@jbrowse/plugin-alignments 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/BamAdapter/BamAdapter.js +2 -1
- package/dist/BamAdapter/BamAdapter.js.map +1 -1
- package/dist/CramAdapter/CramAdapter.js +3 -3
- package/dist/CramAdapter/CramAdapter.js.map +1 -1
- package/dist/LinearReadArcsDisplay/configSchema.js +8 -0
- package/dist/LinearReadArcsDisplay/configSchema.js.map +1 -1
- package/dist/LinearReadArcsDisplay/drawFeats.d.ts +1 -0
- package/dist/LinearReadArcsDisplay/drawFeats.js +45 -37
- package/dist/LinearReadArcsDisplay/drawFeats.js.map +1 -1
- package/dist/LinearReadArcsDisplay/model.d.ts +46 -15
- package/dist/LinearReadArcsDisplay/model.js +42 -0
- package/dist/LinearReadArcsDisplay/model.js.map +1 -1
- package/dist/LinearReadCloudDisplay/drawFeats.js +18 -32
- package/dist/LinearReadCloudDisplay/drawFeats.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.d.ts +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/models/model.d.ts +8 -8
- package/dist/PileupRPC/methods/GetGlobalValueForTag.js +3 -1
- package/dist/PileupRPC/methods/GetGlobalValueForTag.js.map +1 -1
- package/dist/PileupRPC/methods/GetReducedFeatures.js +2 -4
- package/dist/PileupRPC/methods/GetReducedFeatures.js.map +1 -1
- package/dist/PileupRPC/methods/GetVisibleModifications.js +2 -4
- package/dist/PileupRPC/methods/GetVisibleModifications.js.map +1 -1
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js +3 -4
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js.map +1 -1
- package/dist/util.js +3 -3
- package/dist/util.js.map +1 -1
- package/esm/BamAdapter/BamAdapter.js +2 -1
- package/esm/BamAdapter/BamAdapter.js.map +1 -1
- package/esm/CramAdapter/CramAdapter.js +3 -3
- package/esm/CramAdapter/CramAdapter.js.map +1 -1
- package/esm/LinearReadArcsDisplay/configSchema.js +8 -0
- package/esm/LinearReadArcsDisplay/configSchema.js.map +1 -1
- package/esm/LinearReadArcsDisplay/drawFeats.d.ts +1 -0
- package/esm/LinearReadArcsDisplay/drawFeats.js +45 -37
- package/esm/LinearReadArcsDisplay/drawFeats.js.map +1 -1
- package/esm/LinearReadArcsDisplay/model.d.ts +46 -15
- package/esm/LinearReadArcsDisplay/model.js +42 -0
- package/esm/LinearReadArcsDisplay/model.js.map +1 -1
- package/esm/LinearReadCloudDisplay/drawFeats.js +19 -33
- package/esm/LinearReadCloudDisplay/drawFeats.js.map +1 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.d.ts +1 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.js +1 -1
- package/esm/LinearSNPCoverageDisplay/components/Tooltip.js.map +1 -1
- package/esm/LinearSNPCoverageDisplay/models/model.d.ts +8 -8
- package/esm/PileupRPC/methods/GetGlobalValueForTag.js +3 -1
- package/esm/PileupRPC/methods/GetGlobalValueForTag.js.map +1 -1
- package/esm/PileupRPC/methods/GetReducedFeatures.js +2 -4
- package/esm/PileupRPC/methods/GetReducedFeatures.js.map +1 -1
- package/esm/PileupRPC/methods/GetVisibleModifications.js +2 -4
- package/esm/PileupRPC/methods/GetVisibleModifications.js.map +1 -1
- package/esm/SNPCoverageAdapter/SNPCoverageAdapter.js +3 -4
- package/esm/SNPCoverageAdapter/SNPCoverageAdapter.js.map +1 -1
- package/esm/util.js +3 -3
- package/esm/util.js.map +1 -1
- package/package.json +3 -3
- package/src/AlignmentsFeatureDetail/__snapshots__/{index.test.js.snap → index.test.tsx.snap} +0 -0
