icn3d/icn3d.min.js

iCn3D Structure Viewer

var CIFTools,$NGL_shaderTextHash={};$NGL_shaderTextHash["SphereImpostor.frag"]=["#define STANDARD","#define IMPOSTOR","","uniform vec3 diffuse;","uniform vec3 emissive;","uniform float roughness;","uniform float metalness;","uniform float opacity;","uniform float nearClip;","uniform mat4 projectionMatrix;","uniform float ortho;","","varying float vRadius;","varying float vRadiusSq;","varying vec3 vPoint;","varying vec3 vPointViewPosition;","","#ifdef PICKING","    uniform float objectId;","    varying vec3 vPickingColor;","#else","    #include common","    #include color_pars_fragment","    #include fog_pars_fragment","    #include bsdfs","    #include lights_pars_begin","    #include lights_physical_pars_fragment","#endif","","bool flag2 = false;","bool interior = false;","vec3 cameraPos;","vec3 cameraNormal;","","// Calculate depth based on the given camera position.","float calcDepth( in vec3 cameraPos ){","    vec2 clipZW = cameraPos.z * projectionMatrix[2].zw + projectionMatrix[3].zw;","    return 0.5 + 0.5 * clipZW.x / clipZW.y;","}","","float calcClip( vec3 cameraPos ){","    return dot( vec4( cameraPos, 1.0 ), vec4( 0.0, 0.0, 1.0, nearClip - 0.5 ) );","}","","bool Impostor( out vec3 cameraPos, out vec3 cameraNormal ){","","    vec3 cameraSpherePos = -vPointViewPosition;","    cameraSpherePos.z += vRadius;","","    vec3 rayOrigin = mix( vec3( 0.0, 0.0, 0.0 ), vPoint, ortho );","    vec3 rayDirection = mix( normalize( vPoint ), vec3( 0.0, 0.0, 1.0 ), ortho );","    vec3 cameraSphereDir = mix( cameraSpherePos, rayOrigin - cameraSpherePos, ortho );","","    float B = dot( rayDirection, cameraSphereDir );","    float det = B * B + vRadiusSq - dot( cameraSphereDir, cameraSphereDir );","","    if( det < 0.0 ){","        discard;","        return false;","    }","        float sqrtDet = sqrt( det );","        float posT = mix( B + sqrtDet, B + sqrtDet, ortho );","        float negT = mix( B - sqrtDet, sqrtDet - B, ortho );","","        cameraPos = rayDirection * negT + rayOrigin;","","        #ifdef NEAR_CLIP","if( calcDepth( cameraPos ) <= 0.0 ){","    cameraPos = rayDirection * posT + rayOrigin;","    interior = true;","    return false;","}else if( calcClip( cameraPos ) > 0.0 ){","    cameraPos = rayDirection * posT + rayOrigin;","    interior = true;","    flag2 = true;","    return false;","}else{","    cameraNormal = normalize( cameraPos - cameraSpherePos );","}","        #else","if( calcDepth( cameraPos ) <= 0.0 ){","    cameraPos = rayDirection * posT + rayOrigin;","    interior = true;","    return false;","}else{","    cameraNormal = normalize( cameraPos - cameraSpherePos );","}","        #endif","","        cameraNormal = normalize( cameraPos - cameraSpherePos );","        cameraNormal *= float(!interior) * 2.0 - 1.0;","         return !interior;","","}","","void main(void){","","    bool flag = Impostor( cameraPos, cameraNormal );","","    #ifdef NEAR_CLIP","        if( calcClip( cameraPos ) > 0.0 )","            discard;","    #endif","","    // FIXME not compatible with custom clipping plane","    //Set the depth based on the new cameraPos.","    gl_FragDepthEXT = calcDepth( cameraPos );","    if( !flag ){","","        // clamp to near clipping plane and add a tiny value to","        // make spheres with a greater radius occlude smaller ones","        #ifdef NEAR_CLIP","if( flag2 ){","    gl_FragDepthEXT = max( 0.0, calcDepth( vec3( - ( nearClip - 0.5 ) ) ) + ( 0.0000001 / vRadius ) );","}else if( gl_FragDepthEXT >= 0.0 ){","    gl_FragDepthEXT = 0.0 + ( 0.0000001 / vRadius );","}","        #else","if( gl_FragDepthEXT >= 0.0 ){","    gl_FragDepthEXT = 0.0 + ( 0.0000001 / vRadius );","}","        #endif","","    }","","    // bugfix (mac only?)","    if (gl_FragDepthEXT < 0.0)","        discard;","    if (gl_FragDepthEXT > 1.0)","        discard;","","    #ifdef PICKING","","        gl_FragColor = vec4( vPickingColor, objectId );","","    #else","","        vec3 vNormal = cameraNormal;","        vec3 vViewPosition = -cameraPos;","","        vec4 diffuseColor = vec4( diffuse, opacity );","        ReflectedLight reflectedLight = ReflectedLight( vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ) );","        vec3 totalEmissiveLight = emissive;","","        #include color_fragment","        #include roughnessmap_fragment","        #include metalnessmap_fragment","","        // don't use include normal_fragment","        vec3 normal = normalize( vNormal );","","        #include lights_physical_fragment","        //include lights_template","        #include lights_fragment_begin","        #include lights_fragment_end","","        vec3 outgoingLight = reflectedLight.directDiffuse + reflectedLight.indirectDiffuse + reflectedLight.directSpecular + reflectedLight.indirectSpecular + totalEmissiveLight;","","        gl_FragColor = vec4( outgoingLight, diffuseColor.a );","        //gl_FragColor = vec4( reflectedLight.directSpecular, diffuseColor.a );","","        #include premultiplied_alpha_fragment","        #include tonemapping_fragment","        #include encodings_fragment","        //include fog_fragment","        #ifdef USE_FOG","            #ifdef USE_LOGDEPTHBUF_EXT","                float depth = gl_FragDepthEXT / gl_FragCoord.w;","            #else","                float depth = gl_FragCoord.z / gl_FragCoord.w;","            #endif","            #ifdef FOG_EXP2","                float fogFactor = whiteCompliment( exp2( - fogDensity * fogDensity * depth * depth * LOG2 ) );","            #else","                float fogFactor = smoothstep( fogNear, fogFar, depth );","            #endif","            gl_FragColor.rgb = mix( gl_FragColor.rgb, fogColor, fogFactor );","        #endif","","    #endif","","}"].join("\n"),$NGL_shaderTextHash["SphereImpostor.vert"]=["uniform mat4 projectionMatrixInverse;","uniform float nearClip;","","varying float vRadius;","varying float vRadiusSq;","varying vec3 vPoint;","varying vec3 vPointViewPosition;","varying float fogDepth;","varying float fogNear;","varying float fogFar;","","attribute vec2 mapping;","//attribute vec3 position;","attribute float radius;","","#ifdef PICKING","    #include unpack_clr","    attribute float primitiveId;","    varying vec3 vPickingColor;","#else","    #include color_pars_vertex","#endif","","//include matrix_scale","float matrixScale( in mat4 m ){","    vec4 r = m[ 0 ];","    return sqrt( r[ 0 ] * r[ 0 ] + r[ 1 ] * r[ 1 ] + r[ 2 ] * r[ 2 ] );","}","","const mat4 D = mat4(","    1.0, 0.0, 0.0, 0.0,","    0.0, 1.0, 0.0, 0.0,","    0.0, 0.0, 1.0, 0.0,","    0.0, 0.0, 0.0, -1.0",");","","mat4 transposeTmp( in mat4 inMatrix ) {","    vec4 i0 = inMatrix[0];","    vec4 i1 = inMatrix[1];","    vec4 i2 = inMatrix[2];","    vec4 i3 = inMatrix[3];","","    mat4 outMatrix = mat4(","        vec4(i0.x, i1.x, i2.x, i3.x),","        vec4(i0.y, i1.y, i2.y, i3.y),","        vec4(i0.z, i1.z, i2.z, i3.z),","        vec4(i0.w, i1.w, i2.w, i3.w)","    );","    return outMatrix;","}","","//------------------------------------------------------------------------------","// Compute point size and center using the technique described in:","// 'GPU-Based Ray-Casting of Quadratic Surfaces'","// by Christian Sigg, Tim Weyrich, Mario Botsch, Markus Gross.","//","// Code based on","/*=========================================================================",""," Program:   Visualization Toolkit"," Module:    Quadrics_fs.glsl and Quadrics_vs.glsl",""," Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen"," All rights reserved."," See Copyright.txt or http://www.kitware.com/Copyright.htm for details.",""," This software is distributed WITHOUT ANY WARRANTY; without even"," the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR"," PURPOSE.  See the above copyright notice for more information.",""," =========================================================================*/","","// .NAME Quadrics_fs.glsl and Quadrics_vs.glsl","// .SECTION Thanks","// <verbatim>","//","//  This file is part of the PointSprites plugin developed and contributed by","//","//  Copyright (c) CSCS - Swiss National Supercomputing Centre","//                EDF - Electricite de France","//","//  John Biddiscombe, Ugo Varetto (CSCS)","//  Stephane Ploix (EDF)","//","// </verbatim>","//","// Contributions by Alexander Rose","// - ported to WebGL","// - adapted to work with quads","void ComputePointSizeAndPositionInClipCoordSphere(){","","    vec2 xbc;","    vec2 ybc;","","    mat4 T = mat4(","        radius, 0.0, 0.0, 0.0,","        0.0, radius, 0.0, 0.0,","        0.0, 0.0, radius, 0.0,","        position.x, position.y, position.z, 1.0","    );","","    mat4 R = transposeTmp( projectionMatrix * modelViewMatrix * T );","    float A = dot( R[ 3 ], D * R[ 3 ] );","    float B = -2.0 * dot( R[ 0 ], D * R[ 3 ] );","    float C = dot( R[ 0 ], D * R[ 0 ] );","    xbc[ 0 ] = ( -B - sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    xbc[ 1 ] = ( -B + sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    float sx = abs( xbc[ 0 ] - xbc[ 1 ] ) * 0.5;","","    A = dot( R[ 3 ], D * R[ 3 ] );","    B = -2.0 * dot( R[ 1 ], D * R[ 3 ] );","    C = dot( R[ 1 ], D * R[ 1 ] );","    ybc[ 0 ] = ( -B - sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    ybc[ 1 ] = ( -B + sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    float sy = abs( ybc[ 0 ] - ybc[ 1 ]  ) * 0.5;","","    gl_Position.xy = vec2( 0.5 * ( xbc.x + xbc.y ), 0.5 * ( ybc.x + ybc.y ) );","    gl_Position.xy -= mapping * vec2( sx, sy );","    gl_Position.xy *= gl_Position.w;","","}","","void main(void){","","    #ifdef PICKING","        vPickingColor = unpackColor( primitiveId );","    #else","        #include color_vertex","    #endif","","    vRadius = radius * matrixScale( modelViewMatrix );","","    vec4 mvPosition = modelViewMatrix * vec4( position, 1.0 );","    // avoid clipping, added again in fragment shader","    mvPosition.z -= vRadius;","","    gl_Position = projectionMatrix * vec4( mvPosition.xyz, 1.0 );","    ComputePointSizeAndPositionInClipCoordSphere();","","","    vRadiusSq = vRadius * vRadius;","    vec4 vPoint4 = projectionMatrixInverse * gl_Position;","    vPoint = vPoint4.xyz / vPoint4.w;","    vPointViewPosition = -mvPosition.xyz / mvPosition.w;","","}"].join("\n"),$NGL_shaderTextHash["CylinderImpostor.frag"]=["#define STANDARD","#define IMPOSTOR","","// Open-Source PyMOL is Copyright (C) Schrodinger, LLC.","//","//  All Rights Reserved","//","//  Permission to use, copy, modify, distribute, and distribute modified","//  versions of this software and its built-in documentation for any","//  purpose and without fee is hereby granted, provided that the above","//  copyright notice appears in all copies and that both the copyright","//  notice and this permission notice appear in supporting documentation,","//  and that the name of Schrodinger, LLC not be used in advertising or","//  publicity pertaining to distribution of the software without specific,","//  written prior permission.","//","//  SCHRODINGER, LLC DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS SOFTWARE,","//  INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN","//  NO EVENT SHALL SCHRODINGER, LLC BE LIABLE FOR ANY SPECIAL, INDIRECT OR","//  CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS","//  OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE","//  OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE","//  USE OR PERFORMANCE OF THIS SOFTWARE.","","// Contributions by Alexander Rose","// - ported to WebGL","// - dual color","// - pk color","// - custom clipping","// - three.js lighting","","uniform vec3 diffuse;","uniform vec3 emissive;","uniform float roughness;","uniform float metalness;","uniform float opacity;","uniform float nearClip;","uniform mat4 projectionMatrix;","uniform float ortho;","","varying vec3 axis;","varying vec4 base_radius;","varying vec4 end_b;","varying vec3 U;","varying vec3 V;","varying vec4 w;","","#ifdef PICKING","    uniform float objectId;","    varying vec3 vPickingColor;","#else","    varying vec3 vColor1;","    varying vec3 vColor2;","    #include common","    #include fog_pars_fragment","    #include bsdfs","    #include lights_pars_begin","    #include lights_physical_pars_fragment","#endif","","bool interior = false;","","float distSq3( vec3 v3a, vec3 v3b ){","    return (","        ( v3a.x - v3b.x ) * ( v3a.x - v3b.x ) +","        ( v3a.y - v3b.y ) * ( v3a.y - v3b.y ) +","        ( v3a.z - v3b.z ) * ( v3a.z - v3b.z )","    );","}","","// Calculate depth based on the given camera position.","float calcDepth( in vec3 cameraPos ){","    vec2 clipZW = cameraPos.z * projectionMatrix[2].zw + projectionMatrix[3].zw;","    return 0.5 + 0.5 * clipZW.x / clipZW.y;","}","","float calcClip( vec3 cameraPos ){","    return dot( vec4( cameraPos, 1.0 ), vec4( 0.0, 0.0, 1.0, nearClip - 0.5 ) );","}","","void main(){","","    vec3 point = w.xyz / w.w;","","    // unpacking","    vec3 base = base_radius.xyz;","    float vRadius = base_radius.w;","    vec3 end = end_b.xyz;","    float b = end_b.w;","","    vec3 end_cyl = end;","    vec3 surface_point = point;","","    vec3 ray_target = surface_point;","    vec3 ray_origin = vec3(0.0);","    vec3 ray_direction = mix(normalize(ray_origin - ray_target), vec3(0.0, 0.0, 1.0), ortho);","    mat3 basis = mat3( U, V, axis );","","    vec3 diff = ray_target - 0.5 * (base + end_cyl);","    vec3 P = diff * basis;","","    // angle (cos) between cylinder cylinder_axis and ray direction","    float dz = dot( axis, ray_direction );","","    float radius2 = vRadius*vRadius;","","    // calculate distance to the cylinder from ray origin","    vec3 D = vec3(dot(U, ray_direction),","                dot(V, ray_direction),","                dz);","    float a0 = P.x*P.x + P.y*P.y - radius2;","    float a1 = P.x*D.x + P.y*D.y;","    float a2 = D.x*D.x + D.y*D.y;","","    // calculate a dicriminant of the above quadratic equation","    float d = a1*a1 - a0*a2;","    if (d < 0.0)","        // outside of the cylinder","        discard;","","    float dist = (-a1 + sqrt(d)) / a2;","","    // point of intersection on cylinder surface","    vec3 new_point = ray_target + dist * ray_direction;","","    vec3 tmp_point = new_point - base;","    vec3 _normal = normalize( tmp_point - axis * dot(tmp_point, axis) );","","    ray_origin = mix( ray_origin, surface_point, ortho );","","    // test caps","    float front_cap_test = dot( tmp_point, axis );","    float end_cap_test = dot((new_point - end_cyl), axis);","","    // to calculate caps, simply check the angle between","    // the point of intersection - cylinder end vector","    // and a cap plane normal (which is the cylinder cylinder_axis)","    // if the angle < 0, the point is outside of cylinder","    // test front cap","","    #ifndef CAP","        vec3 new_point2 = ray_target + ( (-a1 - sqrt(d)) / a2 ) * ray_direction;","        vec3 tmp_point2 = new_point2 - base;","    #endif","","    // flat","    if (front_cap_test < 0.0)","    {","        // ray-plane intersection","        float dNV = dot(-axis, ray_direction);","        if (dNV < 0.0)","            discard;","        float near = dot(-axis, (base)) / dNV;","        vec3 front_point = ray_direction * near + ray_origin;","        // within the cap radius?","        if (dot(front_point - base, front_point-base) > radius2)","            discard;","","        #ifdef CAP","            new_point = front_point;","            _normal = axis;","        #else","            new_point = ray_target + ( (-a1 - sqrt(d)) / a2 ) * ray_direction;","            dNV = dot(-axis, ray_direction);","            near = dot(axis, end_cyl) / dNV;","            new_point2 = ray_direction * near + ray_origin;","            if (dot(new_point2 - end_cyl, new_point2-base) < radius2)","                discard;","            interior = true;","        #endif","    }","","    // test end cap","","","    // flat","    if( end_cap_test > 0.0 )","    {","        // ray-plane intersection","        float dNV = dot(axis, ray_direction);","        if (dNV < 0.0)","            discard;","        float near = dot(axis, end_cyl) / dNV;","        vec3 end_point = ray_direction * near + ray_origin;","        // within the cap radius?","        if( dot(end_point - end_cyl, end_point-base) > radius2 )","            discard;","","        #ifdef CAP","            new_point = end_point;","            _normal = axis;","        #else","            new_point = ray_target + ( (-a1 - sqrt(d)) / a2 ) * ray_direction;","            dNV = dot(-axis, ray_direction);","            near = dot(-axis, (base)) / dNV;","            new_point2 = ray_direction * near + ray_origin;","            if (dot(new_point2 - base, new_point2-base) < radius2)","                discard;","            interior = true;","        #endif","    }","","    gl_FragDepthEXT = calcDepth( new_point );","","    #ifdef NEAR_CLIP","        if( calcClip( new_point ) > 0.0 ){","            dist = (-a1 - sqrt(d)) / a2;","            new_point = ray_target + dist * ray_direction;","            if( calcClip( new_point ) > 0.0 )","                discard;","            interior = true;","            gl_FragDepthEXT = calcDepth( new_point );","            if( gl_FragDepthEXT >= 0.0 ){","                gl_FragDepthEXT = max( 0.0, calcDepth( vec3( - ( nearClip - 0.5 ) ) ) + ( 0.0000001 / vRadius ) );","            }","        }else if( gl_FragDepthEXT <= 0.0 ){","            dist = (-a1 - sqrt(d)) / a2;","            new_point = ray_target + dist * ray_direction;","            interior = true;","            gl_FragDepthEXT = calcDepth( new_point );","            if( gl_FragDepthEXT >= 0.0 ){","                gl_FragDepthEXT = 0.0 + ( 0.0000001 / vRadius );","            }","        }","    #else","        if( gl_FragDepthEXT <= 0.0 ){","            dist = (-a1 - sqrt(d)) / a2;","            new_point = ray_target + dist * ray_direction;","            interior = true;","            gl_FragDepthEXT = calcDepth( new_point );","            if( gl_FragDepthEXT >= 0.0 ){","                gl_FragDepthEXT = 0.0 + ( 0.0000001 / vRadius );","            }","        }","    #endif","","    // this is a workaround necessary for Mac","    // otherwise the modified fragment won't clip properly","    if (gl_FragDepthEXT < 0.0)","        discard;","    if (gl_FragDepthEXT > 1.0)","        discard;","","    #ifdef PICKING","","        gl_FragColor = vec4( vPickingColor, objectId );","","    #else","","        vec3 vViewPosition = -new_point;","        vec3 vNormal = _normal;","        vec3 vColor;","","        if( distSq3( new_point, end_cyl ) < distSq3( new_point, base ) ){","            if( b < 0.0 ){","                vColor = vColor1;","            }else{","                vColor = vColor2;","            }","        }else{","            if( b > 0.0 ){","                vColor = vColor1;","            }else{","                vColor = vColor2;","            }","        }","","        vec4 diffuseColor = vec4( diffuse, opacity );","        ReflectedLight reflectedLight = ReflectedLight( vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ) );","        vec3 totalEmissiveLight = emissive;","","        #include color_fragment","     //ifdef USE_COLOR","     //diffuseColor.r *= vColor[0];","     //diffuseColor.g *= vColor[1];","     //diffuseColor.b *= vColor[2];","     //endif","        #include roughnessmap_fragment","        #include metalnessmap_fragment","","        // don't use include normal_fragment","        vec3 normal = normalize( vNormal );","","        #include lights_physical_fragment","        //include lights_template","        #include lights_fragment_begin","        #include lights_fragment_end","","        vec3 outgoingLight = reflectedLight.directDiffuse + reflectedLight.indirectDiffuse + reflectedLight.directSpecular + reflectedLight.indirectSpecular + totalEmissiveLight;","","        gl_FragColor = vec4( outgoingLight, diffuseColor.a );","        //gl_FragColor = vec4( reflectedLight.directSpecular, diffuseColor.a );","","        #include premultiplied_alpha_fragment","        #include tonemapping_fragment","        #include encodings_fragment","        //include fog_fragment","        #ifdef USE_FOG","            #ifdef USE_LOGDEPTHBUF_EXT","                float depth = gl_FragDepthEXT / gl_FragCoord.w;","            #else","                float depth = gl_FragCoord.z / gl_FragCoord.w;","            #endif","            #ifdef FOG_EXP2","                float fogFactor = whiteCompliment( exp2( - fogDensity * fogDensity * depth * depth * LOG2 ) );","            #else","                float fogFactor = smoothstep( fogNear, fogFar, depth );","            #endif","            gl_FragColor.rgb = mix( gl_FragColor.rgb, fogColor, fogFactor );","        #endif","","    #endif","","}"].join("\n"),$NGL_shaderTextHash["CylinderImpostor.vert"]=["// Open-Source PyMOL is Copyright (C) Schrodinger, LLC.","//","//  All Rights Reserved","//","//  Permission to use, copy, modify, distribute, and distribute modified","//  versions of this software and its built-in documentation for any","//  purpose and without fee is hereby granted, provided that the above","//  copyright notice appears in all copies and that both the copyright","//  notice and this permission notice appear in supporting documentation,","//  and that the name of Schrodinger, LLC not be used in advertising or","//  publicity pertaining to distribution of the software without specific,","//  written prior permission.","//","//  SCHRODINGER, LLC DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS SOFTWARE,","//  INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN","//  NO EVENT SHALL SCHRODINGER, LLC BE LIABLE FOR ANY SPECIAL, INDIRECT OR","//  CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS","//  OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE","//  OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE","//  USE OR PERFORMANCE OF THIS SOFTWARE.","","// Contributions by Alexander Rose","// - ported to WebGL","// - dual color","// - pk color","// - shift","","attribute vec3 mapping;","attribute vec3 position1;","attribute vec3 position2;","attribute float radius;","","varying vec3 axis;","varying vec4 base_radius;","varying vec4 end_b;","varying vec3 U;","varying vec3 V;","varying vec4 w;","varying float fogDepth;","varying float fogNear;","varying float fogFar;","","#ifdef PICKING","    #include unpack_clr","    attribute float primitiveId;","    varying vec3 vPickingColor;","#else","    //attribute vec3 color;","    attribute vec3 color2;","    varying vec3 vColor1;","    varying vec3 vColor2;","#endif","","uniform mat4 modelViewMatrixInverse;","uniform float ortho;","","//include matrix_scale","float matrixScale( in mat4 m ){","    vec4 r = m[ 0 ];","    return sqrt( r[ 0 ] * r[ 0 ] + r[ 1 ] * r[ 1 ] + r[ 2 ] * r[ 2 ] );","}","","void main(){","","    #ifdef PICKING","        vPickingColor = unpackColor( primitiveId );","    #else","        vColor1 = color;","        vColor2 = color2;","    #endif","","    // vRadius = radius;","    base_radius.w = radius * matrixScale( modelViewMatrix );","","    //vec3 center = position;","    vec3 center = ( position2 + position1 ) / 2.0;","    vec3 dir = normalize( position2 - position1 );","    float ext = length( position2 - position1 ) / 2.0;","","    // using cameraPosition fails on some machines, not sure why","    // vec3 cam_dir = normalize( cameraPosition - mix( center, vec3( 0.0 ), ortho ) );","    vec3 cam_dir;","    if( ortho == 0.0 ){","        cam_dir = ( modelViewMatrixInverse * vec4( 0, 0, 0, 1 ) ).xyz - center;","    }else{","        cam_dir = ( modelViewMatrixInverse * vec4( 0, 0, 1, 0 ) ).xyz;","    }","    cam_dir = normalize( cam_dir );","","    vec3 