molstar 3.0.0-dev.5 → 3.0.0-dev.6

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 (168) hide show
  1. package/LICENSE +20 -20
  2. package/README.md +187 -187
  3. package/build/viewer/embedded.html +43 -43
  4. package/build/viewer/index.html +102 -95
  5. package/build/viewer/molstar.js +1 -1
  6. package/lib/apps/docking-viewer/index.d.ts +2 -1
  7. package/lib/apps/docking-viewer/index.html +36 -36
  8. package/lib/apps/docking-viewer/index.js +87 -74
  9. package/lib/apps/viewer/embedded.html +43 -43
  10. package/lib/apps/viewer/index.d.ts +36 -215
  11. package/lib/apps/viewer/index.html +102 -95
  12. package/lib/apps/viewer/index.js +139 -52
  13. package/lib/cli/cifschema/index.d.ts +1 -1
  14. package/lib/cli/cifschema/index.js +15 -35
  15. package/lib/commonjs/apps/docking-viewer/index.d.ts +2 -1
  16. package/lib/commonjs/apps/docking-viewer/index.js +86 -73
  17. package/lib/commonjs/apps/viewer/index.d.ts +36 -215
  18. package/lib/commonjs/apps/viewer/index.js +139 -52
  19. package/lib/commonjs/cli/cifschema/index.d.ts +1 -1
  20. package/lib/commonjs/cli/cifschema/index.js +15 -35
  21. package/lib/commonjs/examples/alpha-orbitals/index.js +2 -3
  22. package/lib/commonjs/examples/basic-wrapper/index.js +23 -11
  23. package/lib/commonjs/examples/lighting/index.d.ts +1 -1
  24. package/lib/commonjs/examples/lighting/index.js +57 -41
  25. package/lib/commonjs/examples/proteopedia-wrapper/index.js +26 -14
  26. package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +0 -1
  27. package/lib/commonjs/extensions/alpha-orbitals/transforms.js +1 -14
  28. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.d.ts +68 -0
  29. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.js +236 -0
  30. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.d.ts +14 -0
  31. package/lib/commonjs/extensions/model-archive/quality-assessment/color/plddt.js +125 -0
  32. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.d.ts +12 -0
  33. package/lib/commonjs/extensions/model-archive/quality-assessment/color/qmean.js +111 -0
  34. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.d.ts +28 -0
  35. package/lib/commonjs/extensions/model-archive/quality-assessment/prop.js +130 -0
  36. package/lib/commonjs/extensions/pdbe/structure-quality-report/prop.js +1 -1
  37. package/lib/commonjs/extensions/rcsb/assembly-symmetry/prop.js +1 -1
  38. package/lib/commonjs/extensions/rcsb/validation-report/prop.js +1 -1
  39. package/lib/commonjs/mol-canvas3d/canvas3d.js +7 -1
  40. package/lib/commonjs/mol-canvas3d/passes/multi-sample.d.ts +2 -1
  41. package/lib/commonjs/mol-canvas3d/passes/multi-sample.js +4 -2
  42. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +2 -2
  43. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +1 -0
  44. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +1 -1
  45. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  46. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +1 -1
  47. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +326 -1
  48. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.js +326 -1
  49. package/lib/commonjs/mol-math/geometry/symmetry-operator.js +3 -2
  50. package/lib/commonjs/mol-model/structure/model/model.d.ts +1 -0
  51. package/lib/commonjs/mol-model/structure/model/model.js +8 -2
  52. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.d.ts +6 -1
  53. package/lib/commonjs/mol-model/structure/model/properties/atomic/hierarchy.js +1 -1
  54. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.d.ts +1 -1
  55. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-derived.js +4 -1
  56. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-index.d.ts +1 -1
  57. package/lib/commonjs/mol-model/structure/model/properties/utils/atomic-index.js +12 -1
  58. package/lib/commonjs/mol-model/structure/model/types.js +9 -0
  59. package/lib/commonjs/mol-model/structure/structure/unit/rings.js +2 -0
  60. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +3 -2