- package/src/AlignmentsFeatureDetail/{index.test.js → index.test.tsx} +4 -2
- package/src/BamAdapter/BamAdapter.test.ts +5 -4
- package/src/BamAdapter/BamAdapter.ts +2 -1
- package/src/CombinationTest.test.ts +3 -2
- package/src/CramAdapter/CramAdapter.test.ts +3 -2
- package/src/CramAdapter/CramAdapter.ts +11 -9
- package/src/LinearAlignmentsDisplay/models/{configSchema.test.js → configSchema.test.ts} +5 -1
- package/src/LinearReadArcsDisplay/configSchema.ts +10 -0
- package/src/LinearReadArcsDisplay/drawFeats.ts +73 -54
- package/src/LinearReadArcsDisplay/model.tsx +45 -0
- package/src/LinearReadCloudDisplay/drawFeats.ts +21 -33
- package/src/LinearSNPCoverageDisplay/components/Tooltip.tsx +76 -73
- package/src/LinearSNPCoverageDisplay/models/{configSchema.test.js → configSchema.test.ts} +3 -1
- package/src/PileupRPC/methods/GetGlobalValueForTag.ts +4 -1
- package/src/PileupRPC/methods/GetReducedFeatures.ts +4 -5
- package/src/PileupRPC/methods/GetVisibleModifications.ts +4 -4
- package/src/SNPCoverageAdapter/SNPCoverageAdapter.ts +6 -4
- package/src/index.test.ts +0 -1
- package/src/util.ts +10 -8
- package/src/PileupRenderer/components/PileupRendering.test.js +0 -21
- package/src/PileupRenderer/components/__snapshots__/PileupRendering.test.js.snap +0 -23
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@@ -11,6 +11,7 @@ const rxjs_1 = require("@jbrowse/core/util/rxjs");
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const operators_1 = require("rxjs/operators");
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// locals
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const BamSlightlyLazyFeature_1 = __importDefault(require("./BamSlightlyLazyFeature"));
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const rxjs_2 = require("rxjs");
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class BamAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
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// derived classes may not use the same configuration so a custom
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// configure method allows derived classes to override this behavior
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@@ -109,7 +110,7 @@ class BamAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
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end,
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assemblyName: '',
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});
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const seqChunks = await features.pipe((0, operators_1.toArray)())
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const seqChunks = await (0, rxjs_2.firstValueFrom)(features.pipe((0, operators_1.toArray)()));
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let sequence = '';
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seqChunks
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.sort((a, b) => a.get('start') - b.get('start'))
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@@ -1 +1 @@
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1
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-
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1
