@jbrowse/plugin-alignments 2.0.1 → 2.1.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/BamAdapter/BamAdapter.d.ts +6 -1
- package/dist/BamAdapter/BamAdapter.js.map +1 -1
- package/dist/LinearPileupDisplay/model.d.ts +2 -2
- package/dist/LinearPileupDisplay/model.js +0 -1
- package/dist/LinearPileupDisplay/model.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.d.ts +4 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js +0 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/models/model.d.ts +28 -6
- package/dist/LinearSNPCoverageDisplay/models/model.js +1 -0
- package/dist/LinearSNPCoverageDisplay/models/model.js.map +1 -1
- package/dist/PileupRenderer/PileupRenderer.d.ts +0 -4
- package/dist/PileupRenderer/PileupRenderer.js.map +1 -1
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js +4 -3
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js.map +1 -1
- package/dist/SNPCoverageRenderer/SNPCoverageRenderer.d.ts +1 -1
- package/dist/SNPCoverageRenderer/SNPCoverageRenderer.js.map +1 -1
- package/esm/BamAdapter/BamAdapter.d.ts +6 -1
- package/esm/BamAdapter/BamAdapter.js.map +1 -1
- package/esm/LinearPileupDisplay/model.d.ts +2 -2
- package/esm/LinearPileupDisplay/model.js +0 -1
- package/esm/LinearPileupDisplay/model.js.map +1 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.d.ts +4 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.js +0 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.js.map +1 -1
- package/esm/LinearSNPCoverageDisplay/models/model.d.ts +28 -6
- package/esm/LinearSNPCoverageDisplay/models/model.js +1 -0
- package/esm/LinearSNPCoverageDisplay/models/model.js.map +1 -1
- package/esm/PileupRenderer/PileupRenderer.d.ts +0 -4
- package/esm/PileupRenderer/PileupRenderer.js +1 -1
- package/esm/PileupRenderer/PileupRenderer.js.map +1 -1
- package/esm/SNPCoverageAdapter/SNPCoverageAdapter.js +4 -3
- package/esm/SNPCoverageAdapter/SNPCoverageAdapter.js.map +1 -1
- package/esm/SNPCoverageRenderer/SNPCoverageRenderer.d.ts +1 -1
- package/esm/SNPCoverageRenderer/SNPCoverageRenderer.js.map +1 -1
- package/package.json +3 -3
- package/src/BamAdapter/BamAdapter.ts +1 -1
- package/src/LinearPileupDisplay/model.ts +2 -2
- package/src/LinearSNPCoverageDisplay/components/Tooltip.tsx +3 -4
- package/src/LinearSNPCoverageDisplay/models/model.ts +3 -1
- package/src/PileupRenderer/PileupRenderer.tsx +13 -17
- package/src/SNPCoverageAdapter/SNPCoverageAdapter.ts +4 -3
- package/src/SNPCoverageRenderer/SNPCoverageRenderer.ts +1 -2
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-
{"version":3,"file":"SNPCoverageRenderer.js","sourceRoot":"","sources":["../../src/SNPCoverageRenderer/SNPCoverageRenderer.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,uCAAqD;AACrD,
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{"version":3,"file":"SNPCoverageRenderer.js","sourceRoot":"","sources":["../../src/SNPCoverageRenderer/SNPCoverageRenderer.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,uCAAqD;AACrD,2CAAqE;AACrE,6DAA4D;AAE5D,wDAM+B;AA2B/B;IAAiD,uCAAkB;IAAnE;;IAwOA,CAAC;IAvOC,4EAA4E;IAC5E,kDAAkD;IAC5C,kCAAI,GAAV,UACE,GAA6B,EAC7B,KAAyC;;;;gBAGvC,QAAQ,GAUN,KAAK,SAVC,EACR,OAAO,GASL,KAAK,QATA,EACP,OAAO,GAQL,KAAK,QARA,EACP,mBAAmB,GAOjB,KAAK,oBAPY,EACnB,KAME,KAAK,mBANgB,EAAvB,kBAAkB,mBAAG,EAAE,KAAA,EACvB,SAAS,GAKP,KAAK,UALE,EACD,gBAAgB,GAItB,KAAK,OAJiB,EACjB,WAAW,GAGhB,KAAK,MAHW,EACV,GAAG,GAET,KAAK,OAFI,EACX,KAAK,GACH,KAAK,MADF,CACE;gBACH,KAAK,GAAG,IAAA,uBAAkB,EAAC,WAAW,CAAC,CAAA;gBACvC,KAAA,OAAW,OAAO,IAAA,EAAjB,MAAM,QAAA,CAAW;gBAClB,KAAK,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;gBAK7C,MAAM,GAAG,sCAAsB,CAAA;gBAC/B,MAAM,GAAG,gBAAgB,GAAG,MAAM,GAAG,CAAC,CAAA;gBAEpC,MAAM,GAAK,SAAS,OAAd,CAAc;gBAC5B,IAAI,CAAC,MAAM,EAAE;oBACX,sBAAM;iBACP;gBACK,IAAI,yBAAQ,SAAS,KAAE,KAAK,EAAE,CAAC,CAAC,EAAE,MAAM,CAAC,GAAE,CAAA;gBAC3C,SAAS,GAAG,IAAA,wBAAQ,EAAC,IAAI,CAAC,CAAA;gBAG1B,kBAAkB,GAAG,IAAA,wBAAQ,wBAC9B,IAAI,KACP,KAAK,EAAE,CAAC,CAAC,EAAE,MAAM,GAAG,CAAC,CAAC,EACtB,SAAS,EAAE,QAAQ,IACnB,CAAA;gBACI,OAAO,GAAG,IAAA,yBAAS,EAAC,SAAS,CAAC,SAAS,CAAC,CAAA;gBAExC,kBAAkB,GAAG,IAAA,8BAAc,EAAC,GAAG,EAAE,oBAAoB,CAAC,CAAA;gBAC9D,mBAAmB,GAAG,IAAA,8BAAc,EAAC,GAAG,EAAE,qBAAqB,CAAC,CAAA;gBAChE,QAAQ,GAAG,IAAA,8BAAc,EAAC,GAAG,EAAE,UAAU,CAAC,CAAA;gBAC1C,cAAc,GAAG,IAAA,8BAAc,EAAC,GAAG,EAAE,gBAAgB,CAAC,CAAA;gBAGtD,GAAG,GAAG,UAAC,CAAS,IAAK,OAAA,MAAM,GAAG,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,MAAM,EAArC,CAAqC,CAAA;gBAC1D,QAAQ,GAAG,UAAC,CAAS,IAAK,OAAA,GAAG,CAAC,OAAO,CAAC,GAAG,GAAG,CAAC,CAAC,CAAC,EAArB,CAAqB,CAAA;gBAE/C,YAAY,GAAG,UAAC,CAAS;oBAC7B,OAAA,MAAM,GAAG,CAAC,kBAAkB,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,MAAM;gBAA9C,CAA8C,CAAA;gBAC1C,iBAAiB,GAAG,UAAC,CAAS;oBAClC,OAAA,YAAY,CAAC,IAAA,yBAAS,EAAC,QAAQ,CAAC,CAAC,GAAG,YAAY,CAAC,CAAC,CAAC;gBAAnD,CAAmD,CAAA;gBAG7C,KAAK,GAAK,KAAK,CAAC,OAAO,MAAlB,CAAkB;gBACzB,YAAY,GAA8B;oBAC9C,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;oBACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;oBACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;oBACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;oBACf,KAAK,EAAE,WAAW;oBAClB,SAAS,EAAE,QAAQ;oBACnB,QAAQ,EAAE,MAAM;oBAChB,QAAQ,EAAE,KAAK;oBACf,IAAI,EAAE,KAAK;oBACX,MAAM,EAAE,MAAM;oBACd,GAAG,EAAE,WAAW;iBACjB,CAAA;gBAEK,KAAK,4BAAO,QAAQ,CAAC,MAAM,EAAE,SAAC,CAAA;gBAC9B,QAAQ,GAAG,KAAK,CAAC,MAAM,CAAC,UAAA,CAAC,IAAI,OAAA,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,MAAM,EAAxB,CAAwB,CAAC,CAAA;gBACtD,KAAK,GAAG,KAAK,CAAC,MAAM,CAAC,UAAA,CAAC,IAAI,OAAA,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,MAAM,EAAxB,CAAwB,CAAC,CAAA;gBAEzD,wEAAwE;gBACxE,+CAA+C;gBAC/C,GAAG,CAAC,SAAS,GAAG,YAAY,CAAC,KAAK,CAAA;gBAClC,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;oBAClC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;oBACrB,KAAA,OAAoB,IAAA,oBAAa,EAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,IAAA,EAA1D,MAAM,QAAA,EAAE,OAAO,QAAA,CAA2C;oBAC3D,CAAC,GAAG,OAAO,GAAG,MAAM,GAAG,GAAG,CAAA;oBAC1B,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAW,CAAA;oBAC5C,GAAG,CAAC,QAAQ,CAAC,MAAM,EAAE,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,EAAE,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAA;iBACrD;gBAOG,SAAS,GAAG,CAAC,CAAA;gBAIX,8BAA8B,GAAG,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,GAAG,OAAO,CAAC,CAAC,CAAC,CAAC,CAAA;gBAExE,yEAAyE;gBACzE,yEAAyE;gBACzE,oCAAoC;gBAEpC,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;oBAClC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;oBACrB,KAAA,OAAoB,IAAA,oBAAa,EAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,IAAA,EAA1D,MAAM,QAAA,EAAE,OAAO,QAAA,CAA2C;oBAE3D,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAW,CAAA;oBACtC,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,SAAS,CAAY,CAAA;oBAC3C,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,GAAG,MAAM,GAAG,GAAG,EAAE,CAAC,CAAC,CAAA;oBACvC,UAAU,GAAG,OAAO,CAAC,KAAK,CAAA;oBAC1B,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,IAAI,EAAE,CAAA;oBAExC,IAAI,GAAG,CAAC,CAAA;oBACZ,KAAS,MAAI,CAAC,EAAE,GAAC,GAAG,IAAI,CAAC,MAAM,EAAE,GAAC,EAAE,EAAE;wBAC9B,IAAI,GAAG,IAAI,CAAC,GAAC,CAAC,CAAA;wBACZ,KAAK,GAAK,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,MAAtB,CAAsB;wBACnC,GAAG,CAAC,SAAS;4BACX,YAAY,CAAC,IAAI,CAAC;gCAClB,kBAAkB,CAAC,IAAI,CAAC,OAAO,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;gCAC5C,MAAM,CAAA;wBAEF,WAAS,QAAQ,CAAC,KAAK,CAAC,CAAA;wBACxB,MAAM,GAAG,GAAG,CAAC,KAAK,CAAC,GAAG,QAAM,CAAA;wBAClC,GAAG,CAAC,QAAQ,CACV,MAAM,EACN,MAAM,GAAG,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,GAAG,KAAK,CAAC,GAAG,QAAM,EAC1C,CAAC,EACD,CAAC,KAAK,GAAG,KAAK,CAAC,GAAG,QAAM,CACzB,CAAA;wBACD,IAAI,IAAI,KAAK,CAAA;qBACd;oBAEK,eAAe,GAAG,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,MAAM,CAAC,CAAA;oBAC7C,eAAe,GAAG,GAAG,CAAA;oBAC3B,IAAI,mBAAmB,EAAE;wBACnB,SAAO,CAAC,CAAA;wBACZ,KAAS,MAAI,CAAC,EAAE,GAAC,GAAG,eAAe,CAAC,MAAM,EAAE,GAAC,EAAE,EAAE;4BACzC,IAAI,GAAG,eAAe,CAAC,GAAC,CAAC,CAAA;4BACvB,KAAK,GAAK,OAAO,CAAC,MAAM,CAAC,IAAI,CAAC,MAAzB,CAAyB;4BACtC,GAAG,CAAC,SAAS,GAAG,YAAY,CAAC,IAAI,CAAC,CAAA;4BAClC,GAAG,CAAC,QAAQ,CACV,MAAM,GAAG,GAAG,GAAG,8BAA8B,EAC7C,eAAe,GAAG,iBAAiB,CAAC,MAAI,CAAC,EACzC,GAAG,EACH,iBAAiB,CAAC,KAAK,CAAC,CACzB,CAAA;4BACD,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import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
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import { Region } from '@jbrowse/core/util/types';
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interface Header {
