npm - molstar - Versions diffs - 2.3.8 → 3.0.0-dev.0 - Mend

molstar 2.3.8 → 3.0.0-dev.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (701) hide show

package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.js.map CHANGED Viewed

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1	+ 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package/lib/commonjs/mol-plugin/commands.d.ts CHANGED Viewed

@@ -259,13 +259,14 @@ export declare const PluginCommands: {
                     selectStrength: number;
                     markerPriority: number;
                     xrayEdgeFalloff: number;
-                    style: import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "flat"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "metallic"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<{
-                        lightIntensity: any;
-                        ambientIntensity: any;
-                        metalness: any;
-                        roughness: any;
-                        reflectivity: any;
-                    }>, "custom"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "matte"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "glossy"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "plastic">;
+                    light: import("../mol-util/param-definition").ParamDefinition.Normalize<{
+                        inclination: number;
+                        azimuth: number;
+                        color: import("../mol-util/color").Color;
+                        intensity: number;
+                    }>[];
+                    ambientColor: import("../mol-util/color").Color;
+                    ambientIntensity: number;
                     clip: import("../mol-util/param-definition").ParamDefinition.Normalize<{
                         variant: any;
                         objects: any;
@@ -295,12 +296,12 @@ export declare const PluginCommands: {
                         scrollFocus: import("../mol-util/binding").Binding;
                         scrollFocusZoom: import("../mol-util/binding").Binding;
                     };
-                    autoAdjustMinMaxDistance: import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<{
+                    autoAdjustMinMaxDistance: import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "off"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<{
                         minDistanceFactor: any;
                         minDistancePadding: any;
                         maxDistanceFactor: any;
                         maxDistanceMin: any;
-                    }>, "on"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "off">;
+                    }>, "on">;
                 }>>;
                 interaction: import("../mol-util/param-definition").ParamDefinition.Group<import("../mol-util/param-definition").ParamDefinition.Normalize<{
                     maxFps: number;
@@ -325,6 +326,7 @@ export declare const PluginCommands: {
                         flatShaded: any;
                         xrayShaded: any;
                         quality: any;
+                        material: any;
                     }>, "on">;
                 }>>;
             }>> | ((old: Canvas3DProps) => Partial<Canvas3DProps> | void);

package/lib/commonjs/mol-plugin/spec.js CHANGED Viewed

@@ -70,6 +70,7 @@ var DefaultPluginSpec = function () { return ({
         PluginSpec.Action(transforms_1.StateTransforms.Representation.UnwindStructureAssemblyRepresentation3D),
         PluginSpec.Action(transforms_1.StateTransforms.Representation.OverpaintStructureRepresentation3DFromScript),
         PluginSpec.Action(transforms_1.StateTransforms.Representation.TransparencyStructureRepresentation3DFromScript),
+        PluginSpec.Action(transforms_1.StateTransforms.Representation.SubstanceStructureRepresentation3DFromScript),
         PluginSpec.Action(volume_1.AssignColorVolume),
         PluginSpec.Action(transforms_1.StateTransforms.Volume.VolumeFromCcp4),
         PluginSpec.Action(transforms_1.StateTransforms.Volume.VolumeFromDsn6),

