@apollo-annotation/cli 1.1.0 → 1.1.2

package/dist/commands/feature/get-indexed-id.js.map

@@ -1 +1 @@
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+{"version":3,"file":"get-indexed-id.js","sourceRoot":"","sources":["../../../src/commands/feature/get-indexed-id.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEzC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EAAE,QAAQ,EAAE,MAAM,gBAAgB,CAAA;AAEzC,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAuB;IACtD,MAAM,CAAC,OAAO,GAAG,0CAA0C,CAAA;IAC3D,MAAM,CAAC,WAAW,GAChB,4GAA4G,CAAA;IAE9G,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,2CAA2C;YACxD,OAAO,EAAE,4DAA4D;SACtE;KACF,CAAA;IAED,MAAM,CAAC,IAAI,GAAG;QACZ,EAAE,EAAE,IAAI,CAAC,MAAM,CAAC;YACd,WAAW,EAAE,kCAAkC;YAC/C,QAAQ,EAAE,IAAI;SACf,CAAC;KACH,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,QAAQ,EAAE,KAAK,CAAC,MAAM,CAAC;YACrB,IAAI,EAAE,GAAG;YACT,QAAQ,EAAE,IAAI;YACd,WAAW,EACT,kGAAkG;SACrG,CAAC;QACF,QAAQ,EAAE,KAAK,CAAC,OAAO,CAAC;YACtB,WAAW,EACT,0EAA0E;SAC7E,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,IAAI,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QAE7C,MAAM,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;QAC1B,MAAM,EAAE,EAAE,EAAE,GAAG,IAAI,CAAA;QAEnB,MAAM,QAAQ,GAAG,KAAK,CAAC,QAAQ,IAAI,CAAC,MAAM,QAAQ,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAC,CAAA;QACnE,MAAM,WAAW,GACf,QAAQ,IAAI,CAAC,MAAM,IAAI,CAAC,uBAAuB,CAAC,QAAQ,CAAC,CAAC,CAAA;QAE5D,IAAI,WAAW,EAAE,MAAM,KAAK,CAAC,EAAE,CAAC;YAC9B,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;YACrC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;QACd,CAAC;QAED,MAAM,YAAY,GAAG,IAAI,eAAe,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QAChD,IAAI,WAAW,EAAE,CAAC;YAChB,YAAY,CAAC,MAAM,CAAC,YAAY,EAAE,WAAW,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAA;QAC1D,CAAC;QACD,IAAI,QAAQ,EAAE,CAAC;YACb,YAAY,CAAC,MAAM,CAAC,UAAU,EAAE,MAAM,CAAC,CAAA;QACzC,CAAC;QACD,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,GAAG,CAC5B,2BAA2B,YAAY,CAAC,QAAQ,EAAE,EAAE,CACrD,CAAA;QAED,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;IAC5C,CAAC"}

package/dist/commands/feature/get.d.ts

@@ -6,10 +6,10 @@ export default class Get extends BaseCommand<typeof Get> {
         command: string;
     }[];
     static flags: {
-        assembly: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        refseq: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        start: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<number, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        end: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<number | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        assembly: import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
+        refseq: import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
+        start: import("@oclif/core/interfaces").OptionFlag<number, import("@oclif/core/interfaces").CustomOptions>;
+        end: import("@oclif/core/interfaces").OptionFlag<number | undefined, import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
     private getFeatures;

package/dist/commands/feature/get.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"get.d.ts","sourceRoot":"","sources":["../../../src/commands/feature/get.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAElD,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAW,CAAC,OAAO,GAAG,CAAC;IACtD,MAAM,CAAC,WAAW,SACgD;IAElE,MAAM,CAAC,QAAQ;;;QAWd;IAED,MAAM,CAAC,KAAK;;;;;MAkBX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;YAuBnB,WAAW;CAc1B"}

package/dist/commands/feature/get.js

@@ -1,7 +1,5 @@
 import { Flags } from '@oclif/core';
-import { fetch } from 'undici';
 import { BaseCommand } from '../../baseCommand.js';
-import { createFetchErrorMessage, getRefseqId, localhostToAddress, } from '../../utils.js';
 export default class Get extends BaseCommand {
     static description = 'Get features in assembly, reference sequence or genomic window';
     static examples = [
@@ -39,38 +37,23 @@ export default class Get extends BaseCommand {
         if (flags.start <= 0 || endCoord <= 0) {
             this.error('Start and end coordinates must be greater than 0.');
         }
-        const access = await this.getAccess();
-        const refseqIds = await getRefseqId(access.address, access.accessToken, flags.refseq, flags.assembly);
+        const refseqIds = await this.getRefseqId(flags.refseq, flags.assembly);
         const results = [];
         for (const refseq of refseqIds) {
-            const features = await this.getFeatures(access.address, access.accessToken, refseq, flags.start, endCoord);
-            const json = (await features.json());
+            const json = await this.getFeatures(refseq, flags.start, endCoord);
             for (const x of json[0]) {
                 results.push(x);
             }
         }
         this.log(JSON.stringify(results, null, 2));
     }
-    async getFeatures(address, token, refSeq, start, end) {
-        const url = new URL(localhostToAddress(`${address}/features/getFeatures`));
+    async getFeatures(refSeq, start, end) {
         const searchParams = new URLSearchParams({
             refSeq,
             start: start.toString(),
             end: end.toString(),
         });
-        url.search = searchParams.toString();
-        const auth = {
-            headers: {
-                authorization: `Bearer ${token}`,
-                'Content-Type': 'application/json',
-            },
-        };
-        const res = await fetch(url, auth);
-        if (!res.ok) {
-            const errorMessage = await createFetchErrorMessage(res, 'Failed to access Apollo with the current address and/or access token\nThe server returned:\n');
-            throw new Error(errorMessage);
-        }
-        return res;
+        return (await this.get(`features/getFeatures?${searchParams.toString()}`));
     }
 }
 //# sourceMappingURL=get.js.map

