Issue #805: fixed compile errors

src/examples/assembly-tm/TmRepresentation/algorithm.ts

@@ -13,9 +13,9 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { Vec3 } from '../../mol-math/linear-algebra';
-import { ParamDefinition as PD } from '../../mol-util/param-definition';
-import '../../mol-util/polyfill';
+import { Vec3 } from 'molstar/lib/mol-math/linear-algebra';
+import { ParamDefinition as PD } from 'molstar/lib/mol-util/param-definition';
+import 'molstar/lib/mol-util/polyfill';
 
 export const TMDETParams = {
     numberOfSpherePoints: PD.Numeric(140, { min: 35, max: 700, step: 1 }, { description: 'Number of spheres/directions to test for membrane placement. Original value is 350.' }),

src/examples/assembly-tm/TmRepresentation/behavior.ts

@@ -13,18 +13,18 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { ParamDefinition as PD } from '../../mol-util/param-definition';
-import { StructureRepresentationPresetProvider, PresetStructureRepresentations } from '../../mol-plugin-state/builder/structure/representation-preset';
-import { StateObject, StateObjectRef, StateObjectCell, StateTransformer, StateTransform } from '../../mol-state';
-import { Task } from '../../mol-task';
-import { PluginBehavior } from '../../mol-plugin/behavior';
-import { PluginStateObject, PluginStateTransform } from '../../mol-plugin-state/objects';
-import { PluginContext } from '../../mol-plugin/context';
-import { DefaultQueryRuntimeTable } from '../../mol-script/runtime/query/compiler';
-import { StructureSelectionQuery, StructureSelectionCategory } from '../../mol-plugin-state/helpers/structure-selection-query';
-import { MolScriptBuilder as MS } from '../../mol-script/language/builder';
-import { GenericRepresentationRef } from '../../mol-plugin-state/manager/structure/hierarchy-state';
-import { PluginUIContext } from '../../mol-plugin-ui/context';
+import { ParamDefinition as PD } from 'molstar/lib/mol-util/param-definition';
+import { StructureRepresentationPresetProvider, PresetStructureRepresentations } from 'molstar/lib/mol-plugin-state/builder/structure/representation-preset';
+import { StateObject, StateObjectRef, StateObjectCell, StateTransformer, StateTransform } from 'molstar/lib/mol-state';
+import { Task } from 'molstar/lib/mol-task';
+import { PluginBehavior } from 'molstar/lib/mol-plugin/behavior';
+import { PluginStateObject, PluginStateTransform } from 'molstar/lib/mol-plugin-state/objects';
+import { PluginContext } from 'molstar/lib/mol-plugin/context';
+import { DefaultQueryRuntimeTable } from 'molstar/lib/mol-script/runtime/query/compiler';
+import { StructureSelectionQuery, StructureSelectionCategory } from 'molstar/lib/mol-plugin-state/helpers/structure-selection-query';
+import { MolScriptBuilder as MS } from 'molstar/lib/mol-script/language/builder';
+import { GenericRepresentationRef } from 'molstar/lib/mol-plugin-state/manager/structure/hierarchy-state';
+import { PluginUIContext } from 'molstar/lib/mol-plugin-ui/context';
 // import { Gunzip } from "zlibt2";
 
 

src/examples/assembly-tm/TmRepresentation/camera.ts

@@ -7,11 +7,11 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { PluginUIContext } from '../../mol-plugin-ui/context';
-import { Quat, Vec3 } from '../../mol-math/linear-algebra';
-import { PluginCommands } from '../../mol-plugin/commands';
-import { Camera } from '../../mol-canvas3d/camera';
-import { DebugUtil } from '../../apps/tm-viewer';
+import { PluginUIContext } from 'molstar/lib/mol-plugin-ui/context';
+import { Quat, Vec3 } from 'molstar/lib/mol-math/linear-algebra';
+import { PluginCommands } from 'molstar/lib/mol-plugin/commands';
+import { Camera } from 'molstar/lib/mol-canvas3d/camera';
+import { DebugUtil } from './debug-utils';
 
 let initialSnapshot: Camera.Snapshot;
 

