@js4cytoscape/ndex-client 0.6.0-alpha.1 → 0.6.0-alpha.3

package/dist/index.mjs

@@ -1,4 +1,4 @@
-import $ from'axios';/* NDEx Client Library - Modern TypeScript implementation */
-var I=(r=>(r.NONE="NONE",r.BASIC="BASIC",r.FULL="FULL",r))(I||{}),p=class extends Error{constructor(t,r,s,n){super(t);this.statusCode=r;this.errorCode=s;this.description=n;this.name="NDExError";}},N=class extends p{constructor(t,r){super(t,void 0,"NETWORK_ERROR");this.originalError=r;this.name="NDExNetworkError";}},C=class extends p{constructor(e="Authentication failed",t=401){super(e,t,"AUTH_ERROR"),this.name="NDExAuthError";}},P=class extends p{constructor(e="Resource not found",t=404){super(e,t,"NOT_FOUND"),this.name="NDExNotFoundError";}},x=class extends p{constructor(e,t=400){super(e,t,"VALIDATION_ERROR"),this.name="NDExValidationError";}},S=class extends p{constructor(e="Internal server error",t=500){super(e,t,"SERVER_ERROR"),this.name="NDExServerError";}};var m=class a{constructor(e){this.CXVersion="2.0";this.hasFragments=false;this.metaData=[];e&&Object.assign(this,e),this.ensureRequiredMetadata();}static createEmpty(){let e=new a;return e.nodes=[],e.edges=[],e.metaData=[{name:"nodes",elementCount:0},{name:"edges",elementCount:0}],e}static fromJSON(e){let t=typeof e=="string"?JSON.parse(e):e;return new a(t)}static fromNetworkSummary(e){let t=a.createEmpty();return t.networkAttributes=[{name:e.name},...e.description?[{description:e.description}]:[],...e.version?[{version:e.version}]:[]],e.properties&&Object.entries(e.properties).forEach(([r,s])=>{t.networkAttributes?.push({[r]:s.v});}),t}addNode(e,t){this.nodes||(this.nodes=[]);let r={id:e};return t&&(r.v=t),this.nodes.push(r),this.updateNodeCount(),r}addEdge(e,t,r,s){this.edges||(this.edges=[]);let n={id:e,s:t,t:r};return s&&(n.v=s),this.edges.push(n),this.updateEdgeCount(),n}addNodeAttribute(e,t,r){let s=this.nodes.find(n=>n.id===e);s&&(s.v||(s.v={}),s.v[t]=r);}addEdgeAttribute(e,t,r){let s=this.edges.find(n=>n.id===e);s&&(s.v||(s.v={}),s.v[t]=r);}setNodeCoordinates(e,t,r,s){this.nodes||(this.nodes=[]);let n=this.nodes.find(i=>i.id===e);n||(n={id:e},this.nodes.push(n),this.updateNodeCount()),n.x=t,n.y=r,s!==void 0&&(n.z=s);}getNode(e){return this.nodes?.find(t=>t.id===e)}getEdge(e){return this.edges?.find(t=>t.id===e)}getNodes(){return this.nodes||[]}getEdges(){return this.edges||[]}getNodeCount(){return this.nodes?.length||0}getEdgeCount(){return this.edges?.length||0}getNetworkName(){return this.networkAttributes?.find(e=>"name"in e)?.name}setNetworkName(e){this.networkAttributes||(this.networkAttributes=[]),this.networkAttributes=this.networkAttributes.filter(t=>!("name"in t)),this.networkAttributes.push({name:e});}getNetworkAttribute(e){return this.networkAttributes?.find(t=>e in t)?.[e]}setNetworkAttribute(e,t){this.networkAttributes||(this.networkAttributes=[]),this.networkAttributes=this.networkAttributes.filter(r=>!(e in r)),this.networkAttributes.push({[e]:t});}validate(){let e=[];return this.CXVersion||e.push("CXVersion is required"),this.hasFragments===void 0&&e.push("hasFragments is required"),(!this.metaData||this.metaData.length===0)&&e.push("metaData is required and must not be empty"),this.metaData?.forEach((t,r)=>{t.name||e.push(`metaData[${r}] is missing required 'name' field`);}),this.nodes&&this.nodes.forEach((t,r)=>{(t.id===void 0||t.id===null)&&e.push(`nodes[${r}] is missing required 'id' field`);}),this.edges&&this.edges.forEach((t,r)=>{if((t.id===void 0||t.id===null)&&e.push(`edges[${r}] is missing required 'id' field`),(t.s===void 0||t.s===null)&&e.push(`edges[${r}] is missing required 's' (source) field`),(t.t===void 0||t.t===null)&&e.push(`edges[${r}] is missing required 't' (target) field`),this.nodes&&t.s!==void 0&&t.t!==void 0){let s=this.nodes.some(i=>i.id===t.s),n=this.nodes.some(i=>i.id===t.t);s||e.push(`edges[${r}] references non-existent source node ${t.s}`),n||e.push(`edges[${r}] references non-existent target node ${t.t}`);}}),{isValid:e.length===0,errors:e}}toJSON(){return JSON.stringify(this,null,2)}clone(){return new a(JSON.parse(this.toJSON()))}getStatistics(){return {nodeCount:this.getNodeCount(),edgeCount:this.getEdgeCount(),hasCoordinates:!!(this.nodes&&this.nodes.some(e=>e.x!==void 0||e.y!==void 0||e.z!==void 0)),hasVisualProperties:!!(this.visualProperties&&(this.visualProperties.default||this.visualProperties.edgeMapping||this.visualProperties.nodeMapping))}}ensureRequiredMetadata(){this.metaData||(this.metaData=[]),this.nodes&&!this.metaData.find(e=>e.name==="nodes")&&this.metaData.push({name:"nodes",elementCount:this.nodes.length}),this.edges&&!this.metaData.find(e=>e.name==="edges")&&this.metaData.push({name:"edges",elementCount:this.edges.length});}updateNodeCount(){let e=this.metaData?.find(t=>t.name==="nodes");e&&(e.elementCount=this.nodes?.length||0);}updateEdgeCount(){let e=this.metaData?.find(t=>t.name==="edges");e&&(e.elementCount=this.edges?.length||0);}};var R="0.6.0-alpha.1";var h=class{constructor(e={}){this.config={baseURL:"https://www.ndexbio.org",timeout:3e4,retries:3,retryDelay:1e3,debug:false,...e};let t={"Content-Type":"application/json",...this.config.headers,...this.getAuthHeaders()};typeof window>"u"&&(t["User-Agent"]=`NDEx-JS-Client/${R}`),this.axiosInstance=$.create({baseURL:this.config.baseURL,timeout:this.config.timeout,headers:t}),this.setupInterceptors();}getAuthHeaders(){return this.config.auth?this.config.auth.type==="basic"?{Authorization:`Basic ${btoa(`${this.config.auth.username}:${this.config.auth.password}`)}`}:this.config.auth.type==="oauth"?{Authorization:`Bearer ${this.config.auth.idToken}`}:{}:{}}buildUrl(e,t="v2"){let r=e.startsWith("/")?e.slice(1):e;return `/${t}/${r}`}async get(e,t){let{version:r,...s}=t||{},n=this.buildUrl(e,r);try{let i=await this.axiosInstance.get(n,s);return this.handleResponse(i)}catch(i){this.handleError(i);}}async post(e,t,r){let{version:s,...n}=r||{},i=this.buildUrl(e,s);try{let o=await this.axiosInstance.post(i,t,n);return this.handleResponse(o)}catch(o){this.handleError(o);}}async put(e,t,r){let{version:s,...n}=r||{},i=this.buildUrl(e,s);try{let o=await this.axiosInstance.put(i,t,n);return this.handleResponse(o)}catch(o){this.handleError(o);}}async delete(e,t){let{version:r,...s}=t||{},n=this.buildUrl(e,r);try{let i=await this.axiosInstance.delete(n,s);return this.handleResponse(i)}catch(i){this.handleError(i);}}async uploadFile(e,t,r={}){let{version:s,onProgress:n,filename:i,contentType:o,...d}=r,c=this.buildUrl(e,s),u=new FormData;if(t instanceof File)u.append("file",t,i||t.name);else if(t instanceof Blob)u.append("file",t,i||"file.cx2");else if(typeof t=="string"){let g=new Blob([t],{type:o||"application/json"});u.append("file",g,i||"file.cx2");}else u.append("file",t,i||"file.cx2");try{let g=await this.axiosInstance.post(c,u,{headers:{"Content-Type":"multipart/form-data"},onUploadProgress:n?T=>{let A=Math.round(T.loaded*100/(T.total||1));n(A);}:void 0,...d});return this.handleResponse(g)}catch(g){this.handleError(g);}}setupInterceptors(){this.axiosInstance.interceptors.request.use(e=>(this.config.debug&&console.log("NDEx API Request:",{method:e.method?.toUpperCase(),url:e.url,headers:e.headers}),e),e=>(this.config.debug&&console.error("NDEx API Request Error:",e),Promise.reject(e))),this.axiosInstance.interceptors.response.use(e=>(this.config.debug&&console.log("NDEx API Response:",{status:e.status,url:e.config.url,data:e.data}),e),e=>(this.config.debug&&console.error("NDEx API Response Error:",e.response?.data||e.message),Promise.reject(e)));}handleResponse(e){return