package/dist/commands/feature/get.js.map

@@ -1 +1 @@
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+{"version":3,"file":"get.js","sourceRoot":"","sources":["../../../src/commands/feature/get.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAElD,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAuB;IACtD,MAAM,CAAC,WAAW,GAChB,gEAAgE,CAAA;IAElE,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,iCAAiC;YAC9C,OAAO,EAAE,mDAAmD;SAC7D;QACD;YACE,WAAW,EACT,8HAA8H;YAChI,OAAO,EACL,wEAAwE;SAC3E;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,QAAQ,EAAE,KAAK,CAAC,MAAM,CAAC;YACrB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,gDAAgD;SAC9D,CAAC;QACF,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC;YACnB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,mDAAmD;SACjE,CAAC;QACF,KAAK,EAAE,KAAK,CAAC,OAAO,CAAC;YACnB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,4BAA4B;YACzC,OAAO,EAAE,CAAC;SACX,CAAC;QACF,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC;YACjB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,gBAAgB;SAC9B,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QAEvC,MAAM,QAAQ,GAAW,KAAK,CAAC,GAAG,IAAI,MAAM,CAAC,gBAAgB,CAAA;QAC7D,IAAI,KAAK,CAAC,KAAK,IAAI,CAAC,IAAI,QAAQ,IAAI,CAAC,EAAE,CAAC;YACtC,IAAI,CAAC,KAAK,CAAC,mDAAmD,CAAC,CAAA;QACjE,CAAC;QAED,MAAM,SAAS,GAAa,MAAM,IAAI,CAAC,WAAW,CAChD,KAAK,CAAC,MAAM,EACZ,KAAK,CAAC,QAAQ,CACf,CAAA;QAED,MAAM,OAAO,GAAa,EAAE,CAAA;QAC5B,KAAK,MAAM,MAAM,IAAI,SAAS,EAAE,CAAC;YAC/B,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE,KAAK,CAAC,KAAK,EAAE,QAAQ,CAAC,CAAA;YAClE,KAAK,MAAM,CAAC,IAAI,IAAI,CAAC,CAAC,CAAa,EAAE,CAAC;gBACpC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACjB,CAAC;QACH,CAAC;QACD,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;IAC5C,CAAC;IAEO,KAAK,CAAC,WAAW,CACvB,MAAc,EACd,KAAa,EACb,GAAW;QAEX,MAAM,YAAY,GAAG,IAAI,eAAe,CAAC;YACvC,MAAM;YACN,KAAK,EAAE,KAAK,CAAC,QAAQ,EAAE;YACvB,GAAG,EAAE,GAAG,CAAC,QAAQ,EAAE;SACpB,CAAC,CAAA;QACF,OAAO,CAAC,MAAM,IAAI,CAAC,GAAG,CACpB,wBAAwB,YAAY,CAAC,QAAQ,EAAE,EAAE,CAClD,CAAa,CAAA;IAChB,CAAC"}

package/dist/commands/feature/import.d.ts

@@ -7,12 +7,12 @@ export default class Import extends FileCommand {
         command: string;
     }[];
     static args: {
-        'input-file': import("@oclif/core/lib/interfaces/parser.js").Arg<string, Record<string, unknown>>;
+        'input-file': import("@oclif/core/interfaces").Arg<string, Record<string, unknown>>;
     };
     static flags: {
-        assembly: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        'delete-existing': import("@oclif/core/lib/interfaces/parser.js").BooleanFlag<boolean>;
-        'no-strict': import("@oclif/core/lib/interfaces/parser.js").BooleanFlag<boolean>;
+        assembly: import("@oclif/core/interfaces").OptionFlag<string, import("@oclif/core/interfaces").CustomOptions>;
+        'delete-existing': import("@oclif/core/interfaces").BooleanFlag<boolean>;
+        'no-strict': import("@oclif/core/interfaces").BooleanFlag<boolean>;
     };
     run(): Promise<void>;
 }

package/dist/commands/feature/import.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"import.d.ts","sourceRoot":"","sources":["../../../src/commands/feature/import.ts"],"names":[],"mappings":"AAKA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAElD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW;IAC7C,MAAM,CAAC,OAAO,SAAwC;IACtD,MAAM,CAAC,WAAW,SAAyD;IAE3E,MAAM,CAAC,QAAQ;;;QAOd;IAED,MAAM,CAAC,IAAI;;MAKV;IAED,MAAM,CAAC,KAAK;;;;MAcX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CAgClC"}

