@jbrowse/plugin-sequence 2.3.1 → 2.3.3
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.
- package/dist/DivSequenceRenderer/components/DivSequenceRendering.d.ts +8 -10
- package/dist/DivSequenceRenderer/components/DivSequenceRendering.js +1 -1
- package/dist/DivSequenceRenderer/components/DivSequenceRendering.js.map +1 -1
- package/dist/LinearReferenceSequenceDisplay/model.d.ts +42 -7
- package/dist/LinearReferenceSequenceDisplay/model.js +65 -23
- package/dist/LinearReferenceSequenceDisplay/model.js.map +1 -1
- package/dist/SequenceSearchAdapter/SequenceSearchAdapter.js +2 -1
- package/dist/SequenceSearchAdapter/SequenceSearchAdapter.js.map +1 -1
- package/esm/DivSequenceRenderer/components/DivSequenceRendering.d.ts +8 -10
- package/esm/DivSequenceRenderer/components/DivSequenceRendering.js +1 -1
- package/esm/DivSequenceRenderer/components/DivSequenceRendering.js.map +1 -1
- package/esm/LinearReferenceSequenceDisplay/model.d.ts +42 -7
- package/esm/LinearReferenceSequenceDisplay/model.js +66 -24
- package/esm/LinearReferenceSequenceDisplay/model.js.map +1 -1
- package/esm/SequenceSearchAdapter/SequenceSearchAdapter.js +2 -1
- package/esm/SequenceSearchAdapter/SequenceSearchAdapter.js.map +1 -1
- package/package.json +3 -3
- package/src/DivSequenceRenderer/components/DivSequenceRendering.test.tsx +161 -0
- package/src/DivSequenceRenderer/components/DivSequenceRendering.tsx +16 -19
- package/src/DivSequenceRenderer/components/__snapshots__/DivSequenceRendering.test.tsx.snap +1426 -0
- package/src/IndexedFastaAdapter/IndexedFastaAdapter.test.ts +4 -3
- package/src/LinearReferenceSequenceDisplay/model.ts +69 -25
- package/src/SequenceSearchAdapter/SequenceSearchAdapter.ts +2 -1
- package/src/TwoBitAdapter/TwoBitAdapter.test.ts +4 -3
- package/src/__snapshots__/{index.test.js.snap → index.test.ts.snap} +0 -0
- package/src/{index.test.js → index.test.ts} +5 -10
- package/src/DivSequenceRenderer/components/DivSequenceRendering.test.js +0 -211
- package/src/DivSequenceRenderer/components/__snapshots__/DivSequenceRendering.test.js.snap +0 -67
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@@ -1,8 +1,8 @@
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/// <reference types="react" />
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import { AnyConfigurationModel } from '@jbrowse/core/configuration
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import { Feature } from '@jbrowse/core/util
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import { AnyConfigurationModel } from '@jbrowse/core/configuration';
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import { Feature } from '@jbrowse/core/util';
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import { Region } from '@jbrowse/core/util/types';
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-
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declare function Sequence(props: {
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exportSVG?: {
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rasterizeLayers: boolean;
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};
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@@ -10,12 +10,10 @@ interface MyProps {
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regions: Region[];
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bpPerPx: number;
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config: AnyConfigurationModel;
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}
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declare function Sequence(props: MyProps): JSX.Element;
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theme?: any;
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showForward?: boolean;
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showReverse?: boolean;
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showTranslation?: boolean;
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}): JSX.Element;
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declare const _default: typeof Sequence;
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export default _default;
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@@ -61,7 +61,7 @@ function DNA(props) {
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render ? (react_1.default.createElement("text", { x: x + w / 2, y: y + height / 2, dominantBaseline: "middle", textAnchor: "middle", fill: color ? (0, color_1.contrastingTextColor)(color.main) : 'black' }, letter)) : null));
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})));
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}
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const SequenceSVG = ({ regions, theme: configTheme, features = new Map(), showReverse, showForward, showTranslation, bpPerPx, }) => {
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const SequenceSVG = ({ regions, theme: configTheme, features = new Map(), showReverse = true, showForward = true, showTranslation = true, bpPerPx, }) => {
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const [region] = regions;
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const theme = (0, ui_1.createJBrowseTheme)(configTheme);
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const codonTable = (0, util_1.generateCodonTable)(util_1.defaultCodonTable);
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@@ -1 +1 @@
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-
{"version":3,"file":"DivSequenceRendering.js","sourceRoot":"","sources":["../../../src/DivSequenceRenderer/components/DivSequenceRendering.tsx"],"names":[],"mappings":";;;;;AAAA,uDAAuD;AACvD,kDAAyB;AAEzB,oDAA+D;AAG/D,yCAAqD;AACrD,2CAAqC;AACrC,6CAQ2B;