e.data&&typeof e.data=="object"&&"errorCode"in e.data&&this.throwNDExError(e.data.message||"Unknown error occurred",e.status,e.data.errorCode||"UNKNOWN_ERROR",e.data.description),e.data&&typeof e.data=="object"&&"data"in e.data?e.data.data:e.data}handleError(e){if(e.response){let t=e.response.data?.message||e.message,r=e.response.data?.errorCode||`HTTP_${e.response.status}`,s=e.response.data?.description;this.throwNDExError(t,e.response.status,r,s);}else throw e.request?new N("Network error - no response received",e):new p(e.message||"Unknown error occurred",void 0,"CLIENT_ERROR",e.toString())}throwNDExError(e,t,r,s){switch(t){case 400:throw new x(e,t);case 401:case 403:throw new C(e,t);case 404:throw new P(e,t);case 500:case 502:case 503:case 504:throw new S(e,t);default:throw new p(e,t,r,s)}}updateConfig(e){if(this.config={...this.config,...e},e.baseURL&&(this.axiosInstance.defaults.baseURL=e.baseURL),e.timeout&&(this.axiosInstance.defaults.timeout=e.timeout),e.headers&&Object.assign(this.axiosInstance.defaults.headers,e.headers),"auth"in e){let t=this.getAuthHeaders();delete this.axiosInstance.defaults.headers.common.Authorization,Object.assign(this.axiosInstance.defaults.headers.common,t);}}getConfig(){return {...this.config}}getAuthType(){return this.config.auth?.type}getIdToken(){return this.config.auth?.type==="oauth"?this.config.auth.idToken:void 0}setIdToken(e){this.updateConfig({auth:{type:"oauth",idToken:e}});}};var f=class{constructor(e){this.http=e;}async getRawCX1Network(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`network/${e}${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2",headers:{Accept:"application/json"}})}async getNetworkSummary(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`network/${e}/summary${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async copyNetwork(e){let t=`network/${e}/copy`;return this.http.post(t,{},{version:"v2"})}async searchNetworks(e,t,r,s){let n={};t!==void 0&&(n.start=t.toString()),r!==void 0&&(n.limit=r.toString());let i={searchString:e};return s!==void 0&&(s.permission!==void 0&&(i.permission=s.permission),s.includeGroups!==void 0&&(i.includeGroups=s.includeGroups),s.accountName!==void 0&&(i.accountName=s.accountName)),this.http.post("search/network",i,{version:"v2",params:n})}async createNetworkFromRawCX1(e,t={}){let n=(await this.http.post("network",e,{version:"v2",params:t})).split("/");return n[n.length-1]}async updateNetworkFromRawCX1(e,t){let r=`network/${e}`;return this.http.put(r,t,{version:"v2"})}async deleteNetwork(e){let t=`network/${e}`;return this.http.delete(t,{version:"v2"})}async getNetworkSummariesByUUIDs(e,t){let r=t?{accesskey:t}:void 0;return this.http.post("batch/network/summary",e,{version:"v2",params:r})}async getUserNetworks(e,t={}){let r=new URLSearchParams;t.start!==void 0&&r.append("start",t.start.toString()),t.size!==void 0&&r.append("size",t.size.toString());let s=`user/${e}/networks${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async setNetworkSystemProperties(e,t){let r=`networks/${e}/systemproperty`;return this.http.put(r,t,{version:"v2"})}async getNetworkPermissions(e){let t=`networks/${e}/permission`;return this.http.get(t,{version:"v2"})}async setNetworkPermissions(e,t){let r=`networks/${e}/permission`;return this.http.put(r,t,{version:"v2"})}async grantNetworkPermission(e,t,r){let s=`networks/${e}/permission`,n={memberUUID:t,permission:r};return this.http.post(s,n,{version:"v2"})}async revokeNetworkPermission(e,t){let r=`networks/${e}/permission`;return this.http.delete(r,{version:"v2",data:{memberUUID:t}})}async getNetworkProfile(e){let t=`networks/${e}/profile`;return this.http.get(t,{version:"v2"})}async setNetworkProfile(e,t){let r=`networks/${e}/profile`;return this.http.put(r,t,{version:"v2"})}async makeNetworkPublic(e){let t=`networks/${e}/systemproperty`,r={visibility:"PUBLIC"};return this.http.put(t,r,{version:"v2"})}async makeNetworkPrivate(e){let t=`networks/${e}/systemproperty`,r={visibility:"PRIVATE"};return this.http.put(t,r,{version:"v2"})}async getNetworkSample(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}/sample${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async getMetaData(e,t){let r=new URLSearchParams;t!==void 0&&r.append("accesskey",t);let s=`network/${e}/aspect${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async getAccessKey(e){let t=`networks/${e}/accesskey`;return this.http.get(t,{version:"v2"})}async updateAccessKey(e,t){let r=`networks/${e}/accesskey`;return this.http.put(r,{action:t},{version:"v2"})}};var y=class{constructor(e){this.http=e;}async getNetworkSummary(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}/summary${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v3"})}async getRawCX2Network(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v3"})}async createNetworkDOI(e,t,r){let s=new URLSearchParams;s.append("key",t),s.append("email",r);let n=`networks/${e}/DOI?${s.toString()}`;return this.http.get(n,{version:"v3"})}async getAttributesOfSelectedNodes(e,t,r={}){let s=new URLSearchParams;r.accesskey&&s.append("accesskey",r.accesskey);let n={ids:t.ids,attributeNames:t.attributeNames},i=`search/networks/${e}/nodes${s.toString()?`?${s.toString()}`:""}`;return this.http.post(i,n,{version:"v3"})}async getNetworkSummariesV3ByUUIDs(e,t,r){let s={format:r===void 0?"FULL":r};return t!=null&&(s.accesskey=t),this.http.post("batch/networks/summary",e,{version:"v3",params:s})}async searchNetworks(e={}){let t=new URLSearchParams;e.searchString&&t.append("searchString",e.searchString),e.accountName&&t.append("accountName",e.accountName),e.permission&&t.append("permission",e.permission),e.includeGroups!==void 0&&t.append("includeGroups",e.includeGroups.toString()),e.admin&&t.append("admin",e.admin),e.start!==void 0&&t.append("start",e.start.toString()),e.size!==void 0&&t.append("size",e.size.toString()),e.source&&t.append("source",e.source);let r=`search/network${t.toString()?`?${t.toString()}`:""}`;return this.http.get(r,{version:"v3"})}async getNetworkAsCX2Object(e,t={}){let r=await this.getRawCX2Network(e,t);return new m(r)}async createNetworkFromCX2(e,t={}){let r="networks/cx2",s=e instanceof m?JSON.parse(e.toJSON()):e;return this.http.post(r,s,{version:"v3",params:t})}async updateNetworkCX2(e,t){let r=`networks/${e}/cx2`,s=t instanceof m?JSON.parse(t.toJSON()):t;return this.http.put(r,s,{version:"v3"})}async uploadNetworkFile(e,t={}){return this.http.uploadFile("networks/upload",e,{version:"v3",...t})}async getNetworkMetadata(e){let t=`networks/${e}/metadata`;return this.http.get(t,{version:"v3"})}async updateNetworkMetadata(e,t){let r=`networks/${e}/metadata`;return this.http.put(r,t,{version:"v3"})}async getNetworkAspect(e,t,r={}){let s=new URLSearchParams;r.accesskey&&s.append("accesskey",r.accesskey);let n=`networks/${e}/aspects/${t}${s.toString()?`?${s.toString()}`:""}`;return this.http.get(n,{version:"v3"})}};var l=class{constructor(e){this.http=e;this.v2Service=new f(e),this.v3Service=new y(e);}async getNetworkSummary(e,t={}){return this.v3Service.getNetworkSummary(e,t)}async getRawCX1Network(e,t={}){return this.v2Service.getRawCX1Network(e,t)}async getRawCX2Network(e,t={}){return this.v3Service.getRawCX2Network(e,t)}async deleteNetwork(e){return this.v2Service.deleteNetwork(e)}async createNetworkDOI(e,t,r){return this.v3Service.createNetworkDOI(e,t,r)}async getAttributesOfSelectedNodes(e,t,r={}){return this.v3Service.getAttributesOfSelectedNodes(e,t,r)}async neighborhoodQuery(e,t,r,s,n=false){let i={};r!