
   CohortPMSI,
   MedicationData,
-  CohortMedication
+  CohortMedication,
+  BiologyData,
+  CohortObservation
 } from 'types'
 import {
   getGenderRepartitionMapAphp,
@@ -40,7 +42,8 @@ import {
   fetchProcedure,
   fetchClaim,
   fetchMedicationRequest,
-  fetchMedicationAdministration
+  fetchMedicationAdministration,
+  fetchObservation
 } from './callApi'
 
 import apiBackend from '../apiBackend'
@@ -52,6 +55,7 @@ import {
   ImagingStudy,
   MedicationAdministration,
   MedicationRequest,
+  Observation,
   ParametersParameter,
   Patient,
   Procedure
@@ -65,7 +69,8 @@ import {
   SearchByTypes,
   ImagingFilters,
   PMSIFilters,
-  MedicationFilters
+  MedicationFilters,
+  BiologyFilters
 } from 'types/searchCriterias'
 import services from '.'
 import { ErrorDetails, SearchInputError } from 'types/error'
@@ -212,6 +217,19 @@ export interface IServiceCohorts {
     signal?: AbortSignal
   ) => Promise<MedicationData>
 
+  /**
+   * Retourne la liste d'objets de biologie liés à une cohorte
+   */
+  fetchBiologyList: (
+    options: {
+      deidentified: boolean
+      page: number
+      searchCriterias: SearchCriterias<BiologyFilters>
+    },
+    groupId?: string,
+    signal?: AbortSignal
+  ) => Promise<BiologyData>
+
   /**
    * Permet de vérifier si le champ de recherche textuelle est correct
    *
@@ -689,6 +707,95 @@ const servicesCohorts: IServiceCohorts = {
     }
   },
 
+  fetchBiologyList: async (options, groupId, signal) => {
+    const {
+      deidentified,
+      page,
+      searchCriterias: {
+        orderBy,
+        searchInput,
+        filters: { validatedStatus, nda, ipp, loinc, anabio, startDate, endDate, executiveUnits, encounterStatus }
+      }
+    } = options
+    try {
+      const atLeastAFilter =
+        !!searchInput ||
+        !!ipp ||
+        !!nda ||
+        !!startDate ||
+        !!endDate ||
+        executiveUnits.length > 0 ||
+        encounterStatus.length > 0 ||
+        (loinc && loinc.length > 0) ||
+        (anabio && anabio.length > 0)
+
+      const [biologyList, allBiologyList] = await Promise.all([
+        fetchObservation({
+          _list: groupId ? [groupId] : [],
+          size: 20,
+          offset: page ? (page - 1) * 20 : 0,
+          _sort: orderBy.orderBy,
+          sortDirection: orderBy.orderDirection,
+          _text: searchInput === '' ? '' : searchInput,
+          encounter: nda,
+          'patient-identifier': ipp,
+          signal: signal,
+          executiveUnits: executiveUnits.map((unit) => unit.id),
+          encounterStatus: encounterStatus.map(({ id }) => id),
+          uniqueFacet: ['subject'],
+          minDate: startDate ?? '',
+          maxDate: endDate ?? '',
+          loinc: loinc.map((code) => code.id).join(),
+          anabio: anabio.map((code) => code.id).join(),
+          rowStatus: validatedStatus
+        }),
+        atLeastAFilter
+          ? fetchObservation({
+              size: 0,
+              signal: signal,
+              _list: groupId ? [groupId] : [],
+              uniqueFacet: ['subject'],
+              rowStatus: validatedStatus
+            })
+          : null
+      ])
+
+      const _biologyList =
+        getApiResponseResources(biologyList as AxiosResponse<FHIR_Bundle_Response<Observation>, any>) ?? []
+      const filledBiologyList = await getResourceInfos(_biologyList, deidentified, groupId, signal)
+
+      const totalBiology = biologyList?.data?.resourceType === 'Bundle' ? biologyList.data.total : 0
+      const totalAllBiology =
+        allBiologyList?.data?.resourceType === 'Bundle' ? allBiologyList.data?.total ?? totalBiology : totalBiology
+
+      const totalPatientBiology =
+        biologyList?.data?.resourceType === 'Bundle'
+          ? (getExtension(biologyList?.data?.meta, 'unique-subject') || { valueDecimal: 0 }).valueDecimal
+          : 0
+      const totalAllPatientsBiology =
+        allBiologyList !== null
+          ? (getExtension(allBiologyList?.data?.meta, 'unique-subject') || { valueDecimal: 0 }).valueDecimal
+          : totalPatientBiology
+
+      return {
+        totalBiology: totalBiology ?? 0,
+        totalAllBiology: totalAllBiology ?? 0,
+        totalPatientBiology: totalPatientBiology ?? 0,
+        totalAllPatientsBiology: totalAllPatientsBiology ?? 0,
+        biologyList: filledBiologyList as CohortObservation[]
+      }
+    } catch (error) {
+      console.error('Erreur lors de la récupération de la liste de Biologie :', error)
+      return {
+        totalBiology: 0,
+        totalAllBiology: 0,
+        totalPatientBiology: 0,
+        totalAllPatientsBiology: 0,
+        biologyList: []
+      }
+    }
+  },
+
   fetchImagingList: async (options, groupId, signal) => {
     const {
       deidentified,

src/types.ts

@@ -308,6 +308,14 @@ export type MedicationData = {
   medicationList: CohortMedication<MedicationRequest | MedicationAdministration>[]
 }
 
+export type BiologyData = {
+  totalBiology: number
+  totalAllBiology: number
+  totalPatientBiology: number
+  totalAllPatientsBiology: number
+  biologyList: CohortObservation[]
+}
+
 export type PatientData = {
   patient?: CohortPatient
   hospit?: (CohortEncounter | Encounter)[]
@@ -673,6 +681,8 @@ export type CohortQuestionnaireResponse = QuestionnaireResponse & {
 export type CohortObservation = Observation & {
   serviceProvider?: string
   NDA?: string
+  IPP?: string
+  idPatient?: string
 }
 
 export type IPatientObservation<T extends CohortObservation> = {

src/types/searchCriterias.ts

@@ -246,6 +246,7 @@ export type BiologyFilters = GenericFilter & {
   loinc: LabelObject[]
   anabio: LabelObject[]
   validatedStatus: boolean
+  ipp?: string
 }
 
 export type ImagingFilters = GenericFilter & {