package/lib/commonjs/mol-plugin/spec.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"spec.js","sourceRoot":"","sources":["../../../src/mol-plugin/spec.ts"],"names":[],"mappings":";AAAA;;;;;GAKG;;;AAGH,0FAA+F;AAC/F,kFAAuF;AACvF,kFAAuF;AACvF,0FAA+F;AAI/F,uCAA6C;AAC7C,8GAA2G;AAG3G,uDAA2D;AAC3D,6DAAuE;AACvE,6DAAiE;AACjE,6FAAyJ;AACzJ,kGAAuG;AACvG,wFAA6F;AAgB7F,IAAU,UAAU,CAoBnB;AApBD,WAAU,UAAU;IAQhB,SAAgB,MAAM,CAAC,MAAsC,EAAE,MAAwH;QACnL,OAAO,EAAE,MAAM,QAAA,EAAE,aAAa,EAAE,MAAM,IAAI,MAAM,CAAC,aAAa,EAAE,UAAU,EAAE,MAAM,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;IAC9G,CAAC;IAFe,iBAAM,SAErB,CAAA;IAOD,SAAgB,QAAQ,CAA6B,WAAc,EAAE,aAAuD;QAAvD,8BAAA,EAAA,kBAAuD;QACxH,OAAO,EAAE,WAAW,aAAA,EAAE,aAAa,eAAA,EAAE,CAAC;IAC1C,CAAC;IAFe,mBAAQ,WAEvB,CAAA;AACL,CAAC,EApBS,UAAU,KAAV,UAAU,QAoBnB;AAlCQ,gCAAU;AAoCZ,IAAM,iBAAiB,GAAG,cAAkB,OAAA,CAAC;IAChD,OAAO,EAAE;QACL,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,iBAAiB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,aAAa,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,MAAM,CAAC,eAAe,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,YAAY,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,SAAS,CAAC;QACpD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,sBAAsB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,0BAA0B,CAAC;QAEpE,mBAAmB;QACnB,UAAU,CAAC,MAAM,CAAC,kCAAmB,CAAC;QACtC,UAAU,CAAC,MAAM,CAAC,oCAAqB,CAAC;QACxC,UAAU,CAAC,MAAM,CAAC,4CAA6B,CAAC;QAEhD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QACjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QAEjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,qBAAqB,CAAC;QAC9D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,iBAAiB,CAAC;QAC1D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,8BAA8B,CAAC;QACvE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,kBAAkB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,uBAAuB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,4BAA4B,CAAC;QACrE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,yBAAyB,CAAC;QAC3E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,eAAe,CAAC;QACjE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;QACxE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,uCAAuC,CAAC;QACzF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAC9F,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,+CAA+C,CAAC;~~QAEjG~~,UAAU,CAAC,MAAM,CAAC,0BAAiB,CAAC;QACpC,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,YAAY,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;KAC3E;IACD,SAAS,EAAE;QACP,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,aAAa,CAAC;QACjE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,UAAU,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,wBAAwB,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,SAAS,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,SAAS,CAAC;QACrD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,gBAAgB,CAAC;QAC5D,UAAU,CAAC,QAAQ,CAAC,6DAA4B,CAAC;QAEjD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,aAAa,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,qBAAqB,CAAC;QACtE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,2BAA2B,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;QACnE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;KACtE;IACD,UAAU,EAAE;QACR,+BAAiB;QACjB,+BAAiB;QACjB,uCAAqB;QACrB,uCAAqB;QACrB,qCAAoB;QACpB,+CAAyB;KAC5B;CACJ,CAAC,~~EA1EiD~~,~~CA0EjD~~,CAAC;~~AA1EU~~,QAAA,iBAAiB,~~qBA0E3B~~"}
1	+ {"version":3,"file":"spec.js","sourceRoot":"","sources":["../../../src/mol-plugin/spec.ts"],"names":[],"mappings":";AAAA;;;;;GAKG;;;AAGH,0FAA+F;AAC/F,kFAAuF;AACvF,kFAAuF;AACvF,0FAA+F;AAI/F,uCAA6C;AAC7C,8GAA2G;AAG3G,uDAA2D;AAC3D,6DAAuE;AACvE,6DAAiE;AACjE,6FAAyJ;AACzJ,kGAAuG;AACvG,wFAA6F;AAgB7F,IAAU,UAAU,CAoBnB;AApBD,WAAU,UAAU;IAQhB,SAAgB,MAAM,CAAC,MAAsC,EAAE,MAAwH;QACnL,OAAO,EAAE,MAAM,QAAA,EAAE,aAAa,EAAE,MAAM,IAAI,MAAM,CAAC,aAAa,EAAE,UAAU,EAAE,MAAM,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;IAC9G,CAAC;IAFe,iBAAM,SAErB,CAAA;IAOD,SAAgB,QAAQ,CAA6B,WAAc,EAAE,aAAuD;QAAvD,8BAAA,EAAA,kBAAuD;QACxH,OAAO,EAAE,WAAW,aAAA,EAAE,aAAa,eAAA,EAAE,CAAC;IAC1C,CAAC;IAFe,mBAAQ,WAEvB,CAAA;AACL,CAAC,EApBS,UAAU,KAAV,UAAU,QAoBnB;AAlCQ,gCAAU;AAoCZ,IAAM,iBAAiB,GAAG,cAAkB,OAAA,CAAC;IAChD,OAAO,EAAE;QACL,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,iBAAiB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,aAAa,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,MAAM,CAAC,eAAe,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,YAAY,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,SAAS,CAAC;QACpD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,sBAAsB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,0BAA0B,CAAC;QAEpE,mBAAmB;QACnB,UAAU,CAAC,MAAM,CAAC,kCAAmB,CAAC;QACtC,UAAU,CAAC,MAAM,CAAC,oCAAqB,CAAC;QACxC,UAAU,CAAC,MAAM,CAAC,4CAA6B,CAAC;QAEhD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QACjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QAEjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,qBAAqB,CAAC;QAC9D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,iBAAiB,CAAC;QAC1D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,8BAA8B,CAAC;QACvE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,kBAAkB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,uBAAuB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,4BAA4B,CAAC;QACrE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,yBAAyB,CAAC;QAC3E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,eAAe,CAAC;QACjE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;QACxE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,uCAAuC,CAAC;QACzF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAC9F,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,+CAA+C,CAAC;QACjG,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAE9F,UAAU,CAAC,MAAM,CAAC,0BAAiB,CAAC;QACpC,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,YAAY,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;KAC3E;IACD,SAAS,EAAE;QACP,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,aAAa,CAAC;QACjE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,UAAU,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,wBAAwB,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,SAAS,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,SAAS,CAAC;QACrD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,gBAAgB,CAAC;QAC5D,UAAU,CAAC,QAAQ,CAAC,6DAA4B,CAAC;QAEjD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,aAAa,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,qBAAqB,CAAC;QACtE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,2BAA2B,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;QACnE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;KACtE;IACD,UAAU,EAAE;QACR,+BAAiB;QACjB,+BAAiB;QACjB,uCAAqB;QACrB,uCAAqB;QACrB,qCAAoB;QACpB,+CAAyB;KAC5B;CACJ,CAAC,EA3EiD,CA2EjD,CAAC;AA3EU,QAAA,iBAAiB,qBA2E3B"}