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+
{"version":3,"file":"BamAdapter.js","sourceRoot":"","sources":["../../src/BamAdapter/BamAdapter.ts"],"names":[],"mappings":";;;;;AAAA,mCAAmC;AACnC,yEAGgD;AAEhD,6CAA2E;AAC3E,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AAExC,SAAS;AACT,sFAA6D;AAC7D,+BAAqC;AAOrC,MAAqB,UAAW,SAAQ,oCAAsB;IAS5D,iEAAiE;IACjE,oEAAoE;IAC1D,KAAK,CAAC,YAAY;QAC1B,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QACpD,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACtD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,GAAG,GAAG,SAAS,KAAK,KAAK,CAAA;QAC/B,MAAM,GAAG,GAAG,IAAI,aAAO,CAAC;YACtB,aAAa,EAAE,IAAA,iBAAY,EAAC,WAAW,EAAE,EAAE,CAAC;YAC5C,aAAa,EAAE,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAC3D,aAAa,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAE5D,8DAA8D;YAC9D,gEAAgE;YAChE,mEAAmE;YACnE,cAAc,EAAE,QAAQ;YACxB,cAAc,EAAE,QAAQ;YACxB,eAAe,EAAE,QAAQ;SAC1B,CAAC,CAAA;QAEF,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QACrD,IAAI,aAAa,IAAI,IAAI,CAAC,aAAa,EAAE;YACvC,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,aAAa,CAAC,CAAA;YAC/D,OAAO;gBACL,GAAG;gBACH,eAAe,EAAE,WAAqC;aACvD,CAAA;SACF;aAAM;YACL,OAAO,EAAE,GAAG,EAAE,CAAA;SACf;IACH,CAAC;IAES,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;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,IAAA,mBAAY,EACjC,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,IAAA,qBAAc,EAAC,QAAQ,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,CAAA;QAEhE,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,IAAA,uBAAgB,EAAU,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,KAAK,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;YAEvE,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,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{"version":3,"file":"CramAdapter.js","sourceRoot":"","sources":["../../src/CramAdapter/CramAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qCAAmE;AACnE,yEAIgD;AAChD,6CAAsE;AACtE,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AACxC,wFAA+D;AAe/D,MAAqB,WAAY,SAAQ,oCAAsB;IAA/D;;QACE,cAAS,GAAW,EAAE,CAAA;QAgBtB,gFAAgF;QACxE,2BAAsB,GAAa,EAAE,CAAA;
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+
{"version":3,"file":"CramAdapter.js","sourceRoot":"","sources":["../../src/CramAdapter/CramAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qCAAmE;AACnE,yEAIgD;AAChD,6CAAsE;AACtE,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AACxC,+BAAqC;AACrC,wFAA+D;AAe/D,MAAqB,WAAY,SAAQ,oCAAsB;IAA/D;;QACE,cAAS,GAAW,EAAE,CAAA;QAgBtB,gFAAgF;QACxE,2BAAsB,GAAa,EAAE,CAAA;IAwQ/C,CAAC;IAtQQ,KAAK,CAAC,YAAY;QACvB,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,MAAM,IAAI,GAAG,IAAI,sBAAe,CAAC;YAC/B,cAAc,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC;YAC9C,KAAK,EAAE,IAAI,gBAAS,CAAC,EAAE,UAAU,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC,EAAE,CAAC;YACpE,QAAQ,EAAE,CAAC,GAAG,IAAI,EAAE,EAAE,CAAC,IAAI,CAAC,QAAQ,CAAC,GAAG,IAAI,CAAC;YAC7C,gBAAgB,EAAE,KAAK;YACvB,cAAc,EAAE,SAAW,EAAE,kDAAkD;SAChF,CAAC,CAAA;QAEF,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;SAC5C;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QAC/C,MAAM,UAAU,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;QAEpD,OAAO;YACL,IAAI;YACJ,eAAe,EAAE,UAAU,CAAC,WAAkC;SAC/D,CAAA;IACH,CAAC;IAEM,KAAK,CAAC,SAAS;QACpB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,OAAO,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE,CAAA;IAClC,CAAC;IAEO,KAAK,CAAC,QAAQ,CACpB,KAAa,EACb,KAAa,EACb,GAAW;QAEX,KAAK,IAAI,CAAC,CAAA,CAAC,2CAA2C;QAEtD,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,OAAO,GAAG,IAAI,CAAC,mBAAmB,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,WAAW,CAAC,KAAK,CAAC,CAAA;QAC1E,IAAI,CAAC,OAAO,EAAE;YACZ,MAAM,IAAI,KAAK,CAAC,SAAS,CAAC,CAAA;SAC3B;QAED,MAAM,SAAS,GAAG,MAAM,IAAA,qBAAc,EACpC,eAAe;aACZ,WAAW,CAAC;YACX,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC;aACD,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CACnB,CAAA;QAED,MAAM,QAAQ,GAAG,SAAS;aACvB,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,GAAG,CAAC,KAAK,CAAC,EAAE;YACX,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,OAAO,QAAQ,CAAC,MAAM,CAAC,SAAS,EAAE,UAAU,CAAC,CAAA;QAC/C,CAAC,CAAC;aACD,IAAI,CAAC,EAAE,CAAC,CAAA;QAEX,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;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACnC,cAAc,CAAC,mBAAmB,CAAC,CAAA;QACnC,MAAM,EAAE,IAAI,EAAE,GAAG,IAAI,CAAA;QACrB,MAAM,SAAS,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,CAAA;QAEhD,oDAAoD;QACpD,2CAA2C;QAC3C,MAAM,QAAQ,GAAa,EAAE,CAAA;QAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;QAC3C,SAAS;aACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;YACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;gBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;oBACrB,uBAAuB;oBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;oBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;oBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;iBAC1B;YACH,CAAC,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEJ,MAAM,UAAU,GAAG,SAAS;aACzB,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,GAAG,CAAC,MAAM,CAAC,EAAE,WAAC,OAAA,MAAA,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,GAAG,KAAK,IAAI,CAAC,0CAAE,KAAK,CAAA,EAAA,CAAC,CAAA;QAEpE,MAAM,IAAI,GAAG,EAAE,QAAQ,EAAE,QAAQ,EAAE,UAAU,EAAE,CAAA;QAC/C,cAAc,CAAC,EAAE,CAAC,CAAA;QAClB,IAAI,CAAC,SAAS,GAAG,IAAI,CAAA;QACrB,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,GAAG,IAAI,EAAE,CAAA;IACrC,CAAC;IAEO,KAAK,CAAC,KAAK,CAAC,IAAkB;QACpC,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,SAAS,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC5C,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,OAAO,SAAS,CAAC,QAAQ,CAAA;IAC3B,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,OAAe;QACzB,IAAI,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YAC3B,OAAO,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,OAAO,CAAC,CAAA;SACxC;QACD,IAAI,IAAI,CAAC,cAAc,EAAE;YACvB,OAAO,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;SAC5C;QACD,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,KAAa;;QACvB,OAAO,CAAA,MAAA,IAAI,CAAC,SAAS,CAAC,QAAQ,0CAAG,KAAK,CAAC,MAAI,MAAA,IAAI,CAAC,cAAc,0CAAG,KAAK,CAAC,CAAA,CAAA;IACzE,CAAC;IAED,mBAAmB,CAAC,KAAa;QAC/B,OAAO,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,CAAA;IAC3C,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAEC;QAED,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QAEvD