==void 0&&r===true&&(i.save="true");let o={searchString:t,searchDepth:1};if(s!==void 0&&(s.searchDepth!==void 0&&(o.searchDepth=s.searchDepth),s.edgeLimit!==void 0&&(o.edgeLimit=s.edgeLimit),s.errorWhenLimitIsOver!==void 0&&(o.errorWhenLimitIsOver=s.errorWhenLimitIsOver),s.directOnly!==void 0&&(o.directOnly=s.directOnly),s.nodeIds!=null&&(o.nodeIds=s.nodeIds)),n){let c=`search/network/${e}/query`;return this.http.post(c,o,{version:"v3",params:i})}let d=`search/network/${e}/query`;return this.http.post(d,o,{version:"v2",params:i})}async interConnectQuery(e,t,r,s,n=false){let i={};r!==void 0&&r===true&&(i.save="true");let o={searchString:t};if(s!==void 0&&(s.edgeLimit!==void 0&&(o.edgeLimit=s.edgeLimit),s.errorWhenLimitIsOver!==void 0&&(o.errorWhenLimitIsOver=s.errorWhenLimitIsOver),s.nodeIds!=null&&(o.nodeIds=s.nodeIds)),n){let c=`search/networks/${e}/interconnectquery`;return this.http.post(c,o,{version:"v3",params:i})}let d=`search/network/${e}/interconnectquery`;return this.http.post(d,o,{version:"v2",params:i})}async getNetworkPermissionsByUUIDs(e){return this.http.post("batch/network/permission",e,{version:"v2"})}async exportNetworks(e){return this.http.post("batch/network/export",e,{version:"v2"})}async moveNetworks(e,t){if(!Array.isArray(e))throw new Error("Invalid networkIds - must be an array");let r="batch/networks/move",s={targetFolder:t,networks:e};return this.http.post(r,s,{version:"v3"})}async setNetworksVisibility(e,t){this.validateShareData(e);let r="batch/networks/visibility",s={items:e,visibility:t};return this.http.post(r,s,{version:"v3"})}async getRandomEdges(e,t,r){if(t<=0)throw new Error("Value of parameter limit has to be greater than 0.");let s={size:t.toString(),method:"random"};r!==void 0&&(s.accesskey=r);let n=`networks/${e}/aspects/edges`;return this.http.get(n,{version:"v3",params:s})}validateShareData(e){if(typeof e!="object"||e===null||e.files===void 0)throw new Error('Data must be an object with a "files" property');if(typeof e.files!="object"||e.files===null)throw new Error('The "files" property must be an object');let t=["NETWORK","FOLDER","SHORTCUT"];for(let[r,s]of Object.entries(e.files)){if(!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(r))throw new Error(`Invalid UUID format: ${r}`);if(!t.includes(s))throw new Error(`Invalid file type for ${r}: ${s}. Must be one of: ${t.join(", ")}`)}}async getAspectElements(e,t,r,s){let n={};r!==void 0&&(n.size=r.toString()),s!==void 0&&(n.accesskey=s);let i=`networks/${e}/aspects/${t}`;return this.http.get(i,{version:"v3",params:n})}async getFilteredEdges(e,t,r,s,n,i,o,d){let c={};n!==void 0&&(c.size=n.toString()),i!==void 0&&(c.order=i),d!==void 0&&(c.accesskey=d),o!==void 0&&(c.format=o);let u={name:t,value:r,operator:s},g=`search/networks/${e}/edges`;return this.http.post(g,u,{version:"v3",params:c})}async getCX2MetaData(e,t){let r={};t!==void 0&&(r.accesskey=t);let s=`networks/${e}/aspects`;return this.http.get(s,{version:"v3",params:r})}async createNetworkFromRawCX2(e,t=false){let r={visibility:t?"PUBLIC":"PRIVATE"},i=(await this.http.post("networks",e,{version:"v3",params:r})).split("/").pop();if(!i)throw new Error("Failed to extract network UUID from response");return {uuid:i}}async updateNetworkFromRawCX2(e,t){let r=`networks/${e}`;return this.http.put(r,t,{version:"v3"})}get v2(){return this.v2Service}get v3(){return this.v3Service}};var v=class{constructor(e){this.http=e;}copyFile(e,t,r,s){let n={};return s!==void 0&&(n.accesskey=s),this.http.post("files/copy",{from_uuid:e,type:r,to_path:t},{params:n,version:"v3"})}getCount(){return this.http.get("files/count",{version:"v3"})}getTrash(){return this.http.get("files/trash",{version:"v3"})}emptyTrash(){return this.http.delete("files/trash",{version:"v3"})}permanentlyDeleteFile(e){return this.http.delete(`files/trash/${e}`,{version:"v3"})}restoreFile(e,t,r){return this.http.post("files/trash/restore",{networks:e,folders:t,shortcuts:r},{version:"v3"})}_validateShareData(e){if(typeof e!="object"||e===null||e.files===void 0)throw new Error('Data must be an object with a "files" property');if(typeof e.files!="object"||e.files===null)throw new Error('The "files" property must be an object');let t=["NETWORK","FOLDER","SHORTCUT"];for(let[r,s]of Object.entries(e.files)){if(!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(r))throw new Error(`Invalid UUID format: ${r}`);if(!t.includes(s))throw new Error(`Invalid file type for ${r}: ${s}. Must be one of: ${t.join(", ")}`)}}_validateMemberData(e){if(typeof e!="object"||e===null||e.members===void 0)throw new Error('Data must be an object with a "members" property');let t=["READ","WRITE"];for(let[r,s]of Object.entries(e.members)){if(!t.includes(s))throw new Error(`Invalid permission for ${r}: ${s}. Must be one of: ${t.join(", ")}`);if(typeof r!="string"||!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(r))throw new Error(`Invalid UUID format: ${r}`)}}updateMember(e,t){return this._validateShareData({files:e}),this._validateMemberData({members:t}),this.http.post("files/sharing/members",{files:e,members:t},{version:"v3"})}listMembers(e){return this.http.get("files/sharing/members/list",{params:e,version:"v3"})}transferOwnership(e,t){return this._validateShareData({files:e}),this.http.post("files/sharing/transfer_ownership",{files:e,new_owner:t},{version:"v3"})}listShares(e){let t={};return e!==void 0&&(t.limit=e),this.http.post("files/sharing/list",t,{version:"v3"})}share(e){return this._validateShareData({files:e}),this.http.post("files/sharing/share",{files:e},{version:"v3"})}unshare(e){return this._validateShareData({files:e}),this.http.post("files/sharing/unshare",{files:e},{version:"v3"})}getFolders(e){let t={};return e!==void 0&&(t.limit=e),this.http.get("files/folders",{params:t,version:"v3"})}createFolder(e,t){return this.http.post("files/folders",{name:e,parent:t},{version:"v3"})}getFolder(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/folders/${e}`,{params:r,version:"v3"})}updateFolder(e,t,r){return this.http.put(`files/folders/${e}`,{name:t,parent:r},{version:"v3"})}deleteFolder(e){return this.http.delete(`files/folders/${e}`,{version:"v3"})}getFolderCount(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/folders/${e}/count`,{params:r,version:"v3"})}getFolderList(e,t,r,s){let n={};return t!==void 0&&(n.accesskey=t),r!==void 0&&(n.format=r),s!==void 0&&(n.type=s),this.http.get(`files/folders/${e}/list`,{params:n,version:"v3"})}getShortcuts(e){let t={};return e!