gps-global-types 1.2.74 → 1.2.77

package/dist/global.types.d.ts

@@ -13,4 +13,4 @@ export type Hex = RegexMatchedString<'#\d{6}'>;
 export type Rgb = RegexMatchedString<'rgb\([1-256],[1-256],[1-256]\)'>;
 export type Color = Hex | Rgb | string;
 export type DateType = string | Date;
-export type TableViewTypes = 'isolate' | 'amr' | 'kleborate' | 'cluster';
+export type TableViewTypes = 'isolate' | 'amr' | 'kleborate' | 'cluster' | 'kaptive';

package/dist/isolate.types.d.ts

@@ -1,11 +1,10 @@
-import { ObjectId } from './global.types';
+import { ObjectId, TableViewTypes } from './global.types';
 import { DataGridHeaderType } from './mst.types';
-export type validViews = 'isolate' | 'amr' | 'kleborate';
 interface TableData {
     data: RowDataType[];
     headers: DataGridHeaderType[];
 }
-export type TableMultiView = Partial<Record<validViews, TableData>>;
+export type TableMultiView = Partial<Record<TableViewTypes, TableData>>;
 export interface TableDataMultiView extends TableMultiView {
     neighbors?: ObjectId[];
 }
@@ -16,9 +15,6 @@ export declare const KlebFields: {
     Salmochelin: StringConstructor;
     RmpADC: StringConstructor;
     rmpA2: StringConstructor;
-    K_locus: StringConstructor;
-    O_locus: StringConstructor;
-    O_type: StringConstructor;
     SHV_mutations: StringConstructor;
     Omp_mutations: StringConstructor;
     Col_mutations: StringConstructor;
@@ -38,8 +34,8 @@ export declare const KaptiveFields: {
     missingExpectedGenes: StringConstructor;
     otherGenesInLocus: NumberConstructor;
     otherGenesInLocusDetails: StringConstructor;
-    "Expected genes outside locus": StringConstructor;
     expectedGenesOutsideLocus: StringConstructor;
+    expectedGenesOutsideLocusDetails: StringConstructor;
     otherGenesOutsideLocus: NumberConstructor;
     otherGenesOutsideLocusDetails: StringConstructor;
     truncatedGenes: StringConstructor;
@@ -155,6 +151,53 @@ export declare const IsolateFields: {
     isRepresentative: BooleanConstructor;
     username: StringConstructor;
     uploadDate: DateConstructor;
+    meta__id:StringConstructor;
+meta_accessionNumber:StringConstructor;
+meta_cultureSite: StringConstructor;
+meta_cultureType:StringConstructor;
+meta_dataSource:StringConstructor;
+meta_dateOfCulture: DateConstructor;
+meta_deidentificationDate: DateConstructor;
+meta_deidentificationUser:StringConstructor;
+meta_dmis:StringConstructor;
+meta_edcRawForeignNational: StringConstructor;
+meta_facilityName:StringConstructor;
+meta_fileName:StringConstructor;
+meta_freeTextSource: StringConstructor;
+meta_isSketchy:StringConstructor;
+meta_isTest:StringConstructor;
+meta_patientAge:NumberConstructor;
+meta_patientFullName:NumberConstructor;
+meta_patientId:NumberConstructor;
+meta_previousPatientIds: ArrayConstructor;
+meta_rawAgency: StringConstructor;
+meta_rawBed: StringConstructor;
+meta_rawContainerType: StringConstructor;
+meta_rawCountry: StringConstructor;
+meta_rawCultureSite:StringConstructor;
+meta_rawCultureType:StringConstructor;
+meta_rawDateOfCulture:StringConstructor;
+meta_rawDmis: StringConstructor;
+meta_rawFacility: StringConstructor;
+meta_rawFinalReport: StringConstructor;
+meta_rawIdMrNumber: StringConstructor;
+meta_rawIsolateNumber: StringConstructor;
+meta_rawMatchVariable: StringConstructor;
+meta_rawOrganismShortHand: StringConstructor;
+meta_rawParentFacility:StringConstructor;
+meta_rawPatientLocationType: StringConstructor;
+meta_rawRegDtTm: StringConstructor;
+meta_rawRoom: StringConstructor;
+meta_rawServiceResource: StringConstructor;
+meta_rawSex:StringConstructor;
+meta_rawSpecificPatientLocation:StringConstructor;
+meta_sex:StringConstructor;
+meta_ssnFull: NumberConstructor;
+meta_ssnPrefix:StringConstructor;
+meta_ssnPrefixRaw:StringConstructor;
+meta_ssnSponsor: NumberConstructor;
+meta_uploadDate: DateConstructor;
+meta_uploadUser:StringConstructor;
     kleborate: {
         Yersiniabactin: StringConstructor;
         Colibactin: StringConstructor;
@@ -162,9 +205,6 @@ export declare const IsolateFields: {
         Salmochelin: StringConstructor;
         RmpADC: StringConstructor;
         rmpA2: StringConstructor;
-        K_locus: StringConstructor;
-        O_locus: StringConstructor;
-        O_type: StringConstructor;
         SHV_mutations: StringConstructor;
         Omp_mutations: StringConstructor;
         Col_mutations: StringConstructor;
@@ -184,8 +224,8 @@ export declare const IsolateFields: {
         missingExpectedGenes: StringConstructor;
         otherGenesInLocus: NumberConstructor;
         otherGenesInLocusDetails: StringConstructor;
-        "Expected genes outside locus": StringConstructor;
         expectedGenesOutsideLocus: StringConstructor;
+        expectedGenesOutsideLocusDetails: StringConstructor;
         otherGenesOutsideLocus: NumberConstructor;
         otherGenesOutsideLocusDetails: StringConstructor;
         truncatedGenes: StringConstructor;

