curtain-web-api 1.0.48 → 1.0.49
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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@@ -9,6 +9,7 @@ export declare class CurtainWebAPI {
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orcidLoginURL: string;
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userInfoURL: string;
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curtainURL: string;
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dataciteURL: string;
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user: User;
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isRefreshing: boolean;
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axiosInstance: import("axios").AxiosInstance;
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@@ -33,7 +34,7 @@ export declare class CurtainWebAPI {
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getCurtainLinks(username: string, sessionDescription?: string, offset?: number, sessionType?: string): Promise<import("axios").AxiosResponse<any, any>>;
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getSiteProperties(): Promise<import("axios").AxiosResponse<any, any>>;
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saveDataFilterList(name: string, data: string, category?: string): Promise<import("axios").AxiosResponse<any, any>>;
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getDataFilterListByID(id: number): Promise<import("axios").AxiosResponse<any, any>>;
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getDataFilterListByID(id: number, limit?: number): Promise<import("axios").AxiosResponse<any, any>>;
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getDataFilterList(title?: string, searchTerm?: string, category?: string, limit?: number): Promise<import("axios").AxiosResponse<any, any>>;
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getDataFilterListByCategory(category: string): Promise<import("axios").AxiosResponse<any, any>>;
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deleteDataFilterList(id: number): Promise<import("axios").AxiosResponse<any, any>>;
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@@ -48,4 +49,7 @@ export declare class CurtainWebAPI {
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createCurtainAPIKey(name: string): Promise<import("axios").AxiosResponse<any, any>>;
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getCurtainAPIKeys(): Promise<import("axios").AxiosResponse<any, any>>;
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deleteCurtainAPIKey(id: number): Promise<import("axios").AxiosResponse<any, any>>;
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getRandomDataCiteSuffix(): Promise<import("axios").AxiosResponse<any, any>>;
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submitDataCite(data: any): Promise<import("axios").AxiosResponse<any, any>>;
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getDataCite(id: number): Promise<import("axios").AxiosResponse<any, any>>;
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}
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@@ -66,6 +66,7 @@ class CurtainWebAPI {
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this.orcidLoginURL = "";
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this.userInfoURL = "";
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this.curtainURL = "";
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this.dataciteURL = "";
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this.user = new curtain_user_1.User();
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this.isRefreshing = false;
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this.axiosInstance = axios_1.default.create();
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@@ -77,6 +78,7 @@ class CurtainWebAPI {
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this.orcidLoginURL = baseURL + "rest-auth/orcid/";
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this.userInfoURL = baseURL + "user/";
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this.curtainURL = baseURL + "curtain/";
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this.dataciteURL = baseURL + "datacite/";
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this.axiosInstance.interceptors.request.use((config) => {
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if (config.url) {
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/*if (!this.checkIfRefreshTokenExpired() && this.user.loginStatus) {
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@@ -106,7 +108,7 @@ class CurtainWebAPI {
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config.url === this.userInfoURL ||
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config.url.startsWith(this.curtainURL) ||
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config.url.startsWith(this.baseURL + "data_filter_list/") ||
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config.url.startsWith(this.baseURL + "api_key/")) {
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config.url.startsWith(this.baseURL + "api_key/") || config.url.startsWith(this.dataciteURL)) {
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if (this.user.loginStatus) {
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config.headers["Authorization"] = "Bearer " + this.user.access_token;
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}
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@@ -219,11 +221,11 @@ class CurtainWebAPI {
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return response;
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});
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}
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putSettings(
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-
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-
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-
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putSettings(settings_1) {
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return __awaiter(this, arguments, void 0, function* (settings, enable = true, description = "", sessionType = "TP", encryption = {
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encrypted: false,
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e2e: false,
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}, permanent = false, onUploadProgress = undefined) {
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let form = new FormData();
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let data = JSON.stringify(settings, exports.replacer);
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if (enable) {