package/lib/commonjs/mol-plugin/util/viewport-screenshot.d.ts CHANGED Viewed

@@ -38,6 +38,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flatShaded: boolean;
             xrayShaded: boolean;
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+            material: import("../../mol-util/material").Material;
         }>, "on">>;
     };
     readonly behaviors: {
@@ -59,6 +60,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
                 flatShaded: boolean;
                 xrayShaded: boolean;
                 quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+                material: import("../../mol-util/material").Material;
             }>, "on">>;
         }>>;
         cropParams: import("rxjs").BehaviorSubject<{
@@ -88,6 +90,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flatShaded: boolean;
             xrayShaded: boolean;
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+            material: import("../../mol-util/material").Material;
         }>, "on">>;
     }>;
     get cropParams(): {

package/lib/commonjs/mol-plugin-state/actions/file.js CHANGED Viewed

@@ -74,7 +74,8 @@ exports.OpenFiles = mol_state_1.StateAction.build({
                                     case 6: return [3 /*break*/, 8];
                                     case 7:
                                         e_1 = _d.sent();
-                                        plugin.log.error(e_1);
+                                        console.error(e_1);
+                                        plugin.log.error("Error opening file '".concat(file.name, "'"));
                                         return [3 /*break*/, 8];
                                     case 8:
                                         _i++;
@@ -135,7 +136,8 @@ exports.DownloadFile = mol_state_1.StateAction.build({
                                     case 4: return [3 /*break*/, 6];
                                     case 5:
                                         e_2 = _b.sent();
-                                        plugin.log.error(e_2);
+                                        console.error(e_2);
+                                        plugin.log.error("Error downloading '".concat(typeof params.url === 'string' ? params.url : params.url.url, "'"));
                                         return [3 /*break*/, 6];
                                     case 6: return [2 /*return*/];
                                 }