package/dist/isolate.types.js

@@ -8,9 +8,9 @@ exports.KlebFields = {
     'Salmochelin': String,
     'RmpADC': String,
     'rmpA2': String,
-    'K_locus': String,
-    'O_locus': String,
-    'O_type': String,
+    // 'locus': String,
+    // 'O_locus': String,
+    // 'type': String,
     "SHV_mutations": String,
     "Omp_mutations": String,
     "Col_mutations": String,
@@ -30,8 +30,8 @@ exports.KaptiveFields = {
     "missingExpectedGenes": String || NaN,
     "otherGenesInLocus": Number,
     "otherGenesInLocusDetails": String || NaN,
-    "Expected genes outside locus": String,
     "expectedGenesOutsideLocus": String || NaN,
+    "expectedGenesOutsideLocusDetails": String || NaN,
     "otherGenesOutsideLocus": Number,
     "otherGenesOutsideLocusDetails": String || NaN,
     "truncatedGenes": String || NaN,
@@ -148,5 +148,53 @@ exports.IsolateFields = {
     "username": String,
     "uploadDate": Date,
     "kleborate": exports.KlebFields,
-    "kaptive": exports.KaptiveFields
+    "kaptive": exports.KaptiveFields,
+    
+"meta__id":String,
+"meta_accessionNumber":String,
+"meta_cultureSite": String,
+"meta_cultureType":String,
+"meta_dataSource":String,
+"meta_dateOfCulture": Date,
+"meta_deidentificationDate": Date,
+"meta_deidentificationUser":String,
+"meta_dmis":String,
+"meta_edcRawForeignNational": String,
+"meta_facilityName":String,
+"meta_fileName":String,
+"meta_freeTextSource": String,
+"meta_isSketchy":String,
+"meta_isTest":String,
+"meta_patientAge":Number,
+"meta_patientFullName":Number,
+"meta_patientId":Number,
+"meta_previousPatientIds": Array,
+"meta_rawAgency": String,
+"meta_rawBed": String,
+"meta_rawContainerType": String,
+"meta_rawCountry": String,
+"meta_rawCultureSite":String,
+"meta_rawCultureType":String,
+"meta_rawDateOfCulture":String,
+"meta_rawDmis": String,
+"meta_rawFacility": String,
+"meta_rawFinalReport": String,
+"meta_rawIdMrNumber": String,
+"meta_rawIsolateNumber": String,
+"meta_rawMatchVariable": String,
+"meta_rawOrganismShortHand": String,
+"meta_rawParentFacility":String,
+"meta_rawPatientLocationType": String,
+"meta_rawRegDtTm": String,
+"meta_rawRoom": String,
+"meta_rawServiceResource": String,
+"meta_rawSex":String,
+"meta_rawSpecificPatientLocation":String,
+"meta_sex":String,
+"meta_ssnFull": Number,
+"meta_ssnPrefix":String,
+"meta_ssnPrefixRaw":String,
+"meta_ssnSponsor": Number,
+"meta_uploadDate": Date,
+"meta_uploadUser":String,
 };

