improve handling of compressed files

- fix loading of some compressed files within sessions
- ignore some hidden MACOSX files

CHANGELOG.md

@@ -9,6 +9,7 @@ Note that since we don't clearly distinguish between a public and private interf
 - Fix handling of mmcif with empty ``label_*`` fields
 - Add LoadTrajectory action
 - Add Zenodo import extension (load structures, trajectories, and volumes)
+- Fix loading of some compressed files within sessions
 
 ## [v3.3.1] - 2022-02-27
 

src/mol-plugin-state/manager/snapshots.ts

@@ -238,12 +238,12 @@ class PluginStateSnapshotManager extends StatefulPluginComponent<{
                 }
             } else {
                 const data = await this.plugin.runTask(readFromFile(file, 'zip'));
-                const assets = Object.create(null);
+                const assetData = Object.create(null);
 
                 objectForEach(data, (v, k) => {
                     if (k === 'state.json' || k === 'assets.json') return;
                     const name = k.substring(k.indexOf('/') + 1);
-                    assets[name] = new File([v], name);
+                    assetData[name] = v;
                 });
                 const stateFile = new File([data['state.json']], 'state.json');
                 const stateData = await this.plugin.runTask(readFromFile(stateFile, 'string'));
@@ -253,7 +253,7 @@ class PluginStateSnapshotManager extends StatefulPluginComponent<{
                     const json = JSON.parse(await this.plugin.runTask(readFromFile(file, 'string')));
 
                     for (const [id, asset] of json) {
-                        this.plugin.managers.asset.set(asset, assets[id]);
+                        this.plugin.managers.asset.set(asset, new File([assetData[id]], asset.name));
                     }
                 }
 

src/mol-util/data-source.ts

@@ -130,13 +130,15 @@ function getCompression(name: string) {
             DataCompressionMethod.None;
 }
 
+const reFilterPath = /^(__MACOSX|.DS_Store)/;
+
 async function decompress(ctx: RuntimeContext, data: Uint8Array, compression: DataCompressionMethod): Promise<Uint8Array> {
     switch (compression) {
         case DataCompressionMethod.None: return data;
         case DataCompressionMethod.Gzip: return ungzip(ctx, data);
         case DataCompressionMethod.Zip:
             const parsed = await unzip(ctx, data.buffer);
-            const names = Object.keys(parsed);
+            const names = Object.keys(parsed).filter(n => !reFilterPath.test(n));
             if (names.length !== 1) throw new Error('can only decompress zip files with a single entry');
             return parsed[names[0]] as Uint8Array;
     }

src/mol-util/zip/zip.ts

 /**
- * Copyright (c) 2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2020-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  *
@@ -15,6 +15,10 @@ import { _inflate } from './inflate';
 import { _deflateRaw } from './deflate';
 import { RuntimeContext, Task } from '../../mol-task';
 
+export function Unzip(buf: ArrayBuffer, onlyNames = false) {
+    return Task.create('Unzip', ctx => unzip(ctx, buf, onlyNames));
+}
+
 export async function unzip(runtime: RuntimeContext, buf: ArrayBuffer, onlyNames = false) {
     const out: { [k: string]: Uint8Array | { size: number, csize: number } } = Object.create(null);
     const data = new Uint8Array(buf);