src/examples/assembly-tm/TmRepresentation/debug-utils.ts

@@ -7,16 +7,16 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { mmCIF_Database } from "../../mol-io/reader/cif/schema/mmcif";
-import { Mat4, Vec3 } from "../../mol-math/linear-algebra";
-import { MmcifFormat } from "../../mol-model-formats/structure/mmcif";
-import { Model } from "../../mol-model/structure";
-import { AtomicConformation } from "../../mol-model/structure/model/properties/atomic";
-import { createStructureRepresentationParams } from "../../mol-plugin-state/helpers/structure-representation-params";
-import { StateTransforms } from "../../mol-plugin-state/transforms";
-import { PluginUIContext } from "../../mol-plugin-ui/context";
-import { Expression } from "../../mol-script/language/expression";
-import { Color } from "../../mol-util/color";
+import { mmCIF_Database } from "molstar/lib/mol-io/reader/cif/schema/mmcif";
+import { Mat4, Vec3 } from "molstar/lib/mol-math/linear-algebra";
+import { MmcifFormat } from "molstar/lib/mol-model-formats/structure/mmcif";
+import { Model } from "molstar/lib/mol-model/structure";
+import { AtomicConformation } from "molstar/lib/mol-model/structure/model/properties/atomic";
+import { createStructureRepresentationParams } from "molstar/lib/mol-plugin-state/helpers/structure-representation-params";
+import { StateTransforms } from "molstar/lib/mol-plugin-state/transforms";
+import { PluginUIContext } from "molstar/lib/mol-plugin-ui/context";
+import { Expression } from "molstar/lib/mol-script/language/expression";
+import { Color } from "molstar/lib/mol-util/color";
 import { rotateCamera as RC } from "./camera";
 import { TmDetDescriptorCache } from "./prop";
 import { getChainExpression as GCE, getCurrentHierarchy as GCH, transformationForStateTransform, transformWholeModel } from "./transformation";

src/examples/assembly-tm/TmRepresentation/labeling.ts

@@ -7,9 +7,9 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { Loci } from '../../mol-model/loci';
-import { StructureElement } from '../../mol-model/structure';
-import { LociLabel, LociLabelProvider } from '../../mol-plugin-state/manager/loci-label';
+import { Loci } from 'molstar/lib/mol-model/loci';
+import { StructureElement } from 'molstar/lib/mol-model/structure';
+import { LociLabel, LociLabelProvider } from 'molstar/lib/mol-plugin-state/manager/loci-label';
 import { TmDetChainListCache, TmDetDescriptorCache } from './prop';
 import { createResidueListsPerChain, getChainAndResidueIds } from './tmdet-color-theme';
 import { ChainList, getResidue, ResidueItem } from './types';

src/examples/assembly-tm/TmRepresentation/prop.ts

@@ -13,16 +13,16 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { ParamDefinition as PD } from '../../mol-util/param-definition';
-import { Structure, StructureProperties, Unit } from '../../mol-model/structure';
-import { CustomPropertyDescriptor } from '../../mol-model/custom-property';
+import { ParamDefinition as PD } from 'molstar/lib/mol-util/param-definition';
+import { Structure, StructureProperties, Unit } from 'molstar/lib/mol-model/structure';
+import { CustomPropertyDescriptor } from 'molstar/lib/mol-model/custom-property';
 import { isInMembranePlane, TMDETParams } from './algorithm';
-import { CustomStructureProperty } from '../../mol-model-props/common/custom-structure-property';
-import { CustomProperty } from '../../mol-model-props/common/custom-property';
-import { Vec3 } from '../../mol-math/linear-algebra';
-import { QuerySymbolRuntime } from '../../mol-script/runtime/query/base';
-import { CustomPropSymbol } from '../../mol-script/language/symbol';
-import { Type } from '../../mol-script/language/type';
+import { CustomStructureProperty } from 'molstar/lib/mol-model-props/common/custom-structure-property';
+import { CustomProperty } from 'molstar/lib/mol-model-props/common/custom-property';
+import { Vec3 } from 'molstar/lib/mol-math/linear-algebra';
+import { QuerySymbolRuntime } from 'molstar/lib/mol-script/runtime/query/base';
+import { CustomPropSymbol } from 'molstar/lib/mol-script/language/symbol';
+import { Type } from 'molstar/lib/mol-script/language/type';
 import { membraneOrientation } from './behavior';
 import { ChainList, PDBTMDescriptor } from './types';
 