package/dist/commands/feature/import.js

@@ -1,8 +1,6 @@
 import * as fs from 'node:fs';
 import { Args, Flags } from '@oclif/core';
-import { Agent, fetch } from 'undici';
 import { FileCommand } from '../../fileCommand.js';
-import { convertAssemblyNameToId, createFetchErrorMessage, isFileId, localhostToAddress, } from '../../utils.js';
 export default class Import extends FileCommand {
     static summary = 'Import features from local gff file';
     static description = 'By default, features are added to the existing ones.';
@@ -35,13 +33,12 @@ export default class Import extends FileCommand {
     async run() {
         const { args, flags } = await this.parse(Import);
         const inputFile = args['input-file'];
-        const access = await this.getAccess();
-        const assembly = await convertAssemblyNameToId(access.address, access.accessToken, [flags.assembly]);
+        const assembly = await this.convertAssemblyNameToId([flags.assembly]);
         if (assembly.length === 0) {
             this.error(`Assembly "${flags.assembly}" does not exist. Perhaps you want to create this assembly first`);
         }
         let uploadId;
-        const inputFileIsFileId = await isFileId(inputFile, access.address, access.accessToken);
+        const inputFileIsFileId = await this.isFileId(inputFile);
         if (inputFileIsFileId) {
             uploadId = inputFile;
         }
@@ -49,7 +46,7 @@ export default class Import extends FileCommand {
             if (!fs.existsSync(inputFile)) {
                 this.error(`File "${inputFile}" does not exist`);
             }
-            uploadId = await this.uploadFile(access.address, access.accessToken, inputFile, 'text/x-gff3', false);
+            uploadId = await this.uploadFile(inputFile, 'text/x-gff3', false);
         }
         const body = {
             typeName: 'AddFeaturesFromFileChange',
@@ -58,21 +55,7 @@ export default class Import extends FileCommand {
             deleteExistingFeatures: flags['delete-existing'],
             parseOptions: { strict: !flags['no-strict'] },
         };
-        const auth = {
-            method: 'POST',
-            body: JSON.stringify(body),
-            headers: {
-                Authorization: `Bearer ${access.accessToken}`,
-                'Content-Type': 'application/json',
-            },
-            dispatcher: new Agent({ headersTimeout: 60 * 60 * 1000 }),
-        };
-        const url = new URL(localhostToAddress(`${access.address}/changes`));
-        const response = await fetch(url, auth);
-        if (!response.ok) {
-            const errorMessage = await createFetchErrorMessage(response, 'importFeatures failed');
-            throw new Error(errorMessage);
-        }
+        await this.post('changes', JSON.stringify(body));
     }
 }
 //# sourceMappingURL=import.js.map

package/dist/commands/feature/import.js.map

@@ -1 +1 @@
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package/dist/commands/feature/search.d.ts

@@ -7,8 +7,8 @@ export default class Search extends BaseCommand<typeof Search> {
         command: string;
     }[];
     static flags: {
-        text: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        assembly: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string[] | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        text: import("@oclif/core/interfaces").OptionFlag<string, import("@oclif/core/interfaces").CustomOptions>;
+        assembly: import("@oclif/core/interfaces").OptionFlag<string[] | undefined, import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
 }

package/dist/commands/feature/search.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"search.d.ts","sourceRoot":"","sources":["../../../src/commands/feature/search.ts"],"names":[],"mappings":"AAGA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW,CAAC,OAAO,MAAM,CAAC;IAC5D,MAAM,CAAC,OAAO,SAA2D;IACzE,MAAM,CAAC,WAAW,SAsBN;IAEZ,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;;MAYX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CA4BlC"}

package/dist/commands/feature/search.js

@@ -1,27 +1,6 @@
 import { Flags } from '@oclif/core';
-import { fetch } from 'undici';
 import { BaseCommand } from '../../baseCommand.js';
-import { convertAssemblyNameToId, createFetchErrorMessage, idReader, localhostToAddress, queryApollo, } from '../../utils.js';
-async function searchFeatures(address, accessToken, assemblies, term) {
-    const url = new URL(localhostToAddress(`${address}/features/searchFeatures`));
-    const searchParams = new URLSearchParams({
-        assemblies: assemblies.join(','),
-        term,
-    });
-    url.search = searchParams.toString();
-    const uri = url.toString();
-    const auth = {
-        headers: {
-            authorization: `Bearer ${accessToken}`,
-        },
-    };
-    const response = await fetch(uri, auth);
-    if (!response.ok) {
-        const errorMessage = await createFetchErrorMessage(response, 'searchFeatures failed');
-        throw new Error(errorMessage);
-    }
-    return response;
-}
+import { idReader } from '../../utils.js';
 export default class Search extends BaseCommand {
     static summary = 'Free text search for feature in one or more assemblies';
     static description = `Return features matching a query string. This command searches only in:
@@ -67,24 +46,26 @@ export default class Search extends BaseCommand {
     };
     async run() {
         const { flags } = await this.parse(Search);
-        const access = await this.getAccess();
         let assemblyIds = [];
         if (flags.assembly === undefined) {
-            const asm = await queryApollo(access.address, access.accessToken, 'assemblies');
-            for (const x of (await asm.json())) {
+            const asm = (await this.get('assemblies'));
+            for (const x of asm) {
                 assemblyIds.push(x._id);
             }
         }
         else {
             const assembly = await idReader(flags.assembly);
-            assemblyIds = await convertAssemblyNameToId(access.address, access.accessToken, assembly);
+            assemblyIds = await this.convertAssemblyNameToId(assembly);
         }
         if (assemblyIds.length === 0) {
             this.log(JSON.stringify([], null, 2));
             this.exit(0);
         }
-        const response = await searchFeatures(access.address, access.accessToken, assemblyIds, flags.text);
-        const results = JSON.parse(await response.text());
+        const searchParams = new URLSearchParams({
+            assemblies: assemblyIds.join(','),
+            term: flags.text,
+        });
+        const results = await this.get(`features/searchFeatures?${searchParams.toString()}`);
         this.log(JSON.stringify(results, null, 2));
     }
 }