package/lib/commonjs/mol-plugin-state/actions/file.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"file.js","sourceRoot":"","sources":["../../../../src/mol-plugin-state/actions/file.ts"],"names":[],"mappings":";AAAA;;;;GAIG;;;;AAGH,6CAA8C;AAC9C,2CAAsC;AACtC,sDAAuD;AACvD,oEAAwE;AACxE,sCAA+C;AAElC,QAAA,SAAS,GAAG,uBAAW,CAAC,KAAK,CAAC;IACvC,OAAO,EAAE,EAAE,IAAI,EAAE,YAAY,EAAE,WAAW,EAAE,8DAA8D,EAAE;IAC5G,IAAI,EAAE,2BAAiB,CAAC,IAAI;IAC5B,MAAM,EAAE,UAAC,CAAC,EAAE,GAAkB;QACpB,IAAA,KAA0B,GAAG,CAAC,WAAW,EAAvC,UAAU,gBAAA,EAAE,OAAO,aAAoB,CAAC;QAChD,OAAO;YACH,KAAK,EAAE,kCAAE,CAAC,QAAQ,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,IAAI,CAAC,UAAU,CAAC,MAAM,EAAE,CAAC,CAAC,GAAG,CAAC,UAAA,CAAC,IAAI,OAAA,WAAI,CAAC,CAAE,EAAP,CAAO,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,WAAW,EAAE,QAAQ,EAAE,IAAI,EAAE,CAAC;YACzH,MAAM,EAAE,kCAAE,CAAC,YAAY,CAAC,MAAM,EAAE;gBAC5B,IAAI,EAAE,kCAAE,CAAC,UAAU,EAAE;gBACrB,QAAQ,EAAE,kCAAE,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,OAAO,CAAC;aAC9C,CAAC;YACF,OAAO,EAAE,kCAAE,CAAC,OAAO,CAAC,IAAI,EAAE,EAAE,WAAW,EAAE,qBAAqB,EAAE,CAAC;SACpE,CAAC;IACN,CAAC;CACJ,CAAC,CAAC,UAAC,EAAiB,EAAE,MAAqB;QAAtC,MAAM,YAAA,EAAE,KAAK,WAAA;IAA8B,OAAA,eAAI,CAAC,MAAM,CAAC,YAAY,EAAE,UAAM,OAAO;;;;oBACpF,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,gBAAgB,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;oBAEtD,qBAAM,KAAK,CAAC,WAAW,CAAC;;;;;;wCACpB,IAAI,MAAM,CAAC,KAAK,KAAK,IAAI,EAAE;4CACvB,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,qBAAqB,CAAC,CAAC;4CACxC,sBAAO;yCACV;8CAC8B,EAAZ,KAAA,MAAM,CAAC,KAAK;;;6CAAZ,CAAA,cAAY,CAAA;wCAApB,IAAI;;;;wCAED,IAAI,GAAG,IAAA,uBAAW,EAAC,IAAI,CAAC,IAAK,CAAC,CAAC;wCAC/B,QAAQ,GAAG,MAAM,CAAC,WAAW,CAAC,gBAAgB,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;wCAClD,qBAAM,MAAM,CAAC,QAAQ,CAAC,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,MAAA,EAAE,QAAQ,UAAA,EAAE,CAAC,EAAA;;wCAAhE,IAAI,GAAK,CAAA,SAAuD,CAAA,KAA5D;wCACN,QAAQ,GAAG,MAAM,CAAC,MAAM,CAAC,IAAI,KAAK,MAAM;4CAC1C,CAAC,CAAC,MAAM,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,EAAE,MAAA,IAAI,CAAC,IAAI,0CAAE,GAAI,CAAC;4CAChD,CAAC,CAAC,MAAM,CAAC,WAAW,CAAC,GAAG,CAAC,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC;wCAEnD,IAAI,CAAC,QAAQ,EAAE;4CACX,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,uDAAgD,IAAI,CAAC,IAAI,cAAI,IAAI,CAAC,GAAG,MAAG,CAAC,CAAC;4CAC1F,wBAAS;yCACZ;wCAGc,qBAAM,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,EAAA;;wCAA3C,MAAM,GAAG,SAAkC;6CAC7C,MAAM,CAAC,OAAO,EAAd,wBAAc;wCACd,qBAAM,CAAA,MAAA,QAAQ,CAAC,OAAO,+CAAhB,QAAQ,EAAW,MAAM,EAAE,MAAM,CAAC,CAAA,EAAA;;wCAAxC,SAAwC,CAAC;;;;;wCAG7C,OAAO,CAAC,KAAK,CAAC,GAAC,CAAC,CAAC;wCACjB,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,8BAAuB,IAAI,CAAC,IAAI,MAAG,CAAC,CAAC;;;wCArB3C,IAAY,CAAA;;;;;6BAwBlC,CAAC,CAAC,YAAY,CAAC,OAAO,CAAC,EAAA;;oBA7BxB,SA6BwB,CAAC;;;;SAC5B,CAAC;AAjC+C,CAiC/C,CAAC,CAAC;AAES,QAAA,YAAY,GAAG,uBAAW,CAAC,KAAK,CAAC;IAC1C,OAAO,EAAE,EAAE,IAAI,EAAE,eAAe,EAAE,WAAW,EAAE,mCAAmC,EAAE;IACpF,IAAI,EAAE,2BAAiB,CAAC,IAAI;IAC5B,MAAM,EAAE,UAAC,CAAC,EAAE,GAAkB;QAClB,IAAA,OAAO,GAAK,GAAG,CAAC,WAAW,QAApB,CAAqB;QACpC,OAAO;YACH,GAAG,EAAE,kCAAE,CAAC,GAAG,CAAC,EAAE,CAAC;YACf,MAAM,EAAE,kCAAE,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,OAAO,CAAC;YACzC,QAAQ,EAAE,kCAAE,CAAC,OAAO,CAAC,KAAK,CAAC;YAC3B,OAAO,EAAE,kCAAE,CAAC,OAAO,CAAC,IAAI,EAAE,EAAE,WAAW,EAAE,qBAAqB,EAAE,CAAC;SACpE,CAAC;IACN,CAAC;CACJ,CAAC,CAAC,UAAC,EAAiB,EAAE,MAAqB;QAAtC,MAAM,YAAA,EAAE,KAAK,WAAA;IAA8B,OAAA,eAAI,CAAC,MAAM,CAAC,YAAY,EAAE,UAAM,OAAO;;;;oBACpF,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,gBAAgB,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;oBAEtD,qBAAM,KAAK,CAAC,WAAW,CAAC;;;;;;;wCAEV,QAAQ,GAAG,MAAM,CAAC,WAAW,CAAC,GAAG,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC;wCACvD,IAAI,CAAC,QAAQ,EAAE;4CACX,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,0DAAmD,MAAM,CAAC,MAAM,MAAG,CAAC,CAAC;4CACrF,sBAAO;yCACV;wCAEY,qBAAM,MAAM,CAAC,QAAQ,CAAC,IAAI,CAAC,QAAQ,CAAC,EAAE,GAAG,EAAE,MAAM,CAAC,GAAG,EAAE,QAAQ,EAAE,MAAM,CAAC,QAAQ,EAAE,CAAC,EAAA;;wCAA1F,IAAI,GAAG,SAAmF;wCACjF,qBAAM,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,EAAA;;wCAA3C,MAAM,GAAG,SAAkC;6CAC7C,MAAM,CAAC,OAAO,EAAd,wBAAc;wCACd,qBAAM,CAAA,MAAA,QAAQ,CAAC,OAAO,+CAAhB,QAAQ,EAAW,MAAM,EAAE,MAAM,CAAC,CAAA,EAAA;;wCAAxC,SAAwC,CAAC;;;;;wCAG7C,OAAO,CAAC,KAAK,CAAC,GAAC,CAAC,CAAC;wCACjB,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,6BAAsB,OAAO,MAAM,CAAC,GAAG,KAAK,QAAQ,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,MAAG,CAAC,CAAC;;;;;6BAE/G,CAAC,CAAC,YAAY,CAAC,OAAO,CAAC,EAAA;;oBAjBxB,SAiBwB,CAAC;;;;SAC5B,CAAC;AArB+C,CAqB/C,CAAC,CAAC"}