  61. package/lib/commonjs/mol-plugin/config.d.ts +1 -0
  62. package/lib/commonjs/mol-plugin/config.js +1 -0
  63. package/lib/commonjs/mol-plugin-state/actions/structure.d.ts +7 -1
  64. package/lib/commonjs/mol-plugin-state/actions/structure.js +150 -72
  65. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy-preset.d.ts +5 -355
  66. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy-preset.js +13 -8
  67. package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy.d.ts +1 -71
  68. package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.js +33 -19
  69. package/lib/commonjs/mol-plugin-state/manager/structure/component.js +1 -1
  70. package/lib/commonjs/mol-plugin-ui/index.d.ts +4 -4
  71. package/lib/commonjs/mol-plugin-ui/index.js +13 -16
  72. package/lib/commonjs/mol-plugin-ui/plugin.js +1 -1
  73. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-cylinder.js +2 -2
  74. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-line.js +2 -2
  75. package/lib/commonjs/mol-repr/structure/visual/polymer-trace-mesh.js +1 -1
  76. package/lib/commonjs/mol-repr/structure/visual/util/bond.js +1 -1
  77. package/lib/commonjs/mol-script/language/builder.d.ts +0 -1
  78. package/lib/examples/alpha-orbitals/index.html +61 -60
  79. package/lib/examples/alpha-orbitals/index.js +3 -4
  80. package/lib/examples/basic-wrapper/index.html +137 -136
  81. package/lib/examples/basic-wrapper/index.js +24 -12
  82. package/lib/examples/lighting/index.d.ts +1 -1
  83. package/lib/examples/lighting/index.html +88 -86
  84. package/lib/examples/lighting/index.js +58 -42
  85. package/lib/examples/proteopedia-wrapper/index.html +236 -235
  86. package/lib/examples/proteopedia-wrapper/index.js +27 -15
  87. package/lib/extensions/alpha-orbitals/transforms.d.ts +0 -1
  88. package/lib/extensions/alpha-orbitals/transforms.js +1 -14
  89. package/lib/extensions/model-archive/quality-assessment/behavior.d.ts +68 -0
  90. package/lib/extensions/model-archive/quality-assessment/behavior.js +233 -0
  91. package/lib/extensions/model-archive/quality-assessment/color/plddt.d.ts +14 -0
  92. package/lib/extensions/model-archive/quality-assessment/color/plddt.js +120 -0
  93. package/lib/extensions/model-archive/quality-assessment/color/qmean.d.ts +12 -0
  94. package/lib/extensions/model-archive/quality-assessment/color/qmean.js +106 -0
  95. package/lib/extensions/model-archive/quality-assessment/prop.d.ts +28 -0
  96. package/lib/extensions/model-archive/quality-assessment/prop.js +127 -0
  97. package/lib/extensions/pdbe/structure-quality-report/prop.js +1 -1
  98. package/lib/extensions/rcsb/assembly-symmetry/prop.js +1 -1
  99. package/lib/extensions/rcsb/validation-report/prop.js +1 -1
  100. package/lib/mol-canvas3d/canvas3d.js +7 -1
  101. package/lib/mol-canvas3d/passes/multi-sample.d.ts +2 -1
  102. package/lib/mol-canvas3d/passes/multi-sample.js +4 -2
  103. package/lib/mol-geo/geometry/cylinders/cylinders.d.ts +2 -2
  104. package/lib/mol-geo/geometry/lines/lines.d.ts +1 -0
  105. package/lib/mol-geo/geometry/points/points.d.ts +1 -1
  106. package/lib/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  107. package/lib/mol-gl/shader/direct-volume.frag.js +1 -1
  108. package/lib/mol-io/reader/cif/schema/mmcif.d.ts +326 -1
  109. package/lib/mol-io/reader/cif/schema/mmcif.js +326 -1
  110. package/lib/mol-math/geometry/symmetry-operator.js +3 -2
  111. package/lib/mol-model/structure/model/model.d.ts +1 -0
  112. package/lib/mol-model/structure/model/model.js +8 -2
  113. package/lib/mol-model/structure/model/properties/atomic/hierarchy.d.ts +6 -1
  114. package/lib/mol-model/structure/model/properties/atomic/hierarchy.js +1 -1
  115. package/lib/mol-model/structure/model/properties/utils/atomic-derived.d.ts +1 -1
  116. package/lib/mol-model/structure/model/properties/utils/atomic-derived.js +5 -2
  117. package/lib/mol-model/structure/model/properties/utils/atomic-index.d.ts +1 -1