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{"version":3,"file":"DivSequenceRendering.js","sourceRoot":"","sources":["../../../src/DivSequenceRenderer/components/DivSequenceRendering.tsx"],"names":[],"mappings":";;;;;AAAA,uDAAuD;AACvD,kDAAyB;AAEzB,oDAA+D;AAG/D,yCAAqD;AACrD,2CAAqC;AACrC,6CAQ2B;AAE3B,SAAS,WAAW,CAAC,KAUpB;IACC,MAAM,EACJ,UAAU,EACV,GAAG,EACH,KAAK,EACL,OAAO,EACP,MAAM,EACN,MAAM,EACN,CAAC,EACD,OAAO,GAAG,KAAK,EACf,KAAK,GACN,GAAG,KAAK,CAAA;IACT,MAAM,KAAK,GAAG,OAAO,CAAA;IAErB,wEAAwE;IACxE,4CAA4C;IAC5C,MAAM,IAAI,GAAG,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,GAAG,CAAC,CAAC,CAAA;IAEnC,qEAAqE;IACrE,2EAA2E;IAC3E,4CAA4C;IAC5C,MAAM,cAAc,GAAG,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;IAE7C,MAAM,SAAS,GAAG,GAAG,CAAC,KAAK,CAAC,cAAc,CAAC,CAAA;IAE3C,MAAM,UAAU,GAAwC,EAAE,CAAA;IAC1D,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QAC5C,MAAM,KAAK,GAAG,SAAS,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAA;QACvC,MAAM,eAAe,GAAG,OAAO,CAAC,CAAC,CAAC,IAAA,aAAM,EAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAA;QACvD,MAAM,SAAS,GAAG,UAAU,CAAC,eAAe,CAAC,IAAI,EAAE,CAAA;QACnD,UAAU,CAAC,IAAI,CAAC,EAAE,MAAM,EAAE,SAAS,EAAE,KAAK,EAAE,eAAe,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;KAC7E;IAED,MAAM,CAAC,GAAG,CAAC,CAAC,GAAG,KAAK,CAAC,GAAG,CAAC,CAAA;IACzB,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;IACvC,MAAM,MAAM,GAAG,CAAC,GAAG,OAAO,IAAI,EAAE,CAAA;IAChC,MAAM,KAAK,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;IAEnD,MAAM,GAAG,GAAG,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC,CAAC,OAAO,EAAE,CAAA;IACvD,OAAO,CACL,8DACG,UAAU,CAAC,GAAG,CAAC,CAAC,OAAO,EAAE,KAAK,EAAE,EAAE;QACjC,MAAM,CAAC,GAAG,MAAM,CAAC,QAAQ;YACvB,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,cAAc,GAAG,KAAK,GAAG,IAAI,CAAC;YAC3D,CAAC,CAAC,CAAC,GAAG,KAAK,GAAG,cAAc,GAAG,KAAK,GAAG,IAAI,CAAA;QAC7C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,OAAO,CAAA;QACjC,OAAO,CACL,8BAAC,eAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,GAAG,KAAK,IAAI,MAAM,EAAE;YACvC,wCACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EACH,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,GAAG,CAAC,uCAAuC,EAE9D,MAAM,EAAE,MAAM,EACd,MAAM,EAAE,MAAM,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAChC,IAAI,EACF,oBAAa,CAAC,QAAQ,CAAC,KAAK,CAAC;oBAC3B,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,UAAU;oBAC1B,CAAC,CAAC,mBAAY,CAAC,QAAQ,CAAC,KAAK,CAAC;wBAC9B,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,SAAS;wBACzB,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,GAE1B;YACD,MAAM,CAAC,CAAC,CAAC,CACR,wCACE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC,EACZ,CAAC,EAAE,CAAC,GAAG,MAAM,GAAG,CAAC,EACjB,gBAAgB,EAAC,QAAQ,EACzB,UAAU,EAAC,QAAQ,IAElB,MAAM,CACF,CACR,CAAC,CAAC,CAAC,IAAI,CACO,CAClB,CAAA;IACH,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC;AAED,SAAS,GAAG,CAAC,KAQZ;IACC,MAAM,EAAE,OAAO,EAAE,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,KAAK,CAAA;IACjE,MAAM,MAAM,GAAG,CAAC,GAAG,OAAO,IAAI,EAAE,CAAA;IAEhC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,GAAG,IAAA,eAAQ,EAChC,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,EACpB,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EAClB,MAAM,EACN,OAAO,CACR,CAAA;IACD,MAAM,OAAO,GAAG,MAAM,CAAC,QAAQ,CAAA;IAC/B,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;IACrD,MAAM,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,OAAO,GAAG,MAAM,CAAC,GAAG,GAAG,EAAE,GAAG,CAAC,CAAA;IAEjD,OAAO,CACL,8DACG,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;QACnC,MAAM,KAAK,GAAG,KAAK,CAAC,OAAO,CAAC,KAAK,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;QACvD,MAAM,CAAC,GAAG,OAAO,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;QAClE,OAAO,CACL,8BAAC,eAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,KAAK;YACxB,wCACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,CAAC,EACR,MAAM,EAAE,MAAM,EACd,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,MAAM,EACjC,MAAM,EAAE,MAAM,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,GAChC;YACD,MAAM,CAAC,CAAC,CAAC,CACR,wCACE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC,EACZ,CAAC,EAAE,CAAC,GAAG,MAAM,GAAG,CAAC,EACjB,gBAAgB,EAAC,QAAQ,EACzB,UAAU,EAAC,QAAQ,EACnB,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC,IAAA,4BAAoB,EAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,OAAO,IAEvD,MAAM,CACF,CACR,CAAC,CAAC,CAAC,IAAI,CACO,CAClB,CAAA;IACH,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC;AAED,MAAM,WAAW,GAAG,CAAC,EACnB,OAAO,EACP,KAAK,EAAE,WAAW,EAClB,QAAQ,GAAG,IAAI,GAAG,EAAE,EACpB,WAAW,GAAG,IAAI,EAClB,WAAW,GAAG,IAAI,EAClB,eAAe,GAAG,IAAI,EACtB,OAAO,GACH,EAAE,EAAE;IACR,MAAM,CAAC,MAAM,CAAC,GAAG,OAAO,CAAA;IACxB,MAAM,KAAK,GAAG,IAAA,uBAAkB,EAAC,WAAW,CAAC,CAAA;IAC7C,MAAM,UAAU,GAAG,IAAA,yBAAkB,EAAC,wBAAiB,CAAC,CAAA;IACxD,MAAM,MAAM,GAAG,EAAE,CAAA;IACjB,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,CAAA;IACxC,IAAI,CAAC,OAAO,EAAE;QACZ,OAAO,IAAI,CAAA;KACZ;IACD,MAAM,GAAG,GAAW,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;IACtC,IAAI,CAAC,GAAG,EAAE;QACR,OAAO,IAAI,CAAA;KACZ;IAED,wEAAwE;IACxE,kDAAkD;IAClD,IAAI,KAAK,GAAG,CAAC,EAAE,CAAA;IAEf,OAAO,CACL;QAGG,eAAe,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,WAAW,CAAC;YAC/D,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CACrB,8BAAC,WAAW,IACV,GAAG,EAAE,eAAe,KAAK,EAAE,EAC3B,GAAG,EAAE,GAAG,EACR,CAAC,EAAE,CAAC,KAAK,IAAI,EAAE,CAAC,EAChB,UAAU,EAAE,UAAU,EACtB,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,KAAK,EAAE,KAAK,EACZ,MAAM,EAAE,MAAM,EACd,OAAO,EAAE,MAAM,CAAC,QAAQ,GACxB,CACH,CAAC;YACJ,CAAC,CAAC,IAAI;QAEP,WAAW,CAAC,CAAC,CAAC,CACb,8BAAC,GAAG,IACF,MAAM,EAAE,MAAM,EACd,CAAC,EAAE,CAAC,KAAK,IAAI,EAAE,CAAC,EAChB,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,GAAG,EAAE,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAA,iBAAU,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,EAC5C,OAAO,EAAE,OAAO,EAChB,KAAK,EAAE,KAAK,GACZ,CACH,CAAC,CAAC,CAAC,IAAI;QAEP,WAAW,CAAC,