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAEvC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,IAAI,KAAK,KAAK,SAAS,EAAE;gBACvB,OAAO,CAAC,IAAI,CAAC,iBAAiB,EAAE,OAAO,CAAC,CAAA;gBACxC,QAAQ,CAAC,QAAQ,EAAE,CAAA;gBACnB,OAAM;aACP;YAED,IAAI,eAAe,EAAE;gBACnB,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,GAAG,eAAe,CAAA;aACrD;YACD,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC,CAAA;YAChE,IAAA,uBAAgB,EAAC,MAAM,CAAC,CAAA;YACxB,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,IAAI,EAAE,CAAA;YAElB,IAAI,QAAQ,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;gBACrC,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAA;gBAC1B,OAAO,CAAC,KAAK,GAAG,WAAW,CAAC,KAAK,WAAW,IAAI,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,CAAA;YACxE,CAAC,CAAC,CAAA;YAEF,IAAI,SAAS,EAAE;gBACb,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;oBAClC,aAAa;oBACb,MAAM,GAAG,GAAG,MAAM,CAAC,SAAS,CAAC,GAAG,CAAC,CAAA;oBACjC,OAAO,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,KAAK,CAAA;gBAClE,CAAC,CAAC,CAAA;aACH;YAED,IAAI,QAAQ,EAAE;gBACZ,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,QAAQ,KAAK,QAAQ,CAAC,CAAA;aACnE;YAED,QAAQ,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;gBACxB,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,mBAAmB,CAAC,MAAM,CAAC,CAAC,CAAA;YACjD,CAAC,CAAC,CAAA;YACF,cAAc,CAAC,EAAE,CAAC,CAAA;YAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,MAAM,CAAC,CAAA;IACZ,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;IAExC,mBAAmB,CAAC,MAAkB;QACpC,OAAO,IAAI,iCAAuB,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;IAClD,CAAC;IAED,wEAAwE;IACxE,KAAK,CAAC,oBAAoB,CAAC,OAAiB,EAAE,IAAkB;QAC9D,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,eAAe,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;QACvD,MAAM,cAAc,GAAG,IAAI,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAA;QACrD,OAAO;YACL,KAAK;YACL,cAAc;SACf,CAAA;IACH,CAAC;IAED;;;;OAIG;IACK,KAAK,CAAC,eAAe,CAAC,OAAiB,EAAE,KAAmB;QAClE,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,MAAM,YAAY,GAAG,MAAM,OAAO,CAAC,GAAG,CACpC,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE;YACnB,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,GAAG,MAAM,CAAA;YACtC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,OAAO,KAAK,KAAK,SAAS;gBACxB,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC;gBAClD,CAAC,CAAC,CAAC,EAAE,UAAU,EAAE,CAAC,EAAE,CAAC,CAAA;QACzB,CAAC,CAAC,CACH,CAAA;QAED,OAAO,YAAY,CAAC,IAAI,EAAE,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,CAAC,CAAC,CAAA;IAClE,CAAC;CACF;AA1RD,8BA0RC"}
|
|
@@ -24,6 +24,14 @@ function configSchemaF(pluginManager) {
|
|
|
24
24
|
description: 'set arc line width',
|
|
25
25
|
defaultValue: 1,
|
|
26
26
|
},
|
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27
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+
/**
|
|
28
|
+
* #slot
|
|
29
|
+
*/
|
|
30
|
+
jitter: {
|
|
31
|
+
type: 'number',
|
|
32
|
+
description: 'jitters the x position so e.g. if many reads map to exact same x position, jittering makes it easy to see that there are many of them',
|
|
33
|
+
defaultValue: 0,
|
|
34
|
+
},
|
|
27
35
|
/**
|
|
28
36
|
* #slot
|
|
29
37
|
*/
