synapse-react-client 3.1.18 → 3.1.19

package/dist/utils/functions/FileHandleUtils.js

@@ -1,14 +1,42 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.getLocationName = void 0;
+exports.getUploadDestinationString = exports.getDataFileHandle = exports.getStorageLocationName = exports.getFileHandleStorageInfo = void 0;
 var synapseTypes_1 = require("../synapseTypes");
+var UploadDestination_1 = require("../synapseTypes/File/UploadDestination");
+var SYNAPSE_STORAGE = 'Synapse Storage';
+var SYNAPSE_STORAGE_LOCATION_ID = 1;
+/**
+ * Returns storage location information for a particular file handle, where the format of the information depends on the type of file handle.
+ * @param fileHandle
+ */
+function getFileHandleStorageInfo(fileHandle) {
+    switch (fileHandle.concreteType) {
+        case synapseTypes_1.EXTERNAL_OBJECT_STORE_FILE_HANDLE_CONCRETE_TYPE_VALUE:
+            return {
+                endpoint: fileHandle.endpointUrl,
+                bucket: fileHandle.bucket,
+                fileKey: fileHandle.fileKey,
+            };
+        case synapseTypes_1.PROXY_FILE_HANDLE_CONCRETE_TYPE_VALUE:
+        case synapseTypes_1.EXTERNAL_FILE_HANDLE_CONCRETE_TYPE_VALUE:
+            return { url: getStorageLocationName(fileHandle) };
+        case synapseTypes_1.S3_FILE_HANDLE_CONCRETE_TYPE_VALUE:
+        case synapseTypes_1.GOOGLE_CLOUD_FILE_HANDLE_CONCRETE_TYPE_VALUE:
+            return {
+                location: getStorageLocationName(fileHandle),
+            };
+        default:
+            throw new Error("Couldn't determine location name for file handle: ".concat(JSON.stringify(fileHandle)));
+    }
+}
+exports.getFileHandleStorageInfo = getFileHandleStorageInfo;
 /**
  * Gets the friendly name of a bucket/storage location using the file handle.
  *
  * @param fileHandle
  * @returns
  */
-function getLocationName(fileHandle) {
+function getStorageLocationName(fileHandle) {
     switch (fileHandle.concreteType) {
         case synapseTypes_1.PROXY_FILE_HANDLE_CONCRETE_TYPE_VALUE:
             return fileHandle.filePath;
@@ -17,8 +45,10 @@ function getLocationName(fileHandle) {
         case synapseTypes_1.EXTERNAL_FILE_HANDLE_CONCRETE_TYPE_VALUE:
             return fileHandle.externalURL;
         case synapseTypes_1.S3_FILE_HANDLE_CONCRETE_TYPE_VALUE:
-            if (fileHandle.storageLocationId === 1) {
-                return 'Synapse Storage';
+            // Uploads to Synapse Storage often do not get their storage location field back-filled,
+            // so null also indicates a Synapse-Stored file
+            if ([null, SYNAPSE_STORAGE_LOCATION_ID].includes(fileHandle.storageLocationId)) {
+                return SYNAPSE_STORAGE;
             }
             else {
                 return "s3://".concat(fileHandle.bucketName);
@@ -29,5 +59,65 @@ function getLocationName(fileHandle) {
             throw new Error("Couldn't determine location name for file handle: ".concat(JSON.stringify(fileHandle)));
     }
 }
-exports.getLocationName = getLocationName;
+exports.getStorageLocationName = getStorageLocationName;
+/**
+ * Gets the data file handle from an entity bundle.
+ * Returns undefined if the entity does not have a data file handle that is visible to the caller.
+ * @param entityBundle
+ */
+function getDataFileHandle(entityBundle) {
+    var dataFileHandle = undefined;
+    if (entityBundle.entityType === synapseTypes_1.EntityType.FILE) {
+        dataFileHandle = entityBundle.fileHandles.filter(function (fh) { return fh.id === entityBundle.entity.dataFileHandleId; })[0];
+    }
+    return dataFileHandle;
+}
+exports.getDataFileHandle = getDataFileHandle;
+function getUploadDestinationString(uploadDestination) {
+    var uploadDestinationString = null;
+    if (uploadDestination) {
+        switch (uploadDestination.concreteType) {
+            case 'org.sagebionetworks.repo.model.file.S3UploadDestination':
+                uploadDestinationString = SYNAPSE_STORAGE;
+                break;
+            case 'org.sagebionetworks.repo.model.file.ExternalUploadDestination':
+                uploadDestinationString = uploadDestination.url;
+                if (uploadDestination.uploadType === UploadDestination_1.UploadType.SFTP) {
+                    var indexOfLastSlash = uploadDestinationString.lastIndexOf('/');
+                    if (indexOfLastSlash) {
+                        uploadDestinationString = uploadDestinationString.substring(0, indexOfLastSlash);
+                    }
+                }
+                break;
+            case 'org.sagebionetworks.repo.model.file.ExternalS3UploadDestination':
+                uploadDestinationString =
+                    's3://' +
+                        uploadDestination.bucket +
+                        '/';
+                if (uploadDestination.baseKey != null) {
+                    uploadDestinationString += uploadDestination.baseKey;
+                }
+                break;
+            case 'org.sagebionetworks.repo.model.file.ExternalGoogleCloudUploadDestination':
+                uploadDestinationString =
+                    'gs://' +
+                        uploadDestination.bucket +
+                        '/';
+                if (uploadDestination.baseKey !=
+                    null) {
+                    uploadDestinationString += uploadDestination.baseKey;
+                }
+                break;
+            case 'org.sagebionetworks.repo.model.file.ExternalObjectStoreUploadDestination':
+                uploadDestinationString =
+                    uploadDestination
+                        .endpointUrl +
+                        '/' +
+                        uploadDestination.bucket;
+                break;
+        }
+    }
+    return uploadDestinationString;
+}
+exports.getUploadDestinationString = getUploadDestinationString;
 //# sourceMappingURL=FileHandleUtils.js.map