CAAC,CAAC,CACb,8BAAC,GAAG,IACF,MAAM,EAAE,MAAM,EACd,CAAC,EAAE,CAAC,KAAK,IAAI,EAAE,CAAC,EAChB,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,GAAG,EAAE,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAU,EAAC,GAAG,CAAC,EAC5C,OAAO,EAAE,OAAO,EAChB,KAAK,EAAE,KAAK,GACZ,CACH,CAAC,CAAC,CAAC,IAAI;QAIP,eAAe,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,WAAW,CAAC;YAC/D,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CACvB,8BAAC,WAAW,IACV,GAAG,EAAE,mBAAmB,KAAK,EAAE,EAC/B,GAAG,EAAE,GAAG,EACR,CAAC,EAAE,CAAC,KAAK,IAAI,EAAE,CAAC,EAChB,UAAU,EAAE,UAAU,EACtB,KAAK,EAAE,KAAK,EACZ,OAAO,EAAE,OAAO,EAChB,MAAM,EAAE,MAAM,EACd,KAAK,EAAE,KAAK,EACZ,MAAM,EAAE,MAAM,EACd,OAAO,EAAE,CAAC,MAAM,CAAC,QAAQ,GACzB,CACH,CAAC;YACJ,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAA;AAED,MAAM,OAAO,GAAG,CAAC,EAAE,SAAS,EAAE,KAAK,EAAE,WAAW,EAAE,QAAQ,EAAO,EAAE,EAAE;IACnE,OAAO,SAAS,CAAC,CAAC,CAAC,CACjB,8DAAG,QAAQ,CAAI,CAChB,CAAC,CAAC,CAAC,CACF,sDACc,gBAAgB,EAC5B,KAAK,EAAE,KAAK,EACZ,MAAM,EAAE,WAAW,EACnB,KAAK,EAAE,EAAE,KAAK,EAAE,MAAM,EAAE,WAAW,EAAE,IAEpC,QAAQ,CACL,CACP,CAAA;AACH,CAAC,CAAA;AAED,SAAS,QAAQ,CAAC,KAUjB;IACC,MAAM,EAAE,OAAO,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;IAClC,MAAM,CAAC,MAAM,CAAC,GAAG,OAAO,CAAA;IACxB,MAAM,KAAK,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;IACnD,MAAM,WAAW,GAAG,GAAG,CAAA;IAEvB,OAAO,CACL,8BAAC,OAAO,OAAK,KAAK,EAAE,WAAW,EAAE,WAAW,EAAE,KAAK,EAAE,KAAK;QACxD,8BAAC,WAAW,OAAK,KAAK,GAAI,CAClB,CACX,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,QAAQ,CAAC,CAAA"}
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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type: import("mobx-state-tree").ISimpleType<string>;
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error: unknown; /**
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}> | null;
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@@ -5,19 +5,41 @@ const mobx_state_tree_1 = require("mobx-state-tree");
|
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5
5
|
const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
|
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6
|
const configuration_1 = require("@jbrowse/core/configuration");
|
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7
|
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|
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const mobx_1 = require("mobx");
|
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/**
|
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* #stateModel LinearReferenceSequenceDisplay
|
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* base model `BaseLinearDisplay`
|
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*/
|
|
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13
|
function modelFactory(configSchema) {
|
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14
|
return mobx_state_tree_1.types
|
|
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15
|
.compose('LinearReferenceSequenceDisplay', plugin_linear_genome_view_1.BaseLinearDisplay, mobx_state_tree_1.types.model({
|
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|
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|
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|
|
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|
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*/
|
|
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|
type: mobx_state_tree_1.types.literal('LinearReferenceSequenceDisplay'),
|
|
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|
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|
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|
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*/
|
|
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23
|
configuration: (0, configuration_1.ConfigurationReference)(configSchema),
|
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|
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|
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|
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|
|
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|
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|
|
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|
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|
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|
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|
|
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|
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|
|
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|
+
*/
|
|
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|
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showForward: true,
|
|
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|
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/**
|
|
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|
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|
|
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|
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|
|
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|
+
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|
|
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|
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|
|
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|
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|
|
34
|
+
*/
|
|
35
|
+
showTranslation: true,
|
|
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36
|
}))
|
|
18
37
|
.views(self => {
|
|
19
38
|
const { renderProps: superRenderProps } = self;
|
|
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39
|
return {
|
|
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|
+
/**
|
|
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|
+
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|