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/configSchema.ts"],"names":[],"mappings":";;AACA,+DAAiE;AACjE,kFAA0F;AAC1F,qDAAuC;AAEvC;;GAEG;AACH,SAAS,aAAa,CAAC,aAA4B;IACjD,OAAO,IAAA,mCAAmB,EACxB,uBAAuB,EACvB;QACE;;WAEG;QACH,uBAAuB,EAAE;YACvB,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,0DAA0D;YACvE,YAAY,EAAE,CAAC;SAChB;QAED;;WAEG;QACH,SAAS,EAAE;YACT,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,oBAAoB;YACjC,YAAY,EAAE,CAAC;SAChB;QAED;;WAEG;QACH,WAAW,EAAE;YACX,IAAI,EAAE,YAAY;YAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,aAAa,EAAE;gBACtC,QAAQ;gBACR,QAAQ;gBACR,YAAY;gBACZ,0BAA0B;gBAC1B,gBAAgB;gBAChB,KAAK;aACN,CAAC;YACF,WAAW,EAAE,qBAAqB;YAClC,YAAY,EAAE,QAAQ;SACvB;KACF,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,IAAA,iEAAqC,EAAC,aAAa,CAAC;QACvE,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAED,kBAAe,aAAa,CAAA"}
|
|
1
|
+
{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/configSchema.ts"],"names":[],"mappings":";;AACA,+DAAiE;AACjE,kFAA0F;AAC1F,qDAAuC;AAEvC;;GAEG;AACH,SAAS,aAAa,CAAC,aAA4B;IACjD,OAAO,IAAA,mCAAmB,EACxB,uBAAuB,EACvB;QACE;;WAEG;QACH,uBAAuB,EAAE;YACvB,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,0DAA0D;YACvE,YAAY,EAAE,CAAC;SAChB;QAED;;WAEG;QACH,SAAS,EAAE;YACT,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,oBAAoB;YACjC,YAAY,EAAE,CAAC;SAChB;QAED;;WAEG;QACH,MAAM,EAAE;YACN,IAAI,EAAE,QAAQ;YACd,WAAW,EACT,uIAAuI;YACzI,YAAY,EAAE,CAAC;SAChB;QAED;;WAEG;QACH,WAAW,EAAE;YACX,IAAI,EAAE,YAAY;YAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,aAAa,EAAE;gBACtC,QAAQ;gBACR,QAAQ;gBACR,YAAY;gBACZ,0BAA0B;gBAC1B,gBAAgB;gBAChB,KAAK;aACN,CAAC;YACF,WAAW,EAAE,qBAAqB;YAClC,YAAY,EAAE,QAAQ;SACvB;KACF,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,IAAA,iEAAqC,EAAC,aAAa,CAAC;QACvE,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAED,kBAAe,aAAa,CAAA"}
|
|
@@ -14,35 +14,50 @@ function hasPairedReads(features) {
|
|
|
14
14
|
return false;
|
|
15
15
|
}
|
|
16
16
|
exports.hasPairedReads = hasPairedReads;
|
|
17
|
+
function jitter(n) {
|
|
18
|
+
return Math.random() * 2 * n - n;
|
|
19
|
+
}
|
|
17
20
|
async function drawFeats(self, ctx) {
|
|
18
|
-
|
|
19
|
-
const { chainData } = self;
|
|
21
|
+
const { chainData, height, colorBy, drawInter, drawLongRange, lineWidthSetting, jitterVal, } = self;
|
|
20
22
|
if (!chainData) {
|
|
21
23
|
return;
|
|
22
24
|
}
|
|
23
|
-
const displayHeight = self.height;
|
|
24
25
|
const view = (0, util_1.getContainingView)(self);
|
|
25
26
|
const { assemblyManager } = (0, util_1.getSession)(self);
|
|
26
27
|
self.setLastDrawnOffsetPx(view.offsetPx);
|
|
27
|
-
ctx.lineWidth =
|
|
28
|
+
ctx.lineWidth = lineWidthSetting;
|
|
28
29
|
const { chains, stats } = chainData;
|
|
29
30
|
const hasPaired = hasPairedReads(chainData);
|
|
30
31
|
const assemblyName = view.assemblyNames[0];
|
|
31
32
|
const asm = assemblyManager.get(assemblyName);
|
|
32
|
-
const type = (
|
|
33
|
-
|
|
33
|
+
const type = (colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) || 'insertSizeAndOrientation';
|
|
34
|
+
if (!asm) {
|
|
35
|
+
return;
|
|
36
|
+
}
|
|
37
|
+
function drawLineAtOffset(p, c) {
|
|
38
|
+
// draws a vertical line off to middle of nowhere if the second end not found
|
|
39
|
+
ctx.strokeStyle = c;
|
|
40
|
+
ctx.beginPath();
|
|
41
|
+
ctx.moveTo(p, 0);
|
|
42
|
+