package/dist/utils/functions/FileHandleUtils.js.map

@@ -1 +1 @@
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package/dist/utils/hooks/SynapseAPI/doi/useDOI.d.ts

@@ -0,0 +1,4 @@
+import { DoiAssociation } from '../../../synapseTypes';
+import { UseQueryOptions } from 'react-query';
+import { SynapseClientError } from '../../../SynapseClientError';
+export declare function useGetDOIAssociation(objectId: string, versionNumber?: number, objectType?: string, options?: UseQueryOptions<DoiAssociation | null, SynapseClientError>): import("react-query").UseQueryResult<DoiAssociation | null, SynapseClientError>;

package/dist/utils/hooks/SynapseAPI/doi/useDOI.js

@@ -0,0 +1,15 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.useGetDOIAssociation = void 0;
+var react_query_1 = require("react-query");
+var SynapseContext_1 = require("../../../SynapseContext");
+var index_1 = require("../../../index");
+function useGetDOIAssociation(objectId, versionNumber, objectType, options) {
+    if (objectType === void 0) { objectType = 'ENTITY'; }
+    var accessToken = (0, SynapseContext_1.useSynapseContext)().accessToken;
+    return (0, react_query_1.useQuery)(['doi', 'association', objectType, objectId, versionNumber], function () {
+        return index_1.SynapseClient.getDOIAssociation(accessToken, objectId, versionNumber, objectType);
+    }, options);
+}
+exports.useGetDOIAssociation = useGetDOIAssociation;
+//# sourceMappingURL=useDOI.js.map

package/dist/utils/hooks/SynapseAPI/doi/useDOI.js.map

@@ -0,0 +1 @@
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package/dist/utils/hooks/SynapseAPI/file/useUploadDestination.d.ts

@@ -0,0 +1,4 @@
+import { UseQueryOptions } from 'react-query';
+import { SynapseClientError } from '../../../SynapseClientError';
+import { UploadDestination } from '../../../synapseTypes/File/UploadDestination';
+export declare function useGetDefaultUploadDestination(containerEntityId: string, options?: UseQueryOptions<UploadDestination, SynapseClientError>): import("react-query").UseQueryResult<UploadDestination, SynapseClientError>;

package/dist/utils/hooks/SynapseAPI/file/useUploadDestination.js

@@ -0,0 +1,13 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.useGetDefaultUploadDestination = void 0;
+var tslib_1 = require("tslib");
+var react_query_1 = require("react-query");
+var SynapseContext_1 = require("../../../SynapseContext");
+var SynapseClient_1 = require("../../../SynapseClient");
+function useGetDefaultUploadDestination(containerEntityId, options) {
+    var accessToken = (0, SynapseContext_1.useSynapseContext)().accessToken;
+    return (0, react_query_1.useQuery)(['uploadDestination', 'default', containerEntityId], function () { return (0, SynapseClient_1.getDefaultUploadDestination)(containerEntityId, accessToken); }, tslib_1.__assign({}, options));
+}
+exports.useGetDefaultUploadDestination = useGetDefaultUploadDestination;
+//# sourceMappingURL=useUploadDestination.js.map

package/dist/utils/hooks/SynapseAPI/file/useUploadDestination.js.map

@@ -0,0 +1 @@
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package/dist/utils/synapseTypes/File/UploadDestination.d.ts