==void 0&&(t.limit=e),this.http.get("files/shortcuts",{params:t,version:"v3"})}createShortcut(e,t,r,s){return this.http.post("files/shortcuts",{name:e,parent:t,target:r,targetType:s},{version:"v3"})}getShortcut(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/shortcuts/${e}`,{params:r,version:"v3"})}updateShortcut(e,t,r,s,n){return this.http.put(`files/shortcuts/${e}`,{name:t,parent:r,target:s,targetType:n},{version:"v3"})}deleteShortcut(e){return this.http.delete(`files/shortcuts/${e}`,{version:"v3"})}};var w=class{constructor(e){this.http=e;}async createCyWebWorkspace(e){return this.http.post("workspaces",e,{version:"v3"})}async getCyWebWorkspace(e){let t=`workspaces/${e}`;return this.http.get(t,{version:"v3"})}async deleteCyWebWorkspace(e){let t=`workspaces/${e}`;return this.http.delete(t,{version:"v3"})}async updateCyWebWorkspace(e,t){let r=`workspaces/${e}`;return this.http.put(r,t,{version:"v3"})}async updateCyWebWorkspaceName(e,t){let r=`workspaces/${e}/name`;return this.http.put(r,{name:t},{version:"v3"})}async updateCyWebWorkspaceNetworks(e,t){let r=`workspaces/${e}/networkids`;return this.http.put(r,t,{version:"v3"})}async getUserCyWebWorkspaces(){let t=`users/${(await this.http.get("user",{params:{valid:true}})).externalId}/workspaces`;return this.http.get(t,{version:"v3"})}};var k=class{constructor(e){this.http=e;}async authenticate(){let e=this.http.getAuthType();if(!e)throw new Error("Authentication parameters are missing in NDEx client.");if(e==="basic"){let t="user",r={valid:true};return this.http.get(t,{params:r})}else if(e==="oauth"){let t=this.http.getIdToken();if(!t)throw new Error("OAuth ID token is missing.");let r="users/signin",s={idToken:t};return this.http.post(r,s,{version:"v3"})}throw new Error(`Unsupported authentication type: ${e}`)}async getCurrentUser(){if(!this.http.getAuthType())throw new Error("Authentication parameters are missing in NDEx client.");let t="user",r={valid:true};return this.http.get(t,{params:r})}async updateCurrentUser(e){if(!e.externalId)throw new Error("User uuid is required in userUpdate object");let t=`user/${e.externalId}`;return this.http.put(t,e)}async requestPasswordReset(e){return this.http.post("user/forgot-password",{email:e})}async resetPassword(e,t){let r=`user/${e}/password`,s={headers:{"Content-Type":"text/plain"}};return this.http.put(r,t,s)}async getUser(e){let t=`user/${e}`;return this.http.get(t)}async getUserByNameOrEmail(e){let t=new URLSearchParams;"username"in e?t.append("username",e.username):"email"in e&&t.append("email",e.email);let r=`user?${t.toString()}`;return this.http.get(r)}async getUsersByUUIDs(e){return this.http.post("batch/user",e)}async searchUsers(e,t,r){let s={};t!==void 0&&(s.start=t.toString()),r!==void 0&&(s.limit=r.toString());let n={searchString:e};return this.http.post("search/user",n,{params:s})}async getAccountPageNetworks(e,t,r){let s={};t!==void 0&&(s.offset=t.toString()),r!==void 0&&(s.limit=r.toString());let n=`user/${e}/networksummary`;return this.http.get(n,{params:s})}async deleteUserAccount(e){let t=`user/${e}`;return this.http.delete(t)}};var b=class{constructor(e){this.http=e;}};var E=class{constructor(e=1234,t){this._port=e,this.cyRestBaseURL=t?.cyRestBaseURL||"http://127.0.0.1",this.ndexBaseURL=t?.ndexBaseURL||"https://www.ndexbio.org",this.axiosInstance=$.create({baseURL:this.cyRestURL(),timeout:3e4,headers:{"Content-Type":"application/json"}});}get port(){return this._port}static get cyRestBaseURL(){return "http://127.0.0.1"}setNDExBaseURL(e){e?.trim()&&(this.ndexBaseURL=e.trim());}getNDExBaseURL(){return this.ndexBaseURL}setBasicAuth(e,t){e?.trim()&&t&&(this.authConfig={type:"basic",username:e.trim(),password:t});}setAuthToken(e){e?.trim()&&(this.authConfig={type:"oauth",idToken:e.trim()});}clearAuth(){this.authConfig=void 0;}cyRestURL(){return `${this.cyRestBaseURL}:${this._port}`}getAuthFields(){if(!this.authConfig)return {};switch(this.authConfig.type){case "basic":return {username:this.authConfig.username,password:this.authConfig.password};case "oauth":return {idToken:this.authConfig.idToken};default:return {}}}async _httpGet(e){return (await this.axiosInstance.get(e)).data}async _httpPost(e,t,r){return (await this.axiosInstance.post(e,r,{params:t})).data}async _httpPut(e,t,r){return (await this.axiosInstance.put(e,r,{params:t})).data}async getCyNDExStatus(){return this._httpGet("/cyndex2/v1")}async getCytoscapeNetworkSummary(e="current"){return this._httpGet(`/cyndex2/v1/networks/${e}`)}async postNDExNetworkToCytoscape(e,t,r){let s={serverUrl:`${this.ndexBaseURL}/v2`,uuid:e,accessKey:t,createView:r,...this.getAuthFields()};return this._httpPost("/cyndex2/v1/networks",void 0,s)}async postCXNetworkToCytoscape(e){return this._httpPost("/cyndex2/v1/networks/cx",void 0,e)}async postCX2NetworkToCytoscape(e,t,r){let s={format:"cx2",collection:r,title:t};return this._httpPost("/v1/networks",s,e)}async postCytoscapeNetworkToNDEx(e="current"){let t={serverUrl:`${this.ndexBaseURL}/v2`,...this.getAuthFields()};return this._httpPost(`/cyndex2/v1/networks/${e}`,void 0,t)}async putCytoscapeNetworkInNDEx(e="current",t){let r={serverUrl:`${this.ndexBaseURL}/v2`,uuid:t,...this.getAuthFields()};return this._httpPut(`/cyndex2/v1/networks/${e}`,void 0,r)}};var D=class{constructor(e={}){this.httpService=new h(e),this.networks=new l(this.httpService),this.files=new v(this.httpService),this.workspace=new w(this.httpService),this.user=new k(this.httpService),this.admin=new b(this.httpService);}logout(){this.httpService.updateConfig({auth:void 0});}async getServerStatus(e){let t=new URLSearchParams;e&&t.append("format",e);let r=`admin/status${t.toString()?`?${t.toString()}`:""}`;return this.httpService.get(r)}hasAuthInfo(){let e=this.httpService.getConfig().auth;return e?e.type==="basic"?!!e.username&&!!e.password:e.type==="oauth"?!!e.idToken:false:false}updateConfig(e){this.httpService.updateConfig(e);}getConfig(){return this.httpService.getConfig()}get http(){return this.httpService}get v2(){return {networks:this.networks.v2}}get v3(){return {networks:this.networks.v3}}},ve=R;
-export{b as AdminService,m as CX2Network,E as CyNDEx,E as CyNDExService,v as FilesService,h as HTTPService,C as NDExAuthError,D as NDExClient,p as NDExError,N as NDExNetworkError,P as NDExNotFoundError,S as NDExServerError,x as NDExValidationError,I as NetworkIndexLevel,f as NetworkServiceV2,y as NetworkServiceV3,l as UnifiedNetworkService,k as UserService,w as WorkspaceService,ve as version};//# sourceMappingURL=index.mjs.map
+import O from'axios';/* NDEx Client Library - Modern TypeScript implementation */
+var X=(a=>typeof require<"u"?require:typeof Proxy<"u"?new Proxy(a,{get:(e,t)=>(typeof require<"u"?require:e)[t]}):a)(function(a){if(typeof require<"u")return require.apply(this,arguments);throw Error('Dynamic require of "'+a+'" is not supported')});var $=(r=>(r.NONE="NONE",r.BASIC="BASIC",r.FULL="FULL",r))($||{}),g=class extends Error{constructor(t,r,s,i){super(t);this.statusCode=r;this.errorCode=s;this.description=i;this.name="NDExError";}},C=class extends g{constructor(t,r){super(t,void 0,"NETWORK_ERROR");this.originalError=r;this.name="NDExNetworkError";}},x=class extends g{constructor(e="Authentication failed",t=401){super(e,t,"AUTH_ERROR"),this.name="NDExAuthError";}},P=class extends g{constructor(e="Resource not found",t=404){super(e,t,"NOT_FOUND"),this.name="NDExNotFoundError";}},T=class extends g{constructor(e,t=400){super(e,t,"VALIDATION_ERROR"),this.name="NDExValidationError";}},E=class extends g{constructor(e="Internal server error",t=500){super(e,t,"SERVER_ERROR"),this.name="NDExServerError";}};var u={BASIC:"basic",OAUTH:"oauth"},M={PUBLIC:"PUBLIC",PRIVATE:"PRIVATE",UNLISTED:"UNLISTED"},_={READ:"READ",WRITE:"WRITE",ADMIN:"ADMIN"},W={NETWORK:"NETWORK",FOLDER:"FOLDER",SHORTCUT:"SHORTCUT"},H={DISCRETE:"DISCRETE",CONTINUOUS:"CONTINUOUS",PASSTHROUGH:"PASSTHROUGH"},q={STRING:"string",LONG:"long",INTEGER:"integer",DOUBLE:"double",BOOLEAN:"boolean",LIST_OF_STRING:"list_of_string",LIST_OF_LONG:"list_of_long",LIST_OF_INTEGER:"list_of_integer",LIST_OF_DOUBLE:"list_of_double",LIST_OF_BOOLEAN:"list_of_boolean"};var h=class a{constructor(e){this.CXVersion="2.0";this.hasFragments=false;this.metaData=[];e&&Object.assign(this,e),this.ensureRequiredMetadata();}static createEmpty(){let e=new a;return e.nodes=[],e.edges=[],e.metaData=[{name:"nodes",elementCount:0},{name:"edges",elementCount:0}],e}static fromJSON(e){let t=typeof e=="string"?JSON.parse(e):e;return new a(t)}static fromNetworkSummary(e){let t=a.createEmpty();return t.networkAttributes=[{name:e.name},...e.description?[{description:e.description}]:[],...e.version?