graphdb-workbench 3.0.1 → 3.1.0-TR1

package/dist/115.ac35f5b097e10c44c52d.bundle.js

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g=angular.module("graphdb.framework.impex.import.controllers",["ui.bootstrap","toastr","graphdb.framework.core.services.repositories","graphdb.framework.utils.localstorageadapter","graphdb.framework.utils.uriutils","graphdb.framework.guides.services","graphdb.framework.rest.import.service","graphdb.framework.rest.upload.service","graphdb.framework.import.services.importcontext","graphdb.framework.impex.import.controllers.tab","graphdb.framework.impex.import.controllers.settings-modal","graphdb.framework.impex.import.controllers.import-url","graphdb.framework.impex.import.controllers.import-text-snippet","graphdb.framework.impex.import.controllers.file-override-confirmation"]),v={IMPORT:"import",BATCH_IMPORT:"batch_import",IMPORT_SNIPPET:"import_snippet",IMPORT_URL:"import_url",UPLOAD:"upload"},y="file",b="text",h="url";g.controller("ImportViewCtrl",["$scope","toastr","$interval","$repositories","$uibModal","$filter","$jwtAuth","$location","$translate","LicenseRestService","GuidesService","ModalService","ImportRestService","ImportContextService",function(t,e,r,s,l,d,g,y,b,h,S,I,R,F){var T=[],U=null,w=void 0;t.files=[],t.fileChecked={},t.activeTabId=F.getActiveTabId(),t.popoverTemplateUrl="settingsPopoverTemplate.html",t.fileFormatsExtended=i.FileFormats.getFileFormatsExtended(),t.fileFormatsHuman=i.FileFormats.getFileFormatsHuman()+b.instant("import.gz.zip"),t.textFileFormatsHuman=i.FileFormats.getTextFileFormatsHuman(),t.maxUploadFileSizeBytes=0,t.SORTING_TYPES=p.SortingType,t.TAB_IDS=n.TABS,t.toTitleCase=function(t){return a.toTitleCase(t)},t.setSettingsFor=function(e,r,n,i){var a=arguments.length>4&&void 0!==arguments[4]?arguments[4]:function(){};P(e,r).then((function(r){t.settingsFor=e,t.settings=r,""===e||"application/ld+json"===n||"application/x-ld+ndjson"===n||e.endsWith("jsonld")||e.endsWith("zip")||e.endsWith("gz")||"directory"===t.settings.type?t.settings.hasContextLink=!0:t.settings.hasContextLink=!1;var s=_.cloneDeep(t.settings),c={templateUrl:"js/angular/import/templates/settingsModal.html",controller:"SettingsModalController",windowClass:"import-settings-modal",resolve:{dialogModel:function(){return{operation:i,settings:_.cloneDeep(t.settings),hasParserSettings:t.isLocalLocation,defaultSettings:s,isMultiple:!e,activeTab:t.activeTabId}}},size:"lg"};S.isActive()&&(c.backdrop="static",c.keyboard=!1),l.open(c).result.then((function(e){if(t.currentFiles&&e.action===o.SettingsModalActions.UPLOAD_AND_IMPORT){var r=Object(u.filesToImportResource)(t.currentFiles,f.ImportResourceStatus.UPLOADING);F.updateResourcesForUpload(r)}t.settings=e.settings,""===t.settingsFor?t.importSelected():t.importFile(t.settingsFor,!0)}),(function(e){if(t.settings=e.settings,e.action===o.SettingsModalActions.CANCEL&&(t.currentFiles=[],i===v.UPLOAD&&(t.files=[])),t.currentFiles&&e.action===o.SettingsModalActions.UPLOAD_ONLY){var 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o=r.importResource;(t.activeTabId===n.TABS.USER?R.stopUserDataImport:R.stopServerImport)(s.getActiveRepository(),{name:o.name,type:o.type}).success((function(){t.updateList()})).error((function(t){e.warning(b.instant("import.error.could.not.stop",{data:getError(t)}))}))},t.onRemove=function(t){var e=t.map((function(t){return t.name}));A(e)},t.onReset=function(t){D(t,!1)},t.importAll=function(e,r){if(r)t.importSelected(e,r);else{var n="";1===e.length&&(n=e[0].importResource.name),t.setSettingsFor(n,r,void 0,v.BATCH_IMPORT)}},t.onEditResource=function(e){e.importResource.isText()&&t.openTextSnippetDialog(e.importResource)};var E=function(){return w=void 0,t.canWriteActiveRepo()?R.getDefaultSettings(s.getActiveRepository()).success((function(t){return w=t})).error((function(t){e.warning(b.instant("import.error.default.settings",{data:getError(t)}))})):Promise.resolve(w)},x=function(){return F.getSelectedFilesNames()},O=function(){return t.currentFiles.filter((function(t){return 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n=_.find(e,_.matches({name:r.name}));r.status&&n&&_.assign(r,n),r.type||(r.type=t.defaultType)})),r&&n.TABS.USER===t.activeTabId&&(t.files=_.filter(t.files,(function(t){return void 0!