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}
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export default class BamAdapter extends BaseFeatureDataAdapter {
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private samHeader?;
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private setupP?;
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}>;
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setup(opts?: BaseOptions): Promise<Header>;
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private seqFetch;
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getFeatures(region: Region & {
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export {};
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-
{"version":3,"file":"BamAdapter.js","sourceRoot":"","sources":["../../src/BamAdapter/BamAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAA;AACnC,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAEhD,OAAO,EAAE,eAAe,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAA;AAClE,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,OAAO,EAAE,MAAM,gBAAgB,CAAA;AACxC,OAAO,EAAE,cAAc,EAAE,MAAM,6BAA6B,CAAA;AAC5D,OAAO,sBAAsB,MAAM,0BAA0B,CAAA;AAO7D,MAAM,CAAC,OAAO,OAAO,UAAW,SAAQ,sBAAsB;IAU5D,iEAAiE;IACjE,oEAAoE;IAC1D,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,MAAM,WAAW,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,aAAa,CAAC,CAAA;YAC9D,MAAM,QAAQ,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;YACnE,MAAM,SAAS,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;YACrE,MAAM,GAAG,GAAG,IAAI,OAAO,CAAC;gBACtB,aAAa,EAAE,YAAY,CAAC,WAAW,EAAE,IAAI,CAAC,aAAa,CAAC;gBAC5D,aAAa,EACX,SAAS,KAAK,KAAK;oBACjB,CAAC,CAAC,YAAY,CAAC,QAAQ,EAAE,IAAI,CAAC,aAAa,CAAC;oBAC5C,CAAC,CAAC,SAAS;gBACf,aAAa,EACX,SAAS,KAAK,KAAK;oBACjB,CAAC,CAAC,YAAY,CAAC,QAAQ,EAAE,IAAI,CAAC,aAAa,CAAC;oBAC5C,CAAC,CAAC,SAAS;gBAEf,8DAA8D;gBAC9D,gEAAgE;gBAChE,mEAAmE;gBACnE,cAAc,EAAE,QAAQ;gBACxB,cAAc,EAAE,QAAQ;gBACxB,eAAe,EAAE,QAAQ;aAC1B,CAAC,CAAA;YAEF,MAAM,aAAa,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,iBAAiB,CAAC,CAAA;YACpE,IAAI,aAAa,IAAI,IAAI,CAAC,aAAa,EAAE;gBACvC,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,aAAa,CAAC,aAAa,CAAC,CAAC,IAAI,CACtD,CAAC,EAAE,WAAW,EAAE,EAAE,EAAE,CAAC,CAAC;oBACpB,GAAG;oBACH,eAAe,EAAE,WAAqC;iBACvD,CAAC,CACH,CAAA;aACF;iBAAM;gBACL,IAAI,CAAC,UAAU,GAAG,OAAO,CAAC,OAAO,CAAC,EAAE,GAAG,EAAE,CAAC,CAAA;aAC3C;SACF;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,aAAa,CAAC,IAAI,CAAC,CAAA;IAChC,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,IAAI,CAAC,SAAS,GAAG,MAAM,YAAY,CACjC,mBAAmB,EACnB,cAAc,EACd,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,MAAM,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAE3C,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,QAAQ,GAAa,EAAE,CAAA;YAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;YAC3C,SAAS;iBACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;iBAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;gBACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;oBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;wBACrB,uBAAuB;wBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;wBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;wBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;qBAC1B;gBACH,CAAC,CAAC,CAAA;YACJ,CAAC,CAAC,CAAA;YAEJ,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,CAAA;QAC/B,CAAC,CACF,CAAA;QACD,OAAO,IAAI,CAAC,SAAS,CAAA;IACvB,CAAC;
|
|
1
|
+
{"version":3,"file":"BamAdapter.js","sourceRoot":"","sources":["../../src/BamAdapter/BamAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAA;AACnC,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAEhD,OAAO,EAAE,eAAe,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAA;AAClE,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,OAAO,EAAE,MAAM,gBAAgB,CAAA;AACxC,OAAO,EAAE,cAAc,EAAE,MAAM,6BAA6B,CAAA;AAC5D,OAAO,sBAAsB,MAAM,0BAA0B,CAAA;AAO7D,MAAM,CAAC,OAAO,OAAO,UAAW,SAAQ,sBAAsB;IAU5D,iEAAiE;IACjE,oEAAoE;IAC1D,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,MAAM,WAAW,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,aAAa,CAAC,CAAA;YAC9D,MAAM,QAAQ,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;YACnE,MAAM,SAAS,