[{version:e.version}]:[]],e.properties&&Object.entries(e.properties).forEach(([r,s])=>{t.networkAttributes?.push({[r]:s.v});}),t}addNode(e,t){this.nodes||(this.nodes=[]);let r={id:e};return t&&(r.v=t),this.nodes.push(r),this.updateNodeCount(),r}addEdge(e,t,r,s){this.edges||(this.edges=[]);let i={id:e,s:t,t:r};return s&&(i.v=s),this.edges.push(i),this.updateEdgeCount(),i}addNodeAttribute(e,t,r){let s=this.nodes?.find(i=>i.id===e);s&&(s.v||(s.v={}),s.v[t]=r);}addEdgeAttribute(e,t,r){let s=this.edges?.find(i=>i.id===e);s&&(s.v||(s.v={}),s.v[t]=r);}setNodeCoordinates(e,t,r,s){this.nodes||(this.nodes=[]);let i=this.nodes.find(n=>n.id===e);i||(i={id:e},this.nodes.push(i),this.updateNodeCount()),i.x=t,i.y=r,s!==void 0&&(i.z=s);}getNode(e){return this.nodes?.find(t=>t.id===e)}getEdge(e){return this.edges?.find(t=>t.id===e)}getNodes(){return this.nodes||[]}getEdges(){return this.edges||[]}getNodeCount(){return this.nodes?.length||0}getEdgeCount(){return this.edges?.length||0}getNetworkName(){return this.networkAttributes?.find(e=>"name"in e)?.name}setNetworkName(e){this.networkAttributes||(this.networkAttributes=[]),this.networkAttributes=this.networkAttributes.filter(t=>!("name"in t)),this.networkAttributes.push({name:e});}getNetworkAttribute(e){return this.networkAttributes?.find(t=>e in t)?.[e]}setNetworkAttribute(e,t){this.networkAttributes||(this.networkAttributes=[]),this.networkAttributes=this.networkAttributes.filter(r=>!(e in r)),this.networkAttributes.push({[e]:t});}validate(){let e=[];return this.CXVersion||e.push("CXVersion is required"),this.hasFragments===void 0&&e.push("hasFragments is required"),(!this.metaData||this.metaData.length===0)&&e.push("metaData is required and must not be empty"),this.metaData?.forEach((t,r)=>{t.name||e.push(`metaData[${r}] is missing required 'name' field`);}),this.nodes&&this.nodes.forEach((t,r)=>{(t.id===void 0||t.id===null)&&e.push(`nodes[${r}] is missing required 'id' field`);}),this.edges&&this.edges.forEach((t,r)=>{if((t.id===void 0||t.id===null)&&e.push(`edges[${r}] is missing required 'id' field`),(t.s===void 0||t.s===null)&&e.push(`edges[${r}] is missing required 's' (source) field`),(t.t===void 0||t.t===null)&&e.push(`edges[${r}] is missing required 't' (target) field`),this.nodes&&t.s!==void 0&&t.t!==void 0){let s=this.nodes.some(n=>n.id===t.s),i=this.nodes.some(n=>n.id===t.t);s||e.push(`edges[${r}] references non-existent source node ${t.s}`),i||e.push(`edges[${r}] references non-existent target node ${t.t}`);}}),{isValid:e.length===0,errors:e}}toJSON(){return JSON.stringify(this,null,2)}clone(){return new a(JSON.parse(this.toJSON()))}getStatistics(){return {nodeCount:this.getNodeCount(),edgeCount:this.getEdgeCount(),hasCoordinates:!!(this.nodes&&this.nodes.some(e=>e.x!==void 0||e.y!==void 0||e.z!==void 0)),hasVisualProperties:!!(this.visualProperties&&(this.visualProperties.default||this.visualProperties.edgeMapping||this.visualProperties.nodeMapping))}}ensureRequiredMetadata(){this.metaData||(this.metaData=[]),this.nodes&&!this.metaData.find(e=>e.name==="nodes")&&this.metaData.push({name:"nodes",elementCount:this.nodes.length}),this.edges&&!this.metaData.find(e=>e.name==="edges")&&this.metaData.push({name:"edges",elementCount:this.edges.length});}updateNodeCount(){let e=this.metaData?.find(t=>t.name==="nodes");e&&(e.elementCount=this.nodes?.length||0);}updateEdgeCount(){let e=this.metaData?.find(t=>t.name==="edges");e&&(e.elementCount=this.edges?.length||0);}};var f=class{constructor(e){this.http=e;}async getRawCX1Network(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`network/${e}${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2",headers:{Accept:"application/json"}})}async getNetworkSummary(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`network/${e}/summary${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async updateNetworkSummary(e,t){let r=`network/${e}/summary`;return this.http.put(r,t,{version:"v2"})}async copyNetwork(e){let t=`network/${e}/copy`;return this.http.post(t,{},{version:"v2"})}async searchNetworks(e,t,r,s){let i={};t!==void 0&&(i.start=t.toString()),r!==void 0&&(i.limit=r.toString());let n={searchString:e};return s!==void 0&&(s.permission!==void 0&&(n.permission=s.permission),s.includeGroups!==void 0&&(n.includeGroups=s.includeGroups),s.accountName!==void 0&&(n.accountName=s.accountName)),this.http.post("search/network",n,{version:"v2",params:i})}async createNetworkFromRawCX1(e,t={}){let i=(await this.http.post("network",e,{version:"v2",params:t})).split("/"),n=i[i.length-1];if(!n)throw new Error("Failed to extract UUID from response");return n}async updateNetworkFromRawCX1(e,t){let r=`network/${e}`;return this.http.put(r,t,{version:"v2"})}async deleteNetwork(e){let t=`network/${e}`;return this.http.delete(t,{version:"v2"})}async getNetworkSummariesByUUIDs(e,t){let r=t?{accesskey:t}:void 0;return this.http.post("batch/network/summary",e,{version:"v2",params:r})}async getUserNetworks(e,t={}){let r=new URLSearchParams;t.start!==void 0&&r.append("start",t.start.toString()),t.size!==void 0&&r.append("size",t.size.toString());let s=`user/${e}/networks${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async setNetworkSystemProperties(e,t){let r=`networks/${e}/systemproperty`;return this.http.put(r,t,{version:"v2"})}async getNetworkPermissions(e){let t=`networks/${e}/permission`;return this.http.get(t,{version:"v2"})}async setNetworkPermissions(e,t){let r=`networks/${e}/permission`;return this.http.put(r,t,{version:"v2"})}async grantNetworkPermission(e,t,r){let s=`networks/${e}/permission`,i={memberUUID:t,permission:r};return this.http.post(s,i,{version:"v2"})}async revokeNetworkPermission(e,t){let r=`networks/${e}/permission`;return this.http.delete(r,{version:"v2",data:{memberUUID:t}})}async getNetworkProfile(e){let t=`networks/${e}/profile`;return this.http.get(t,{version:"v2"})}async setNetworkProfile(e,t){let r=`networks/${e}/profile`;return this.http.put(r,t,{version:"v2"})}async makeNetworkPublic(e){let t=`networks/${e}/systemproperty`,r={visibility:"PUBLIC"};return this.http.put(t,r,{version:"v2"})}async makeNetworkPrivate(e){let t=`networks/${e}/systemproperty`,r={visibility:"PRIVATE"};return this.http.put(t,r,{version:"v2"})}async getNetworkSample(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}/sample${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async getMetaData(e,t){let r=new URLSearchParams;t!==void 0&&r.append("accesskey",t);let s=`network/${e}/aspect${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v2"})}async getAccessKey(e){let t=`networks/${e}/accesskey`;return this.http.get(t,{version:"v2"})}async updateAccessKey(e,t){let r=`networks/${e}/accesskey`;return this.http.put(r,{action:t},{version:"v2"})}};var y=class{constructor(e){this.http=e;}async getNetworkSummary(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}/summary${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v3"})}async getRawCX2Network(e,t={}){let r=new URLSearchParams;t.accesskey&&r.append("accesskey",t.accesskey);let s=`networks/${e}${r.toString()?`?${r.toString()}`:""}`;return this.http.get(s,{version:"v3"})}async getAttributesOfSelectedNodes(e,t,r={}){let s=new URLSearchParams;r.accesskey&&s.append("accesskey",r.accesskey);let i={ids:t.ids,attributeNames:t.attributeNames},n=`search/networks/${e}/nodes${s.toString()?`?${s.toString()}`:""}`;return this.http.post(n,i,{version:"v3"})}async getNetworkSummariesV3ByUUIDs(e,t,r){let s={format:r===void 0?"FULL":r};return t!