src/examples/assembly-tm/TmRepresentation/representation.ts

@@ -5,27 +5,26 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 
-import { ParamDefinition as PD } from '../../mol-util/param-definition';
-import { Vec3, Mat4 } from '../../mol-math/linear-algebra';
-import { Representation, RepresentationContext, RepresentationParamsGetter } from '../../mol-repr/representation';
-import { Structure } from '../../mol-model/structure';
-import { StructureRepresentationProvider, StructureRepresentation, StructureRepresentationStateBuilder } from '../../mol-repr/structure/representation';
-import { MembraneOrientation } from './prop';
-import { ThemeRegistryContext } from '../../mol-theme/theme';
-import { ShapeRepresentation } from '../../mol-repr/shape/representation';
-import { Shape } from '../../mol-model/shape';
-import { RuntimeContext } from '../../mol-task';
-import { Lines } from '../../mol-geo/geometry/lines/lines';
-import { Mesh } from '../../mol-geo/geometry/mesh/mesh';
-import { LinesBuilder } from '../../mol-geo/geometry/lines/lines-builder';
-import { Circle } from '../../mol-geo/primitive/circle';
-import { transformPrimitive } from '../../mol-geo/primitive/primitive';
-import { MeshBuilder } from '../../mol-geo/geometry/mesh/mesh-builder';
-import { MembraneOrientationProvider } from './prop';
-import { MarkerActions } from '../../mol-util/marker-action';
-import { lociLabel } from '../../mol-theme/label';
-import { ColorNames } from '../../mol-util/color/names';
-import { CustomProperty } from '../../mol-model-props/common/custom-property';
+import { ParamDefinition as PD } from 'molstar/lib/mol-util/param-definition';
+import { Vec3, Mat4 } from 'molstar/lib/mol-math/linear-algebra';
+import { Representation, RepresentationContext, RepresentationParamsGetter } from 'molstar/lib/mol-repr/representation';
+import { Structure } from 'molstar/lib/mol-model/structure';
+import { StructureRepresentationProvider, StructureRepresentation, StructureRepresentationStateBuilder } from 'molstar/lib/mol-repr/structure/representation';
+import { MembraneOrientation, MembraneOrientationProvider } from './prop';
+import { ThemeRegistryContext } from 'molstar/lib/mol-theme/theme';
+import { ShapeRepresentation } from 'molstar/lib/mol-repr/shape/representation';
+import { Shape } from 'molstar/lib/mol-model/shape';
+import { RuntimeContext } from 'molstar/lib/mol-task';
+import { Lines } from 'molstar/lib/mol-geo/geometry/lines/lines';
+import { Mesh } from 'molstar/lib/mol-geo/geometry/mesh/mesh';
+import { LinesBuilder } from 'molstar/lib/mol-geo/geometry/lines/lines-builder';
+import { Circle } from 'molstar/lib/mol-geo/primitive/circle';
+import { transformPrimitive } from 'molstar/lib/mol-geo/primitive/primitive';
+import { MeshBuilder } from 'molstar/lib/mol-geo/geometry/mesh/mesh-builder';
+import { MarkerActions } from 'molstar/lib/mol-util/marker-action';
+import { lociLabel } from 'molstar/lib/mol-theme/label';
+import { ColorNames } from 'molstar/lib/mol-util/color/names';
+import { CustomProperty } from 'molstar/lib/mol-model-props/common/custom-property';
 
 const SharedParams = {
     color: PD.Color(ColorNames.lightgrey),

src/examples/assembly-tm/TmRepresentation/symmetry.ts

@@ -7,11 +7,11 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { MmcifFormat } from '../../mol-model-formats/structure/mmcif';
-import { Column, Table } from '../../mol-data/db';
-import { mmCIF_Schema } from '../../mol-io/reader/cif/schema/mmcif';
-import { Model } from '../../mol-model/structure';
-import { ModelSymmetry } from '../../mol-model-formats/structure/property/symmetry';
+import { MmcifFormat } from 'molstar/lib/mol-model-formats/structure/mmcif';
+import { Column, Table } from 'molstar/lib/mol-data/db';
+import { mmCIF_Schema } from 'molstar/lib/mol-io/reader/cif/schema/mmcif';
+import { Model } from 'molstar/lib/mol-model/structure';
+import { ModelSymmetry } from 'molstar/lib/mol-model-formats/structure/property/symmetry';
 import { PDBTMDescriptor } from './types';
 import { DebugUtil } from './debug-utils';
 