==t.status})),F.updateFiles(t.files)),t.savedSettings=_.mapKeys(_.filter(t.files,"parserSettings"),"name"))})).error((function(t){e.warning(b.instant("import.error.could.not.get.files",{data:getError(t)}))}))};var D=function(r,o){!r||r.length<1||(t.activeTabId===n.TABS.USER?R.resetUserDataStatus:R.resetServerFileStatus)(s.getActiveRepository(),r,o).success((function(){t.updateList(!0)})).error((function(t){e.warning(b.instant("import.error.could.not.clear",{data:getError(t)}))}))},j=function(){T.forEach((function(t){return t()}))},L=function(e){t.activeTabId=e,F.updateImportedResources([]),F.updateResourcesForUpload([]),F.updateShowLoader(!0),t.updateListHttp(!0).finally((function(){return F.updateShowLoader(!1)}))};t.importViewControllerInit=function(){T.push(t.$on("repositoryIsSet",t.onRepositoryChange)),T.push(t.$on("$destroy",(function(){return r.cancel(U)}))),T.push(F.onActiveTabIdUpdated((function(t){return L(t)}))),t.$on("$destroy",j),h.getInfo().success((function(e){t.appData={},t.appData.properties={};for(var r=0;r<e.length;r++)t.appData.properties[e[r].key]={source:e[r].source,value:e[r].value};t.maxUploadFileSizeBytes=t.appData.properties["graphdb.workbench.maxUploadSize"].value})).error((function(t){var r=getError(t);e.error(r,b.instant("common.error"))})),E(),U=r((function(){t.updating||t.updateList(!1)}),4e3),L(F.getActiveTabId())}}]),g.controller("ImportCtrl",["$scope","toastr","$controller","$translate","$repositories","ImportRestService","ImportContextService",function(t,e,r,o,i,a,s){t.columnKeys={name:"import.import_resource_tree.header.name",size:"import.import_resource_tree.header.size",modified:"import.import_resource_tree.header.modified",imported:"import.import_resource_tree.header.imported",context:"import.import_resource_tree.header.context"},angular.extend(this,r("ImportViewCtrl",{$scope:t})),t.defaultType="server",t.tabId="#import-server",t.importSelected=function(t){u(s.getSelectedFilesNames(),t)},t.importFile=function(t){u([t])};var u=function(r,n){t.canWriteActiveRepo()&&a.importServerFiles(i.getActiveRepository(),{importSettings:n?null:t.settings,fileNames:r}).success((function(){t.updateList(),t.fileChecked={}})).error((function(t){e.error(o.instant("import.could.not.send.file",{data:getError(t)}))}))};n.TABS.SERVER===s.getActiveTabId()&&t.importViewControllerInit()}]),g.controller("UploadCtrl",["$scope","toastr","$controller","$uibModal","$translate","$repositories","ImportRestService","UploadRestService","ModalService","ImportContextService","EventEmitterService","$filter",function(t,e,r,o,i,a,u,c,p,d,g,S){var I=new l.FilePrefixRegistry,R=[];t.columnKeys={name:"import.import_resource_tree.header.name",size:"import.import_resource_tree.header.size",modified:"import.import_resource_tree.header.uploaded",imported:"import.import_resource_tree.header.imported",context:"import.import_resource_tree.header.context"},angular.extend(this,r("ImportViewCtrl",{$scope:t})),t.defaultType=y,t.tabId="#import-user",t.currentFiles=[];var F=!1;t.pastedDataIdx=1,t.fileSelected=function(e,r,n,o,i){var a={files:n,cancel:!1};g.emit("filesForUploadSelected",a,(function(e){if(!e.cancel){var r=i||[];T(r);var o=r.map((function(t){return t.name})),a=n||[];a=a.filter((function(t){return!o.includes(t.name)})),O(a);var s=[],u=[];a.forEach((function(e){t.files.some((function(t){return t.name===e.name}))?s.push(e):u.push(e)})),s.length>0?A(s,u):(t.currentFiles=m(a),F=!0,P())}}))},t.importFile=function(r,n,o){var a=t.files.find((function(t){return 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T=function(t){t.length>0&&t.forEach((function(t){e.warning(i.instant("import.large.file",{name:t.name,size:S("bytes")(t.size)}))}))},U=function(r,n,o){t.settings.name=r.name,t.settings.type=r.type,t.settings.data=r.data,t.settings.format=r.format,r.status=f.ImportResourceStatus.PENDING,(n?u.importTextSnippet:u.updateTextSnippet)(a.getActiveRepository(),t.settings).success((function(){t.updateList()})).error((function(t){e.error(i.instant("import.could.not.send.data",{data:getError(t)})),r.status=f.ImportResourceStatus.ERROR,r.message=getError(t)})).finally(o||function(){})},w=function(r){return 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Here\'s a random example that incorporates code, JSON, and a SPARQL query:\n\n### Code (Python)\n\n```python\ndef greet(name):\n    return f"Hello, {name}!"\n\nprint(greet("World"))\n```\n\n### JSON\n\n```json\n{\n    "greeting": "Hello",\n    "target": "World",\n    "language": "English"\n}\n```\n\n### SPARQL Query\n\n```sparql\nSELECT ?person ?name\nWHERE {\n    ?person a ex:Person .