package/dist/mst.types.d.ts

@@ -3,6 +3,7 @@ import { ClusterFields } from "./cluster.types";
 import { EdgeType } from "./link.types";
 import { IsolateFields, RowDataType, TableDataMultiView } from "./isolate.types";
 import { NodeType, PreNodeInterface } from "./pie.types";
+import { GridColDef } from "@mui/x-data-grid-pro";
 export interface ModelSnapshotProps {
     legend: SnapshotType['legend'];
     nodes: SnapshotType['nodes'];
@@ -13,7 +14,7 @@ export declare const labelFields: readonly ["armordMrsnIdLBL", "mrsnIdLBL", "arm
 export type colorKey = typeof colorFields[number];
 export type dateKey = typeof dateFields[number];
 export type labelKey = typeof labelFields[number];
-export declare const ValidSchemesArr: readonly ["abaumannii_2", "cauris", "cdifficile", "cfreundii", "ecloacae", "ecoli_achtman_4", "efaecalis", "efaecium", "kaerogenes", "klebsiella", "paeruginosa", "saureus", "smarcescens", "spneumoniae", "spyogenes"];
+export declare const ValidSchemesArr: readonly ["abaumannii_2", "cauris", "cdifficile", "cfreundii", "ecloacae", "ecoli_achtman_4", "efaecalis", "efaecium", "kaerogenes", "klebsiella", "paeruginosa", "saureus", "smarcescens", "spneumoniae", "spyogenes", "proteus"];
 export type ValidCGMLSTSchemes = typeof ValidSchemesArr[number];
 type CustomDictEntry = Partial<Partial<Record<colorKey | dateKey, Color>> & Partial<Record<labelKey, string>>>;
 export type CustomDict = Record<ObjectId, CustomDictEntry>;
@@ -66,13 +67,13 @@ interface FlashData {
     wardCount: string;
     wgsId: string;
 }
-export interface DataGridHeaderType {
+export type DataGridHeaderType = GridColDef & {
     field: string;
     headerName?: string;
     editable?: Boolean;
     id?: string;
     renderCell?: Function;
-}
+};
 export interface MSTValue {
     flash?: FlashData;
     graph: MSTGraph;

package/dist/mst.types.js

@@ -12,5 +12,5 @@ exports.ValidSchemesArr = [
     'kaerogenes', 'klebsiella',
     'paeruginosa', 'saureus',
     'smarcescens', 'spneumoniae',
-    'spyogenes'
+    'spyogenes','proteus'
 ];

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "gps-global-types",
-  "version": "1.2.74",
+  "version": "1.2.77",
   "description": "types shared between front-end and back-end",
   "main": "dist/index.js",
   "types": "dist/index.d.ts",
@@ -9,12 +9,13 @@
   ],
   "scripts": {
     "test": "echo \"Error: no test specified\" && exit 1",
-    "build": "tsc",
-    "prepublishOnly": "npm run build"
+    "build": "echo 'skipping src build no build'",
+    "prepublishOnly": "echo 'skip npm run build'"
   },
   "author": "lizz",
   "license": "ISC",
   "dependencies": {
+    "@mui/x-data-grid-pro": "^9.8.0",
     "@types/d3": "^7.4.3",
     "d3": "^7.9.0",
     "react": "^19.1.1",