fix whitespace linting issues

src/apps/basic-wrapper/helpers.ts

@@ -63,7 +63,7 @@ export namespace StateHelper {
     }
 
     export function transform(b: StateBuilder.To<PSO.Molecule.Structure>, matrix: Mat4) {
-        return b.apply(StateTransforms.Model.TransformStructureConformation, { 
+        return b.apply(StateTransforms.Model.TransformStructureConformation, {
             transform: { name: 'matrix', params: matrix }
         }, { tags: 'transform' });
     }

src/apps/chem-comp-bond/create-table.ts

@@ -144,7 +144,7 @@ async function createBonds() {
     const comp_id: string[] = []
     const atom_id_1: string[] = []
     const atom_id_2: string[] = []
-    const value_order: typeof mmCIF_chemCompBond_schema['value_order']['T'][] = [] 
+    const value_order: typeof mmCIF_chemCompBond_schema['value_order']['T'][] = []
     const pdbx_aromatic_flag: typeof mmCIF_chemCompBond_schema['pdbx_aromatic_flag']['T'][] = []
     const pdbx_stereo_config: typeof mmCIF_chemCompBond_schema['pdbx_stereo_config']['T'][] = []
     const molstar_protonation_variant: string[] = []

src/mol-model/structure/structure/unit/bonds.ts

@@ -19,7 +19,7 @@ export * from './bonds/inter-compute'
 namespace Bond {
     export interface Location<U extends Unit = Unit> {
         readonly kind: 'bond-location',
-        
+
         aStructure: Structure,
         aUnit: U,
         /** Index into aUnit.elements */

src/mol-model/structure/structure/unit/rings.ts

@@ -157,11 +157,11 @@ namespace UnitRings {
     /** Creates a mapping ResidueIndex -> list or rings that are on that residue and have one of the specified fingerprints. */
     export function byFingerprintAndResidue(rings: UnitRings, fingerprints: ReadonlyArray<UnitRing.Fingerprint>) {
         const map = new Map<ResidueIndex, Index[]>();
-    
+
         for (let fI = 0, _fI = fingerprints.length; fI < _fI; fI++) {
             const fp = fingerprints[fI];
             addSingleResidueRings(rings, fp, map);
-        }        
+        }
         return map;
     }
 }

src/mol-model/structure/structure/unit/rings/compute.ts

@@ -116,7 +116,7 @@ function processResidue(state: State, start: number, end: number) {
         arraySetAdd(altLocs, altLoc);
     }
     arraySetRemove(altLocs, '');
-    
+
     if (altLocs.length === 0) {
         resetState(state);
         for (let i = 0; i < state.count; i++) {

src/mol-model/structure/structure/util/unit-transforms.ts

@@ -18,9 +18,9 @@ export class StructureUnitTransforms {
     private unitOffsetMap = IntMap.Mutable<number>();
     private groupIndexMap = IntMap.Mutable<number>();
     private size: number;
-    
+
     private _isIdentity: boolean | undefined = undefined;
-    
+
     version = 0;
 
     constructor(readonly structure: Structure) {

src/mol-plugin-state/actions/data-format.ts

@@ -137,12 +137,12 @@ export const OpenFiles = StateAction.build({
                 const info = getFileInfo(file)
                 const isBinary = plugin.dataFormat.registry.binaryExtensions.has(info.ext)
                 const { data } = await plugin.builders.data.readFile({ file, isBinary });
-                //const data = state.build().toRoot().apply(StateTransforms.Data.ReadFile, { file, isBinary });
+                // const data = state.build().toRoot().apply(StateTransforms.Data.ReadFile, { file, isBinary });
                 // const dataStateObject = await state.updateTree(data).runInContext(taskCtx);
                 const provider = params.format === 'auto'
                     ? plugin.dataFormat.registry.auto(info, data.cell?.obj!)
                     : plugin.dataFormat.registry.get(params.format)
-                
+
                 // need to await so that the enclosing Task finishes after the update is done.
                 await provider.getDefaultBuilder(plugin, data, { visuals: params.visuals }, state).runInContext(taskCtx)
             } catch (e) {

src/mol-plugin-state/helpers/structure-overpaint.ts

@@ -56,7 +56,7 @@ export async function clearStructureOverpaint(plugin: PluginContext, components:
 }
 
 async function eachRepr(plugin: PluginContext, components: StructureComponentRef[], callback: OverpaintEachReprCallback) {
-    const state = plugin.state.data;    
+    const state = plugin.state.data;
     const update = state.build();
     for (const c of components) {
         for (const r of c.representations) {

src/mol-repr/structure/registry.ts

@@ -45,7 +45,7 @@ export namespace StructureRepresentationRegistry {
         'putty': PuttyRepresentationProvider,
         'spacefill': SpacefillRepresentationProvider,
     }
-    
+
     type _BuiltIn = typeof BuiltIn
     export type BuiltIn = keyof _BuiltIn
     export type BuiltInParams<T extends BuiltIn> = Partial<RepresentationProvider.ParamValues<_BuiltIn[T]>>

src/mol-repr/volume/registry.ts

@@ -11,7 +11,7 @@ import { objectForEach } from '../../mol-util/object';
 
