gps-global-types 1.1.1 → 1.2.73

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Files changed (3) hide show
  1. package/dist/isolate.types.d.ts +63 -6
  2. package/dist/isolate.types.js +27 -9
  3. package/package.json +1 -1
package/dist/isolate.types.d.ts CHANGED
@@ -24,6 +24,30 @@ export declare const KlebFields: {
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  Col_mutations: StringConstructor;
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  Flq_mutations: StringConstructor;
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  };
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+ export declare const KaptiveFields: {
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+ assembly: StringConstructor;
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+ bestMatchLocus: StringConstructor;
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+ bestMatchType: StringConstructor;
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+ matchConfidence: StringConstructor;
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+ problems: StringConstructor;
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+ identity: StringConstructor;
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+ coverage: StringConstructor;
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+ lengthDiscrepancy: StringConstructor;
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+ expectedGenesInLocus: StringConstructor;
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+ expectedGenesInLocusDetails: StringConstructor;
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+ missingExpectedGenes: StringConstructor;
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+ otherGenesInLocus: NumberConstructor;
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+ otherGenesInLocusDetails: StringConstructor;
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+ "Expected genes outside locus": StringConstructor;
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+ expectedGenesOutsideLocus: StringConstructor;
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+ otherGenesOutsideLocus: NumberConstructor;
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+ otherGenesOutsideLocusDetails: StringConstructor;
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+ truncatedGenes: StringConstructor;
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+ extraGenes: StringConstructor;
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+ kaptiveType: StringConstructor;
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+ locus: StringConstructor;
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+ databaseVersion: StringConstructor;
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+ };
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  export declare const IsolateFields: {
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  _id: StringConstructor;
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  mrsnId: StringConstructor;
@@ -131,12 +155,45 @@ export declare const IsolateFields: {
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  isRepresentative: BooleanConstructor;
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  username: StringConstructor;
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  uploadDate: DateConstructor;
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- tier: NumberConstructor;
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- allele: StringConstructor;
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- alleles: ArrayConstructor;
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- projectCode: ArrayConstructor;
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- mrsnSuperFamily: StringConstructor;
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- expectedPhenotype: StringConstructor;
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+ kleborate: {
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+ Yersiniabactin: StringConstructor;
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+ Colibactin: StringConstructor;
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+ Aerobactin: StringConstructor;
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+ Salmochelin: StringConstructor;
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+ RmpADC: StringConstructor;
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+ rmpA2: StringConstructor;
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+ K_locus: StringConstructor;
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+ O_locus: StringConstructor;
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+ O_type: StringConstructor;
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+ SHV_mutations: StringConstructor;
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+ Omp_mutations: StringConstructor;
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+ Col_mutations: StringConstructor;
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+ Flq_mutations: StringConstructor;
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+ };
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+ kaptive: {
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+ assembly: StringConstructor;
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+ bestMatchLocus: StringConstructor;
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+ bestMatchType: StringConstructor;
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+ matchConfidence: StringConstructor;
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+ problems: StringConstructor;
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+ identity: StringConstructor;
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+ coverage: StringConstructor;
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+ lengthDiscrepancy: StringConstructor;
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+ expectedGenesInLocus: StringConstructor;
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+ expectedGenesInLocusDetails: StringConstructor;
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+ missingExpectedGenes: StringConstructor;
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+ otherGenesInLocus: NumberConstructor;
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+ otherGenesInLocusDetails: StringConstructor;
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+ "Expected genes outside locus": StringConstructor;
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+ expectedGenesOutsideLocus: StringConstructor;
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+ otherGenesOutsideLocus: NumberConstructor;
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+ otherGenesOutsideLocusDetails: StringConstructor;
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+ truncatedGenes: StringConstructor;
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+ extraGenes: StringConstructor;
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+ kaptiveType: StringConstructor;
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+ locus: StringConstructor;
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+ databaseVersion: StringConstructor;
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+ };
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  };
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  export interface RowDataType extends Record<string, any> {
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  _id: ObjectId;
package/dist/isolate.types.js CHANGED
@@ -1,6 +1,6 @@
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  "use strict";
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  Object.defineProperty(exports, "__esModule", { value: true });
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- exports.IsolateFields = exports.KlebFields = void 0;
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+ exports.IsolateFields = exports.KaptiveFields = exports.KlebFields = void 0;
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  exports.KlebFields = {
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  'Yersiniabactin': String,
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  'Colibactin': String,
@@ -16,6 +16,30 @@ exports.KlebFields = {
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  "Col_mutations": String,
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  "Flq_mutations": String,
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  };
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+ exports.KaptiveFields = {
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+ "assembly": String,
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+ "bestMatchLocus": String,
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+ "bestMatchType": String,
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+ "matchConfidence": String,
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+ "problems": String || NaN,
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+ "identity": String,
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+ "coverage": String,
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+ "lengthDiscrepancy": String,
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+ "expectedGenesInLocus": String,
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+ "expectedGenesInLocusDetails": String,
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+ "missingExpectedGenes": String || NaN,
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+ "otherGenesInLocus": Number,
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+ "otherGenesInLocusDetails": String || NaN,
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+ "Expected genes outside locus": String,
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+ "expectedGenesOutsideLocus": String || NaN,
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+ "otherGenesOutsideLocus": Number,
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+ "otherGenesOutsideLocusDetails": String || NaN,
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+ "truncatedGenes": String || NaN,
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+ "extraGenes": String || NaN,
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+ "kaptiveType": String,
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+ "locus": String,
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+ "databaseVersion": String,
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+ };
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  exports.IsolateFields = {
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  "_id": String,
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  "mrsnId": String,
@@ -123,12 +147,6 @@ exports.IsolateFields = {
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  "isRepresentative": Boolean,
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  "username": String,
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  "uploadDate": Date,
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- // $addFields with the intent of unpacking objects (amr + projects)
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- "tier": Number,
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- "allele": String,
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- "alleles": Array,
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- "projectCode": Array,
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- "mrsnSuperFamily": String,
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- "expectedPhenotype": String,
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- // "kleborate": [KlebSchema]
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+ "kleborate": exports.KlebFields,
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+ "kaptive": exports.KaptiveFields
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  };
package/package.json CHANGED
@@ -1,6 +1,6 @@
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  {
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  "name": "gps-global-types",
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- "version": "1.1.1",
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+ "version": "1.2.73",
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  "description": "types shared between front-end and back-end",
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  "main": "dist/index.js",
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  "types": "dist/index.d.ts",