|
42
|
+
*/
|
|
21
43
|
renderProps() {
|
|
22
44
|
const { showForward, showReverse, showTranslation } = self;
|
|
23
45
|
return {
|
|
@@ -29,55 +51,75 @@ function modelFactory(configSchema) {
|
|
|
29
51
|
showTranslation,
|
|
30
52
|
};
|
|
31
53
|
},
|
|
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|
-
regionCannotBeRendered( /* region */) {
|
|
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|
-
const view = (0, util_1.getContainingView)(self);
|
|
34
|
-
if (view && view.bpPerPx >= 1) {
|
|
35
|
-
return 'Zoom in to see sequence';
|
|
36
|
-
}
|
|
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|
-
return undefined;
|
|
38
|
-
},
|
|
39
|
-
get rendererTypeName() {
|
|
40
|
-
return self.configuration.renderer.type;
|
|
41
|
-
},
|
|
42
54
|
};
|
|
43
55
|
})
|
|
56
|
+
.views(self => ({
|
|
57
|
+
/**
|
|
58
|
+
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|
|
59
|
+
*/
|
|
60
|
+
regionCannotBeRendered( /* region */) {
|
|
61
|
+
const view = (0, util_1.getContainingView)(self);
|
|
62
|
+
return (view === null || view === void 0 ? void 0 : view.bpPerPx) >= 1 ? 'Zoom in to see sequence' : undefined;
|
|
63
|
+
},
|
|
64
|
+
/**
|
|
65
|
+
* #getter
|
|
66
|
+
*/
|
|
67
|
+
get rendererTypeName() {
|
|
68
|
+
return self.configuration.renderer.type;
|
|
69
|
+
},
|
|
70
|
+
}))
|
|
44
71
|
.actions(self => ({
|
|
72
|
+
/**
|
|
73
|
+
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|
|
74
|
+
*/
|
|
45
75
|
toggleShowForward() {
|
|
46
76
|
self.showForward = !self.showForward;
|
|
47
77
|
},
|
|
78
|
+
/**
|
|
79
|
+
* #action
|
|
80
|
+
*/
|
|
48
81
|
toggleShowReverse() {
|
|
49
82
|
self.showReverse = !self.showReverse;
|
|
50
83
|
},
|
|
84
|
+
/**
|
|
85
|
+
* #action
|
|
86
|
+
*/
|
|
51
87
|
toggleShowTranslation() {
|
|
52
88
|
self.showTranslation = !self.showTranslation;
|
|
53
89
|
},
|
|
90
|
+
afterAttach() {
|
|
91
|
+
// auto-adjust height depending on settings
|
|
92
|
+
(0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
|
|
93
|
+
const t = self.showTranslation ? 100 : 0;
|
|
94
|
+
const r = self.showReverse ? 20 : 0;
|
|
95
|
+
const s = self.showForward ? 20 : 0;
|
|
96
|
+
self.setHeight(t + r + s);
|
|
97
|
+
}));
|
|
98
|
+
},
|
|
54
99
|
}))
|
|
55
100
|
.views(self => ({
|
|
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|
+
/**
|
|
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|
+
* #method
|
|
103
|
+
*/
|
|
56
104
|
trackMenuItems() {
|
|
57
105
|
return [
|
|
58
106
|
{
|
|
59
107
|
label: 'Show forward',
|
|
60
108
|
type: 'checkbox',
|
|
61
109
|
checked: self.showForward,
|
|
62
|
-
onClick: () =>
|
|
63
|
-
self.toggleShowForward();
|
|
64
|
-
},
|
|
110
|
+
onClick: () => self.toggleShowForward(),
|
|
65
111
|
},
|
|
66
112
|
{
|
|
67
113
|
label: 'Show reverse',
|
|
68
114
|
type: 'checkbox',
|
|
69
115
|
checked: self.showReverse,
|
|
70
|
-
onClick: () =>
|
|
71
|
-
self.toggleShowReverse();
|
|
72
|
-
},
|
|
116
|
+
onClick: () => self.toggleShowReverse(),
|
|
73
117
|
},
|
|
74
118
|
{
|
|
75
119
|
label: 'Show translation',
|
|
76
120
|
type: 'checkbox',
|
|
77
121
|
checked: self.showTranslation,
|
|
78
|
-
onClick: () =>
|
|
79
|
-
self.toggleShowTranslation();
|
|
80
|
-
},
|
|
122
|
+
onClick: () => self.toggleShowTranslation(),
|
|
81
123
|
},
|
|
82
124
|
];
|
|
83
125
|
},
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/LinearReferenceSequenceDisplay/model.ts"],"names":[],"mappings":";;;AAAA,
|
|
1
|
+
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/LinearReferenceSequenceDisplay/model.ts"],"names":[],"mappings":";;;AAAA,qDAAoD;AACpD,kFAG2C;AAC3C,+DAGoC;AACpC,6CAAsD;AACtD,+BAA8B;AAE9B;;;GAGG;AACH,SAAgB,YAAY,CAAC,YAAwC;IACnE,OAAO,uBAAK;SACT,OAAO,CACN,gCAAgC,EAChC,6CAAiB,EACjB,uBAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,gCAAgC,CAAC;QACrD;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;QACnD;;WAEG;QACH,WAAW,EAAE,IAAI;QACjB;;WAEG;QACH,WAAW,EAAE,IAAI;QACjB;;WAEG;QACH,eAAe,EAAE,IAAI;KACtB,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC9C,OAAO;YACL;;eAEG;YACH,WAAW;gBACT,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,eAAe,EAAE,GAAG,IAAI,CAAA;gBAC1D,OAAO;oBACL,GAAG,gBAAgB,EAAE;oBACrB,aAAa,EAAE,IAAI,CAAC,aAAa;oBACjC,MAAM,EAAE,IAAI,CAAC,aAAa,CAAC,QAAQ;oBACnC,WAAW;oBACX,WAAW;oBACX,eAAe;iBAChB,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC;SACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,sBAAsB,EAAC,YAAY;YACjC,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAA0B,CAAA;YAC7D,OAAO,CAAA,IAAI,aAAJ,IAAI,uBAAJ,IAAI,CAAE,OAAO,KAAI,CAAC,CAAC,CAAC,CAAC,yBAAyB,CAAC,CAAC,CAAC,SAAS,CAAA;QACnE,CAAC;QACD;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAA;QACzC,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,iBAAiB;YACf,IAAI,CAAC,WAAW,GAAG,CAAC,IAAI,CAAC,WAAW,CAAA;QACtC,CAAC;QACD;;WAEG;QACH,iBAAiB;YACf,IAAI,CAAC,WAAW,GAAG,CAAC,IAAI,CAAC,WAAW,CAAA;QACtC,CAAC;QACD;;WAEG;QACH,qBAAqB;YACnB,IAAI,CAAC,eAAe,GAAG,CAAC,IAAI,CAAC,eAAe,CAAA;QAC9C,CAAC;QACD,WAAW;YACT,2CAA2C;YAC3C,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,MAAM,CAAC,GAAG,IAAI,CAAC,eAAe,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAA;gBACxC,MAAM,CAAC,GAAG,IAAI,CAAC,WAAW,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;gBACnC,MAAM,CAAC,GAAG,IAAI,CAAC,WAAW,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;gBACnC,IAAI,CAAC,SAAS,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;YAC3B,CAAC,CAAC,CACH,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,cAAc;YACZ,OAAO;gBACL;oBACE,KAAK,EAAE,cAAc;oBACrB,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,WAAW;oBACzB,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,iBAAiB,EAAE;iBACxC;gBACD;oBACE,KAAK,EAAE,cAAc;oBACrB,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,WAAW;oBACzB,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,iBAAiB,EAAE;iBACxC;gBACD;oBACE,KAAK,EAAE,kBAAkB;oBACzB,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,eAAe;oBAC7B,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,qBAAqB,EAAE;iBAC5C;aACF,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC;AAzHD,oCAyHC"}