@@ -0,0 +1,102 @@
+/**
+ * The upload destination contains information to start an upload of a file generated according to the underlying StorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/UploadDestination.html
+ */
+export interface UploadDestination {
+    concreteType: ExternalObjectStoreUploadDestination['concreteType'] | ExternalUploadDestination['concreteType'] | BaseKeyUploadDestination['concreteType'];
+    storageLocationId: number;
+    uploadType: UploadType;
+    banner: string;
+}
+/**
+ * The upload destination contains information necessary to start an upload to an S3 bucket not managed by Synapse.
+ * This destination is mapped from an ExternalObjectStorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/ExternalObjectStoreUploadDestination.html
+ */
+export interface ExternalObjectStoreUploadDestination extends UploadDestination {
+    concreteType: 'org.sagebionetworks.repo.model.file.ExternalObjectStoreUploadDestination';
+    endpointUrl: string;
+    bucket: string;
+    keyPrefixUUID: string;
+}
+/**
+ * This upload destination contains information to start an upload to an SFTP or HTTPS destination. The destination is
+ * mapped from an ExternalStorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/ExternalUploadDestination.html
+ */
+export interface ExternalUploadDestination extends UploadDestination {
+    concreteType: 'org.sagebionetworks.repo.model.file.ExternalUploadDestination';
+    url: string;
+}
+/**
+ * An upload destination with an optional base key.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/BaseKeyUploadDestination.html
+ */
+export interface BaseKeyUploadDestination extends UploadDestination {
+    concreteType: StsUploadDestination['concreteType'] | ExternalGoogleCloudUploadDestination['concreteType'];
+    baseKey: string;
+}
+declare const EXTERNAL_GOOGLE_CLOUD_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = "org.sagebionetworks.repo.model.file.ExternalGoogleCloudUploadDestination";
+export declare type EXTERNAL_GOOGLE_CLOUD_UPLOAD_DESTINATION_CONCRETE_TYPE = typeof EXTERNAL_GOOGLE_CLOUD_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE;
+/**
+ * This upload destination contains information to start an upload to an external Google Cloud Storage bucket connected
+ * with synapse. The destination is mapped from an ExternalGoogleCloudStorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/ExternalGoogleCloudUploadDestination.html
+ */
+export interface ExternalGoogleCloudUploadDestination extends BaseKeyUploadDestination {
+    concreteType: EXTERNAL_GOOGLE_CLOUD_UPLOAD_DESTINATION_CONCRETE_TYPE;
+    bucket: string;
+}
+/**
+ * An StsUploadDestination provides settings to enable Synapse to call AWS Security Token Service (STS) to get temporary
+ * AWS credentials
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/StsUploadDestination.html
+ */
+export interface StsUploadDestination extends BaseKeyUploadDestination {
+    concreteType: S3_UPLOAD_DESTINATION_CONCRETE_TYPE | EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE;
+    stsEnabled: boolean;
+}
+declare const EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = "org.sagebionetworks.repo.model.file.ExternalS3UploadDestination";
+export declare type EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE = typeof EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE;
+/**
+ * This upload destination contains information to start an upload to an external external S3 bucket connected with
+ * Synapse. The destination is mapped from an ExternalS3StorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/ExternalS3UploadDestination.html
+ */
+export interface ExternalS3UploadDestination extends StsUploadDestination {
+    concreteType: EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE;
+    endpointUrl: string;
+    bucket: string;
+}
+declare const S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = "org.sagebionetworks.repo.model.file.S3UploadDestination";
+export declare type S3_UPLOAD_DESTINATION_CONCRETE_TYPE = typeof S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE;
+/**
+ * The upload destination contains information to start an upload to the default Synapse storage location that exists on
+ * Amazon S3. This destination is mapped from an S3StorageLocationSetting.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/S3UploadDestination.html
+ */
+export interface S3UploadDestination extends StsUploadDestination {
+    concreteType: S3_UPLOAD_DESTINATION_CONCRETE_TYPE;
+}
+/**
+ * The enumeration of possible upload types.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/UploadType.html
+ */
+export declare enum UploadType {
+    S3 = "S3",
+    GOOGLECLOUDSTORAGE = "GOOGLECLOUDSTORAGE",
+    SFTP = "SFTP",
+    HTTPS = "HTTPS",
+    PROXYLOCAL = "PROXYLOCAL",
+    NONE = "NONE"
+}
+export {};