  118. package/lib/mol-model/structure/model/properties/utils/atomic-index.js +12 -1
  119. package/lib/mol-model/structure/model/types.js +9 -0
  120. package/lib/mol-model/structure/structure/unit/rings.js +2 -0
  121. package/lib/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +3 -2
  122. package/lib/mol-plugin/config.d.ts +1 -0
  123. package/lib/mol-plugin/config.js +1 -0
  124. package/lib/mol-plugin/version.js +2 -2
  125. package/lib/mol-plugin-state/actions/structure.d.ts +7 -1
  126. package/lib/mol-plugin-state/actions/structure.js +150 -72
  127. package/lib/mol-plugin-state/builder/structure/hierarchy-preset.d.ts +5 -355
  128. package/lib/mol-plugin-state/builder/structure/hierarchy-preset.js +14 -9
  129. package/lib/mol-plugin-state/builder/structure/hierarchy.d.ts +1 -71
  130. package/lib/mol-plugin-state/helpers/structure-selection-query.js +34 -20
  131. package/lib/mol-plugin-state/manager/structure/component.js +2 -2
  132. package/lib/mol-plugin-ui/index.d.ts +4 -4
  133. package/lib/mol-plugin-ui/index.js +11 -13
  134. package/lib/mol-plugin-ui/plugin.js +1 -1
  135. package/lib/mol-plugin-ui/skin/base/base.scss +32 -32
  136. package/lib/mol-plugin-ui/skin/base/components/controls-base.scss +333 -333
  137. package/lib/mol-plugin-ui/skin/base/components/controls.scss +418 -418
  138. package/lib/mol-plugin-ui/skin/base/components/help.scss +27 -27
  139. package/lib/mol-plugin-ui/skin/base/components/line-graph.scss +67 -67
  140. package/lib/mol-plugin-ui/skin/base/components/log.scss +100 -100
  141. package/lib/mol-plugin-ui/skin/base/components/misc.scss +643 -643
  142. package/lib/mol-plugin-ui/skin/base/components/sequence.scss +125 -125
  143. package/lib/mol-plugin-ui/skin/base/components/slider.scss +165 -165
  144. package/lib/mol-plugin-ui/skin/base/components/tasks.scss +99 -99
  145. package/lib/mol-plugin-ui/skin/base/components/toast.scss +83 -83
  146. package/lib/mol-plugin-ui/skin/base/components/transformer.scss +163 -163
  147. package/lib/mol-plugin-ui/skin/base/components/viewport.scss +127 -127
  148. package/lib/mol-plugin-ui/skin/base/layout/common.scss +71 -71
  149. package/lib/mol-plugin-ui/skin/base/layout/controls-landscape.scss +89 -89
  150. package/lib/mol-plugin-ui/skin/base/layout/controls-outside.scss +98 -98
  151. package/lib/mol-plugin-ui/skin/base/layout/controls-portrait.scss +108 -108
  152. package/lib/mol-plugin-ui/skin/base/layout.scss +40 -40
  153. package/lib/mol-plugin-ui/skin/base/logo.scss +12 -12
  154. package/lib/mol-plugin-ui/skin/base/normalize.scss +209 -209
  155. package/lib/mol-plugin-ui/skin/base/ui.scss +40 -40
  156. package/lib/mol-plugin-ui/skin/base/variables.scss +85 -85
  157. package/lib/mol-plugin-ui/skin/blue.scss +1 -1
  158. package/lib/mol-plugin-ui/skin/colors/blue.scss +23 -23
  159. package/lib/mol-plugin-ui/skin/colors/dark.scss +23 -23
  160. package/lib/mol-plugin-ui/skin/colors/light.scss +29 -29
  161. package/lib/mol-plugin-ui/skin/dark.scss +1 -1
  162. package/lib/mol-plugin-ui/skin/light.scss +1 -1
  163. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.js +2 -2
  164. package/lib/mol-repr/structure/visual/bond-intra-unit-line.js +2 -2
  165. package/lib/mol-repr/structure/visual/polymer-trace-mesh.js +1 -1
  166. package/lib/mol-repr/structure/visual/util/bond.js +1 -1
  167. package/lib/mol-script/language/builder.d.ts +0 -1
  168. package/package.json +162 -162
@@ -1,24 +1,24 @@
1
- $default-background: #2D3E50;
2
- $font-color: #EDF1F2;
3
- $hover-font-color: #3B9AD9;
4
- $entity-current-font-color: #FFFFFF;
5
- $msp-btn-remove-background: #BF3A31;
6
- $msp-btn-remove-hover-font-color:#ffffff;
7
- $msp-btn-commit-on-font-color: #ffffff;
8
- $entity-badge-font-color: #ccd4e0;
9
-
10
- // used in LOG
11
- $log-message: #0CCA5D;
12
- $log-info: #5E3673;
13
- $log-warning: #FCC937;
14
- $log-error: #FD354B;
15
-
16
- $logo-background: rgba(0,0,0,0.75);
17
-
18