package/dist/commands/feature/search.js.map

@@ -1 +1 @@
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+{"version":3,"file":"search.js","sourceRoot":"","sources":["../../../src/commands/feature/search.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EAAE,QAAQ,EAAE,MAAM,gBAAgB,CAAA;AAEzC,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAA0B;IAC5D,MAAM,CAAC,OAAO,GAAG,wDAAwD,CAAA;IACzE,MAAM,CAAC,WAAW,GAAG;;;;;;;;;;;;;;;;;;;;;;cAsBT,CAAA;IAEZ,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,mCAAmC;YAChD,OAAO,EAAE,wDAAwD;SAClE;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,IAAI,EAAE,KAAK,CAAC,MAAM,CAAC;YACjB,IAAI,EAAE,GAAG;YACT,QAAQ,EAAE,IAAI;YACd,WAAW,EAAE,4BAA4B;SAC1C,CAAC;QACF,QAAQ,EAAE,KAAK,CAAC,MAAM,CAAC;YACrB,IAAI,EAAE,GAAG;YACT,QAAQ,EAAE,IAAI;YACd,WAAW,EACT,kGAAkG;SACrG,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QAE1C,IAAI,WAAW,GAAa,EAAE,CAAA;QAC9B,IAAI,KAAK,CAAC,QAAQ,KAAK,SAAS,EAAE,CAAC;YACjC,MAAM,GAAG,GAAG,CAAC,MAAM,IAAI,CAAC,GAAG,CAAC,YAAY,CAAC,CAA6B,CAAA;YACtE,KAAK,MAAM,CAAC,IAAI,GAAG,EAAE,CAAC;gBACpB,WAAW,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,CAAC,CAAA;YACzB,CAAC;QACH,CAAC;aAAM,CAAC;YACN,MAAM,QAAQ,GAAG,MAAM,QAAQ,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAA;YAC/C,WAAW,GAAG,MAAM,IAAI,CAAC,uBAAuB,CAAC,QAAQ,CAAC,CAAA;QAC5D,CAAC;QAED,IAAI,WAAW,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;YAC7B,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;YACrC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;QACd,CAAC;QAED,MAAM,YAAY,GAAG,IAAI,eAAe,CAAC;YACvC,UAAU,EAAE,WAAW,CAAC,IAAI,CAAC,GAAG,CAAC;YACjC,IAAI,EAAE,KAAK,CAAC,IAAI;SACjB,CAAC,CAAA;QACF,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,GAAG,CAC5B,2BAA2B,YAAY,CAAC,QAAQ,EAAE,EAAE,CACrD,CAAA;QACD,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;IAC5C,CAAC"}

package/dist/commands/file/delete.d.ts

@@ -7,8 +7,9 @@ export default class Delete extends BaseCommand<typeof Delete> {
         command: string;
     }[];
     static flags: {
-        'file-id': import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string[], import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        'file-id': import("@oclif/core/interfaces").OptionFlag<string[], import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
+    deleteFile(fileId: string): Promise<import("undici").Response>;
 }
 //# sourceMappingURL=delete.d.ts.map

package/dist/commands/file/delete.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"delete.d.ts","sourceRoot":"","sources":["../../../src/commands/file/delete.ts"],"names":[],"mappings":"AAGA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AASlD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW,CAAC,OAAO,MAAM,CAAC;IAC5D,MAAM,CAAC,OAAO,SAAwC;IACtD,MAAM,CAAC,WAAW,SACiF;IAEnG,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;MAOX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CA0BlC"}
+{"version":3,"file":"delete.d.ts","sourceRoot":"","sources":["../../../src/commands/file/delete.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAOlD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW,CAAC,OAAO,MAAM,CAAC;IAC5D,MAAM,CAAC,OAAO,SAAwC;IACtD,MAAM,CAAC,WAAW,SACiF;IAEnG,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;MAOX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;IAoB3B,UAAU,CAAC,MAAM,EAAE,MAAM;CAahC"}

package/dist/commands/file/delete.js

@@ -1,7 +1,6 @@
 import { Flags } from '@oclif/core';
-import { fetch } from 'undici';
 import { BaseCommand } from '../../baseCommand.js';
-import { createFetchErrorMessage, filterJsonList, idReader, localhostToAddress, queryApollo, } from '../../utils.js';
+import { createFetchErrorMessage, filterJsonList, idReader, } from '../../utils.js';
 export default class Delete extends BaseCommand {
     static summary = 'Delete files from the Apollo server';
     static description = 'Deleted files are printed to stdout. See also `apollo file get` to list the files on the server';
@@ -21,13 +20,11 @@ export default class Delete extends BaseCommand {
     };
     async run() {
         const { flags } = await this.parse(Delete);
-        const access = await this.getAccess();
-        const files = await queryApollo(access.address, access.accessToken, 'files');
-        const json = (await files.json());
+        const json = (await this.get('files'));
         const ff = await idReader(flags['file-id']);
         let deleted = [];
         for (const id of ff) {
-            const res = await deleteFile(access.address, access.accessToken, id);
+            const res = await this.deleteFile(id);
             if (res.status === 404) {
                 this.logToStderr(`File id "${id}" not found`);
             }
@@ -39,21 +36,15 @@ export default class Delete extends BaseCommand {
         this.log(JSON.stringify(deleted, null, 2));
         this.logToStderr(`${deleted.length.toString()} file(s) deleted.`);
     }
-}
-async function deleteFile(address, accessToken, fileId) {
-    const auth = {
-        method: 'DELETE',
-        headers: {
-            Authorization: `Bearer ${accessToken}`,
-            'Content-Type': 'application/json',
-        },
-    };
-    const url = new URL(localhostToAddress(`${address}/files/${fileId}`));
-    const response = await fetch(url, auth);
-    if (!response.ok && response.status != 404) {
-        const errorMessage = await createFetchErrorMessage(response, 'deleteFile failed');
-        throw new Error(errorMessage);
+    async deleteFile(fileId) {
+        const response = await this.fetch(`files/${fileId}`, {
+            method: 'DELETE',
+        });
+        if (!response.ok && response.status != 404) {
+            const errorMessage = await createFetchErrorMessage(response, 'deleteFile failed');
+            throw new Error(errorMessage);
+        }
+        return response;
     }
-    return response;
 }
 //# sourceMappingURL=delete.js.map

package/dist/commands/file/delete.js.map

@@ -1 +1 @@
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+{"version":3,"file":"delete.js","sourceRoot":"","sources":["../../../src/commands/file/delete.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EACL,uBAAuB,EACvB,cAAc,EACd,QAAQ,GACT,MAAM,gBAAgB,CAAA;AAEvB,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAA0B;IAC5D,MAAM,CAAC,OAAO,GAAG,qCAAqC,CAAA;IACtD,MAAM,CAAC,WAAW,GAChB,iGAAiG,CAAA;IAEnG,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,6BAA6B;YAC1C,OAAO,EAAE,4DAA4D;SACtE;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC;YACtB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,4BAA4B;YACzC,OAAO,EAAE,CAAC,GAAG,CAAC;YACd,QAAQ,EAAE,IAAI;SACf,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QAE1C,MAAM,IAAI,GAAG,CAAC,MAAM,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,CAAa,CAAA;QAElD,MAAM,EAAE,GAAG,MAAM,QAAQ,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC,CAAA;QAC3C,IAAI,OAAO,GAAa,EAAE,CAAA;QAC1B,KAAK,MAAM,EAAE,IAAI,EAAE,EAAE,CAAC;YACpB,MAAM,GAAG,GAAG,MAAM,IAAI,CAAC,UAAU,CAAC,EAAE,CAAC,CAAA;YACrC,IAAI,GAAG,CAAC,MAAM,KAAK,GAAG,EAAE,CAAC;gBACvB,IAAI,CAAC,WAAW,CAAC,YAAY,EAAE,aAAa,CAAC,CAAA;YAC/C,CAAC;iBAAM,CAAC;gBACN,MAAM,GAAG,GAAG,cAAc,CAAC,IAAI,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,CAAC,CAAA;gBAC7C,OAAO,GAAG,CAAC,GAAG,OAAO,EAAE,GAAG,GAAG,CAAC,CAAA;YAChC,CAAC;QACH,CAAC;QACD,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;QAC1C,IAAI,CAAC,WAAW,CAAC,GAAG,OAAO,CAAC,MAAM,CAAC,QAAQ,EAAE,mBAAmB,CAAC,CAAA;IACnE,CAAC;IAED,KAAK,CAAC,UAAU,CAAC,MAAc;QAC7B,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,SAAS,MAAM,EAAE,EAAE;YACnD,MAAM,EAAE,QAAQ;SACjB,CAAC,CAAA;QACF,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,QAAQ,CAAC,MAAM,IAAI,GAAG,EAAE,CAAC;YAC3C,MAAM,YAAY,GAAG,MAAM,uBAAuB,CAChD,QAAQ,EACR,mBAAmB,CACpB,CAAA;YACD,MAAM,IAAI,KAAK,CAAC,YAAY,CAAC,CAAA;QAC/B,CAAC;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC"}

package/dist/commands/file/download.d.ts

@@ -7,8 +7,8 @@ export default class Download extends BaseCommand<typeof Download> {
         command: string;
     }[];
     static flags: {
-        'file-id': import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        output: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        'file-id': import("@oclif/core/interfaces").OptionFlag<string, import("@oclif/core/interfaces").CustomOptions>;
+        output: import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
 }

package/dist/commands/file/download.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"download.d.ts","sourceRoot":"","sources":["../../../src/commands/file/download.ts"],"names":[],"mappings":"AAKA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,QAAS,SAAQ,WAAW,CAAC,OAAO,QAAQ,CAAC;IAChE,MAAM,CAAC,OAAO,SAA2C;IACzD,MAAM,CAAC,WAAW,SAC4C;IAE9D,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;;MAWX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CAgBlC"}