|
|
@@ -4,6 +4,7 @@ const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
|
|
|
4
4
|
const rxjs_1 = require("@jbrowse/core/util/rxjs");
|
|
5
5
|
const util_1 = require("@jbrowse/core/util");
|
|
6
6
|
const operators_1 = require("rxjs/operators");
|
|
7
|
+
const rxjs_2 = require("rxjs");
|
|
7
8
|
class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
|
|
8
9
|
async configure() {
|
|
9
10
|
var _a;
|
|
@@ -34,7 +35,7 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
|
|
|
34
35
|
start: queryStart,
|
|
35
36
|
end: queryEnd,
|
|
36
37
|
}, opts);
|
|
37
|
-
const feats = await ret.pipe((0, operators_1.toArray)())
|
|
38
|
+
const feats = await (0, rxjs_2.firstValueFrom)(ret.pipe((0, operators_1.toArray)()));
|
|
38
39
|
const residues = ((_a = feats[0]) === null || _a === void 0 ? void 0 : _a.get('seq')) || '';
|
|
39
40
|
const search = this.getConf('search');
|
|
40
41
|
const searchForward = this.getConf('searchForward');
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"SequenceSearchAdapter.js","sourceRoot":"","sources":["../../src/SequenceSearchAdapter/SequenceSearchAdapter.ts"],"names":[],"mappings":";;AAAA,yEAGgD;AAChD,kDAA0D;AAC1D,6CAM2B;AAC3B,8CAAwC;
|
|
1
|
+
{"version":3,"file":"SequenceSearchAdapter.js","sourceRoot":"","sources":["../../src/SequenceSearchAdapter/SequenceSearchAdapter.ts"],"names":[],"mappings":";;AAAA,yEAGgD;AAChD,kDAA0D;AAC1D,6CAM2B;AAC3B,8CAAwC;AACxC,+BAAqC;AAErC,eAAqB,SAAQ,oCAAsB;IAC1C,KAAK,CAAC,SAAS;;QACpB,MAAM,OAAO,GAAG,MAAM,CAAA,MAAA,IAAI,CAAC,aAAa,qDAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAC,CAAA,CAAA;QAC3E,IAAI,CAAC,OAAO,EAAE;YACZ,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;SAC5C;QACD,OAAO,OAAO,CAAC,WAAqC,CAAA;IACtD,CAAC;IAEM,KAAK,CAAC,WAAW;QACtB,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,OAAO,CAAC,WAAW,EAAE,CAAA;IAC9B,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,IAAiB;QACjD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;;YAChD,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YAC9C,MAAM,EAAE,GAAG,IAAI,CAAA;YACf,IAAI,EAAE,KAAK,EAAE,UAAU,EAAE,GAAG,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;YAChD,UAAU,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,UAAU,GAAG,EAAE,CAAC,CAAA;YACzC,QAAQ,IAAI,EAAE,CAAA;YAEd,IAAI,QAAQ,GAAG,CAAC,IAAI,UAAU,GAAG,QAAQ,EAAE;gBACzC,QAAQ,CAAC,QAAQ,EAAE,CAAA;gBACnB,OAAM;aACP;YAED,MAAM,GAAG,GAAG,eAAe,CAAC,WAAW,CACrC;gBACE,GAAG,KAAK;gBACR,KAAK,EAAE,UAAU;gBACjB,GAAG,EAAE,QAAQ;aACd,EACD,IAAI,CACL,CAAA;YACD,MAAM,KAAK,GAAG,MAAM,IAAA,qBAAc,EAAC,GAAG,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,CAAA;YACvD,MAAM,QAAQ,GAAW,CAAA,MAAA,KAAK,CAAC,CAAC,CAAC,0CAAE,GAAG,CAAC,KAAK,CAAC,KAAI,EAAE,CAAA;YACnD,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;YACrC,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAC,CAAA;YACnD,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAC,CAAA;YACnD,MAAM,eAAe,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;YACvD,MAAM,EAAE,GAAG,IAAI,MAAM,CAAC,MAAM,EAAE,GAAG,GAAG,CAAC,eAAe,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;YAEjE,IAAI,MAAM,EAAE;gBACV,IAAI,aAAa,EAAE;oBACjB,MAAM,OAAO,GAAG,QAAQ,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAA;oBACrC,KAAK,MAAM,KAAK,IAAI,OAAO,EAAE;wBAC3B,MAAM,CAAC,GAAG,UAAU,GAAG,CAAC,KAAK,CAAC,KAAK,IAAI,CAAC,CAAC,CAAA;wBAEzC,IAAI,IAAA,qBAAc,EAAC,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,KAAK,CAAC,KAAK,EAAE,KAAK,CAAC,GAAG,CAAC,EAAE;4BAChE,QAAQ,CAAC,IAAI,CACX,IAAI,oBAAa,CAAC;gCAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,UAAU,CAAC,IAAI;gCACnC,OAAO,EAAE,KAAK,CAAC,OAAO;gCACtB,KAAK,EAAE,CAAC;gCACR,GAAG,EAAE,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM;gCACxB,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC;gCACd,MAAM,EAAE,CAAC;6BACV,CAAC,CACH,CAAA;yBACF;qBACF;iBACF;gBACD,IAAI,aAAa,EAAE;oBACjB,MAAM,OAAO,GAAG,IAAA,aAAM,EAAC,QAAQ,CAAC,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAA;oBAC7C,KAAK,MAAM,KAAK,IAAI,OAAO,EAAE;wBAC3B,MAAM,CAAC,GAAG,QAAQ,GAAG,CAAC,KAAK,CAAC,KAAK,IAAI,CAAC,CAAC,CAAA;wBACvC,IAAI,IAAA,qBAAc,EAAC,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,KAAK,CAAC,KAAK,EAAE,KAAK,CAAC,GAAG,CAAC,EAAE;4BAChE,QAAQ,CAAC,IAAI,CACX,IAAI,oBAAa,CAAC;gCAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,UAAU,CAAC,IAAI;gCACnC,OAAO,EAAE,KAAK,CAAC,OAAO;gCACtB,KAAK,EAAE,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM;gCAC1B,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC;gCACd,GAAG,EAAE,CAAC;gCACN,MAAM,EAAE,CAAC,CAAC;6BACX,CAAC,CACH,CAAA;yBACF;qBACF;iBACF;aACF;YAED,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,CAAC,CAAA;IACJ,CAAC;IAEM,aAAa,KAAI,CAAC;CAC1B;AAxFD,4BAwFC"}
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@@ -1,8 +1,8 @@
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1
1
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/// <reference types="react" />
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2
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-
import { AnyConfigurationModel } from '@jbrowse/core/configuration
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3
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-
import { Feature } from '@jbrowse/core/util
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2
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+
import { AnyConfigurationModel } from '@jbrowse/core/configuration';
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3
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+
import { Feature } from '@jbrowse/core/util';
