@datagrok/sequence-translator 1.2.6 → 1.2.9

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Files changed (102) hide show
  1. package/.eslintrc.json +5 -5
  2. package/CHANGELOG.md +12 -0
  3. package/dist/package-test.js +2 -1
  4. package/dist/package-test.js.LICENSE.txt +8 -0
  5. package/dist/package-test.js.map +1 -1
  6. package/dist/package.js +2 -1
  7. package/dist/package.js.LICENSE.txt +8 -0
  8. package/dist/package.js.map +1 -1
  9. package/files/pattern-app-data.json +80 -0
  10. package/package.json +21 -14
  11. package/src/{model → apps/common/model}/const.ts +1 -1
  12. package/src/{model/data-loading-utils → apps/common/model/data-loader}/const.ts +7 -2
  13. package/src/apps/common/model/data-loader/json-loader.ts +48 -0
  14. package/src/{model/data-loading-utils → apps/common/model/data-loader}/types.ts +13 -6
  15. package/src/{model → apps/common/model}/monomer-lib/lib-wrapper.ts +9 -12
  16. package/src/apps/common/model/oligo-toolkit-package.ts +30 -0
  17. package/src/{model → apps/common/model}/parsing-validation/format-detector.ts +5 -5
  18. package/src/{model → apps/common/model}/parsing-validation/format-handler.ts +18 -19
  19. package/src/{model → apps/common/model}/parsing-validation/sequence-validator.ts +1 -1
  20. package/src/apps/common/view/app-ui-base.ts +28 -0
  21. package/src/apps/common/view/combined-app-ui.ts +66 -0
  22. package/src/{view/utils → apps/common/view/components}/colored-input/colored-text-input.ts +1 -1
  23. package/src/{view/utils → apps/common/view/components}/draw-molecule.ts +1 -1
  24. package/src/{view/utils → apps/common/view/components}/molecule-img.ts +3 -3
  25. package/src/{view/const/ui.ts → apps/common/view/const.ts} +4 -4
  26. package/src/apps/common/view/isolated-app-ui.ts +43 -0
  27. package/src/{view/monomer-lib-viewer/viewer.ts → apps/common/view/monomer-lib-viewer.ts} +2 -2
  28. package/src/apps/common/view/utils.ts +29 -0
  29. package/src/apps/pattern/model/const.ts +121 -0
  30. package/src/apps/pattern/model/data-manager.ts +297 -0
  31. package/src/apps/pattern/model/event-bus.ts +470 -0
  32. package/src/apps/pattern/model/router.ts +46 -0
  33. package/src/apps/pattern/model/subscription-manager.ts +21 -0
  34. package/src/apps/pattern/model/translator.ts +68 -0
  35. package/src/apps/pattern/model/types.ts +52 -0
  36. package/src/apps/pattern/model/utils.ts +110 -0
  37. package/src/apps/pattern/view/components/bulk-convert/column-input.ts +69 -0
  38. package/src/apps/pattern/view/components/bulk-convert/table-controls.ts +37 -0
  39. package/src/apps/pattern/view/components/bulk-convert/table-input.ts +95 -0
  40. package/src/apps/pattern/view/components/edit-block-controls.ts +196 -0
  41. package/src/apps/pattern/view/components/left-section.ts +44 -0
  42. package/src/apps/pattern/view/components/load-block-controls.ts +198 -0
  43. package/src/apps/pattern/view/components/numeric-label-visibility-controls.ts +69 -0
  44. package/src/apps/pattern/view/components/right-section.ts +148 -0
  45. package/src/apps/pattern/view/components/strand-editor/dialog.ts +79 -0
  46. package/src/apps/pattern/view/components/strand-editor/header-controls.ts +105 -0
  47. package/src/apps/pattern/view/components/strand-editor/strand-controls.ts +159 -0
  48. package/src/apps/pattern/view/components/terminal-modification-editor.ts +127 -0
  49. package/src/apps/pattern/view/components/translation-examples-block.ts +139 -0
  50. package/src/{view/style/pattern-app.css → apps/pattern/view/style.css} +4 -0
  51. package/src/apps/pattern/view/svg-utils/const.ts +63 -0
  52. package/src/apps/pattern/view/svg-utils/dimensions-calculator.ts +498 -0
  53. package/src/apps/pattern/view/svg-utils/svg-display-manager.ts +45 -0
  54. package/src/apps/pattern/view/svg-utils/svg-element-factory.ts +82 -0
  55. package/src/apps/pattern/view/svg-utils/svg-renderer.ts +396 -0
  56. package/src/apps/pattern/view/svg-utils/utils.ts +37 -0
  57. package/src/apps/pattern/view/types.ts +14 -0
  58. package/src/apps/pattern/view/ui.ts +61 -0
  59. package/src/{model/structure-app → apps/structure/model}/mol-transformations.ts +3 -3
  60. package/src/{model/structure-app → apps/structure/model}/monomer-code-parser.ts +9 -10
  61. package/src/{model/structure-app → apps/structure/model}/oligo-structure.ts +4 -4
  62. package/src/{model/structure-app → apps/structure/model}/sequence-to-molfile.ts +2 -2
  63. package/src/{view/apps/oligo-structure.ts → apps/structure/view/ui.ts} +31 -17
  64. package/src/{model/translator-app → apps/translator/model}/conversion-utils.ts +25 -7
  65. package/src/{model/translator-app → apps/translator/model}/format-converter.ts +7 -12
  66. package/src/{view/const/oligo-translator.ts → apps/translator/view/const.ts} +2 -0