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@@ -319,11 +321,11 @@ class CurtainWebAPI {
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return response;
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});
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}
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updateSession(
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-
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-
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-
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updateSession(sessionData_1, linkId_1) {
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return __awaiter(this, arguments, void 0, function* (sessionData, linkId, encryption = {
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encrypted: false,
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e2e: false,
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}) {
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let form = new FormData();
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if ("file" in sessionData) {
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let data = JSON.stringify(sessionData["file"], exports.replacer);
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@@ -430,10 +432,11 @@ class CurtainWebAPI {
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return response;
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});
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}
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getDataFilterListByID(id) {
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getDataFilterListByID(id, limit = 100) {
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let headers = new axios_1.AxiosHeaders();
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headers["Accept"] = "application/json";
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let params = { limit: limit.toString() };
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return this.axiosInstance.get(this.baseURL + "data_filter_list/" + id + "/", { headers: headers, responseType: "json", }).then((response) => {
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return response;
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});
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}
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@@ -546,5 +549,21 @@ class CurtainWebAPI {
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headers["Content-Type"] = "application/json";
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return this.axiosInstance.delete(this.baseURL + "api_key/" + id + "/", { headers: headers, responseType: "json" });
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}
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getRandomDataCiteSuffix() {
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let headers = new axios_1.AxiosHeaders();
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headers["Accept"] = "application/json";
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return this.axiosInstance.get(this.baseURL + "datacite/get_random_suffix/", { headers: headers, responseType: "json" });
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}
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submitDataCite(data) {
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let headers = new axios_1.AxiosHeaders();
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headers["Accept"] = "application/json";
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headers["Content-Type"] = "application/json";
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return this.axiosInstance.post(this.baseURL + "datacite/", data, { headers: headers, responseType: "json" });
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}
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getDataCite(id) {
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let headers = new axios_1.AxiosHeaders();
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headers["Accept"] = "application/json";
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return this.axiosInstance.get(this.baseURL + "datacite/" + id + "/", { headers: headers, responseType: "json" });
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}
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}
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exports.CurtainWebAPI = CurtainWebAPI;
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@@ -9,29 +9,49 @@ var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, ge
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});
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};
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.
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exports.encryptDataRSA = encryptDataRSA;
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exports.decryptDataRSA = decryptDataRSA;
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exports.importPublicKey = importPublicKey;
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exports.importPrivateKey = importPrivateKey;
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exports.generateKeyPair = generateKeyPair;
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exports.exportPublicKey = exportPublicKey;
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exports.exportPrivateKey = exportPrivateKey;
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exports.importKey = importKey;
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exports.exportKeyString = exportKeyString;
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exports.saveToLocalStorage = saveToLocalStorage;
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exports.loadFromLocalStorage = loadFromLocalStorage;
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exports.arrayBufferToBase64String = arrayBufferToBase64String;
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exports.removeLines = removeLines;
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exports.base64ToArrayBuffer = base64ToArrayBuffer;
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exports.pemToArrayBuffer = pemToArrayBuffer;
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exports.encryptAESKey = encryptAESKey;
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exports.generateAESKey = generateAESKey;
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exports.encryptAESData = encryptAESData;
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exports.decryptAESData = decryptAESData;
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exports.decryptAESKey = decryptAESKey;