package/dist/commands/file/download.js

@@ -2,7 +2,7 @@ import { createWriteStream } from 'node:fs';
 import { Writable } from 'node:stream';
 import { Flags } from '@oclif/core';
 import { BaseCommand } from '../../baseCommand.js';
-import { filterJsonList, idReader, queryApollo } from '../../utils.js';
+import { filterJsonList, idReader } from '../../utils.js';
 export default class Download extends BaseCommand {
     static summary = 'Download a file from the Apollo server';
     static description = 'See also `apollo file get` to list the files on the server';
@@ -25,15 +25,11 @@ export default class Download extends BaseCommand {
     };
     async run() {
         const { flags } = await this.parse(Download);
-        const access = await this.getAccess();
         const ff = await idReader([flags['file-id']]);
-        let res = await queryApollo(access.address, access.accessToken, 'files');
-        // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment
-        const json = JSON.parse(await res.text());
-        // eslint-disable-next-line @typescript-eslint/no-unsafe-argument
+        const json = (await this.get('files'));
         const [fileRec] = filterJsonList(json, ff, '_id');
         const fileId = fileRec['_id'];
-        res = await queryApollo(access.address, access.accessToken, `files/${fileId}`);
+        const res = await this.fetch(`files/${fileId}`);
         const { output = fileRec['basename'] } = flags;
         const fileWriteStream = createWriteStream(output);
         await res.body?.pipeTo(Writable.toWeb(output === '-' ? process.stdout : fileWriteStream));

package/dist/commands/file/download.js.map

@@ -1 +1 @@
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+{"version":3,"file":"download.js","sourceRoot":"","sources":["../../../src/commands/file/download.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,iBAAiB,EAAE,MAAM,SAAS,CAAA;AAC3C,OAAO,EAAE,QAAQ,EAAE,MAAM,aAAa,CAAA;AAEtC,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EAAE,cAAc,EAAE,QAAQ,EAAE,MAAM,gBAAgB,CAAA;AAEzD,MAAM,CAAC,OAAO,OAAO,QAAS,SAAQ,WAA4B;IAChE,MAAM,CAAC,OAAO,GAAG,wCAAwC,CAAA;IACzD,MAAM,CAAC,WAAW,GAChB,4DAA4D,CAAA;IAE9D,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,2BAA2B;YACxC,OAAO,EAAE,yDAAyD;SACnE;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC;YACtB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,4BAA4B;YACzC,OAAO,EAAE,GAAG;SACb,CAAC;QACF,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC;YACnB,IAAI,EAAE,GAAG;YACT,WAAW,EACT,wFAAwF;SAC3F,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAA;QAE5C,MAAM,EAAE,GAAG,MAAM,QAAQ,CAAC,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAA;QAC7C,MAAM,IAAI,GAAG,CAAC,MAAM,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,CAAa,CAAA;QAClD,MAAM,CAAC,OAAO,CAAC,GAAG,cAAc,CAAC,IAAI,EAAE,EAAE,EAAE,KAAK,CAAC,CAAA;QACjD,MAAM,MAAM,GAAG,OAAO,CAAC,KAA6B,CAAW,CAAA;QAE/D,MAAM,GAAG,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,SAAS,MAAM,EAAE,CAAC,CAAA;QAC/C,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,UAAkC,CAAC,EAAE,GAAG,KAAK,CAAA;QACtE,MAAM,eAAe,GAAG,iBAAiB,CAAC,MAAM,CAAC,CAAA;QACjD,MAAM,GAAG,CAAC,IAAI,EAAE,MAAM,CACpB,QAAQ,CAAC,KAAK,CAAC,MAAM,KAAK,GAAG,CAAC,CAAC,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,CAAC,eAAe,CAAC,CAClE,CAAA;QACD,eAAe,CAAC,KAAK,EAAE,CAAA;IACzB,CAAC"}

package/dist/commands/file/get.d.ts

@@ -7,7 +7,7 @@ export default class Get extends BaseCommand<typeof Get> {
         command: string;
     }[];
     static flags: {
-        'file-id': import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string[] | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        'file-id': import("@oclif/core/interfaces").OptionFlag<string[] | undefined, import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
 }

package/dist/commands/file/get.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"get.d.ts","sourceRoot":"","sources":["../../../src/commands/file/get.ts"],"names":[],"mappings":"AAGA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAW,CAAC,OAAO,GAAG,CAAC;IACtD,MAAM,CAAC,OAAO,SAAoD;IAClE,MAAM,CAAC,WAAW,SAAqD;IAEvE,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;MAMX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CA4BlC"}
+{"version":3,"file":"get.d.ts","sourceRoot":"","sources":["../../../src/commands/file/get.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAW,CAAC,OAAO,GAAG,CAAC;IACtD,MAAM,CAAC,OAAO,SAAoD;IAClE,MAAM,CAAC,WAAW,SAAqD;IAEvE,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,KAAK;;MAMX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CAqBlC"}