- @function color-lower-contrast($color, $amount) {
19
- @return darken($color, $amount);
20
- }
21
-
22
- @function color-increase-contrast($color, $amount) {
23
- @return lighten($color, $amount);
1
+ $default-background: #2D3E50;
2
+ $font-color: #EDF1F2;
3
+ $hover-font-color: #3B9AD9;
4
+ $entity-current-font-color: #FFFFFF;
5
+ $msp-btn-remove-background: #BF3A31;
6
+ $msp-btn-remove-hover-font-color:#ffffff;
7
+ $msp-btn-commit-on-font-color: #ffffff;
8
+ $entity-badge-font-color: #ccd4e0;
9
+
10
+ // used in LOG
11
+ $log-message: #0CCA5D;
12
+ $log-info: #5E3673;
13
+ $log-warning: #FCC937;
14
+ $log-error: #FD354B;
15
+
16
+ $logo-background: rgba(0,0,0,0.75);
17
+
18
+ @function color-lower-contrast($color, $amount) {
19
+ @return darken($color, $amount);
20
+ }
21
+
22
+ @function color-increase-contrast($color, $amount) {
23
+ @return lighten($color, $amount);
24
24
  }
@@ -1,24 +1,24 @@
1
- $default-background: #111318;
2
- $font-color: #ccd4e0;
3
- $hover-font-color: #51A2FB;
4
- $entity-current-font-color: #68BEFD;
5
- $msp-btn-remove-background: #DE0A28;
6
- $msp-btn-remove-hover-font-color:#F2F4F7;
7
- $msp-btn-commit-on-font-color: #68BEFD;
8
- $entity-badge-font-color: #ccd4e0;
9
-
10
- // used in LOG
11
- $log-message: #0CCA5D;
12
- $log-info: #5E3673;
13
- $log-warning: #FCC937;
14
- $log-error: #FD354B;
15
-
16
- $logo-background: rgba(0,0,0,0.75);
17
-
18
- @function color-lower-contrast($color, $amount) {
19
- @return darken($color, $amount);
20
- }
21
-
22
- @function color-increase-contrast($color, $amount) {
23
- @return lighten($color, $amount);
1
+ $default-background: #111318;
2
+ $font-color: #ccd4e0;
3
+ $hover-font-color: #51A2FB;
4
+ $entity-current-font-color: #68BEFD;
5
+ $msp-btn-remove-background: #DE0A28;
6
+ $msp-btn-remove-hover-font-color:#F2F4F7;
7
+ $msp-btn-commit-on-font-color: #68BEFD;
8
+ $entity-badge-font-color: #ccd4e0;
9
+
10
+ // used in LOG
11
+ $log-message: #0CCA5D;
12
+ $log-info: #5E3673;
13
+ $log-warning: #FCC937;
14
+ $log-error: #FD354B;
15
+
16
+ $logo-background: rgba(0,0,0,0.75);
17
+
18
+ @function color-lower-contrast($color, $amount) {
19
+ @return darken($color, $amount);
20
+ }
21
+
22
+ @function color-increase-contrast($color, $amount) {
23
+ @return lighten($color, $amount);
24
24
  }
@@ -1,30 +1,30 @@
1
- // this is complement of the dark theme
2
-
3
- @function compl($color) {
4
- @return rgb(255 - red($color), 255 - green($color), 255 - blue($color));
5
- }
6
-
7
- $default-background: compl(#111318);
8
- $font-color: compl(#ccd4e0);
9
- $hover-font-color: compl(#51A2FB);
10
- $entity-current-font-color: compl(#68BEFD);
11
- $msp-btn-commit-on-font-color: compl(#68BEFD);
12
- $entity-badge-font-color: lighten(#ccd4e0,10%);
13
- $msp-btn-remove-background: #DE0A28;
14
- $msp-btn-remove-hover-font-color:#F2F4F7;
15
-
16
- // used in LOG
17
- $log-message: #0CCA5D;
18
- $log-info: #5E3673;
19
- $log-warning: #FCC937;
20
- $log-error: #FD354B;
21
-
22
- $logo-background: compl(#111318);
23
-
24
- @function color-lower-contrast($color, $amount) {
25
- @return lighten($color, $amount);
26
- }
27
-
28
- @function color-increase-contrast($color, $amount) {
29
- @return darken($color, $amount);
1
+ // this is complement of the dark theme
2
+
3
+ @function compl($color) {
4
+ @return rgb(255 - red($color), 255 - green($color), 255 - blue($color));
5
+ }
6
+
7
+ $default-background: compl(#111318);
8
+ $font-color: compl(#ccd4e0);
9
+ $hover-font-color: compl(#51A2FB);
10
+ $entity-current-font-color: compl(#68BEFD);
11
+ $msp-btn-commit-on-font-color: compl(#68BEFD);
12
+ $entity-badge-font-color: lighten(#ccd4e0,10%);
13
+ $msp-btn-remove-background: #DE0A28;
14
+ $msp-btn-remove-hover-font-color:#F2F4F7;
15
+
16
+ // used in LOG
17
+ $log-message: #0CCA5D;
18
+ $log-info: #5E3673;
19
+ $log-warning: #FCC937;
20
+ $log-error: #FD354B;
21
+
22
+ $logo-background: compl(#111318);
23
+
24
+ @function color-lower-contrast($color, $amount) {