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exports.exportAESKey = exportAESKey;
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exports.importAESKey = importAESKey;
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exports.encryptDataAES = encryptDataAES;
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exports.decryptDataAES = decryptDataAES;
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exports.hashData = hashData;
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function encryptDataRSA(data, publicKey) {
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return crypto.subtle.encrypt({ name: 'RSA-OAEP' }, publicKey, new TextEncoder().encode(data));
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}
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exports.encryptDataRSA = encryptDataRSA;
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function decryptDataRSA(data, privateKey) {
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return crypto.subtle.decrypt({ name: 'RSA-OAEP' }, privateKey, new TextEncoder().encode(data));
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}
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exports.decryptDataRSA = decryptDataRSA;
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function importPublicKey(key) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.importKey('spki', key, { name: 'RSA-OAEP', hash: 'SHA-256' }, true, ['encrypt']);
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});
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}
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exports.importPublicKey = importPublicKey;
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function importPrivateKey(key) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.importKey('pkcs8', key, { name: 'RSA-OAEP', hash: 'SHA-256' }, true, ['decrypt']);
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});
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}
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function
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return __awaiter(this, void 0, void 0, function* () {
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function generateKeyPair() {
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return __awaiter(this, arguments, void 0, function* (modulusLength = 2048, publicExponent = new Uint8Array([1, 0, 1])) {
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return yield crypto.subtle.generateKey({
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name: "RSA-OAEP",
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modulusLength: modulusLength,
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@@ -40,19 +60,16 @@ function generateKeyPair(modulusLength = 2048, publicExponent = new Uint8Array([
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}, true, ["encrypt", "decrypt"]);
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});
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}
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exports.generateKeyPair = generateKeyPair;
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function exportPublicKey(key) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.exportKey('spki', key);
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});
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}
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exports.exportPublicKey = exportPublicKey;
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function exportPrivateKey(key) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.exportKey('pkcs8', key);
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});
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}
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exports.exportPrivateKey = exportPrivateKey;
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function importKey(key, type) {
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return __awaiter(this, void 0, void 0, function* () {
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if (type === "public") {
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});
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}
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exports.importKey = importKey;
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function exportKeyString(key, type) {
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return __awaiter(this, void 0, void 0, function* () {
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if (type === "public") {
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}
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});
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}
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exports.exportKeyString = exportKeyString;
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function saveToLocalStorage(key, type) {
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return __awaiter(this, void 0, void 0, function* () {
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const k = yield exportKeyString(key, type);
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localStorage.setItem(type + "_key", k);
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});
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}
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exports.saveToLocalStorage = saveToLocalStorage;
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function loadFromLocalStorage(type) {
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return __awaiter(this, void 0, void 0, function* () {
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const k = localStorage.getItem(type + "_key");
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return undefined;
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});
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}
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exports.loadFromLocalStorage = loadFromLocalStorage;
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function arrayBufferToBase64String(arrayBuffer) {
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const byteArray = new Uint8Array(arrayBuffer);
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let byteString = '';
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return btoa(byteString);
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}
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exports.arrayBufferToBase64String = arrayBufferToBase64String;
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function removeLines(str_data) {
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return str_data.replace("\n", "");