  67. package/src/apps/translator/view/ui.ts +547 -0
  68. package/src/demo/demo-st-ui.ts +12 -32
  69. package/src/package.ts +76 -56
  70. package/src/plugins/mermade.ts +9 -9
  71. package/src/polytool/const.ts +40 -0
  72. package/src/polytool/csv-to-json-monomer-lib-converter.ts +40 -0
  73. package/src/polytool/cyclized.ts +56 -0
  74. package/src/polytool/monomer-lib-handler.ts +115 -0
  75. package/src/polytool/transformation.ts +326 -0
  76. package/src/polytool/ui.ts +59 -0
  77. package/src/polytool/utils.ts +20 -0
  78. package/src/tests/const.ts +5 -5
  79. package/src/tests/formats-support.ts +6 -6
  80. package/src/tests/formats-to-helm.ts +5 -5
  81. package/src/tests/helm-to-nucleotides.ts +5 -5
  82. package/tsconfig.json +4 -10
  83. package/webpack.config.js +3 -0
  84. package/files/axolabs-style.json +0 -97
  85. package/src/model/data-loading-utils/json-loader.ts +0 -38
  86. package/src/model/pattern-app/const.ts +0 -33
  87. package/src/model/pattern-app/draw-svg.ts +0 -193
  88. package/src/model/pattern-app/helpers.ts +0 -96
  89. package/src/model/pattern-app/oligo-pattern.ts +0 -111
  90. package/src/view/app-ui.ts +0 -193
  91. package/src/view/apps/oligo-pattern.ts +0 -759
  92. package/src/view/apps/oligo-translator.ts +0 -184
  93. /package/src/{model → apps/common/model}/helpers.ts +0 -0
  94. /package/src/{model → apps/common/model}/monomer-lib/const.ts +0 -0
  95. /package/src/{view/utils → apps/common/view/components}/app-info-dialog.ts +0 -0
  96. /package/src/{view/utils → apps/common/view/components}/colored-input/input-painters.ts +0 -0
  97. /package/src/{view/style/colored-text-input.css → apps/common/view/components/colored-input/style.css} +0 -0
  98. /package/src/{view/utils → apps/common/view/components}/router.ts +0 -0
  99. /package/src/{model/structure-app → apps/structure/model}/const.ts +0 -0
  100. /package/src/{view/style/structure-app.css → apps/structure/view/style.css} +0 -0
  101. /package/src/{model/translator-app → apps/translator/model}/const.ts +0 -0
  102. /package/src/{view/style/translator-app.css → apps/translator/view/style.css} +0 -0
package/.eslintrc.json CHANGED
@@ -1,7 +1,7 @@
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  {
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  "env": {
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  "browser": true,
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- "es2022": true
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+ "es2020": true
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  },
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  "extends": [
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  "google"
@@ -19,10 +19,10 @@
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  "error",
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  2
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  ],
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- "max-len": [
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- "error",
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- 120
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- ],
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+ "max-len": ["error", 120],
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+ "max-params": ["warn", 5],
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+ "max-lines-per-function": ["warn", 100],
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+ "max-lines": ["warn", 500],
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  "no-unused-vars": "off",
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  "@typescript-eslint/no-unused-vars": "warn",
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  "require-jsdoc": "off",
package/CHANGELOG.md CHANGED
@@ -1,5 +1,17 @@
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  # Sequence Translator changelog
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+ ## 1.2.9 (2024-03-30)
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+
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+ ### Features
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+
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+ * #2707: Add original and canonical to monomer
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+
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+ ## 1.2.7 (2024-01-29)
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+
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+ ### Features
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+
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+ * Bulk translation for formats
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+
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  ## 1.2.6 (2024-01-29)
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  ### Bug fixes