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;YACrE,MAAM,GAAG,GAAG,IAAI,OAAO,CAAC;gBACtB,aAAa,EAAE,YAAY,CAAC,WAAW,EAAE,IAAI,CAAC,aAAa,CAAC;gBAC5D,aAAa,EACX,SAAS,KAAK,KAAK;oBACjB,CAAC,CAAC,YAAY,CAAC,QAAQ,EAAE,IAAI,CAAC,aAAa,CAAC;oBAC5C,CAAC,CAAC,SAAS;gBACf,aAAa,EACX,SAAS,KAAK,KAAK;oBACjB,CAAC,CAAC,YAAY,CAAC,QAAQ,EAAE,IAAI,CAAC,aAAa,CAAC;oBAC5C,CAAC,CAAC,SAAS;gBAEf,8DAA8D;gBAC9D,gEAAgE;gBAChE,mEAAmE;gBACnE,cAAc,EAAE,QAAQ;gBACxB,cAAc,EAAE,QAAQ;gBACxB,eAAe,EAAE,QAAQ;aAC1B,CAAC,CAAA;YAEF,MAAM,aAAa,GAAG,cAAc,CAAC,IAAI,CAAC,MAAM,EAAE,iBAAiB,CAAC,CAAA;YACpE,IAAI,aAAa,IAAI,IAAI,CAAC,aAAa,EAAE;gBACvC,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,aAAa,CAAC,aAAa,CAAC,CAAC,IAAI,CACtD,CAAC,EAAE,WAAW,EAAE,EAAE,EAAE,CAAC,CAAC;oBACpB,GAAG;oBACH,eAAe,EAAE,WAAqC;iBACvD,CAAC,CACH,CAAA;aACF;iBAAM;gBACL,IAAI,CAAC,UAAU,GAAG,OAAO,CAAC,OAAO,CAAC,EAAE,GAAG,EAAE,CAAC,CAAA;aAC3C;SACF;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,aAAa,CAAC,IAAI,CAAC,CAAA;IAChC,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,IAAI,CAAC,SAAS,GAAG,MAAM,YAAY,CACjC,mBAAmB,EACnB,cAAc,EACd,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,MAAM,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAE3C,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,QAAQ,GAAa,EAAE,CAAA;YAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;YAC3C,SAAS;iBACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;iBAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;gBACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;oBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;wBACrB,uBAAuB;wBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;wBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;wBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;qBAC1B;gBACH,CAAC,CAAC,CAAA;YACJ,CAAC,CAAC,CAAA;YAEJ,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,CAAA;QAC/B,CAAC,CACF,CAAA;QACD,OAAO,IAAI,CAAC,SAAS,CAAA;IACvB,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,IAAkB;QAC5B,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC1C,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IAED,KAAK,CAAC,WAAW,CAAC,IAAkB;QAClC,MAAM,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC3C,OAAO,QAAQ,CAAA;IACjB,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,OAAe,EAAE,KAAa,EAAE,GAAW;QAChE,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,WAAW,GAAG,eAAe,CAAA;QACnC,IAAI,CAAC,WAAW,EAAE;YAChB,OAAO,SAAS,CAAA;SACjB;QACD,IAAI,CAAC,OAAO,EAAE;YACZ,OAAO,SAAS,CAAA;SACjB;QAED,MAAM,QAAQ,GAAG,WAAW,CAAC,WAAW,CAAC;YACvC,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC,CAAA;QAEF,MAAM,SAAS,GAAG,MAAM,QAAQ,CAAC,IAAI,CAAC,OAAO,EAAE,CAAC,CAAC,SAAS,EAAE,CAAA;QAE5D,IAAI,QAAQ,GAAG,EAAE,CAAA;QACjB,SAAS;aACN,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC;aAC/C,OAAO,CAAC,KAAK,CAAC,EAAE;YACf,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;YACrC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACjC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,GAAG,UAAU,EAAE,CAAC,CAAC,CAAA;YACjD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,UAAU,EAAE,QAAQ,GAAG,UAAU,CAAC,CAAA;YACjE,MAAM,UAAU,GAAG,OAAO,GAAG,SAAS,CAAA;YACtC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,KAAK,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;YAC1D,QAAQ,IAAI,QAAQ,CAAC,MAAM,CAAC,SAAS,EAAE,UAAU,CAAC,CAAA;QACpD,CAAC,CAAC,CAAA;QAEJ,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,GAAG,KAAK,EAAE;YACnC,MAAM,IAAI,KAAK,CACb,mCAAmC,OAAO,IAAI,CAC5C,KAAK,GAAG,CAAC,CACV,CAAC,cAAc,EAAE,IAAI,GAAG,CAAC,cAAc,EAAE,aAAa,QAAQ,CAAC,MAAM,CAAC,cAAc,EAAE,oCAAoC,CACzH,GAAG,GAAG,KAAK,CACZ,CAAC,cAAc,EAAE,EAAE,CACrB,CAAA;SACF;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAOC;QAED,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QACvD,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,OAAO,gBAAgB,CAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YACtC,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YACtB,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,GAAG,CAAC,kBAAkB,CAAC,OAAO,EAAE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@@ -149,7 +149,7 @@ declare const stateModelFactory: (configSchema: LinearPileupDisplayConfigModel)
|
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149