package/dist/commands/file/get.js

@@ -1,6 +1,6 @@
 import { Flags } from '@oclif/core';
 import { BaseCommand } from '../../baseCommand.js';
-import { idReader, queryApollo } from '../../utils.js';
+import { idReader } from '../../utils.js';
 export default class Get extends BaseCommand {
     static summary = 'Get list of files uploaded to the Apollo server';
     static description = 'Print to stdout the list of files in json format';
@@ -19,9 +19,7 @@ export default class Get extends BaseCommand {
     };
     async run() {
         const { flags } = await this.parse(Get);
-        const access = await this.getAccess();
-        const files = await queryApollo(access.address, access.accessToken, 'files');
-        const json = (await files.json());
+        const json = (await this.get('files'));
         let fileIds = [];
         if (flags['file-id'] !== undefined) {
             fileIds = await idReader(flags['file-id']);

package/dist/commands/file/get.js.map

@@ -1 +1 @@
-{"version":3,"file":"get.js","sourceRoot":"","sources":["../../../src/commands/file/get.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAGnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EAAE,QAAQ,EAAE,WAAW,EAAE,MAAM,gBAAgB,CAAA;AAEtD,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAuB;IACtD,MAAM,CAAC,OAAO,GAAG,iDAAiD,CAAA;IAClE,MAAM,CAAC,WAAW,GAAG,kDAAkD,CAAA;IAEvE,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,kBAAkB;YAC/B,OAAO,EAAE,gDAAgD;SAC1D;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC;YACtB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,6BAA6B;YAC1C,QAAQ,EAAE,IAAI;SACf,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QAEvC,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAErC,MAAM,KAAK,GAAa,MAAM,WAAW,CACvC,MAAM,CAAC,OAAO,EACd,MAAM,CAAC,WAAW,EAClB,OAAO,CACR,CAAA;QACD,MAAM,IAAI,GAAG,CAAC,MAAM,KAAK,CAAC,IAAI,EAAE,CAAa,CAAA;QAE7C,IAAI,OAAO,GAAa,EAAE,CAAA;QAC1B,IAAI,KAAK,CAAC,SAAS,CAAC,KAAK,SAAS,EAAE,CAAC;YACnC,OAAO,GAAG,MAAM,QAAQ,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC,CAAA;QAC5C,CAAC;QAED,MAAM,IAAI,GAAG,EAAE,CAAA;QACf,KAAK,MAAM,CAAC,IAAI,IAAI,EAAE,CAAC;YACrB,IACE,KAAK,CAAC,SAAS,CAAC,KAAK,SAAS;gBAC9B,OAAO,CAAC,QAAQ,CAAC,CAAC,CAAC,KAAuB,CAAC,CAAC,EAC5C,CAAC;gBACD,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACd,CAAC;QACH,CAAC;QACD,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;IACzC,CAAC"}
+{"version":3,"file":"get.js","sourceRoot":"","sources":["../../../src/commands/file/get.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,aAAa,CAAA;AAEnC,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAClD,OAAO,EAAE,QAAQ,EAAE,MAAM,gBAAgB,CAAA;AAEzC,MAAM,CAAC,OAAO,OAAO,GAAI,SAAQ,WAAuB;IACtD,MAAM,CAAC,OAAO,GAAG,iDAAiD,CAAA;IAClE,MAAM,CAAC,WAAW,GAAG,kDAAkD,CAAA;IAEvE,MAAM,CAAC,QAAQ,GAAG;QAChB;YACE,WAAW,EAAE,kBAAkB;YAC/B,OAAO,EAAE,gDAAgD;SAC1D;KACF,CAAA;IAED,MAAM,CAAC,KAAK,GAAG;QACb,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC;YACtB,IAAI,EAAE,GAAG;YACT,WAAW,EAAE,6BAA6B;YAC1C,QAAQ,EAAE,IAAI;SACf,CAAC;KACH,CAAA;IAEM,KAAK,CAAC,GAAG;QACd,MAAM,EAAE,KAAK,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QAEvC,MAAM,IAAI,GAAG,CAAC,MAAM,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,CAAa,CAAA;QAElD,IAAI,OAAO,GAAa,EAAE,CAAA;QAC1B,IAAI,KAAK,CAAC,SAAS,CAAC,KAAK,SAAS,EAAE,CAAC;YACnC,OAAO,GAAG,MAAM,QAAQ,CAAC,KAAK,CAAC,SAAS,CAAC,CAAC,CAAA;QAC5C,CAAC;QAED,MAAM,IAAI,GAAG,EAAE,CAAA;QACf,KAAK,MAAM,CAAC,IAAI,IAAI,EAAE,CAAC;YACrB,IACE,KAAK,CAAC,SAAS,CAAC,KAAK,SAAS;gBAC9B,OAAO,CAAC,QAAQ,CAAC,CAAC,CAAC,KAAuB,CAAC,CAAC,EAC5C,CAAC;gBACD,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACd,CAAC;QACH,CAAC;QACD,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAA;IACzC,CAAC"}

package/dist/commands/file/upload.d.ts

@@ -7,12 +7,12 @@ export default class Upload extends FileCommand {
         command: string;
     }[];
     static args: {
-        'input-file': import("@oclif/core/lib/interfaces/parser.js").Arg<string, Record<string, unknown>>;
+        'input-file': import("@oclif/core/interfaces").Arg<string, Record<string, unknown>>;
     };
     static flags: {
-        type: import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        gzip: import("@oclif/core/lib/interfaces/parser.js").BooleanFlag<boolean>;
-        decompressed: import("@oclif/core/lib/interfaces/parser.js").BooleanFlag<boolean>;
+        type: import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
+        gzip: import("@oclif/core/interfaces").BooleanFlag<boolean>;
+        decompressed: import("@oclif/core/interfaces").BooleanFlag<boolean>;
     };
     run(): Promise<void>;
 }