25
+ @return lighten($color, $amount);
26
+ }
27
+
28
+ @function color-increase-contrast($color, $amount) {
29
+ @return darken($color, $amount);
30
30
  }
@@ -1,2 +1,2 @@
1
- @import 'colors/dark';
1
+ @import 'colors/dark';
2
2
  @import 'base/base';
@@ -1,2 +1,2 @@
1
- @import 'colors/light';
1
+ @import 'colors/light';
2
2
  @import 'base/base';
@@ -71,13 +71,13 @@ function getIntraUnitBondCylinderBuilderProps(unit, structure, theme, props) {
71
71
  _a = [bI, aI], aI = _a[0], bI = _a[1];
72
72
  if (offset[aI + 1] - offset[aI] === 1)
73
73
  _b = [bI, aI], aI = _b[0], bI = _b[1];
74
- var aR = elementRingIndices.get(aI);
74
+ var aR = elementAromaticRingIndices.get(aI) || elementRingIndices.get(aI);
75
75
  var maxSize = 0;
76
76
  for (var i = offset[aI], il = offset[aI + 1]; i < il; ++i) {
77
77
  var _bI = b[i];
78
78
  if (_bI !== bI && _bI !== aI) {
79
79
  if (aR) {
80
- var _bR = elementRingIndices.get(_bI);
80
+ var _bR = elementAromaticRingIndices.get(_bI) || elementRingIndices.get(_bI);
81
81
  if (!_bR)
82
82
  continue;
83
83
  var size = arrayIntersectionSize(aR, _bR);
@@ -50,13 +50,13 @@ function createIntraUnitBondLines(ctx, unit, structure, theme, props, lines) {
50
50
  _a = [bI, aI], aI = _a[0], bI = _a[1];
51
51
  if (offset[aI + 1] - offset[aI] === 1)
52
52
  _b = [bI, aI], aI = _b[0], bI = _b[1];
53
- var aR = elementRingIndices.get(aI);
53
+ var aR = elementAromaticRingIndices.get(aI) || elementRingIndices.get(aI);
54
54
  var maxSize = 0;
55
55
  for (var i = offset[aI], il = offset[aI + 1]; i < il; ++i) {
56
56
  var _bI = b[i];
57
57
  if (_bI !== bI && _bI !== aI) {
58
58
  if (aR) {
59
- var _bR = elementRingIndices.get(_bI);
59
+ var _bR = elementAromaticRingIndices.get(_bI) || elementRingIndices.get(_bI);
60
60
  if (!_bR)
61
61
  continue;
62
62
  var size = arrayIntersectionSize(aR, _bR);
@@ -178,7 +178,7 @@ export function PolymerTraceVisual(materialId) {
178
178
  newProps.helixProfile !== currentProps.helixProfile);
179
179
  var secondaryStructureHash = SecondaryStructureProvider.get(newStructureGroup.structure).version;
180
180
  if (state.info.secondaryStructureHash !== secondaryStructureHash) {
181
- state.createGeometry = true;
181
+ state.createGeometry = state.info.secondaryStructureHash !== undefined;
182
182
  state.info.secondaryStructureHash = secondaryStructureHash;
183
183
  }
184
184
  }
@@ -17,7 +17,7 @@ export var BondParams = {
17
17
  includeTypes: PD.MultiSelect(ObjectKeys(BondType.Names), PD.objectToOptions(BondType.Names)),
18
18
  excludeTypes: PD.MultiSelect([], PD.objectToOptions(BondType.Names)),
19
19
  ignoreHydrogens: PD.Boolean(false),
20
- aromaticBonds: PD.Boolean(false, { description: 'Display aromatic bonds with dashes' }),
20
+ aromaticBonds: PD.Boolean(true, { description: 'Display aromatic bonds with dashes' }),
21
21
  multipleBonds: PD.Select('symmetric', PD.arrayToOptions(['off', 'symmetric', 'offset'])),
22
22
  };
23
23
  export var DefaultBondProps = PD.getDefaultValues(BondParams);
@@ -10,7 +10,6 @@ export declare namespace MolScriptBuilder {
10
10
  '@header': string;
11
11
  type: {
12
12
  '@header': string;
13
- /** atom macromolecular property set */
14
13
  bool: MSymbol<import("./symbol").Arguments<import("./symbol").Arguments.PropTypes<{
15
14
  0: import("./symbol").Argument<import("./type").Type.AnyValue>;
16
15
  }>>, import("./type").Type.OneOf<boolean>>;
package/package.json CHANGED
@@ -1,162 +1,162 @@
1
- {
2
- "name": "molstar",
3
- "version": "3.0.0-dev.5",
4
- "description": "A comprehensive macromolecular library.",
5
- "homepage": "https://github.com/molstar/molstar#readme",
6
- "repository": {
7
- "type": "git",
8
- "url": "https://github.com/molstar/molstar.git"
9
- },
10
- "bugs": {
11
- "url": "https://github.com/molstar/molstar/issues"
12
- },
13
- "scripts": {
14
- "lint": "eslint .",
15
- "lint-fix": "eslint . --fix",
16
- "test": "npm run lint && jest",
17
- "jest": "jest",
18