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}
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exports.removeLines = removeLines;
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function base64ToArrayBuffer(b64) {
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const byteString = atob(b64);
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const byteArray = new Uint8Array(byteString.length);
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}
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exports.base64ToArrayBuffer = base64ToArrayBuffer;
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function pemToArrayBuffer(pem) {
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const b64Lines = removeLines(pem);
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let b64Prefix = b64Lines.replace('-----BEGIN PRIVATE KEY-----', '');
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b64Final = b64Final.replace('-----END PUBLIC KEY-----', '');
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return base64ToArrayBuffer(b64Final);
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exports.pemToArrayBuffer = pemToArrayBuffer;
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// a function to generate to encrypt an aes key arraybuffer with a public key
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function encryptAESKey(publicKey, aesKey) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.encrypt({ name: "RSA-OAEP" }, publicKey, aesKey);
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}
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exports.encryptAESKey = encryptAESKey;
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// a function to generate an aes key in GCM mode with a length of 256 bits
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function generateAESKey() {
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return __awaiter(this, void 0, void 0, function* () {
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}, true, ["encrypt", "decrypt"]);
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}
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exports.generateAESKey = generateAESKey;
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// a function to encrypt a string with an aes key
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function encryptAESData(aesKey, data) {
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return __awaiter(this, void 0, void 0, function* () {
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return { encrypted: arrayBufferToBase64String(encrypted), iv: arrayBufferToBase64String(iv) };
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}
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exports.encryptAESData = encryptAESData;
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// a function to decrypt a string with an aes key
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function decryptAESData(aesKey, data, iv) {
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return __awaiter(this, void 0, void 0, function* () {
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return dec.decode(decrypted);
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}
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exports.decryptAESData = decryptAESData;
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// a function to decrypt an aes key with a private key
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function decryptAESKey(privateKey, encryptedKey) {
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return __awaiter(this, void 0, void 0, function* () {
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return yield crypto.subtle.decrypt({ name: "RSA-OAEP" }, privateKey, encryptedKey);
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|
169
174
|
});
|
|
170
175
|
}
|
|
171
|
-
exports.decryptAESKey = decryptAESKey;
|
|
172
176
|
// a function to export an aes key to a string
|
|
173
177
|
function exportAESKey(key) {
|
|
174
178
|
return __awaiter(this, void 0, void 0, function* () {
|
|
175
179
|
return yield crypto.subtle.exportKey("raw", key);
|
|
176
180
|
});
|
|
177
181
|
}
|
|
178
|
-
exports.exportAESKey = exportAESKey;
|
|
179
182
|
// a function to import an aes key from a string
|
|
180
183
|
function importAESKey(key) {
|
|
181
184
|
return __awaiter(this, void 0, void 0, function* () {
|
|
182
185
|
return yield crypto.subtle.importKey("raw", key, "AES-GCM", true, ["encrypt", "decrypt"]);
|
|
183
186
|
});
|
|
184
187
|
}
|
|
185
|
-
exports.importAESKey = importAESKey;
|
|
186
188
|
// a function to encrypt aes key with a public key and also use the aes key to encrypt a large string then return the encrypted aes key and the encrypted string
|
|
187
189
|
function encryptDataAES(data, publicKey) {
|
|
188
190
|
return __awaiter(this, void 0, void 0, function* () {
|
|
@@ -192,7 +194,6 @@ function encryptDataAES(data, publicKey) {
|
|
|
192
194
|
return { encryptedKey: arrayBufferToBase64String(encryptedKey), encryptedData: encryptedData };
|
|
193
195
|
});
|
|
194
196
|
}
|
|
195
|
-
exports.encryptDataAES = encryptDataAES;
|
|
196
197
|
// a function to decrypt an aes key with a private key and use the aes key to decrypt a large string
|
|
197
198
|
function decryptDataAES(encryptedKey, encryptedData, iv, privateKey) {
|
|
198
199
|
return __awaiter(this, void 0, void 0, function* () {
|
|
@@ -201,7 +202,6 @@ function decryptDataAES(encryptedKey, encryptedData, iv, privateKey) {
|
|
|
201
202
|
return yield decryptAESData(yield importAESKey(aesKey), encryptedData, iv);
|
|
202
203
|
});
|
|
203
204
|
}
|
|
204
|
-
exports.decryptDataAES = decryptDataAES;
|
|
205
205
|
// a function to calculate sha-256 hash of a large string
|
|
206
206
|
function hashData(data) {
|
|
207
207
|
return __awaiter(this, void 0, void 0, function* () {
|
|
@@ -211,4 +211,3 @@ function hashData(data) {
|
|
|
211
211
|
return arrayBufferToBase64String(hash);
|
|
212
212
|
});
|
|
213
213
|
}
|
|
214
|
-
exports.hashData = hashData;
|
|
@@ -1,7 +1,3 @@
|
|
|
1
|
-
/// <reference types="pouchdb-find" />
|
|
2
|
-
/// <reference types="pouchdb-core" />
|
|
3
|
-
/// <reference types="pouchdb-mapreduce" />
|
|
4
|
-
/// <reference types="pouchdb-replication" />
|
|
5
1
|
export declare class User {
|
|
6
2
|
get refresh_token(): string;
|
|
7
3
|
set refresh_token(value: string);
|
package/build/utilities.js
CHANGED
|
@@ -23,7 +23,11 @@ var __importStar = (this && this.__importStar) || function (mod) {
|
|
|
23
23
|
return result;
|
|
24
24
|
};
|
|
25
25
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
26
|
-
exports.