package/dist/utils/synapseTypes/File/UploadDestination.js

@@ -0,0 +1,21 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.UploadType = void 0;
+var EXTERNAL_GOOGLE_CLOUD_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = 'org.sagebionetworks.repo.model.file.ExternalGoogleCloudUploadDestination';
+var EXTERNAL_S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = 'org.sagebionetworks.repo.model.file.ExternalS3UploadDestination';
+var S3_UPLOAD_DESTINATION_CONCRETE_TYPE_VALUE = 'org.sagebionetworks.repo.model.file.S3UploadDestination';
+/**
+ * The enumeration of possible upload types.
+ *
+ * https://rest-docs.synapse.org/rest/org/sagebionetworks/repo/model/file/UploadType.html
+ */
+var UploadType;
+(function (UploadType) {
+    UploadType["S3"] = "S3";
+    UploadType["GOOGLECLOUDSTORAGE"] = "GOOGLECLOUDSTORAGE";
+    UploadType["SFTP"] = "SFTP";
+    UploadType["HTTPS"] = "HTTPS";
+    UploadType["PROXYLOCAL"] = "PROXYLOCAL";
+    UploadType["NONE"] = "NONE";
+})(UploadType = exports.UploadType || (exports.UploadType = {}));
+//# sourceMappingURL=UploadDestination.js.map

package/dist/utils/synapseTypes/File/UploadDestination.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"UploadDestination.js","sourceRoot":"","sources":["../../../../src/lib/utils/synapseTypes/File/UploadDestination.ts"],"names":[],"mappings":";;;AA6DA,IAAM,4DAA4D,GAChE,0EAA0E,CAAA;AA+B5E,IAAM,kDAAkD,GACtD,iEAAiE,CAAA;AAkBnE,IAAM,yCAAyC,GAC7C,yDAAyD,CAAA;AAc3D;;;;GAIG;AACH,IAAY,UAOX;AAPD,WAAY,UAAU;IACpB,uBAAS,CAAA;IACT,uDAAyC,CAAA;IACzC,2BAAa,CAAA;IACb,6BAAe,CAAA;IACf,uCAAyB,CAAA;IACzB,2BAAa,CAAA;AACf,CAAC,EAPW,UAAU,GAAV,kBAAU,KAAV,kBAAU,QAOrB"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "synapse-react-client",
-  "version": "3.1.18",
+  "version": "3.1.19",
   "private": false,
   "main": "dist/index.js",
   "types": "./dist/index.d.ts",

package/dist/containers/FilePreview/HtmlPreview/SanitizedWarning.d.ts

@@ -1,5 +0,0 @@
-/// <reference types="react" />
-export declare type SanitizedWarningProps = {
-    rawHtml: string;
-};
-export declare function SanitizedWarning(props: SanitizedWarningProps): JSX.Element;

package/dist/containers/FilePreview/HtmlPreview/SanitizedWarning.js

@@ -1,28 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.SanitizedWarning = void 0;
-var tslib_1 = require("tslib");
-var react_1 = tslib_1.__importStar(require("react"));
-var react_bootstrap_1 = require("react-bootstrap");
-var WarningModal_1 = tslib_1.__importDefault(require("../../synapse_form_wrapper/WarningModal"));
-function openRawHtmlInNewWindow(rawHtml) {
-    var newWindow = window.open('', '');
-    newWindow === null || newWindow === void 0 ? void 0 : newWindow.document.write(rawHtml);
-    // close document, to run scripts inside html string
-    newWindow === null || newWindow === void 0 ? void 0 : newWindow.document.close();
-}
-function SanitizedWarning(props) {
-    var rawHtml = props.rawHtml;
-    var _a = (0, react_1.useState)(false), showModal = _a[0], setShowModal = _a[1];
-    return (react_1.default.createElement(react_1.default.Fragment, null,
-        react_1.default.createElement(WarningModal_1.default, { title: 'Open Untrusted Content in New Window?', modalBody: 'Click "OK" to leave this page and open this content in a new window; this enables additional functionality, but should only be done if you trust the content.', show: showModal, confirmButtonText: 'OK', confirmButtonVariant: 'sds-primary', onConfirm: function () {
-                openRawHtmlInNewWindow(rawHtml);
-                setShowModal(false);
-            }, onCancel: function () { return setShowModal(false); } }),
-        react_1.default.createElement(react_bootstrap_1.Alert, { variant: "info", dismissible: false, show: true, transition: false },
-            "Limited rendering only.",
-            ' ',
-            react_1.default.createElement("a", { onClick: function () { return setShowModal(true); } }, "External view available."))));
-}
-exports.SanitizedWarning = SanitizedWarning;
-//# sourceMappingURL=SanitizedWarning.js.map

package/dist/containers/FilePreview/HtmlPreview/SanitizedWarning.js.map

@@ -1 +0,0 @@
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