=null&&(s.accesskey=t),this.http.post("batch/networks/summary",e,{version:"v3",params:s})}async searchNetworks(e={}){let t=new URLSearchParams;e.searchString&&t.append("searchString",e.searchString),e.accountName&&t.append("accountName",e.accountName),e.permission&&t.append("permission",e.permission),e.includeGroups!==void 0&&t.append("includeGroups",e.includeGroups.toString()),e.admin&&t.append("admin",e.admin),e.start!==void 0&&t.append("start",e.start.toString()),e.size!==void 0&&t.append("size",e.size.toString()),e.source&&t.append("source",e.source);let r=`search/network${t.toString()?`?${t.toString()}`:""}`;return this.http.get(r,{version:"v3"})}async getNetworkAsCX2Object(e,t={}){let r=await this.getRawCX2Network(e,t);return new h(r)}async createNetworkFromCX2(e,t={}){let r="networks",s=e instanceof h?JSON.parse(e.toJSON()):e;return this.http.post(r,s,{version:"v3",params:t})}async updateNetworkCX2(e,t){let r=`networks/${e}`,s=t instanceof h?JSON.parse(t.toJSON()):t;return this.http.put(r,s,{version:"v3"})}async uploadCX2Network(e,t={}){let r={};if(t.visibility!==void 0&&(r.visibility=String(t.visibility)),t.folderId!==void 0&&(r.folderId=t.folderId),typeof globalThis.window>"u"){let p;try{p=X("form-data");}catch{p=null;}if(p){let c=new p;if((m=>m&&typeof m=="object"&&typeof m.pipe=="function")(e))c.append("CXNetworkStream",e,{filename:"network.cx2",contentType:"application/json"});else if(typeof globalThis.Buffer<"u"&&globalThis.Buffer.isBuffer(e))c.append("CXNetworkStream",e,{filename:"network.cx2",contentType:"application/json"});else if(typeof e=="string")c.append("CXNetworkStream",globalThis.Buffer.from(e),{filename:"network.cx2",contentType:"application/json"});else if(typeof globalThis.Blob<"u"&&e instanceof globalThis.Blob){let m=await e.arrayBuffer();c.append("CXNetworkStream",globalThis.Buffer.from(m),{filename:"network.cx2",contentType:e.type||"application/json"});}else c.append("CXNetworkStream",globalThis.Buffer.from(String(e)),{filename:"network.cx2",contentType:"application/json"});let S={version:"v3",params:r,headers:c.getHeaders?.()||{},maxBodyLength:1/0};return this.http.post("networks",c,S)}if((c=>c&&typeof c=="object"&&typeof c.pipe=="function")(e))throw new Error("Readable stream upload requires 'form-data' package. Please install 'form-data' or pass a string/Buffer/Blob instead.")}let i=new FormData,n=typeof globalThis.File<"u",o=typeof globalThis.Blob<"u";if(n&&e instanceof globalThis.File)i.append("CXNetworkStream",e,e.name||"network.cx2");else if(o&&e instanceof globalThis.Blob)i.append("CXNetworkStream",e,"network.cx2");else if(typeof e=="string"){let p=new Blob([e],{type:"application/json"});i.append("CXNetworkStream",p,"network.cx2");}else if(typeof globalThis.Buffer<"u"&&globalThis.Buffer.isBuffer(e)){let p=new Blob([e],{type:"application/json"});i.append("CXNetworkStream",p,"network.cx2");}else {let p=new Blob([String(e)],{type:"application/json"});i.append("CXNetworkStream",p,"network.cx2");}let d={version:"v3",params:r};return t.onProgress&&(d.onUploadProgress=p=>{let l=Math.round(p.loaded*100/(p.total||1));t.onProgress(l);}),this.http.post("networks",i,d)}async uploadNetworkFile(e,t={}){let r={};return t.visibility!==void 0&&(r.visibility=t.visibility),t.folderId!==void 0&&(r.folderId=t.folderId),t.onProgress&&(r.onProgress=t.onProgress),this.uploadCX2Network(e,r)}async getNetworkMetadata(e){let t=`networks/${e}/metadata`;return this.http.get(t,{version:"v3"})}async updateNetworkMetadata(e,t){let r=`networks/${e}/metadata`;return this.http.put(r,t,{version:"v3"})}async getNetworkAspect(e,t,r={}){let s=new URLSearchParams;r.accesskey&&s.append("accesskey",r.accesskey);let i=`networks/${e}/aspects/${t}${s.toString()?`?${s.toString()}`:""}`;return this.http.get(i,{version:"v3"})}async deleteNetwork(e,t=false){let r=new URLSearchParams;r.append("permanent",t.toString());let s=`networks/${e}?${r.toString()}`;return this.http.delete(s,{version:"v3"})}};var v=class{constructor(e){this.http=e;this.v2Service=new f(e),this.v3Service=new y(e);}async getNetworkSummary(e,t={}){return this.v3Service.getNetworkSummary(e,t)}async updateNetworkSummary(e,t){let r=this.transformV3ToV2(t);return this.v2Service.updateNetworkSummary(e,r)}transformV3ToV2(e){let{properties:t,...r}=e,s,i=[];if(t)for(let[o,d]of Object.entries(t))o==="version"?s=this.convertValueToString(d.v):i.push({predicateString:o,value:this.convertValueToString(d.v),dataType:d.t});let n={...r,properties:i};return s!==void 0&&(n.version=s),n}convertValueToString(e){return Array.isArray(e)?e.map(t=>String(t)).join(","):String(e)}async getRawCX1Network(e,t={}){return this.v2Service.getRawCX1Network(e,t)}async getRawCX2Network(e,t={}){return this.v3Service.getRawCX2Network(e,t)}async deleteNetwork(e,t=false){return this.v3Service.deleteNetwork(e,t)}async createNetworkDOI(e){let t="admin/request",r={type:"DOI",networkId:e.networkId,properties:{contactEmail:e.contactEmail},isCertified:e.isCertified};return this.http.post(t,r,{version:"v2"})}async getAttributesOfSelectedNodes(e,t,r={}){return this.v3Service.getAttributesOfSelectedNodes(e,t,r)}async neighborhoodQuery(e,t,r,s,i=false){let n={};r!==void 0&&r===true&&(n.save="true");let o={searchString:t,searchDepth:1};if(s!==void 0&&(s.searchDepth!==void 0&&(o.searchDepth=s.searchDepth),s.edgeLimit!==void 0&&(o.edgeLimit=s.edgeLimit),s.errorWhenLimitIsOver!==void 0&&(o.errorWhenLimitIsOver=s.errorWhenLimitIsOver),s.directOnly!==void 0&&(o.directOnly=s.directOnly),s.nodeIds!=null&&(o.nodeIds=s.nodeIds)),i){let p=`search/network/${e}/query`;return this.http.post(p,o,{version:"v3",params:n})}let d=`search/network/${e}/query`;return this.http.post(d,o,{version:"v2",params:n})}async interConnectQuery(e,t,r,s,i=false){let n={};r!==void 0&&r===true&&(n.save="true");let o={searchString:t};if(s!==void 0&&(s.edgeLimit!==void 0&&(o.edgeLimit=s.edgeLimit),s.errorWhenLimitIsOver!==void 0&&(o.errorWhenLimitIsOver=s.errorWhenLimitIsOver),s.nodeIds!=null&&(o.nodeIds=s.nodeIds)),i){let p=`search/networks/${e}/interconnectquery`;return this.http.post(p,o,{version:"v3",params:n})}let d=`search/network/${e}/interconnectquery`;return this.http.post(d,o,{version:"v2",params:n})}async getNetworkPermissionsByUUIDs(e){return this.http.post("batch/network/permission",e,{version:"v2"})}async exportNetworks(e){return this.http.post("batch/network/export",e,{version:"v2"})}async moveNetworks(e,t){if(!Array.isArray(e))throw new Error("Invalid networkIds - must be an array");let r="batch/networks/move",s={targetFolder:t!==void 0?t:null,networks:e};return this.http.post(r,s,{version:"v3"})}async setNetworksVisibility(e,t){this.validateShareData(e);let r="batch/files/setvisibility",s={files:e,visibility:t};return this.http.post(r,s,{version:"v3"})}async getNetworkAccessKey(e){let t=`network/${e}/accesskey`;return this.http.get(t,{version:"v2"})}async getRandomEdges(e,t,r){if(t<=0)throw new Error("Value of parameter limit has to be greater than 0.");let s={size:t.toString(),method:"random"};r!==void 0&&(s.accesskey=r);let i=`networks/${e}/aspects/edges`;return this.http.get(i,{version:"v3",params:s})}validateShareData(e){for(let t of Object.keys(e.files))if(!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(t))throw new Error(`Invalid UUID format: ${t}`)}async getAspectElements(e,t,r,s){let i={};r!==void 0&&(i.size=r.toString()),s!==void 0&&(i.accesskey=s);let n=`networks/${e}/aspects/${t}`;return this.http.get(n,{version:"v3",params:i})}async getFilteredEdges(e,t,r,s,i,n,o,d){let p={};i!==void 0&&(p.size=i.toString()),n!==void 0&&(p.order=n),d!==void 0&&(p.accesskey=d),o!