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4
4
|
import { Region } from '@jbrowse/core/util/types';
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5
|
-
|
|
5
|
+
declare function Sequence(props: {
|
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6
6
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exportSVG?: {
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7
7
|
rasterizeLayers: boolean;
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8
8
|
};
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@@ -10,12 +10,10 @@ interface MyProps {
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10
10
|
regions: Region[];
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11
11
|
bpPerPx: number;
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12
12
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config: AnyConfigurationModel;
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13
|
-
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14
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-
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15
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-
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16
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-
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17
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-
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18
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-
}
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19
|
-
declare function Sequence(props: MyProps): JSX.Element;
|
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13
|
+
theme?: any;
|
|
14
|
+
showForward?: boolean;
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15
|
+
showReverse?: boolean;
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16
|
+
showTranslation?: boolean;
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17
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+
}): JSX.Element;
|
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20
18
|
declare const _default: typeof Sequence;
|
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21
19
|
export default _default;
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@@ -56,7 +56,7 @@ function DNA(props) {
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56
56
|
render ? (React.createElement("text", { x: x + w / 2, y: y + height / 2, dominantBaseline: "middle", textAnchor: "middle", fill: color ? contrastingTextColor(color.main) : 'black' }, letter)) : null));
|
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57
57
|
})));
|
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58
58
|
}
|
|
59
|
-
const SequenceSVG = ({ regions, theme: configTheme, features = new Map(), showReverse, showForward, showTranslation, bpPerPx, }) => {
|
|
59
|
+
const SequenceSVG = ({ regions, theme: configTheme, features = new Map(), showReverse = true, showForward = true, showTranslation = true, bpPerPx, }) => {
|
|
60
60
|
const [region] = regions;
|
|
61
61
|
const theme = createJBrowseTheme(configTheme);
|
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62
62
|
const codonTable = generateCodonTable(defaultCodonTable);
|
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@@ -1 +1 @@
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1
|
-
{"version":3,"file":"DivSequenceRendering.js","sourceRoot":"","sources":["../../../src/DivSequenceRenderer/components/DivSequenceRendering.tsx"],"names":[],"mappings":"AAAA,uDAAuD;AACvD,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,oBAAoB,EAAE,MAAM,0BAA0B,CAAA;AAG/D,OAAO,EAAE,kBAAkB,EAAE,MAAM,kBAAkB,CAAA;AACrD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EACL,QAAQ,EACR,MAAM,EACN,UAAU,EACV,aAAa,EACb,YAAY,EACZ,iBAAiB,EACjB,kBAAkB,GACnB,MAAM,oBAAoB,CAAA;
|
|
1
|
+
{"version":3,"file":"DivSequenceRendering.js","sourceRoot":"","sources":["../../../src/DivSequenceRenderer/components/DivSequenceRendering.tsx"],"names":[],"mappings":"AAAA,uDAAuD;AACvD,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,oBAAoB,EAAE,MAAM,0BAA0B,CAAA;AAG/D,OAAO,EAAE,kBAAkB,EAAE,MAAM,kBAAkB,CAAA;AACrD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EACL,QAAQ,EACR,MAAM,EACN,UAAU,EACV,aAAa,EACb,YAAY,EACZ,iBAAiB,EACjB,kBAAkB,GACnB,MAAM,oBAAoB,CAAA;AAE3B,SAAS,WAAW,CAAC,KAUpB;IACC,MAAM,EACJ,UAAU,EACV,GAAG,EACH,KAAK,EACL,OAAO,EACP,MAAM,EACN,MAAM,EACN,CAAC,EACD,OAAO,GAAG,KAAK,EACf,KAAK,GACN,GAAG,KAAK,CAAA;IACT,MAAM,KAAK,GAAG,OAAO,CAAA;IAErB,wEAAwE;IACxE,4CAA4C;IAC5C,MAAM,IAAI,GAAG,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,GAAG,CAAC,CAAC,CAAA;IAEnC,qEAAqE;IACrE,2EAA2E;IAC3E,4CAA4C;IAC5C,MAAM,cAAc,GAAG,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;IAE7C,MAAM,SAAS,GAAG,GAAG,CAAC,KAAK,CAAC,cAAc,CAAC,CAAA;IAE3C,MAAM,UAAU,GAAwC,EAAE,CAAA;IAC1D,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QAC5C,MAAM,KAAK,GAAG,SAAS,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAA;QACvC,MAAM,eAAe,GAAG,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAA;QACvD,MAAM,SAAS,GAAG,UAAU,CAAC,eAAe,CAAC,IAAI,EAAE,CAAA;QACnD,UAAU,CAAC,IAAI,CAAC,EAAE,MAAM,EAAE,SAAS,EAAE,KAAK,EAAE,eAAe,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;KAC7E;IAED,MAAM,CAAC,GAAG,CAAC,CAAC,GAAG,KAAK,CAAC,GAAG,CAAC,CAAA;IACzB,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;IACvC,MAAM,MAAM,GAAG,CAAC,GAAG,OAAO,IAAI,EAAE,CAAA;IAChC,MAAM,KAAK,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;IAEnD,MAAM,GAAG,GAAG,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC,CAAC,OAAO,EAAE,CAAA;IACvD,OAAO,CACL,0CACG,UAAU,CAAC,GAAG,CAAC,CAAC,OAAO,EAAE,KAAK,EAAE,EAAE;QACjC,MAAM,CAAC,GAAG,MAAM,CAAC,QAAQ;YACvB,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,cAAc,GAAG,KAAK,GAAG,IAAI,CAAC;YAC3D,CAAC,CAAC,CAAC,GAAG,KAAK,GAAG,cAAc