|
|
26
|
+
exports.getProteomicsData = getProteomicsData;
|
|
27
|
+
exports.getPrideData = getPrideData;
|
|
28
|
+
exports.getEBIAlpha = getEBIAlpha;
|
|
29
|
+
exports.getStringDBInteractions = getStringDBInteractions;
|
|
30
|
+
exports.getInteractomeAtlas = getInteractomeAtlas;
|
|
27
31
|
const axios_1 = __importStar(require("axios"));
|
|
28
32
|
function getProteomicsData(acc, tissueType) {
|
|
29
33
|
let headers = new axios_1.AxiosHeaders();
|
|
@@ -31,18 +35,15 @@ function getProteomicsData(acc, tissueType) {
|
|
|
31
35
|
headers["Content-Type"] = "application/json";
|
|
32
36
|
return axios_1.default.get("https://www.proteomicsdb.org/proteomicsdb/logic/api/proteinexpression.xsodata/InputParams(PROTEINFILTER='" + acc + "',MS_LEVEL=1,TISSUE_ID_SELECTION='',TISSUE_CATEGORY_SELECTION='" + tissueType + "',SCOPE_SELECTION=1,GROUP_BY_TISSUE=1,CALCULATION_METHOD=0,EXP_ID=-1)/Results?$select=UNIQUE_IDENTIFIER,TISSUE_ID,TISSUE_NAME,TISSUE_SAP_SYNONYM,SAMPLE_ID,SAMPLE_NAME,AFFINITY_PURIFICATION,EXPERIMENT_ID,EXPERIMENT_NAME,EXPERIMENT_SCOPE,EXPERIMENT_SCOPE_NAME,PROJECT_ID,PROJECT_NAME,PROJECT_STATUS,UNNORMALIZED_INTENSITY,NORMALIZED_INTENSITY,MIN_NORMALIZED_INTENSITY,MAX_NORMALIZED_INTENSITY,SAMPLES&$format=json", { responseType: "json" });
|
|
33
37
|
}
|
|
34
|
-
exports.getProteomicsData = getProteomicsData;
|
|
35
38
|
function getPrideData(acc) {
|
|
36
39
|
let headers = new axios_1.AxiosHeaders();
|
|
37
40
|
headers["Accept"] = "application/json";
|
|
38
41
|
headers["Content-Type"] = "application/json";
|
|
39
42
|
return axios_1.default.get("https://www.ebi.ac.uk/pride/ws/archive/v2/projects/" + acc, { responseType: "json", headers: headers });
|
|
40
43
|
}
|
|
41
|
-
exports.getPrideData = getPrideData;
|
|
42
44
|
function getEBIAlpha(id) {
|
|
43
45
|
return axios_1.default.get("https://alphafold.ebi.ac.uk/" + "/api/prediction/" + id, { responseType: "json" });
|
|
44
46
|
}
|
|
45
|
-
exports.getEBIAlpha = getEBIAlpha;
|
|
46
47
|
function getStringDBInteractions(genes, organism, score = 400, networkType = "functional") {
|
|
47
48
|
let params = new URLSearchParams();
|
|
48
49
|
params.append("identifiers", genes.join("%0d"));
|
|
@@ -51,7 +52,6 @@ function getStringDBInteractions(genes, organism, score = 400, networkType = "fu
|
|
|
51
52
|
params.append("network_type", networkType);
|
|
52
53
|
return axios_1.default.get("https://string-db.org/api/tsv/network?", { responseType: "text", params: params });
|
|
53
54
|
}
|
|
54
|
-
exports.getStringDBInteractions = getStringDBInteractions;
|
|
55
55
|
function getInteractomeAtlas(genes, filterParameter = "None") {
|
|
56
56
|
let params = new URLSearchParams();
|
|
57
57
|
params.append("query_interactors", "query");
|
|
@@ -66,4 +66,3 @@ function getInteractomeAtlas(genes, filterParameter = "None") {
|
|
|
66
66
|
return JSON.parse(res.data);
|
|
67
67
|
});
|
|
68
68
|
}
|
|
69
|
-
exports.getInteractomeAtlas = getInteractomeAtlas;
|
package/package.json
CHANGED
|
@@ -37,6 +37,7 @@ export class CurtainWebAPI {
|
|
|
37
37
|