\n    ?person ex:hasName ?name .\n}\nLIMIT 10\n```\n\nThis example demonstrates a simple Python function for greeting, a JSON object representing a greeting structure, and a SPARQL query to retrieve names of persons from a dataset.',timestamp:Math.floor(Date.now()/1e3),name:null},{id:"msg_Bn07kVDCYT1qmgu1G7Zw0KNeс_"+Date.now(),conversationId:e.conversationId,role:o.CHAT_MESSAGE_ROLE.ASSISTANT,agentId:e.agentId,message:"Reply to '".concat(e.question,"' It seems there was an error with the query. Let me rectify this and try again."),timestamp:Math.floor(Date.now()/1e3),name:null}]};return r&&(r.messages.push(n),(t=r.messages).push.apply(t,s(a.messages))),new Promise((function(e){return setTimeout((function(){return e({data:a})}),2e3)}))}},{key:"continueChatRun",value:function(e){alert("continueChatRun() not implemented")}},{key:"deleteConversation",value:function(e){return this.conversations=this.conversations.filter((function(t){return t.id!==e})),new Promise((function(e){return setTimeout((function(){return e()}),2e3)}))}},{key:"createConversation",value:function(e){var t={id:"thread_".concat(this.conversations.length),name:"Thread ".concat(this.conversations.length),timestamp:Math.floor(Date.now()/1e3),messages:[]};this.conversations.unshift(t);var n=Object(r.cloneDeep)(e);return n.conversationId=t.id,this.askQuestion(n)}},{key:"getAgents",value:function(){return new Promise((function(e){return setTimeout((function(){return 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FILTER (?character = <https://swapi.co/resource/human/1> || ?character = <https://swapi.co/resource/human/5>) }",queryType:"sparql",errorOutput:null}]}})}}])&&u(e.prototype,t),n&&u(e,n),Object.defineProperty(e,"prototype",{writable:!1}),e;var e,t,n}(),m=[{id:"thread_jdQBvbkaU6JPoO48oFbC54dA",name:"Very long chat name which does not fit in the sidebar",timestamp:1725235200,messages:[]},{id:"thread_jdQBvbkaU6JPoO48oQaL76dB",name:"Test chat 2",timestamp:1725238800,messages:[]},{id:"thread_jdQBvbkaU6JPoO48oQaL76dC",name:"Test chat 3",timestamp:1725242400,messages:[]},{id:"thread_jdQBvbkaU6JPoO48oFbC54dD",name:"Test chat 4",timestamp:1697331600,messages:[]}],d=[{id:"asst_gAPcrHQQ9ZIxD5eXWH2BNFfo",name:"agent-1",model:"gpt-4o",temperature:0,topP:0,seed:null,repositoryId:"starwars",instructions:{systemInstruction:"\n\n",userInstruction:""},assistantExtractionMethods:[{ftsMethod:"fts_search"}],maxNumberOfTriplesPerCall:null},{id:"asst_qMyCpCBmqxV9I2B8UoMfFzc5",name:"agent-2",model:"gpt-4o",temperature:0,topP:0,seed:null,repositoryId:"Non existing repo",instructions:{systemInstruction:"string\n\nstring",userInstruction:"string"},assistantExtractionMethods:[{ftsMethod:"fts_search"}],maxNumberOfTriplesPerCall:null},{id:"asst_Cr0RxobrY07WpOvvyQilEWMI",name:"Databricks-general-unbiased",model:"gpt-4o-2024-08-06",temperature:1,topP:1,seed:null,repositoryId:"starwars",instructions:{systemInstruction:"You are helpful assistant in discovering information regarding diagnostic biomarkers.",userInstruction:null},assistantExtractionMethods:[],maxNumberOfTriplesPerCall:null},{id:"asst_5GxNYTdaOh7Tl6lLl6Pya2aH",name:"Databricks-biomarkers",model:"gpt-3.5-turbo-0125",temperature:1,topP:1,seed:null,repositoryId:"biomarkers",instructions:{systemInstruction:"You're a helpful assistant in discovering new diagnostic biomarkers for given diseases. I'll submit a set of publication abstracts discussing given disease and your task is to find in the abstracts any potential new biomarkers which are not yet listed in the appropriate databases. Each abstract is preceded by identifier - its PubMed id called for short PMID. \n\nReturn the set of biomarkers listed one per row, each marker followed by the | and PMID of the respective abstract if was mentioned in.\n\nExample: \nInput: 36418457\t[Amyotrophic lateral sclerosis (ALS) is a genetically and phenotypically heterogeneous disease results in the loss of motor neurons. Mounting information points to involvement of other systems including cognitive impairment. However, neither the valid biomarker for diagnosis nor effective therapeutic intervention is available for ALS. The present study is aimed at identifying potentially genetic biomarker that improves the diagnosis and treatment of ALS patients based on the data of the Gene Expression Omnibus. 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