,GAAG,KAAK,GAAG,IAAI,CAAA;QAC7C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,OAAO,CAAA;QACjC,OAAO,CACL,oBAAC,KAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,GAAG,KAAK,IAAI,MAAM,EAAE;YACvC,8BACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EACH,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,GAAG,CAAC,uCAAuC,EAE9D,MAAM,EAAE,MAAM,EACd,MAAM,EAAE,MAAM,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,EAChC,IAAI,EACF,aAAa,CAAC,QAAQ,CAAC,KAAK,CAAC;oBAC3B,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,UAAU;oBAC1B,CAAC,CAAC,YAAY,CAAC,QAAQ,CAAC,KAAK,CAAC;wBAC9B,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,SAAS;wBACzB,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,GAE1B;YACD,MAAM,CAAC,CAAC,CAAC,CACR,8BACE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC,EACZ,CAAC,EAAE,CAAC,GAAG,MAAM,GAAG,CAAC,EACjB,gBAAgB,EAAC,QAAQ,EACzB,UAAU,EAAC,QAAQ,IAElB,MAAM,CACF,CACR,CAAC,CAAC,CAAC,IAAI,CACO,CAClB,CAAA;IACH,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC;AAED,SAAS,GAAG,CAAC,KAQZ;IACC,MAAM,EAAE,OAAO,EAAE,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,KAAK,CAAA;IACjE,MAAM,MAAM,GAAG,CAAC,GAAG,OAAO,IAAI,EAAE,CAAA;IAEhC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,GAAG,QAAQ,CAChC,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,EACpB,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EAClB,MAAM,EACN,OAAO,CACR,CAAA;IACD,MAAM,OAAO,GAAG,MAAM,CAAC,QAAQ,CAAA;IAC/B,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;IACrD,MAAM,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,OAAO,GAAG,MAAM,CAAC,GAAG,GAAG,EAAE,GAAG,CAAC,CAAA;IAEjD,OAAO,CACL,0CACG,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;QACnC,MAAM,KAAK,GAAG,KAAK,CAAC,OAAO,CAAC,KAAK,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;QACvD,MAAM,CAAC,GAAG,OAAO,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;QAClE,OAAO,CACL,oBAAC,KAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,KAAK;YACxB,8BACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,CAAC,EACR,MAAM,EAAE,MAAM,EACd,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,MAAM,EACjC,MAAM,EAAE,MAAM,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,GAChC;YACD,MAAM,CAAC,CAAC,CAAC,CACR,8BACE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC,EACZ,CAAC,EAAE,CAAC,GAAG,MAAM,GAAG,CAAC,EACjB,gBAAgB,EAAC,QAAQ,EACzB,UAAU,EAAC,QAAQ,EACnB,IAAI,EAAE,KAAK,CAAC,CAAC,CAAC,oBAAoB,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,OAAO,IAEvD,MAAM,CACF,CACR,CAAC,CAAC,CAAC,IAAI,CACO,CAClB,CAAA;IACH,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC;AAED,MAAM,WAAW,GAAG,CAAC,EACnB,OAAO,EACP,KAAK,EAAE,WAAW,EAClB,QAAQ,GAAG,IAAI,GAAG,EAAE,EACpB,WAAW,GAAG,IAAI,EAClB,WAAW,GAAG,IAAI,EAClB,eAAe,GAAG,IAAI,EACtB,OAAO,GACH,EAAE,EAAE;IACR,MAAM,CAAC,MAAM,CAAC,GAAG,OAAO,CAAA;IACxB,MAAM,KAAK,GAAG,kBAAkB,CAAC,WAAW,CAAC,CAAA;IAC7C,MAAM,UAAU,GAAG,kBAAkB,CAAC,iBAAiB,CAAC,CAAA;IACxD,MAAM,MAAM,GAAG,EAAE,CAAA;IACjB,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,CAAA;IACxC,IAAI,CAAC,OAAO,EAAE;QACZ,OAAO,IAAI,CAAA;KACZ;IACD,MAAM,GAAG,GAAW,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;IACtC,IAAI,CAAC,GAAG,EAAE;QACR,OAAO,IAAI,CAAA;KACZ;IAED,wEAAwE;IACxE,kDAAkD;IAClD,IAAI,KAAK,GAAG,CAAC,EAAE,CAAA;IAEf,OAAO,CACL;QAGG,eAAe,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,WAAW,CAAC,C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/// <reference types="react" />
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import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
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3
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/**
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* #stateModel LinearReferenceSequenceDisplay
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* base model `BaseLinearDisplay`
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*/
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export declare function modelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
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id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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type: import("mobx-state-tree").ISimpleType<string>;
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} & {
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type: import("mobx-state-tree").ISimpleType<"LinearReferenceSequenceDisplay">;
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configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
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showForward: import("mobx-state-tree").
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showReverse: import("mobx-state-tree").
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showTranslation: import("mobx-state-tree").
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height: import("mobx-state-tree").IType<number | undefined, number, number>;
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showForward: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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showReverse: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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showTranslation: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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}, {
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rendererTypeName: string;
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error: unknown;
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@@ -68,10 +71,15 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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readonly RenderingComponent: import("react").FC<{
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model: {