- "build": "npm run build-tsc && npm run build-extra && npm run build-webpack",
19
- "clean": "node ./scripts/clean.js",
20
- "rebuild": "npm run clean && npm run build",
21
- "build-viewer": "npm run build-tsc && npm run build-extra && npm run build-webpack-viewer",
22
- "build-tsc": "concurrently \"tsc --incremental\" \"tsc --build tsconfig.commonjs.json --incremental\"",
23
- "build-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/",
24
- "build-webpack": "webpack --mode production --config ./webpack.config.production.js",
25
- "build-webpack-viewer": "webpack --mode production --config ./webpack.config.viewer.js",
26
- "watch": "concurrently -c \"green,green,gray,gray\" --names \"tsc,srv,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-servers\" \"npm:watch-extra\" \"npm:watch-webpack\"",
27
- "watch-viewer": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer\"",
28
- "watch-viewer-debug": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer-debug\"",
29
- "watch-tsc": "tsc --watch --incremental",
30
- "watch-servers": "tsc --build tsconfig.commonjs.json --watch --incremental",
31
- "watch-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/ --watch",
32
- "watch-webpack": "webpack -w --mode development --stats minimal",
33
- "watch-webpack-viewer": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.js",
34
- "watch-webpack-viewer-debug": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.debug.js",
35
- "serve": "http-server -p 1338 -g",
36
- "model-server": "node lib/commonjs/servers/model/server.js",
37
- "model-server-watch": "nodemon --watch lib lib/commonjs/servers/model/server.js",
38
- "volume-server-test": "node lib/commonjs/servers/volume/server.js --idMap em 'test/${id}.mdb' --defaultPort 1336",
39
- "plugin-state": "node lib/commonjs/servers/plugin-state/index.js --working-folder ./build/state --port 1339",
40
- "preversion": "npm run test",
41
- "version": "npm run rebuild && cpx .npmignore lib/",
42
- "postversion": "git push && git push --tags"
43
- },
44
- "files": [
45
- "lib/",
46
- "build/viewer/"
47
- ],
48
- "bin": {
49
- "cif2bcif": "lib/commonjs/cli/cif2bcif/index.js",
50
- "cifschema": "lib/commonjs/cli/cifschema/index.js",
51
- "model-server": "lib/commonjs/servers/model/server.js",
52
- "model-server-query": "lib/commonjs/servers/model/query.js",
53
- "model-server-preprocess": "lib/commonjs/servers/model/preprocess.js",
54
- "volume-server": "lib/commonjs/servers/volume/server.js",
55
- "volume-server-query": "lib/commonjs/servers/volume/query.js",
56
- "volume-server-pack": "lib/commonjs/servers/volume/pack.js"
57
- },
58
- "nodemonConfig": {
59
- "ignoreRoot": [
60
- "./node_modules",
61
- ".git"
62
- ],
63
- "ignore": [],
64
- "delay": "2500"
65
- },
66
- "jest": {
67
- "moduleFileExtensions": [
68
- "ts",
69
- "js"
70
- ],
71
- "transform": {
72
- "\\.ts$": "ts-jest"
73
- },
74
- "moduleDirectories": [
75
- "node_modules",
76
- "lib"
77
- ],
78
- "testURL": "http://localhost/",
79
- "testRegex": "\\.spec\\.ts$"
80
- },
81
- "author": "Mol* Contributors",
82
- "contributors": [
83
- "Alexander Rose <alexander.rose@weirdbyte.de>",
84
- "David Sehnal <david.sehnal@gmail.com>",
85
- "Sebastian Bittrich <sebastian.bittrich@rcsb.org>",
86
- "Áron Samuel Kovács <aron.kovacs@mail.muni.cz>",
87
- "Ludovic Autin <autin@scripps.edu>",
88
- "Michal Malý <michal.maly@ibt.cas.cz>",
89
- "Jiří Černý <jiri.cerny@ibt.cas.cz>"
90
- ],
91
- "license": "MIT",
92
- "devDependencies": {
93
- "@graphql-codegen/add": "^3.1.0",
94
- "@graphql-codegen/cli": "^2.3.0",
95
- "@graphql-codegen/time": "^3.1.0",
96
- "@graphql-codegen/typescript": "^2.4.1",
97
- "@graphql-codegen/typescript-graphql-files-modules": "^2.1.0",
98
- "@graphql-codegen/typescript-graphql-request": "^4.3.1",
99
- "@graphql-codegen/typescript-operations": "^2.2.1",
100
- "@types/cors": "^2.8.12",
101
- "@types/gl": "^4.1.0",
102
- "@types/jest": "^27.0.3",
103
- "@typescript-eslint/eslint-plugin": "^5.5.0",
104