package/lib/commonjs/mol-plugin-state/builder/structure/representation-preset.d.ts CHANGED Viewed

@@ -31,9 +31,9 @@ export declare namespace StructureRepresentationPresetProvider {
         ignoreHydrogens: PD.Base<boolean | undefined>;
         quality: PD.Base<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined>;
         theme: PD.Base<PD.Normalize<{
-            globalName: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+            globalName: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
             carbonColor: "element-symbol" | "chain-id" | "operator-name" | undefined;
-            symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+            symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
             focus: PD.Normalize<{
                 name: any;
                 params: any;
@@ -44,8 +44,8 @@ export declare namespace StructureRepresentationPresetProvider {
     function reprBuilder(plugin: PluginContext, params: CommonParams, structure?: Structure): {
         update: import("../../../mol-state/state/builder").StateBuilder.Root;
         builder: import("./representation").StructureRepresentationBuilder;
-        color: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
-        symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+        color: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+        symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
         typeParams: {
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
             ignoreHydrogens: boolean;

package/lib/commonjs/mol-plugin-state/formats/volume.js CHANGED Viewed

@@ -43,6 +43,7 @@ function tryObtainRecommendedIsoValue(plugin, volume) {
                                 return [3 /*break*/, 3];
                             case 2:
                                 e_1 = _a.sent();
+                                console.warn(e_1);
                                 return [3 /*break*/, 3];
                             case 3: return [2 /*return*/];
                         }

package/lib/commonjs/mol-plugin-state/formats/volume.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author David Sehnal <david.sehnal@gmail.com>

package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.js CHANGED Viewed

@@ -1,6 +1,6 @@
 "use strict";
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author David Sehnal <david.sehnal@gmail.com>
@@ -15,6 +15,7 @@ var compiler_1 = require("../../mol-script/runtime/query/compiler");
 var set_1 = require("../../mol-util/set");
 var transforms_1 = require("../transforms");
 var types_2 = require("../../mol-model/structure/model/properties/atomic/types");
+var secondary_structure_1 = require("../../mol-model-props/computed/secondary-structure");
 var StructureSelectionCategory;
 (function (StructureSelectionCategory) {
     StructureSelectionCategory["Type"] = "Type";
@@ -226,7 +227,12 @@ var helix = StructureSelectionQuery('Helix', builder_1.MolScriptBuilder.struct.m
             builder_1.MolScriptBuilder.core.type.bitflags([2 /* Helix */])
         ])
     })
-]), { category: StructureSelectionCategory.Structure });
+]), {
+    category: StructureSelectionCategory.Structure,
+    ensureCustomProperties: function (ctx, structure) {
+        return secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure);
+    }
+});
 var beta = StructureSelectionQuery('Beta Strand/Sheet', builder_1.MolScriptBuilder.struct.modifier.union([
     builder_1.MolScriptBuilder.struct.generator.atomGroups({
         'entity-test': _proteinEntityTest,
@@ -235,7 +241,12 @@ var beta = StructureSelectionQuery('Beta Strand/Sheet', builder_1.MolScriptBuild
             builder_1.MolScriptBuilder.core.type.bitflags([4 /* Beta */])
         ])
     })
-]), { category: StructureSelectionCategory.Structure });
+]), {
+    category: StructureSelectionCategory.Structure,
+    ensureCustomProperties: function (ctx, structure) {
+        return secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure);
+    }
+});
 var water = StructureSelectionQuery('Water', builder_1.MolScriptBuilder.struct.modifier.union([
     builder_1.MolScriptBuilder.struct.generator.atomGroups({
         'entity-test': builder_1.MolScriptBuilder.core.rel.eq([builder_1.MolScriptBuilder.ammp('entityType'), 'water'])

package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-plugin-state/helpers/structure-substance.d.ts ADDED Viewed

@@ -0,0 +1,13 @@
+/**
+ * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ *
+ * @author Alexander Rose <alexander.rose@weirdbyte.de>
+ * @author David Sehnal <david.sehnal@gmail.com>
+ */
+import { Structure, StructureElement } from '../../mol-model/structure';
+import { PluginContext } from '../../mol-plugin/context';
+import { StructureComponentRef } from '../manager/structure/hierarchy-state';
+import { EmptyLoci } from '../../mol-model/loci';
+import { Material } from '../../mol-util/material';
+export declare function setStructureSubstance(plugin: PluginContext, components: StructureComponentRef[], material: Material | -1, lociGetter: (structure: Structure) => Promise<StructureElement.Loci | EmptyLoci>, types?: string[]): Promise<void>;
+export declare function clearStructureSubstance(plugin: PluginContext, components: StructureComponentRef[], types?: string[]): Promise<void>;