149
|
estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
|
|
150
150
|
estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
|
|
151
151
|
} & {
|
|
152
|
-
readonly blockType: "
|
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152
|
+
readonly blockType: "staticBlocks" | "dynamicBlocks";
|
|
153
153
|
readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
|
|
154
154
|
} & {
|
|
155
155
|
readonly renderDelay: number;
|
|
@@ -320,9 +320,9 @@ declare const stateModelFactory: (configSchema: LinearPileupDisplayConfigModel)
|
|
|
320
320
|
subMenu?: undefined;
|
|
321
321
|
})[];
|
|
322
322
|
}, import("mobx-state-tree")._NotCustomized, {
|
|
323
|
-
type: string;
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|
324
323
|
height: number;
|
|
325
324
|
id: string;
|
|
325
|
+
type: string;
|
|
326
326
|
rpcDriverName: string | undefined;
|
|
327
327
|
userBpPerPxLimit: number | undefined;
|
|
328
328
|
userByteSizeLimit: number | undefined;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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1
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+
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AW,CAAC,YAAY,CAAC,EAAE,CAAC;oCAC3C,gBAAgB;oCAChB,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,YAAY,EAAE;iCAC3C,CAAC,CAAA;4BACJ,CAAC;yBACF;wBACD;4BACE,KAAK,EAAE,aAAa;4BACpB,OAAO,EAAE,GAAG,EAAE;gCACZ,IAAI,CAAC,cAAc,CAAC,EAAE,IAAI,EAAE,YAAY,EAAE,CAAC,CAAA;4BAC7C,CAAC;yBACF;wBACD;4BACE,KAAK,EAAE,qBAAqB;4BAC5B,OAAO,EAAE,GAAG,EAAE;gCACZ,IAAI,CAAC,cAAc,CAAC,EAAE,IAAI,EAAE,iBAAiB,EAAE,CAAC,CAAA;4BAClD,CAAC;yBACF;wBACD;4BACE,KAAK,EAAE,iBAAiB;4BACxB,OAAO,EAAE,GAAG,EAAE;gCACZ,UAAU,CAAC,IAAI,CAAC,CAAC,WAAW,CAAC,YAAY,CAAC,EAAE,CAAC;oCAC3C,aAAa;oCACb,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,YAAY,EAAE;iCAC3C,CAAC,CAAA;4BACJ,CAAC;yBACF;qBACF;iBACF;gBACD;oBACE,KAAK,EAAE,WAAW;oBAClB,IAAI,EAAE,cAAc;oBACpB,OAAO,EAAE,GAAG,EAAE;wBACZ,UAAU,CAAC,IAAI,CAAC,CAAC,WAAW,CAAC,YAAY,CAAC,EAAE,CAAC;4BAC3C,cAAc;4BACd,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,YAAY,EAAE;yBAC3C,CAAC,CAAA;oBACJ,CAAC;iBACF;gBACD;oBACE,KAAK,EAAE,oBAAoB;oBAC3B,OAAO,EAAE,GAAG,EAAE;wBACZ,UAAU,CAAC,IAAI,CAAC,CAAC,WAAW,CAAC,YAAY,CAAC,EAAE,CAAC;4BAC3C,mBAAmB;4BACnB,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,YAAY,EAAE;yBAC3C,CAAC,CAAA;oBACJ,CAAC;iBACF;gBACD;oBACE,KAAK,EAAE,gBAAgB;oBACvB,OAAO,EAAE,GAAG,EAAE;wBACZ,UAAU,CAAC,IAAI,CAAC,CAAC,WAAW,CAAC,YAAY,CAAC,EAAE,CAAC;4BAC3C,eAAe;4BACf,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,YAAY,EAAE;yBAC3C,CAAC,CAAA;oBACJ,CAAC;iBACF;gBACD;oBACE,KAAK,EAAE,4BAA4B;oBACnC,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,oBAAoB;oBAClC,OAAO,EAAE,GAAG,EAAE;wBACZ,IAAI,CAAC,mBAAmB,EAAE,CAAA;oBAC5B,CAAC;iBACF;aACF,CAAA;QACH,CAAC;KACF,CAAA;AACH,CAAC,CAAC,CAAA;AAKN,eAAe,iBAAiB,CAAA"}
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@@ -1,7 +1,10 @@
|
|
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1
1
|
/// <reference types="react" />
|
|
2
|
+
import { Feature } from '@jbrowse/core/util/simpleFeature';
|
|
2
3
|
declare type Coord = [number, number];
|
|
3
4
|
declare const SNPCoverageTooltip: (props: {
|
|
4
|
-
model:
|
|
5
|
+
model: {
|
|
6
|
+
featureUnderMouse: Feature;
|
|
7
|
+
};
|
|
5
8
|
height: number;
|
|
6
9
|
offsetMouseCoord: Coord;
|
|
7
10
|
clientMouseCoord: Coord;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"Tooltip.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/components/Tooltip.tsx"],"names":[],"mappings":"AAAA,
|
|
1
|
+
{"version":3,"file":"Tooltip.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/components/Tooltip.