==void 0&&(p.format=o);let l={name:t,value:r,operator:s},c=`search/networks/${e}/edges`;return this.http.post(c,l,{version:"v3",params:p})}async getCX2MetaData(e,t){let r={};t!==void 0&&(r.accesskey=t);let s=`networks/${e}/aspects`;return this.http.get(s,{version:"v3",params:r})}async createNetworkFromRawCX2(e,t={}){return this.v3.createNetworkFromCX2(e,t)}async updateNetworkFromRawCX2(e,t){let r=`networks/${e}`;return this.http.put(r,t,{version:"v3"})}async setReadOnly(e,t){let r=`network/${e}/systemproperty`;return this.http.put(r,{readOnly:t},{version:"v2"})}get v2(){return this.v2Service}get v3(){return this.v3Service}};var b=class{constructor(e){this.http=e;}copyFile(e){if(e.type==="FOLDER")throw new Error("Folder copying is not supported. Only NETWORK and SHORTCUT types are allowed.");let t={};return e.accessKey!==void 0&&(t.accesskey=e.accessKey),this.http.post("files/copy",{fileId:e.fileId,type:e.type,targetId:e.targetId},{params:t,version:"v3"})}getCount(){return this.http.get("files/count",{version:"v3"})}getTrash(){return this.http.get("files/trash",{version:"v3"})}emptyTrash(){return this.http.delete("files/trash",{version:"v3"})}permanentlyDeleteFile(e){return this.http.delete(`files/trash/${e}`,{version:"v3"})}restoreFile(e,t,r){return this.http.post("files/trash/restore",{networks:e,folders:t,shortcuts:r},{version:"v3"})}_validateShareData(e){if(typeof e!="object"||e===null||e.files===void 0)throw new Error('Data must be an object with a "files" property');if(typeof e.files!="object"||e.files===null)throw new Error('The "files" property must be an object');let t=["NETWORK","FOLDER","SHORTCUT"];for(let[r,s]of Object.entries(e.files)){if(!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(r))throw new Error(`Invalid UUID format: ${r}`);if(!t.includes(s))throw new Error(`Invalid file type for ${r}: ${s}. Must be one of: ${t.join(", ")}`)}}_validateMemberData(e){for(let t of Object.keys(e.members))if(typeof t!="string"||!/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i.test(t))throw new Error(`Invalid UUID format: ${t}`)}updateMember(e){return this._validateShareData({files:e.files}),this._validateMemberData({members:e.members}),this.http.post("files/sharing/members",{files:e.files,members:e.members},{version:"v3"})}listMembers(e){return this._validateShareData({files:e}),this.http.post("files/sharing/members/list",e,{version:"v3"})}transferOwnership(e){return this.http.post("files/sharing/transfer",e,{version:"v3"})}listShares(e){let t={};return e!==void 0&&(t.limit=e),this.http.get("files/sharing/list",{params:t,version:"v3"})}share(e){return this._validateShareData({files:e}),this.http.post("files/sharing/share",{files:e},{version:"v3"})}unshare(e){return this._validateShareData({files:e}),this.http.post("files/sharing/unshare",{files:e},{version:"v3"})}getFolders(e){let t={};return e!==void 0&&(t.limit=e),this.http.get("files/folders",{params:t,version:"v3"})}createFolder(e,t){return this.http.post("files/folders",{name:e,parent:t},{version:"v3"})}getFolder(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/folders/${e}`,{params:r,version:"v3"})}updateFolder(e,t){return this.http.put(`files/folders/${e}`,t,{version:"v3"})}deleteFolder(e){return this.http.delete(`files/folders/${e}`,{version:"v3"})}getFolderCount(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/folders/${e}/count`,{params:r,version:"v3"})}getFolderList(e,t,r,s){let i={};return t!==void 0&&(i.accesskey=t),r!==void 0&&(i.format=r),s!==void 0&&(i.type=s),this.http.get(`files/folders/${e}/list`,{params:i,version:"v3"})}getFolderAccessKey(e){let t=`files/folders/${e}/accesskey`;return this.http.get(t,{version:"v3"})}getShortcuts(e){let t={};return e!==void 0&&(t.limit=e),this.http.get("files/shortcuts",{params:t,version:"v3"})}createShortcut(e){return this.http.post("files/shortcuts",e,{version:"v3"})}getShortcut(e,t){let r={};return t!==void 0&&(r.accesskey=t),this.http.get(`files/shortcuts/${e}`,{params:r,version:"v3"})}updateShortcut(e,t){return this.http.put(`files/shortcuts/${e}`,{...t,parent:t.parent??null},{version:"v3"})}deleteShortcut(e){return this.http.delete(`files/shortcuts/${e}`,{version:"v3"})}setVisibility(e){return this.http.post("batch/files/setvisibility",{files:e.files,visibility:e.visibility},{version:"v3"})}searchFiles(e){return this.http.post("search/files",e,{version:"v3"})}};var w=class{constructor(e){this.http=e;}async createCyWebWorkspace(e){return this.http.post("workspaces",e,{version:"v3"})}async getCyWebWorkspace(e){let t=`workspaces/${e}`;return this.http.get(t,{version:"v3"})}async deleteCyWebWorkspace(e){let t=`workspaces/${e}`;return this.http.delete(t,{version:"v3"})}async updateCyWebWorkspace(e,t){let r=`workspaces/${e}`;return this.http.put(r,t,{version:"v3"})}async updateCyWebWorkspaceName(e,t){let r=`workspaces/${e}/name`;return this.http.put(r,{name:t},{version:"v3"})}async updateCyWebWorkspaceNetworks(e,t){let r=`workspaces/${e}/networkids`;return this.http.put(r,t,{version:"v3"})}async getUserCyWebWorkspaces(){let t=`users/${(await this.http.get("user",{params:{valid:true}})).externalId}/workspaces`;return this.http.get(t,{version:"v3"})}};var k=class{constructor(e){this.http=e;}async authenticate(){let e=this.http.getAuthType();if(!e)throw new Error("Authentication parameters are missing in NDEx client.");if(e===u.BASIC){let t="user",r={valid:true};return this.http.get(t,{params:r})}else if(e===u.OAUTH){let t=this.http.getIdToken();if(!t)throw new Error("OAuth ID token is missing.");let r="users/signin",s={idToken:t};return this.http.post(r,s,{version:"v3"})}throw new Error(`Unsupported authentication type: ${e}`)}async getCurrentUser(){if(!this.http.getAuthType())throw new Error("Authentication parameters are missing in NDEx client.");let t="user",r={valid:true};return this.http.get(t,{params:r})}async updateCurrentUser(e){if(!e.externalId)throw new Error("User uuid is required in userUpdate object");let t=`user/${e.externalId}`;return this.http.put(t,e)}async requestPasswordReset(e){return this.http.post("user/forgot-password",{email:e})}async resetPassword(e,t){let r=`user/${e}/password`,s={headers:{"Content-Type":"text/plain"}};return this.http.put(r,t,s)}async getUser(e){let t=`user/${e}`;return this.http.get(t)}async getUserByNameOrEmail(e){let t=new URLSearchParams;"username"in e?t.append("username",e.username):"email"in e&&t.append("email",e.email);let r=`user?${t.toString()}`;return this.http.get(r)}async getUsersByUUIDs(e){return this.http.post("batch/user",e)}async searchUsers(e,t,r){let s={};t!==void 0&&(s.start=t.toString()),r!==void 0&&(s.limit=r.toString());let i={searchString:e};return this.http.post("search/user",i,{params:s})}async getAccountPageNetworks(e,t,r){let s={};t!==void 0&&(s.offset=t.toString()),r!