src/examples/assembly-tm/TmRepresentation/tmdet-color-theme.ts

@@ -7,13 +7,13 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { StructureElement, Unit } from '../../mol-model/structure';
-import { ColorTheme } from '../../mol-theme/color';
-import { ThemeDataContext } from '../../mol-theme/theme';
-import { Color } from '../../mol-util/color';
-import { ColorNames } from '../../mol-util/color/names';
-import { ParamDefinition as PD } from '../../mol-util/param-definition';
-import { Location } from '../../mol-model/location';
+import { StructureElement, Unit } from 'molstar/lib//mol-model/structure';
+import { ColorTheme } from 'molstar/lib//mol-theme/color';
+import { ThemeDataContext } from 'molstar/lib/mol-theme/theme';
+import { Color } from 'molstar/lib/mol-util/color';
+import { ColorNames } from 'molstar/lib/mol-util/color/names';
+import { ParamDefinition as PD } from 'molstar/lib/mol-util/param-definition';
+import { Location } from 'molstar/lib/mol-model/location';
 import { ChainList, getResidue, PDBTMChain } from './types';
 import { TmDetChainListCache, TmDetDescriptorCache } from './prop';
 

src/examples/assembly-tm/TmRepresentation/transformation.ts

@@ -7,17 +7,17 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { MolScriptBuilder as MS } from '../../mol-script/language/builder';
-import { PluginUIContext } from '../../mol-plugin-ui/context';
-import { Mat4, Vec3 } from '../../mol-math/linear-algebra';
+import { MolScriptBuilder as MS } from 'molstar/lib/mol-script/language/builder';
+import { PluginUIContext } from 'molstar/lib/mol-plugin-ui/context';
+import { Mat4, Vec3 } from 'molstar/lib/mol-math/linear-algebra';
 import { PDBTMDescriptor, PDBTMTransformationMatrix, PMS } from './types';
-import { createStructureRepresentationParams } from '../../mol-plugin-state/helpers/structure-representation-params';
-import { StateTransforms } from '../../mol-plugin-state/transforms';
-import { StateObjectRef, StateBuilder } from '../../mol-state';
-import { Expression } from '../../mol-script/language/expression';
+import { createStructureRepresentationParams } from 'molstar/lib/mol-plugin-state/helpers/structure-representation-params';
+import { StateTransforms } from 'molstar/lib/mol-plugin-state/transforms';
+import { StateObjectRef, StateBuilder } from 'molstar/lib/mol-state';
+import { Expression } from 'molstar/lib/mol-script/language/expression';
 import { MembraneOrientation } from './prop';
 import { TmDetColorThemeProvider } from './tmdet-color-theme';
-import { DebugUtil } from '../../apps/tm-viewer';
+import { DebugUtil } from './debug-utils';
 
 export function applyTransformations(plugin: PluginUIContext, pdbtmDescriptor: PDBTMDescriptor) {
     const annotations = pdbtmDescriptor.additional_entry_annotations;

src/examples/assembly-tm/TmRepresentation/types.ts

@@ -7,9 +7,9 @@
  * @author Csongor Gerdan <gerdan.csongor@ttk.hu>
  */
 
-import { PluginStateObject } from "../../mol-plugin-state/objects";
-import { StateObject, StateTransformer } from '../../mol-state';
-import { StateObjectSelector } from "../../mol-state/object";
+import { PluginStateObject } from "molstar/lib/mol-plugin-state/objects";
+import { StateObject, StateTransformer } from 'molstar/lib/mol-state';
+import { StateObjectSelector } from "molstar/lib/mol-state/object";
 
 export type PMS = PluginStateObject.Molecule.Structure;