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AACzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAA;AAyBhD,MAAM,EAAE,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,CAAC,cAAc,CAAC,OAAO,CAAC,CAAA;AACnD,MAAM,GAAG,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAA;AACvC,MAAM,GAAG,GAAG,CAAC,CAAS,EAAE,KAAa,EAAE,EAAE,CAAC,GAAG,GAAG,CAAC,CAAC,CAAC,GAAG,CAAC,KAAK,IAAI,CAAC,CAAC,CAAC,GAAG,GAAG,CAAC,GAAG,CAAA;AAE7E,MAAM,eAAe,GAAG,KAAK,CAAC,UAAU,CACtC,CAAC,EAAE,OAAO,EAAE,EAAE,QAAQ,EAAE,EAAE;IACxB,MAAM,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;IAClC,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;IAC9B,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,SAAS,CAAC,CAAA;IACnC,MAAM,EACJ,OAAO,EACP,GAAG,EACH,KAAK,EACL,GAAG,EACH,IAAI,EAAE,GAAG,EACT,GAAG,EAAE,EAAE,EACP,GAAG,EAAE,EAAE,EACP,GAAG,IAAI,EACR,GAAG,OAAO,CAAC,GAAG,CAAC,SAAS,CAAY,CAAA;IACrC,MAAM,GAAG,GAAG,CAAC,IAAI,EAAE,KAAK,KAAK,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,KAAK,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC;SACvE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;SAChB,IAAI,CAAC,GAAG,CAAC,CAAA;IAEZ,OAAO,CACL,6BAAK,GAAG,EAAE,QAAQ;QAChB;YACE,qCAAU,GAAG,CAAW;YACxB;gBACE;oBACE,uCAAa;oBACb,wCAAc;oBACd,6CAAmB;oBACnB,0CAAgB;oBAChB,yCAAe,CACZ,CACC;YACR;gBACE;oBACE,wCAAc;oBACd,gCAAK,GAAG,CAAM,CACX;gBACL;oBACE;;wBAAS,OAAO,CAAC,CAAC,CAAC,IAAI,OAAO,CAAC,WAAW,EAAE,GAAG,CAAC,CAAC,CAAC,EAAE,CAAM;oBAC1D,gCAAK,GAAG,CAAM;oBACd,gCAAK,GAAG,CAAC,GAAG,EAAE,GAAG,CAAC,CAAM;oBACxB;wBACG,GAAG,CAAC,CAAC,CAAC,GAAG,GAAG,KAAK,CAAC,CAAC,CAAC,EAAE;wBACtB,EAAE,CAAC,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,CAAC,CAAC,EAAE,CAClB;oBACL,+BAAM,CACH;gBAEJ,MAAM,CAAC,OAAO,CAAC,IAAwC,CAAC,CAAC,GAAG,CAC3D,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,CACf,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC,CAC3C,4BAAI,GAAG,EAAE,IAAI;oBACX,gCAAK,IAAI,CAAC,WAAW,EAAE,CAAM;oBAC7B,gCAAK,KAAK,CAAC,KAAK,CAAM;oBACtB,gCACG,IAAI,KAAK,OAAO,IAAI,IAAI,KAAK,MAAM;wBAClC,CAAC,CAAC,KAAK;wBACP,CAAC,CAAC,GAAG,CAAC,KAAK,CAAC,KAAK,EAAE,GAAG,CAAC,CACtB;oBACL;wBACG,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,GAAG,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;wBACtC,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAClC;oBACL,gCAAK,GAAG,CAAM,CACX,CACN,CAAC,CACL,CACK,CACF,CACJ,CACP,CAAA;AACH,CAAC,CACF,CAAA;AAID,MAAM,kBAAkB,GAAG,QAAQ,CACjC,CAAC,KAMA,EAAE,EAAE;IACH,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IACvB,MAAM,EAAE,iBAAiB,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;IACzC,OAAO,IAAI,IAAI,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAClD,oBAAC,OAAO,IAAC,eAAe,EAAE,eAAe,KAAM,KAAK,GAAI,CACzD,CAAA;AACH,CAAC,CACF,CAAA;AAED,eAAe,kBAAkB,CAAA"}
|
|
@@ -61,6 +61,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
|
|
|
61
61
|
selectedRendering: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
62
62
|
resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
63
63
|
fill: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
|
|
64
|
+
minSize: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
|
|
64
65
|
color: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
|
|
65
66
|
posColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
|
|
66
67
|
negColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
|
|
@@ -152,7 +153,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
|
|
|
152
153
|
estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
|
|
153
154
|
estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
|
|
154
155
|
} & {
|
|
155
|
-
readonly blockType: "
|
|
156
|
+
readonly blockType: "staticBlocks" | "dynamicBlocks";
|
|
156
157
|
readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
|
|
157
158
|
} & {
|
|
158
159
|
readonly renderDelay: number;
|
|
@@ -224,7 +225,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
|
|
|
224
225
|
};
|
|
225
226
|
statsFetchInProgress: AbortController | undefined;
|
|
226
227
|
} & {
|
|
227
|
-
updateStats(
|
|
228
|
+
updateStats(stats: {
|
|
228
229
|
scoreMin: number;
|
|
229
230
|
scoreMax: number;
|
|
230
231
|
}): void;
|
|
@@ -234,7 +235,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
|
|
|
234
235
|
setLoading(aborter: AbortController): void;
|
|
235
236
|
selectFeature(feature: import("@jbrowse/core/util").Feature): void;
|
|
236
237
|
setResolution(res: number): void;
|
|
237
|
-
setFill(fill:
|
|
238
|
+
setFill(fill: number): void;
|
|
238
239
|
toggleLogScale(): void;
|
|
239
240
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trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
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|
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@@ -3,6 +3,7 @@ import { observable, autorun } from 'mobx';
|
|
|
3
