uniprot storage as ts object

MMSB-MOBI · Apr 20, 2021 · 43c9c70 · 43c9c70
1 parent 26427ad
commit 43c9c70
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Showing 3 changed files with 73 additions and 6 deletions.
diff --git a/src/components/XmlLoader.vue b/src/components/XmlLoader.vue
@@ -111,7 +111,8 @@ import InputFile from '@/components/InputFile.vue'
 import XLSX  from 'xlsx';
 import { useStore } from 'vuex'
 
-import { UniprotDatabase } from '../utilities/uniprot-database';
+import { UniprotStorage } from '../utilities/uniprot-storage';
+const UniprotDatabase = new UniprotStorage()
 import { range } from '../utilities/basic_functions'
 
 export default defineComponent({
@@ -166,7 +167,6 @@ export default defineComponent({
             uniprotDBFilled.value = true; 
 
 
-
         };
 
         const cell = (x: number, y: number)=>{
@@ -221,8 +221,8 @@ export default defineComponent({
                 store.dispatch('selectColByKeyword', 'Abundance Ratio'); 
                 loaded.value = true;
                 xlsDropped.value = false; 
-                console.log("delete uniprot database")
-                await UniprotDatabase.clear(); 
+                //console.log("delete uniprot database")
+                //await UniprotDatabase.clear(); 
                 console.log("fill up uniprot database")
                 await storeInUniprotDatabase(); 
                 console.log("uniprot database filled"); 

diff --git a/src/utilities/uniprot-database.ts b/src/utilities/uniprot-database.ts
@@ -26,7 +26,7 @@ export namespace UniprotDatabase {
     const dbName = "uniprotDB";
     let maxItem: number;
     let DBOpenRequest: IDBOpenDBRequest;
-    const V_NUM = 3; 
+    const V_NUM = 6; 
     let DB: IDBDatabase;
     const handshake = async (url?: string) => {
         try {
@@ -47,7 +47,6 @@ export namespace UniprotDatabase {
 
     const fetchFrom = async (uniprotIDs: string[]): Promise<UniprotFetch> => {
         //console.log(`ff Loading ${uniprotIDs.length} items ff`);
-        //console.log(providerURL); 
         const response = await fetch(`${providerURL ? providerURL : ''}/api/uniprot/many`, {
             method: 'POST',
             headers: {

diff --git a/src/utilities/uniprot-storage.ts b/src/utilities/uniprot-storage.ts
@@ -0,0 +1,68 @@
+
+
+interface UniprotDatum {
+    name?: string;
+    GO?: Map<string, string>[];
+    id: string;
+    geneName?: string;
+    fullName?: string;
+    taxid?: string; 
+}
+
+type UniprotFetch = { [index: string]: UniprotDatum|null };
+
+export class UniprotStorage {
+    data: UniprotFetch;
+    providerURL: string|undefined
+
+    constructor(url?: string){
+        this.data = {"pouet" : {GO : [], fullName: "Pouet", geneName : "pouet", id: "A5A613", name: "pouet", taxid: "pouet"}}
+        this.providerURL = url
+    }
+
+    private fetchFrom = async (uniprotIDs: string[]): Promise<UniprotFetch> => {
+        //console.log(`ff Loading ${uniprotIDs.length} items ff`);
+        const response = await fetch(`${this.providerURL ? this.providerURL : ''}/api/uniprot/many`, {
+            method: 'POST',
+            headers: {
+            'Accept': 'application/json',
+            'Content-Type': 'application/json'
+            },
+            body: JSON.stringify({'uniprotIDs' : uniprotIDs})
+        });
+
+        const uniprotData: UniprotFetch = await response.json();
+        if (!uniprotData)
+            throw("No data loaded");
+
+        return uniprotData;        
+    }
+    public add = async (uniprotIDs : string[]): Promise<number> => {
+        console.log("add"); 
+        const uniprotData: UniprotFetch = await this.fetchFrom(uniprotIDs)
+        console.log("fetched"); 
+        return new Promise((res, rej) => {
+            try{
+                this.data = {...this.data, ...uniprotData}
+                res(Object.keys(this.data).length)
+            }
+            catch (err) {
+                rej(err)
+            }
+        })
+    }
+
+    public get = async(id : string): Promise<any> => {
+        return new Promise((res, rej) => {
+            try{
+                const result = this.data[id]
+                res(result)
+            }
+            catch(err){
+                rej(err)
+
+            }
+        })
+    }
+
+}