 export class VolumeRepresentationRegistry extends RepresentationRegistry<VolumeData, Representation.State> {
     constructor() {
-        super()        
+        super()
         objectForEach(VolumeRepresentationRegistry.BuiltIn, (p, k) => {
             if (p.name !== k) throw new Error(`Fix BuiltInVolumeRepresentations to have matching names. ${p.name} ${k}`);
             this.add(p as any)

src/mol-state/action/manager.ts

@@ -35,11 +35,11 @@ class StateActionManager {
     }
 
     remove(actionOrTransformer: StateAction | StateTransformer | UUID) {
-        const id = StateTransformer.is(actionOrTransformer) 
-            ? actionOrTransformer.toAction().id 
+        const id = StateTransformer.is(actionOrTransformer)
+            ? actionOrTransformer.toAction().id
             : UUID.is(actionOrTransformer)
-            ? actionOrTransformer
-            : actionOrTransformer.id;
+                ? actionOrTransformer
+                : actionOrTransformer.id;
 
         const action = this.actions.get(id);
         if (!action) return this;

src/mol-theme/size/shape-group.ts

@@ -37,7 +37,7 @@ export function ShapeGroupSizeTheme(ctx: ThemeDataContext, props: PD.Values<Shap
 export const ShapeGroupSizeThemeProvider: SizeTheme.Provider<ShapeGroupSizeThemeParams, 'shape-group'> = {
     name: 'shape-group',
     label: 'Shape Group',
-    category: '',    
+    category: '',
     factory: ShapeGroupSizeTheme,
     getParams: getShapeGroupSizeThemeParams,
     defaultValues: PD.getDefaultValues(ShapeGroupSizeThemeParams),

src/servers/plugin-state/config.ts

@@ -21,8 +21,8 @@ export function getConfig() {
     cmdParser.addArgument(['--port'], { help: 'Server port. Altenatively use ENV variable PORT.', type: 'int', required: false });
     cmdParser.addArgument(['--api-prefix'], { help: 'Server API prefix.', defaultValue: '', required: false });
     cmdParser.addArgument(['--max-states'], { help: 'Maxinum number of states that could be saved.', defaultValue: 40, type: 'int', required: false });
-    
-    const config = cmdParser.parseArgs() as Config;    
+
+    const config = cmdParser.parseArgs() as Config;
     if (!config.port) config.port = process.env.port || 1339;
     return config;
 }

src/servers/plugin-state/index.ts

@@ -47,8 +47,8 @@ function readIndex() {
 function validateIndex(index: Index) {
     if (index.length > Config.max_states) {
         const deletes: Index = [], newIndex: Index = [];
-        const toDelete = index.length - Config.max_states; 
-        
+        const toDelete = index.length - Config.max_states;
+
         for (const e of index) {
             if (!e.isSticky && deletes.length < toDelete) {
                 deletes.push(e);
@@ -71,7 +71,7 @@ function remove(id: string) {
     let index = readIndex();
     let i = 0;
     for (const e of index) {
-        if (e.id !== id) {            
+        if (e.id !== id) {
             i++;
             continue;
         }

src/servers/volume/config.ts

@@ -84,12 +84,12 @@ function addServerArgs(parser: argparse.ArgumentParser) {
 }
 
 function addJsonConfigArgs(parser: argparse.ArgumentParser) {
-    parser.addArgument(['--cfg'], { 
+    parser.addArgument(['--cfg'], {
         help: [
             'JSON config file path',
             'If a property is not specified, cmd line param/OS variable/default value are used.'
         ].join('\n'),
-        required: false 
+        required: false
     });
     parser.addArgument(['--printCfg'], { help: 'Print current config for validation and exit.', required: false, nargs: 0 });
     parser.addArgument(['--cfgTemplate'], { help: 'Prints default JSON config template to be modified and exits.', required: false, nargs: 0 });
@@ -169,25 +169,25 @@ export function configureServer() {
         console.log(JSON.stringify(ServerConfigTemplate, null, 2));
         process.exit(0);
     }
-    
+
     try {
         setConfig(config) // sets the config for global use
-    
+
         if (config.cfg) {
             const cfg = JSON.parse(fs.readFileSync(config.cfg, 'utf8')) as FullServerConfig;
             setConfig(cfg);
         }
-    
+
         if (config.printCfg !== null) {
             console.log(JSON.stringify({ ...ServerConfig, ...LimitsConfig }, null, 2));
             process.exit(0);
         }
-    
+
         validateServerConfig();
     } catch (e) {
         console.error('' + e);
         process.exit(1);
-    }    
+    }
 }
 
 export function configureLocal() {
@@ -207,23 +207,23 @@ export function configureLocal() {
         console.log(JSON.stringify(DefaultLimitsConfig, null, 2));
         process.exit(0);
     }
-    
+
     try {
         setLimitsConfig(config) // sets the config for global use
-    
+
         if (config.cfg) {
             const cfg = JSON.parse(fs.readFileSync(config.cfg, 'utf8')) as FullServerConfig;
             setLimitsConfig(cfg);
         }
-    
+
         if (config.printCfg !== null) {
             console.log(JSON.stringify(LimitsConfig, null, 2));
             process.exit(0);
         }
-    
+
         return config as LimitsConfig & { jobs: string, jobsTemplate: any };
     } catch (e) {
         console.error('' + e);
         process.exit(1);
-    }    
+    }
 }