==void 0&&(s.limit=r.toString());let i=`user/${e}/networksummary`;return this.http.get(i,{params:s})}async getUserHomeContent(e,t="update"){let r={format:t},s=`users/${e}/home`;return this.http.get(s,{params:r,version:"v3"})}async deleteUserAccount(e){let t=`user/${e}`;return this.http.delete(t)}};var N=class{constructor(){}};var R=class{constructor(e=1234,t){this._port=e,this.cyRestBaseURL=t?.cyRestBaseURL||"http://127.0.0.1",this.ndexBaseURL=t?.ndexBaseURL||"https://www.ndexbio.org",this.axiosInstance=O.create({baseURL:this.cyRestURL(),timeout:3e4,headers:{"Content-Type":"application/json"}});}get port(){return this._port}static get cyRestBaseURL(){return "http://127.0.0.1"}setNDExBaseURL(e){e?.trim()&&(this.ndexBaseURL=e.trim());}getNDExBaseURL(){return this.ndexBaseURL}setBasicAuth(e,t){e?.trim()&&t&&(this.authConfig={type:u.BASIC,username:e.trim(),password:t});}setAuthToken(e){e?.trim()&&(this.authConfig={type:u.OAUTH,idToken:e.trim()});}clearAuth(){delete this.authConfig;}cyRestURL(){return `${this.cyRestBaseURL}:${this._port}`}getAuthFields(){if(!this.authConfig)return {};switch(this.authConfig.type){case u.BASIC:return {username:this.authConfig.username,password:this.authConfig.password};case u.OAUTH:return {idToken:this.authConfig.idToken};default:return {}}}async _httpGet(e){return (await this.axiosInstance.get(e)).data}async _httpPost(e,t,r){return (await this.axiosInstance.post(e,r,{params:t})).data}async _httpPut(e,t,r){return (await this.axiosInstance.put(e,r,{params:t})).data}async getCyNDExStatus(){return this._httpGet("/cyndex2/v1")}async getCytoscapeNetworkSummary(e="current"){return this._httpGet(`/cyndex2/v1/networks/${e}`)}async postNDExNetworkToCytoscape(e,t,r){let s={serverUrl:`${this.ndexBaseURL}/v2`,uuid:e,...this.getAuthFields()};return t!==void 0&&(s.accessKey=t),r!==void 0&&(s.createView=r),this._httpPost("/cyndex2/v1/networks",void 0,s)}async postCXNetworkToCytoscape(e){return this._httpPost("/cyndex2/v1/networks/cx",void 0,e)}async postCX2NetworkToCytoscape(e,t,r){let s={format:"cx2",collection:r,title:t};return this._httpPost("/v1/networks",s,e)}async postCytoscapeNetworkToNDEx(e="current"){let t={serverUrl:`${this.ndexBaseURL}/v2`,...this.getAuthFields()};return this._httpPost(`/cyndex2/v1/networks/${e}`,void 0,t)}async putCytoscapeNetworkInNDEx(e="current",t){let r={serverUrl:`${this.ndexBaseURL}/v2`,uuid:t,...this.getAuthFields()};return this._httpPut(`/cyndex2/v1/networks/${e}`,void 0,r)}};var D="0.6.0-alpha.3";var A=class{constructor(e={}){this.config={baseURL:"https://www.ndexbio.org",timeout:3e4,retries:3,retryDelay:1e3,debug:false,...e};let t={...this.config.headers,...this.getAuthHeaders()};typeof window>"u"&&(t["User-Agent"]=`NDEx-JS-Client/${D}`);let r={headers:t};this.config.baseURL&&(r.baseURL=this.config.baseURL),this.config.timeout&&(r.timeout=this.config.timeout),this.axiosInstance=O.create(r),this.setupInterceptors();}getAuthHeaders(){if(!this.config.auth)return {};if(this.config.auth.type===u.BASIC){let e=`${this.config.auth.username}:${this.config.auth.password}`;return {Authorization:`Basic ${typeof window<"u"&&typeof btoa<"u"?btoa(e):Buffer.from(e,"utf-8").toString("base64")}`}}else if(this.config.auth.type===u.OAUTH)return {Authorization:`Bearer ${this.config.auth.idToken}`};return {}}buildUrl(e,t="v2"){let r=e.startsWith("/")?e.slice(1):e;return `/${t}/${r}`}async get(e,t){let{version:r,...s}=t||{},i=this.buildUrl(e,r);try{let n=await this.axiosInstance.get(i,s);return this.handleResponse(n)}catch(n){this.handleError(n);}}async post(e,t,r){let{version:s,...i}=r||{},n=this.buildUrl(e,s);try{let o=await this.axiosInstance.post(n,t,i);return this.handleResponse(o)}catch(o){this.handleError(o);}}async put(e,t,r){let{version:s,...i}=r||{},n=this.buildUrl(e,s);try{let o=await this.axiosInstance.put(n,t,i);return this.handleResponse(o)}catch(o){this.handleError(o);}}async delete(e,t){let{version:r,...s}=t||{},i=this.buildUrl(e,r);try{let n=await this.axiosInstance.delete(i,s);return this.handleResponse(n)}catch(n){this.handleError(n);}}async uploadFile(e,t,r={}){let{version:s,onProgress:i,contentType:n}=r,o=this.buildUrl(e,s),d=new FormData,p=typeof globalThis.File<"u",l=typeof globalThis.Blob<"u";if(p&&t instanceof globalThis.File)d.append("file",t,t.name);else if(l&&t instanceof globalThis.Blob)d.append("file",t,"file.cx2");else if(typeof t=="string"){let c=new Blob([t],{type:n||"application/json"});d.append("file",c,"file.cx2");}else if(typeof globalThis.Buffer<"u"&&globalThis.Buffer.isBuffer(t)){let c=new Blob([t],{type:n||"application/octet-stream"});d.append("file",c,"file.cx2");}else {let c=new Blob([String(t)],{type:n||"application/octet-stream"});d.append("file",c,"file.cx2");}try{let c={};i&&(c.onUploadProgress=S=>{let m=Math.round(S.loaded*100/(S.total||1));i(m);});let I=await this.axiosInstance.post(o,d,c);return this.handleResponse(I)}catch(c){this.handleError(c);}}setupInterceptors(){this.axiosInstance.interceptors.request.use(e=>(this.config.debug&&console.log("NDEx API Request:",{method:e.method?.toUpperCase(),url:e.url,headers:e.headers}),e),e=>(this.config.debug&&console.error("NDEx API Request Error:",e),Promise.reject(e))),this.axiosInstance.interceptors.response.use(e=>(this.config.debug&&console.log("NDEx API Response:",{status:e.status,url:e.config.url,data:e.data}),e),e=>(this.config.debug&&console.error("NDEx API Response Error:",e.response?.data||e.message),Promise.reject(e)));}handleResponse(e){return e.data&&typeof e.data=="object"&&"errorCode"in e.data&&this.throwNDExError(e.data.message||"Unknown error occurred",e.status,e.data.errorCode||"UNKNOWN_ERROR",e.data.description),e.data&&typeof e.data=="object"&&"data"in e.data?e.data.data:e.data}handleError(e){if(e.response){let t=e.response.data?.message||e.message,r=e.response.data?.errorCode||`HTTP_${e.response.status}`,s=e.response.data?.description;this.throwNDExError(t,e.response.status,r,s);}else throw e.request?new C("Network error - no response received",e):new g(e.message||"Unknown error occurred",void 0,"CLIENT_ERROR",e.toString())}throwNDExError(e,t,r,s){switch(t){case 400:throw new T(e,t);case 401:case 403:throw new x(e,t);case 404:throw new P(e,t);case 500:case 502:case 503:case 504:throw new E(e,t);default:throw new g(e,t,r,s)}}updateConfig(e){if(this.config={...this.config,...e},e.baseURL&&(this.axiosInstance.defaults.baseURL=e.baseURL),e.timeout&&(this.axiosInstance.defaults.timeout=e.timeout),e.headers&&Object.assign(this.axiosInstance.defaults.headers,e.headers),"auth"in e){let t=this.getAuthHeaders();delete this.axiosInstance.defaults.headers.common.Authorization,Object.assign(this.axiosInstance.defaults.headers.common,t);}}getConfig(){return {...this.config}}getAuthType(){return this.config.auth?.type}getIdToken(){return this.config.auth?.type===u.OAUTH?this.config.auth.idToken:void 0}setIdToken(e){this.updateConfig({auth:{type:u.OAUTH,idToken:e}});}};var U=class{constructor(e={}){this.httpService=new A(e),this.networks=new v(this.httpService),this.files=new b(this.httpService),this.workspace=new w(this.httpService),this.user=new k(this.httpService),this.admin=new N;}logout(){this.httpService.updateConfig({});}async getServerStatus(e){let t=new URLSearchParams;e&&t.append("format",e);let r=`admin/status${t.toString()?`?${t.toString()}`:""}`;return this.httpService.get(r)}hasAuthInfo(){let e=this.httpService.getConfig().auth;return e?e.type===u.BASIC?!!e.username&&!!e.password:e.type===u.OAUTH?!!e.idToken:false:false}updateConfig(e){this.httpService.updateConfig(e);}getConfig(){return this.httpService.getConfig()}getAuthType(){return this.httpService.getAuthType()}setIdToken(e){this.httpService.setIdToken(e);}get v2(){return {networks:this.networks.v2}}get v3(){return {networks:this.networks.v3}}},Re=D;
+export{N as AdminService,u as AuthType,h as CX2Network,q as CXDataType,R as CyNDEx,R as CyNDExService,b as FilesService,x as NDExAuthError,U as NDExClient,g as NDExError,W as NDExFileType,C as NDExNetworkError,P as NDExNotFoundError,E as NDExServerError,T as NDExValidationError,$ as NetworkIndexLevel,f as NetworkServiceV2,y as NetworkServiceV3,_ as Permission,v as UnifiedNetworkService,k as UserService,H as VPMappingType,M as Visibility,w as WorkspaceService,Re as version};//# sourceMappingURL=index.mjs.map
 //# sourceMappingURL=index.mjs.map