- "@typescript-eslint/parser": "^5.5.0",
105
- "benchmark": "^2.1.4",
106
- "concurrently": "^6.4.0",
107
- "cpx2": "^4.0.0",
108
- "crypto-browserify": "^3.12.0",
109
- "css-loader": "^6.5.1",
110
- "eslint": "^8.3.0",
111
- "extra-watch-webpack-plugin": "^1.0.3",
112
- "file-loader": "^6.2.0",
113
- "fs-extra": "^10.0.0",
114
- "graphql": "^15.7.2",
115
- "http-server": "^14.0.0",
116
- "jest": "^27.3.1",
117
- "mini-css-extract-plugin": "^2.4.5",
118
- "path-browserify": "^1.0.1",
119
- "raw-loader": "^4.0.2",
120
- "sass": "^1.43.5",
121
- "sass-loader": "^12.3.0",
122
- "simple-git": "^2.47.0",
123
- "stream-browserify": "^3.0.0",
124
- "style-loader": "^3.3.1",
125
- "ts-jest": "^27.0.7",
126
- "typescript": "^4.5.2",
127
- "webpack": "^5.64.4",
128
- "webpack-cli": "^4.9.1"
129
- },
130
- "dependencies": {
131
- "@types/argparse": "^2.0.10",
132
- "@types/benchmark": "^2.1.1",
133
- "@types/compression": "1.7.2",
134
- "@types/express": "^4.17.13",
135
- "@types/node": "^16.11.10",
136
- "@types/node-fetch": "^2.5.12",
137
- "@types/react": "^17.0.37",
138
- "@types/react-dom": "^17.0.11",
139
- "@types/swagger-ui-dist": "3.30.1",
140
- "argparse": "^2.0.1",
141
- "body-parser": "^1.19.0",
142
- "compression": "^1.7.4",
143
- "cors": "^2.8.5",
144
- "express": "^4.17.1",
145
- "h264-mp4-encoder": "^1.0.12",
146
- "immer": "^9.0.7",
147
- "immutable": "^3.8.2",
148
- "node-fetch": "^2.6.2",
149
- "rxjs": "^7.4.0",
150
- "swagger-ui-dist": "^4.1.1",
151
- "tslib": "^2.3.1",
152
- "util.promisify": "^1.1.1",
153
- "xhr2": "^0.2.1"
154
- },
155
- "peerDependencies": {
156
- "react": "^17.0.2",
157
- "react-dom": "^17.0.2"
158
- },
159
- "optionalDependencies": {
160
- "gl": "^4.9.2"
161
- }
162
- }
1
+ {
2
+ "name": "molstar",
3
+ "version": "3.0.0-dev.6",
4
+ "description": "A comprehensive macromolecular library.",
5
+ "homepage": "https://github.com/molstar/molstar#readme",
6
+ "repository": {
7
+ "type": "git",
8
+ "url": "https://github.com/molstar/molstar.git"
9
+ },
10
+ "bugs": {
11
+ "url": "https://github.com/molstar/molstar/issues"
12
+ },
13
+ "scripts": {
14
+ "lint": "eslint .",
15
+ "lint-fix": "eslint . --fix",
16
+ "test": "npm run lint && jest",
17
+ "jest": "jest",
18
+ "build": "npm run build-tsc && npm run build-extra && npm run build-webpack",
19
+ "clean": "node ./scripts/clean.js",
20
+ "rebuild": "npm run clean && npm run build",
21
+ "build-viewer": "npm run build-tsc && npm run build-extra && npm run build-webpack-viewer",
22
+ "build-tsc": "concurrently \"tsc --incremental\" \"tsc --build tsconfig.commonjs.json --incremental\"",
23
+ "build-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/",
24
+ "build-webpack": "webpack --mode production --config ./webpack.config.production.js",
25
+ "build-webpack-viewer": "webpack --mode production --config ./webpack.config.viewer.js",
26
+ "watch": "concurrently -c \"green,green,gray,gray\" --names \"tsc,srv,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-servers\" \"npm:watch-extra\" \"npm:watch-webpack\"",
27
+ "watch-viewer": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer\"",
28
+ "watch-viewer-debug": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer-debug\"",
29
+ "watch-tsc": "tsc --watch --incremental",
30
+ "watch-servers": "tsc --build tsconfig.commonjs.json --watch --incremental",
31
+ "watch-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/ --watch",
32
+ "watch-webpack": "webpack -w --mode development --stats minimal",
33
+ "watch-webpack-viewer": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.js",
34
+ "watch-webpack-viewer-debug": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.debug.js",
35
+ "serve": "http-server -p 1338 -g",
36
+ "model-server": "node lib/commonjs/servers/model/server.js",
37
+ "model-server-watch": "nodemon --watch lib lib/commonjs/servers/model/server.js",
38
+ "volume-server-test": "node lib/commonjs/servers/volume/server.js --idMap em 'test/${id}.mdb' --defaultPort 1336",