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id: string;
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/**
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* #property
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*/
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type: string;
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rpcDriverName: string | undefined;
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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rendererTypeName: string;
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rendererTypeName: string; /**
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* #property
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82
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*/
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error: unknown;
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} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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@@ -91,14 +99,18 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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rpcDriverName: string | undefined;
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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rendererTypeName: string;
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error: unknown;
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error: unknown; /**
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* #action
|
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+
*/
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95
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|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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96
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|
id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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type: import("mobx-state-tree").ISimpleType<string>;
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|
rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
|
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|
}, {
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rendererTypeName: string;
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-
error: unknown;
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+
error: unknown; /**
|
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+
* #method
|
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113
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+
*/
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|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
|
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103
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|
}> | null;
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|
readonly adapterConfig: any;
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@@ -186,14 +198,37 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
|
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overrideHeight: number;
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}): Promise<JSX.Element>;
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} & {
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/**
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* #method
|
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203
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+
*/
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|
renderProps(): any;
|
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+
} & {
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/**
|
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|
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* #method
|
|
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+
*/
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|
regionCannotBeRendered(): "Zoom in to see sequence" | undefined;
|
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|
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/**
|
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* #getter
|
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212
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+
*/
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|
readonly rendererTypeName: any;
|
|
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|
} & {
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/**
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* #action
|
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*/
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toggleShowForward(): void;
|
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/**
|
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|
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*/
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|
toggleShowReverse(): void;
|
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/**
|
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* #action
|
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225
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+
*/
|
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|
toggleShowTranslation(): void;
|
|
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|
+
afterAttach(): void;
|
|
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|
} & {
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|
+
/**
|
|
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+
* #method
|
|
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|
+
*/
|
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|
trackMenuItems(): {
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|
label: string;
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|
type: string;
|