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|
import { getConf, readConfObject, } from '@jbrowse/core/configuration';
|
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|
import { linearWiggleDisplayModelFactory } from '@jbrowse/plugin-wiggle';
|
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|
import { getContainingView } from '@jbrowse/core/util';
|
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|
+
// locals
|
|
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|
import Tooltip from '../components/Tooltip';
|
|
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|
import { getUniqueModificationValues } from '../../shared';
|
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|
// using a map because it preserves order
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/models/model.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,KAAK,EAAE,IAAI,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,iBAAiB,CAAA;AAC/E,OAAO,EAAE,UAAU,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC1C,OAAO,EACL,OAAO,EACP,cAAc,GAGf,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAAE,+BAA+B,EAAE,MAAM,wBAAwB,CAAA;
|
|
1
|
+
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/models/model.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,KAAK,EAAE,IAAI,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,iBAAiB,CAAA;AAC/E,OAAO,EAAE,UAAU,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC1C,OAAO,EACL,OAAO,EACP,cAAc,GAGf,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAAE,+BAA+B,EAAE,MAAM,wBAAwB,CAAA;AAIxE,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAEtD,SAAS;AACT,OAAO,OAAO,MAAM,uBAAuB,CAAA;AAC3C,OAAO,EAAE,2BAA2B,EAAE,MAAM,cAAc,CAAA;AAE1D,yCAAyC;AACzC,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,aAAa,EAAE,qBAAqB,CAAC,CAAC,CAAC,CAAA;AAIvE,MAAM,iBAAiB,GAAG,CACxB,aAA4B,EAC5B,YAAwC,EACxC,EAAE,CACF,KAAK;KACF,OAAO,CACN,0BAA0B,EAC1B,+BAA+B,CAAC,aAAa,EAAE,YAAY,CAAC,EAC5D,KAAK,CAAC,KAAK,CAAC;IACV,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,0BAA0B,CAAC;IAC/C,mBAAmB,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,OAAO,CAAC;IAC/C,cAAc,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,OAAO,CAAC;IAC1C,QAAQ,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,OAAO,CAAC;IACpC,QAAQ,EAAE,KAAK,CAAC,QAAQ,CACtB,KAAK,CAAC,KAAK,CAAC;QACV,WAAW,EAAE,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,CAAC,CAAC;QAC5C,WAAW,EAAE,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC;QAC/C,QAAQ,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;QACnC,SAAS,EAAE,KAAK,CAAC,KAAK,CACpB,KAAK,CAAC,KAAK,CAAC,EAAE,GAAG,EAAE,KAAK,CAAC,MAAM,EAAE,KAAK,EAAE,KAAK,CAAC,MAAM,EAAE,CAAC,CACxD;KACF,CAAC,EACF,EAAE,CACH;IACD,OAAO,EAAE,KAAK,CAAC,KAAK,CAClB,KAAK,CAAC,KAAK,CAAC;QACV,IAAI,EAAE,KAAK,CAAC,MAAM;QAClB,GAAG,EAAE,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;KAC/B,CAAC,CACH;CACF,CAAC,CACH;KACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;IACf,kBAAkB,EAAE,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;CACvC,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,SAAS,CAAC,aAAoC;QAC5C,IAAI,CAAC,aAAa,GAAG,aAAa,CAAA;IACpC,CAAC;IACD,WAAW,CAAC,MAKX;QACC,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC,MAAM,CAAC,CAAA;IAC9B,CAAC;IACD,UAAU,CAAC,OAAwC;QACjD,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,CAAA;IAC9B,CAAC;IAED,0BAA0B,CAAC,mBAA6B;QACtD,MAAM,YAAY,GAAG,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,EAAE,QAAQ,EAAE,QAAQ,CAAC,CAAA;QACjE,IAAI,CAAC,GAAG,CAAC,CAAA;QAET,mBAAmB,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE;YAClC,IAAI,CAAC,IAAI,CAAC,kBAAkB,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE;gBACvC,MAAM,QAAQ,GAAG,YAAY,CAAC,CAAC,EAAE,CAAC,CAAA;gBAClC,IAAI,CAAC,kBAAkB,CAAC,GAAG,CAAC,KAAK,EAAE,QAAQ,CAAC,CAAA;aAC7C;QACH,CAAC,CAAC,CAAA;IACJ,CAAC;CACF,CAAC,CAAC;KACF,KAAK,CAAC,IAAI,CAAC,EAAE;IACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;IAC9C,OAAO;QACL,IAAI,cAAc;;YAChB,MAAM,UAAU,GACd,OAAO,CAAC,IAAI,EAAE,CAAC,WAAW,EAAE,IAAI,CAAC,gBAAgB,CAAC,CAAC,IAAI,EAAE,CAAA;YAE3D,OAAO,IAAI,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,CAC1C;gBACE,GAAG,UAAU;gBACb,mBAAmB,EACjB,MAAA,IAAI,CAAC,mBAAmB,mCAAI,UAAU,CAAC,mBAAmB;gBAC5D,cAAc,EAAE,MAAA,IAAI,CAAC,cAAc,mCAAI,UAAU,CAAC,cAAc;gBAChE,QAAQ,EAAE,MAAA,IAAI,CAAC,QAAQ,mCAAI,UAAU,CAAC,QAAQ;aAC/C,EACD,MAAM,CAAC,IAAI,CAAC,CACb,CAAA;QACH,CAAC;QACD,IAAI,eAAe;;YACjB,OAAO,CACL,MAAA,IAAI,CAAC,QAAQ,mCAAI,cAAc,CAAC,IAAI,CAAC,cAAc,EAAE,UAAU,CAAC,CACjE,CAAA;QACH,CAAC;QACD,IAAI,0BAA0B;;YAC5B,OAAO,CACL,MAAA,IAAI,CAAC,mBAAmB,mCACxB,cAAc,CAAC,IAAI,CAAC,cAAc,EAAE,qBAAqB,CAAC,CAC3D,CAAA;QACH,CAAC;QACD,IAAI,qBAAqB;;YACvB,OAAO,CACL,MAAA,IAAI,CAAC,cAAc,mCACnB,cAAc,CAAC,IAAI,CAAC,cAAc,EAAE,gBAAgB,CAAC,CACtD,CAAA;QACH,CAAC;QAED,IAAI,kBAAkB;;YACpB,OAAO,CAAA,MAAA,IAAI,CAAC,OAAO,0CAAE,IAAI,MAAK,eAAe;gBAC3C,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,kBAAkB,CAAC,CAAC,CAAC;qBAC7D,MAAM,GAAG,CAAC;gBACf,CAAC,CAAC,IAAI,CAAA;QACV,CAAC;QAED,WAAW;YACT,MAAM,UAAU,GAAG,gBAAgB,EAAE,CAAA;YACrC,MAAM,EAAE,OAAO,EAAE,QAAQ,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;YACtD,OAAO;gBACL,GAAG,UAAU;gBACb,QAAQ,EAAE,UAAU,CAAC,QAAQ,IAAI,CAAC,IAAI,CAAC,kBAAkB;gBACzD,kBAAkB,EAAE,MAAM,CAAC,WAAW,CAAC,kBAAkB,CAAC,MAAM,EAAE,CAAC;gBAEnE,kEAAkE;gBAClE,4BAA4B;gBAC5B,OAAO,EAAE,OAAO,CAAC,CAAC,CAAC,WAAW,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,SAAS;gBACnD,QAAQ,EAAE,QAAQ,CAAC,CAAC,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,SAAS;aACvD,CAAA;QACH,CAAC;KACF,CAAA;AACH,CAAC,CAAC;KACD,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,oBAAoB;QAClB,IAAI,CAAC,cAAc,GAAG,CAAC,IAAI,CAAC,qBAAqB,CAAA;IACnD,CAAC;IACD,yBAAyB;QACvB,IAAI,CAAC,mBAAmB,GAAG,CAAC,IAAI,CAAC,0BAA0B,CAAA;IAC7D,CAAC;IACD,cAAc;QACZ,IAAI,CAAC,QAAQ,GAAG,CAAC,IAAI,CAAC,eAAe,CAAA;IACvC,CAAC;IACD,WAAW;QACT,WAAW,CACT,IAAI,EACJ,OAAO,CACL,KAAK,IAAI,EAAE;YACT,IAAI;gBACF,MAAM,EAAE,OAAO,EAAE,GAAG,IAAI,CAAA;gBACxB,MAAM,EAAE,YAAY,EAAE,GAAG,iBAAiB,CAAC,IAAI,CAAQ,CAAA;gBAEvD,IAAI,CAAC,IAAI,CAAC,mBAAmB,EAAE;oBAC7B,OAAM;iBACP;gBACD,IAAI,IAAI,CAAC,cAAc,EAAE;oBACvB,OAAM;iBACP;gBACD,IAAI,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,MAAK,eAAe,EAAE;oBACrC,MAAM,IAAI,GAAG,MAAM,2BAA2B,CAC5C,IAAI,EACJ,OAAO,CAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,EACpC,OAAO,EACP,YAAY,CACb,CAAA;oBACD,IAAI,CAAC,0BAA0B,CAAC,IAAI,CAAC,CAAA;iBACtC;aACF;YAAC,OAAO,KAAK,EAAE;gBACd,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;gBACpB,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAA;aACrB;QACH,CAAC,EACD,EAAE,KAAK,EAAE,IAAI,EAAE,CAChB,CACF,CAAA;IACH,CAAC;CACF,CAAC,CAAC;KAEF,KAAK,CAAC,IAAI,CAAC,EAAE;IACZ,MAAM,EAAE,cAAc,EAAE,mBAAmB,EAAE,GAAG,IAAI,CAAA;IACpD,OAAO;QACL,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|
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|
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156
|
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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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|
|
|
793
793
|
const width = (end - start) / bpPerPx;
|
|
794
794
|
const height = Math.max(layout.getTotalHeight(), 1);
|
|
795
795
|
const Color = await import('color').then(f => f.default);
|
|
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|
-
const res = await renderToAbstractCanvas(width, height, renderProps,
|
|
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|
+
const res = await renderToAbstractCanvas(width, height, renderProps, ctx => this.makeImageData({
|
|
797
797
|
ctx,
|
|
798
798
|
layoutRecords,
|
|
799
799
|
canvasWidth: width,
|
|
@@ -1 +1 @@
|
|
|
1
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1
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+
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@@ -57,13 +57,14 @@ export default class SNPCoverageAdapter extends BaseFeatureDataAdapter {
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57
57
|
.toPromise();
|
|
58
58
|
const { bins, skipmap } = await this.generateCoverageBins(feats, region, opts);
|
|
59
59
|
bins.forEach((bin, index) => {
|
|
60
|
+
const start = region.start + index;
|
|
60
61
|
observer.next(new SimpleFeature({
|
|
61
|
-
id: `${this.id}-${
|
|
62
|
+
id: `${this.id}-${start}`,
|
|
62
63
|
data: {
|
|
63
64
|
score: bin.total,
|
|
64
65
|
snpinfo: bin,
|
|
65
|
-
start
|
|
66
|
-
end:
|
|
66
|
+
start,
|
|
67
|
+
end: start + 1,
|
|
67
68
|
refName: region.refName,
|
|
68
69
|
},
|
|
69
70
|
}));
|