package/dist/commands/file/upload.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"upload.d.ts","sourceRoot":"","sources":["../../../src/commands/file/upload.ts"],"names":[],"mappings":"AAGA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW;IAC7C,MAAM,CAAC,OAAO,SAA6C;IAC3D,MAAM,CAAC,WAAW,SAE0C;IAC5D,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,IAAI;;MAKV;IAED,MAAM,CAAC,KAAK;;;;MA0BX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CA8DlC"}
+{"version":3,"file":"upload.d.ts","sourceRoot":"","sources":["../../../src/commands/file/upload.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAGlD,MAAM,CAAC,OAAO,OAAO,MAAO,SAAQ,WAAW;IAC7C,MAAM,CAAC,OAAO,SAA6C;IAC3D,MAAM,CAAC,WAAW,SAE0C;IAC5D,MAAM,CAAC,QAAQ;;;QAKd;IAED,MAAM,CAAC,IAAI;;MAKV;IAED,MAAM,CAAC,KAAK;;;;MA0BX;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CA8ClC"}

package/dist/commands/file/upload.js

@@ -1,6 +1,6 @@
 import { Args, Flags } from '@oclif/core';
 import { FileCommand } from '../../fileCommand.js';
-import { filterJsonList, queryApollo } from '../../utils.js';
+import { filterJsonList } from '../../utils.js';
 export default class Upload extends FileCommand {
     static summary = 'Upload a local file to the Apollo server';
     static description = `This command only uploads a file and returns the corresponding file id.
@@ -44,7 +44,6 @@ export default class Upload extends FileCommand {
     };
     async run() {
         const { args, flags } = await this.parse(Upload);
-        const access = await this.getAccess();
         let { type } = flags;
         const { gzip, decompressed } = flags;
         if (type === undefined) {
@@ -77,11 +76,8 @@ export default class Upload extends FileCommand {
             isGzip = false;
         }
         this.logToStderr(`Input is gzip'd: ${isGzip}`);
-        const fileId = await this.uploadFile(access.address, access.accessToken, args['input-file'], type, isGzip);
-        const res = await queryApollo(access.address, access.accessToken, 'files');
-        // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment
-        const json = JSON.parse(await res.text());
-        // eslint-disable-next-line @typescript-eslint/no-unsafe-argument
+        const fileId = await this.uploadFile(args['input-file'], type, isGzip);
+        const json = (await this.get('files'));
         const [rec] = filterJsonList(json, [fileId], '_id');
         this.log(JSON.stringify(rec, null, 2));
     }

package/dist/commands/file/upload.js.map

@@ -1 +1 @@
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package/dist/commands/jbrowse/desktop.d.ts

@@ -7,12 +7,12 @@ export default class Desktop extends BaseCommand<typeof Desktop> {
         command: string;
     }[];
     static args: {
-        jbrowseFile: import("@oclif/core/lib/interfaces/parser.js").Arg<string, Record<string, unknown>>;
+        jbrowseFile: import("@oclif/core/interfaces").Arg<string, Record<string, unknown>>;
     };
     static flags: {
-        open: import("@oclif/core/lib/interfaces/parser.js").BooleanFlag<boolean>;
-        'open-with': import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
-        'gff3-file': import("@oclif/core/lib/interfaces/parser.js").OptionFlag<string | undefined, import("@oclif/core/lib/interfaces/parser.js").CustomOptions>;
+        open: import("@oclif/core/interfaces").BooleanFlag<boolean>;
+        'open-with': import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
+        'gff3-file': import("@oclif/core/interfaces").OptionFlag<string | undefined, import("@oclif/core/interfaces").CustomOptions>;
     };
     run(): Promise<void>;
 }

package/dist/commands/jbrowse/get-config.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"get-config.d.ts","sourceRoot":"","sources":["../../../src/commands/jbrowse/get-config.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAA;AAElD,MAAM,CAAC,OAAO,OAAO,SAAU,SAAQ,WAAW,CAAC,OAAO,SAAS,CAAC;IAClE,MAAM,CAAC,OAAO,SAA0C;IACxD,MAAM,CAAC,WAAW,SACsD;IAExE,MAAM,CAAC,QAAQ;;;QAKd;IAEY,GAAG,IAAI,OAAO,CAAC,IAAI,CAAC;CAIlC"}

package/dist/commands/jbrowse/get-config.js

@@ -1,5 +1,4 @@
 import { BaseCommand } from '../../baseCommand.js';
-import { queryApollo } from '../../utils.js';
 export default class GetConfig extends BaseCommand {
     static summary = 'Get JBrowse configuration from Apollo';
     static description = 'Print to stdout the JBrowse configuration from Apollo in JSON format';
@@ -10,12 +9,7 @@ export default class GetConfig extends BaseCommand {
         },
     ];
     async run() {
-        const access = await this.getAccess();
-        const response = await queryApollo(access.address, access.accessToken, 'jbrowse/config.json');
-        if (!response.ok) {
-            throw new Error('Failed to fetch JBrowse configuration');
-        }
-        const json = (await response.json());
+        const json = (await this.get('jbrowse/config.json'));
         this.log(JSON.stringify(json, null, 2));
     }
 }