39
+ "plugin-state": "node lib/commonjs/servers/plugin-state/index.js --working-folder ./build/state --port 1339",
40
+ "preversion": "npm run test",
41
+ "version": "npm run rebuild && cpx .npmignore lib/",
42
+ "postversion": "git push && git push --tags"
43
+ },
44
+ "files": [
45
+ "lib/",
46
+ "build/viewer/"
47
+ ],
48
+ "bin": {
49
+ "cif2bcif": "lib/commonjs/cli/cif2bcif/index.js",
50
+ "cifschema": "lib/commonjs/cli/cifschema/index.js",
51
+ "model-server": "lib/commonjs/servers/model/server.js",
52
+ "model-server-query": "lib/commonjs/servers/model/query.js",
53
+ "model-server-preprocess": "lib/commonjs/servers/model/preprocess.js",
54
+ "volume-server": "lib/commonjs/servers/volume/server.js",
55
+ "volume-server-query": "lib/commonjs/servers/volume/query.js",
56
+ "volume-server-pack": "lib/commonjs/servers/volume/pack.js"
57
+ },
58
+ "nodemonConfig": {
59
+ "ignoreRoot": [
60
+ "./node_modules",
61
+ ".git"
62
+ ],
63
+ "ignore": [],
64
+ "delay": "2500"
65
+ },
66
+ "jest": {
67
+ "moduleFileExtensions": [
68
+ "ts",
69
+ "js"
70
+ ],
71
+ "transform": {
72
+ "\\.ts$": "ts-jest"
73
+ },
74
+ "moduleDirectories": [
75
+ "node_modules",
76
+ "lib"
77
+ ],
78
+ "testURL": "http://localhost/",
79
+ "testRegex": "\\.spec\\.ts$"
80
+ },
81
+ "author": "Mol* Contributors",
82
+ "contributors": [
83
+ "Alexander Rose <alexander.rose@weirdbyte.de>",
84
+ "David Sehnal <david.sehnal@gmail.com>",
85
+ "Sebastian Bittrich <sebastian.bittrich@rcsb.org>",
86
+ "Áron Samuel Kovács <aron.kovacs@mail.muni.cz>",
87
+ "Ludovic Autin <autin@scripps.edu>",
88
+ "Michal Malý <michal.maly@ibt.cas.cz>",
89
+ "Jiří Černý <jiri.cerny@ibt.cas.cz>"
90
+ ],
91
+ "license": "MIT",
92
+ "devDependencies": {
93
+ "@graphql-codegen/add": "^3.1.0",
94
+ "@graphql-codegen/cli": "^2.3.0",
95
+ "@graphql-codegen/time": "^3.1.0",
96
+ "@graphql-codegen/typescript": "^2.4.1",
97
+ "@graphql-codegen/typescript-graphql-files-modules": "^2.1.0",
98
+ "@graphql-codegen/typescript-graphql-request": "^4.3.1",
99
+ "@graphql-codegen/typescript-operations": "^2.2.1",
100
+ "@types/cors": "^2.8.12",
101
+ "@types/gl": "^4.1.0",
102
+ "@types/jest": "^27.0.3",
103
+ "@typescript-eslint/eslint-plugin": "^5.5.0",
104
+ "@typescript-eslint/parser": "^5.5.0",
105
+ "benchmark": "^2.1.4",
106
+ "concurrently": "^6.4.0",
107
+ "cpx2": "^4.0.0",
108
+ "crypto-browserify": "^3.12.0",
109
+ "css-loader": "^6.5.1",
110
+ "eslint": "^8.3.0",
111
+ "extra-watch-webpack-plugin": "^1.0.3",
112
+ "file-loader": "^6.2.0",
113
+ "fs-extra": "^10.0.0",
114
+ "graphql": "^15.7.2",
115
+ "http-server": "^14.0.0",
116
+ "jest": "^27.3.1",
117
+ "mini-css-extract-plugin": "^2.4.5",
118
+ "path-browserify": "^1.0.1",
119
+ "raw-loader": "^4.0.2",
120
+ "sass": "^1.43.5",
121
+ "sass-loader": "^12.3.0",
122
+ "simple-git": "^2.47.0",
123
+ "stream-browserify": "^3.0.0",
124
+ "style-loader": "^3.3.1",
125
+ "ts-jest": "^27.0.7",
126
+ "typescript": "^4.5.2",
127
+ "webpack": "^5.64.4",
128
+ "webpack-cli": "^4.9.1"
129
+ },
130
+ "dependencies": {
131
+ "@types/argparse": "^2.0.10",
132
+ "@types/benchmark": "^2.1.1",
133
+ "@types/compression": "1.7.2",
134
+ "@types/express": "^4.17.13",
135
+ "@types/node": "^16.11.10",
136
+ "@types/node-fetch": "^2.5.12",
137
+ "@types/react": "^17.0.37",
138
+ "@types/react-dom": "^17.0.11",
139
+ "@types/swagger-ui-dist": "3.30.1",
140
+ "argparse": "^2.0.1",
141
+ "body-parser": "^1.19.0",
142
+ "compression": "^1.7.4",
143
+ "cors": "^2.8.5",
144
+ "express": "^4.17.1",
145
+ "h264-mp4-encoder": "^1.0.12",
146
+ "immer": "^9.0.7",
147
+ "immutable": "^3.8.2",
148
+ "node-fetch": "^2.6.2",
149
+ "rxjs": "^7.4.0",
150
+ "swagger-ui-dist": "^4.1.1",
151
+ "tslib": "^2.3.1",
152
+ "util.promisify": "^1.1.1",
153
+ "xhr2": "^0.2.1"
154
+ },
155
+ "peerDependencies": {
156
+ "react": "^17.0.2",
157
+ "react-dom": "^17.0.2"
158
+ },
159
+ "optionalDependencies": {
160
+ "gl": "^4.9.2"
161
+ }
162
+ }