ldir;","","    float b = dot( cam_dir, dir );","    end_b.w = b;","    // direction vector looks away, so flip","    if( b < 0.0 )","        ldir = -ext * dir;","    // direction vector already looks in my direction","    else","        ldir = ext * dir;","","    vec3 left = normalize( cross( cam_dir, ldir ) );","    left = radius * left;","    vec3 up = radius * normalize( cross( left, ldir ) );","","    // transform to modelview coordinates","    axis = normalize( normalMatrix * ldir );","    U = normalize( normalMatrix * up );","    V = normalize( normalMatrix * left );","","    vec4 base4 = modelViewMatrix * vec4( center - ldir, 1.0 );","    base_radius.xyz = base4.xyz / base4.w;","","    vec4 top_position = modelViewMatrix * vec4( center + ldir, 1.0 );","    vec4 end4 = top_position;","    end_b.xyz = end4.xyz / end4.w;","","    w = modelViewMatrix * vec4(","        center + mapping.x*ldir + mapping.y*left + mapping.z*up, 1.0","    );","","    gl_Position = projectionMatrix * w;","","    // avoid clipping (1.0 seems to induce flickering with some drivers)","    gl_Position.z = 0.99;","","}"].join("\n"),$NGL_shaderTextHash["SphereInstancing.frag"]=$NGL_shaderTextHash["SphereImpostor.frag"],$NGL_shaderTextHash["SphereInstancing.vert"]=["uniform mat4 projectionMatrixInverse;","uniform float nearClip;","","varying float vRadius;","varying float vRadiusSq;","varying vec3 vPoint;","varying vec3 vPointViewPosition;","varying float fogDepth;","varying float fogNear;","varying float fogFar;","","attribute vec2 mapping;","//attribute vec3 position;","attribute float radius;","attribute vec4 matrix1;","attribute vec4 matrix2;","attribute vec4 matrix3;","attribute vec4 matrix4;","","#ifdef PICKING","    #include unpack_clr","    attribute float primitiveId;","    varying vec3 vPickingColor;","#else","    #include color_pars_vertex","#endif","","//include matrix_scale","float matrixScale( in mat4 m ){","    vec4 r = m[ 0 ];","    return sqrt( r[ 0 ] * r[ 0 ] + r[ 1 ] * r[ 1 ] + r[ 2 ] * r[ 2 ] );","}","","const mat4 D = mat4(","    1.0, 0.0, 0.0, 0.0,","    0.0, 1.0, 0.0, 0.0,","    0.0, 0.0, 1.0, 0.0,","    0.0, 0.0, 0.0, -1.0",");","","mat4 transposeTmp( in mat4 inMatrix ) {","    vec4 i0 = inMatrix[0];","    vec4 i1 = inMatrix[1];","    vec4 i2 = inMatrix[2];","    vec4 i3 = inMatrix[3];","","    mat4 outMatrix = mat4(","        vec4(i0.x, i1.x, i2.x, i3.x),","        vec4(i0.y, i1.y, i2.y, i3.y),","        vec4(i0.z, i1.z, i2.z, i3.z),","        vec4(i0.w, i1.w, i2.w, i3.w)","    );","    return outMatrix;","}","","//------------------------------------------------------------------------------","// Compute point size and center using the technique described in:","// 'GPU-Based Ray-Casting of Quadratic Surfaces'","// by Christian Sigg, Tim Weyrich, Mario Botsch, Markus Gross.","//","// Code based on","/*=========================================================================",""," Program:   Visualization Toolkit"," Module:    Quadrics_fs.glsl and Quadrics_vs.glsl",""," Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen"," All rights reserved."," See Copyright.txt or http://www.kitware.com/Copyright.htm for details.",""," This software is distributed WITHOUT ANY WARRANTY; without even"," the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR"," PURPOSE.  See the above copyright notice for more information.",""," =========================================================================*/","","// .NAME Quadrics_fs.glsl and Quadrics_vs.glsl","// .SECTION Thanks","// <verbatim>","//","//  This file is part of the PointSprites plugin developed and contributed by","//","//  Copyright (c) CSCS - Swiss National Supercomputing Centre","//                EDF - Electricite de France","//","//  John Biddiscombe, Ugo Varetto (CSCS)","//  Stephane Ploix (EDF)","//","// </verbatim>","//","// Contributions by Alexander Rose","// - ported to WebGL","// - adapted to work with quads","void ComputePointSizeAndPositionInClipCoordSphere(vec4 updatePosition){","","    vec2 xbc;","    vec2 ybc;","","    mat4 T = mat4(","        radius, 0.0, 0.0, 0.0,","        0.0, radius, 0.0, 0.0,","        0.0, 0.0, radius, 0.0,","        updatePosition.x, updatePosition.y, updatePosition.z, 1.0","    );","","    mat4 R = transposeTmp( projectionMatrix * modelViewMatrix * T );","    float A = dot( R[ 3 ], D * R[ 3 ] );","    float B = -2.0 * dot( R[ 0 ], D * R[ 3 ] );","    float C = dot( R[ 0 ], D * R[ 0 ] );","    xbc[ 0 ] = ( -B - sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    xbc[ 1 ] = ( -B + sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    float sx = abs( xbc[ 0 ] - xbc[ 1 ] ) * 0.5;","","    A = dot( R[ 3 ], D * R[ 3 ] );","    B = -2.0 * dot( R[ 1 ], D * R[ 3 ] );","    C = dot( R[ 1 ], D * R[ 1 ] );","    ybc[ 0 ] = ( -B - sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    ybc[ 1 ] = ( -B + sqrt( B * B - 4.0 * A * C ) ) / ( 2.0 * A );","    float sy = abs( ybc[ 0 ] - ybc[ 1 ]  ) * 0.5;","","    gl_Position.xy = vec2( 0.5 * ( xbc.x + xbc.y ), 0.5 * ( ybc.x + ybc.y ) );","    gl_Position.xy -= mapping * vec2( sx, sy );","    gl_Position.xy *= gl_Position.w;","","}","","  mat4 computeMat(vec4 v1, vec4 v2, vec4 v3, vec4 v4) {","    return mat4(","      v1.x, v1.y, v1.z, v1.w,","      v2.x, v2.y, v2.z, v2.w,","      v3.x, v3.y, v3.z, v3.w,","      v4.x, v4.y, v4.z, v4.w","    );","  }","","void main(void){","","    #ifdef PICKING","        vPickingColor = unpackColor( primitiveId );","    #else","        #include color_vertex","    #endif","","    vRadius = radius * matrixScale( modelViewMatrix );","","    mat4 matrix = computeMat(matrix1, matrix2, matrix3, matrix4);","    vec4 updatePosition = matrix * vec4(position, 1.0);","","//    vec4 mvPosition = modelViewMatrix * vec4( position, 1.0 );","    vec4 mvPosition = modelViewMatrix * vec4( updatePosition.xyz, 1.0 );","    // avoid clipping, added again in fragment shader","    mvPosition.z -= vRadius;","","//    gl_Position = projectionMatrix * vec4( mvPosition.xyz, 1.0 );","    gl_Position = projectionMatrix * vec4( mvPosition.xyz, 1.0 );","    ComputePointSizeAndPositionInClipCoordSphere(updatePosition);","","","    vRadiusSq = vRadius * vRadius;","    vec4 vPoint4 = projectionMatrixInverse * gl_Position;","    vPoint = vPoint4.xyz / vPoint4.w;","    vPointViewPosition = -mvPosition.xyz / mvPosition.w;","","}"].join("\n"),$NGL_shaderTextHash["CylinderInstancing.frag"]=$NGL_shaderTextHash["CylinderImpostor.frag"],$NGL_shaderTextHash["CylinderInstancing.vert"]=["// Open-Source PyMOL is Copyright (C) Schrodinger, LLC.","//","//  All Rights Reserved","//","//  Permission to use, copy, modify, distribute, and distribute modified","//  versions of this software and its built-in documentation for any","//  purpose and without fee is hereby granted, provided that the above","//  copyright notice appears in all copies and that both the copyright","//  notice and this permission notice appear in supporting documentation,","//  and that the name of Schrodinger, LLC not be used in advertising or","//  publicity pertaining to distribution of the software without specific,","//  written prior permission.","//","//  SCHRODINGER, LLC DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS SOFTWARE,","//  INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN","//  NO EVENT SHALL SCHRODINGER, LLC BE LIABLE FOR ANY SPECIAL, INDIRECT OR","//  CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS","//  OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE","//  OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE","//  USE OR PERFORMANCE OF THIS SOFTWARE.","","// Contributions by Alexander Rose","// - ported to WebGL","// - dual color","// - pk color","// - shift","","attribute vec3 mapping;","attribute vec3 position1;","attribute vec3 position2;","attribute float radius;","attribute vec4 matrix1;","attribute vec4 matrix2;","attribute vec4 matrix3;","attribute vec4 matrix4;","","varying vec3 axis;","varying vec4 base_radius;","varying vec4 end_b;","varying vec3 U;","varying vec3 V;","varying vec4 w;","varying float fogDepth;","varying float fogNear;","varying float fogFar;","","#ifdef PICKING","    #include unpack_clr","    attribute float primitiveId;","    varying vec3 vPickingColor;","#else","    //attribute vec3 color;","    attribute vec3 color2;","    varying vec3 vColor1;","    varying vec3 vColor2;","#endif","","uniform mat4 modelViewMatrixInverse;","uniform float ortho;","","//include matrix_scale","float matrixScale( in mat4 m ){","    vec4 r = m[ 0 ];","    return sqrt( r[ 0 ] * r[ 0 ] + r[ 1 ] * r[ 1 ] + r[ 2 ] * r[ 2 ] );","}","","  mat4 computeMat(vec4 v1, vec4 v2, vec4 v3, vec4 v4) {","    return mat4(","      v1.x, v1.y, v1.z, v1.w,","      v2.x, v2.y, v2.z, v2.w,","      v3.x, v3.y, v3.z, v3.w,","      v4.x, v4.y, v4.z, v4.w","    );","  }","","void main(){","","    #ifdef PICKING","        vPickingColor = unpackColor( primitiveId );","    #else","        vColor1 = color;","        vColor2 = color2;","    #endif","","    // vRadius = radius;","    base_radius.w = radius * matrixScale( modelViewMatrix );","","    //vec3 center = ( position2 + position1 ) / 2.0;","","    mat4 matrix = computeMat(matrix1, matrix2, matrix3, matrix4);","    vec4 updatePosition1 = matrix * vec4(position1, 1.0);","    vec4 updatePosition2 = matrix * vec4(position2, 1.0);","    vec3 center = ( updatePosition2.xyz + updatePosition1.xyz ) / 2.0;","","    //vec3 dir = normalize( position2 - position1 );","    vec3 dir = normalize( updatePosition2.xyz - updatePosition1.xyz );","    float ext = length( position2 - position1 ) / 2.0;","","    // using cameraPosition fails on some machines, not sure why","    // vec3 cam_dir = normalize( cameraPosition - mix( center, vec3( 0.0 ), ortho ) );","    vec3 cam_dir;","    if( ortho == 0.0 ){","        cam_dir = ( modelViewMatrixInverse * vec4( 0, 0, 0, 1 ) ).xyz - center;","    }else{","        cam_dir = ( modelViewMatrixInverse * vec4( 0, 0, 1, 0 ) ).xyz;","    }","    cam_dir = normalize( cam_dir );","","    vec3 ldir;","","    float b = dot( cam_dir, dir );","    end_b.w = b;","    // direction vector looks away, so flip","    if( b < 0.0 )","        ldir = -ext * dir;","    // direction vector already looks in my direction","    else","        ldir = ext * dir;","","    vec3 left = normalize( cross( cam_dir, ldir ) );","    left = radius * left;","    vec3 up = radius * normalize( cross( left, ldir ) );","","    // transform to modelview coordinates","    axis = normalize( normalMatrix * ldir );","    U = normalize( normalMatrix * up );","    V = normalize( normalMatrix * left );","","    vec4 base4 = modelViewMatrix * vec4( center - ldir, 1.0 );","    base_radius.xyz = base4.xyz / base4.w;","","    vec4 top_position = modelViewMatrix * vec4( center + ldir, 1.0 );","    vec4 end4 = top_position;","    end_b.xyz = end4.xyz / end4.w;","","    w = modelViewMatrix * vec4(","        center + mapping.x*ldir + mapping.y*left + mapping.z*up, 1.0","    );","","    gl_Position = projectionMatrix * w;","","    // avoid clipping (1.0 seems to induce flickering with some drivers)","    gl_Position.z = 0.99;","","}"].join("\n"),$NGL_shaderTextHash["Instancing.frag"]=["#define STANDARD","uniform vec3 diffuse;","uniform vec3 emissive;","uniform float roughness;","uniform float metalness;","uniform float opacity;","uniform float nearClip;","uniform float clipRadius;","uniform mat4 projectionMatrix;","uniform float ortho;","varying float bCylinder;","","#if defined( NEAR_CLIP ) || defined( RADIUS_CLIP ) || ( !defined( PICKING ) && !defined( NOLIGHT ) )","    varying vec3 vViewPosition;","#endif","","#if defined( RADIUS_CLIP )","    varying vec3 vClipCenter;","#endif","","#if defined( PICKING )","    uniform float objectId;","    varying vec3 vPickingColor;","#elif defined( NOLIGHT )","    varying vec3 vColor;","#else","    #ifndef FLAT_SHADED","        varying vec3 vNormal;","    #endif","    #include common","    #include color_pars_fragment","    #include fog_pars_fragment","    #include bsdfs","    #include lights_pars_begin","    #include lights_physical_pars_fragment","#endif","","void main(){","    #include nearclip_fragment","    #include radiusclip_fragment","","    #if defined( PICKING )","","        gl_FragColor = vec4( vPickingColor, objectId );","","    #elif defined( NOLIGHT )","","        gl_FragColor = vec4( vColor, opacity );","","    #else","","        vec4 diffuseColor = vec4( diffuse, opacity );","        ReflectedLight reflectedLight = ReflectedLight( vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ), vec3( 0.0 ) );","        vec3 totalEmissiveLight = emissive;","","        #include color_fragment","        #include roughnessmap_fragment","        #include metalnessmap_fragment","        #include normal_flip","        #include normal_fragment_begin","","        //include dull_interior_fragment","","        #include lights_physical_fragment","        //include lights_template","        #include lights_fragment_begin","        #include lights_fragment_end","","        vec3 outgoingLight = reflectedLight.directDiffuse + reflectedLight.indirectDiffuse + reflectedLight.directSpecular + reflectedLight.indirectSpecular + totalEmissiveLight;","","        #include interior_fragment","","        gl_FragColor = vec4( outgoingLight, diffuseColor.a );","","        #include premultiplied_alpha_fragment","        #include tonemapping_fragment","        #include encodings_fragment","        #include fog_fragment","","        #include opaque_back_fragment","","    #endif","","}"].join("\n"),$NGL_shaderTextHash["Instancing.vert"]=["#define STANDARD","","uniform mat4 projectionMatrixInverse;","uniform float nearClip;","uniform vec3 clipCenter;","attribute vec4 matrix1;","attribute vec4 matrix2;","attribute vec4 matrix3;","attribute vec4 matrix4;","attribute float cylinder;","varying float bCylinder;","","#if defined( NEAR_CLIP ) || defined( RADIUS_CLIP ) || ( !defined( PICKING ) && !defined( NOLIGHT ) )","    varying vec3 vViewPosition;","#endif","","#if defined( RADIUS_CLIP )","    varying vec3 vClipCenter;","#endif","","#if defined( PICKING )","    #include unpack_color","    attribute float primitiveId;","    varying vec3 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