orcidLoginURL: string = "";
|
|
38
38
|
userInfoURL: string = "";
|
|
39
39
|
curtainURL: string = "";
|
|
40
|
+
dataciteURL: string = "";
|
|
40
41
|
user: User = new User();
|
|
41
42
|
isRefreshing: boolean = false;
|
|
42
43
|
axiosInstance = axios.create()
|
|
@@ -50,6 +51,7 @@ export class CurtainWebAPI {
|
|
|
50
51
|
this.orcidLoginURL = baseURL + "rest-auth/orcid/";
|
|
51
52
|
this.userInfoURL = baseURL + "user/";
|
|
52
53
|
this.curtainURL = baseURL + "curtain/"
|
|
54
|
+
this.dataciteURL = baseURL + "datacite/"
|
|
53
55
|
this.axiosInstance.interceptors.request.use((config) => {
|
|
54
56
|
if (config.url) {
|
|
55
57
|
/*if (!this.checkIfRefreshTokenExpired() && this.user.loginStatus) {
|
|
@@ -79,7 +81,7 @@ export class CurtainWebAPI {
|
|
|
79
81
|
config.url === this.userInfoURL ||
|
|
80
82
|
config.url.startsWith(this.curtainURL) ||
|
|
81
83
|
config.url.startsWith(this.baseURL + "data_filter_list/") ||
|
|
82
|
-
config.url.startsWith(this.baseURL + "api_key/")) {
|
|
84
|
+
config.url.startsWith(this.baseURL + "api_key/")|| config.url.startsWith(this.dataciteURL)) {
|
|
83
85
|
if (this.user.loginStatus) {
|
|
84
86
|
config.headers["Authorization"] = "Bearer " + this.user.access_token;
|
|
85
87
|
}
|
|
@@ -423,10 +425,11 @@ export class CurtainWebAPI {
|
|
|
423
425
|
});
|
|
424
426
|
}
|
|
425
427
|
|
|
426
|
-
getDataFilterListByID(id: number) {
|
|
428
|
+
getDataFilterListByID(id: number, limit: number = 100) {
|
|
427
429
|
let headers = new AxiosHeaders();
|
|
428
430
|
headers["Accept"] = "application/json";
|
|
429
|
-
|
|
431
|
+
let params = {limit: limit.toString()}
|
|
432
|
+
return this.axiosInstance.get(this.baseURL + "data_filter_list/" + id + "/", {headers: headers, responseType:"json",}).then((response) => {
|
|
430
433
|
return response;
|
|
431
434
|
});
|
|
432
435
|
}
|
|
@@ -557,5 +560,24 @@ export class CurtainWebAPI {
|
|
|
557
560
|
headers["Content-Type"] = "application/json"
|
|
558
561
|
return this.axiosInstance.delete(this.baseURL + "api_key/" + id + "/", {headers: headers, responseType: "json"})
|
|
559
562
|
}
|
|
563
|
+
|
|
564
|
+
getRandomDataCiteSuffix() {
|
|
565
|
+
let headers = new AxiosHeaders()
|
|
566
|
+
headers["Accept"] = "application/json"
|
|
567
|
+
return this.axiosInstance.get(this.baseURL + "datacite/get_random_suffix/", {headers: headers, responseType: "json"})
|
|
568
|
+
}
|
|
569
|
+
|
|
570
|
+
submitDataCite(data: any) {
|
|
571
|
+
let headers = new AxiosHeaders()
|
|
572
|
+
headers["Accept"] = "application/json"
|
|
573
|
+
headers["Content-Type"] = "application/json"
|
|
574
|
+
return this.axiosInstance.post(this.baseURL + "datacite/", data, {headers: headers, responseType: "json"})
|
|
575
|
+
}
|
|
576
|
+
|
|
577
|
+
getDataCite(id: number) {
|
|
578
|
+
let headers = new AxiosHeaders()
|
|
579
|
+
headers["Accept"] = "application/json"
|
|
580
|
+
return this.axiosInstance.get(this.baseURL + "datacite/" + id + "/", {headers: headers, responseType: "json"})
|
|
581
|
+
}
|
|
560
582
|
}
|
|
561
583
|
|