ctx.lineTo(p, height);
|
|
43
|
+
ctx.stroke();
|
|
44
|
+
}
|
|
45
|
+
function draw(k1, k2, assembly, longRange) {
|
|
34
46
|
const s1 = k1.strand;
|
|
35
47
|
const s2 = k2.strand;
|
|
36
48
|
const f1 = s1 === -1;
|
|
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49
|
const f2 = s2 === -1;
|
|
38
50
|
const p1 = f1 ? k1.start : k1.end;
|
|
39
51
|
const p2 = hasPaired ? (f2 ? k2.start : k2.end) : f2 ? k2.end : k2.start;
|
|
40
|
-
const
|
|
41
|
-
const
|
|
52
|
+
const ra1 = assembly.getCanonicalRefName(k1.refName);
|
|
53
|
+
const ra2 = assembly.getCanonicalRefName(k2.refName);
|
|
54
|
+
const r1 = view.bpToPx({ refName: ra1, coord: p1 });
|
|
55
|
+
const r2 = view.bpToPx({ refName: ra2, coord: p2 });
|
|
42
56
|
if (r1 && r2) {
|
|
43
57
|
const radius = (r2.offsetPx - r1.offsetPx) / 2;
|
|
44
58
|
const absrad = Math.abs(radius);
|
|
45
59
|
const p = r1.offsetPx - view.offsetPx;
|
|
60
|
+
const p2 = r2.offsetPx - view.offsetPx;
|
|
46
61
|
// bezier (used for non-long-range arcs) requires moveTo before beginPath
|
|
47
62
|
// arc (used for long-range) requires moveTo after beginPath (or else a
|
|
48
63
|
// unwanted line at y=0 is rendered along with the arc)
|
|
@@ -69,7 +84,7 @@ async function drawFeats(self, ctx) {
|
|
|
69
84
|
ctx.strokeStyle = (0, color_1.getInsertSizeColor)(k1, k2, stats) || 'grey';
|
|
70
85
|
}
|
|
71
86
|
else if (type === 'gradient') {
|
|
72
|
-
ctx.strokeStyle = `hsl(${Math.log10(
|
|
87
|
+
ctx.strokeStyle = `hsl(${Math.log10(absrad) * 10},50%,50%)`;
|
|
73
88
|
}
|
|
74
89
|
}
|
|
75
90
|
else {
|
|
@@ -85,47 +100,45 @@ async function drawFeats(self, ctx) {
|
|
|
85
100
|
}
|
|
86
101
|
}
|
|
87
102
|
else if (type === 'gradient') {
|
|
88
|
-
ctx.strokeStyle = `hsl(${Math.log10(
|
|
103
|
+
ctx.strokeStyle = `hsl(${Math.log10(absrad) * 10},50%,50%)`;
|
|
89
104
|
}
|
|
90
105
|
}
|
|
91
106
|
}
|
|
92
107
|
const destX = p + radius * 2;
|
|
93
|
-
const destY = Math.min(
|
|
108
|
+
const destY = Math.min(height + jitter(jitterVal), absrad);
|
|
94
109
|
if (longRange) {
|
|
95
|
-
|
|
110
|
+
// avoid drawing gigantic circles that glitch out the rendering,
|
|
111
|
+
// instead draw vertical lines
|
|
112
|
+
if (absrad > 100000) {
|
|
113
|
+
drawLineAtOffset(p + jitter(jitterVal), 'red');
|
|
114
|
+
drawLineAtOffset(p2 + jitter(jitterVal), 'red');
|
|
115
|
+
}
|
|
116
|
+
else {
|
|
117
|
+
ctx.arc(p + radius + jitter(jitterVal), 0, absrad, 0, Math.PI);
|
|
118
|
+
ctx.stroke();
|
|
119
|
+
}
|
|
96
120
|
}
|
|
97
121
|
else {
|
|
98
|
-
ctx.bezierCurveTo(p, destY, destX, destY, destX, 0);
|
|
122
|
+
ctx.bezierCurveTo(p + jitter(jitterVal), destY, destX, destY, destX + jitter(jitterVal), 0);
|
|
123
|
+
ctx.stroke();
|
|
99
124
|
}
|
|
100
|
-
ctx.stroke();
|
|
101
125
|
}
|
|
102
|
-
else if (r1 &&
|
|
103
|
-
|
|
104
|
-
const p = r1.offsetPx - view.offsetPx;
|
|
105
|
-
ctx.strokeStyle = 'purple';
|
|
106
|
-
ctx.beginPath();
|
|
107
|
-
ctx.moveTo(p, 0);
|
|
108
|
-
ctx.lineTo(p, displayHeight);
|
|
109
|
-
ctx.stroke();
|
|
126
|
+
else if (r1 && drawInter) {
|
|
127
|
+
drawLineAtOffset(r1.offsetPx - view.offsetPx, 'purple');
|
|
110
128
|
}
|
|
111
129
|
}
|
|
112
130
|
for (let i = 0; i < chains.length; i++) {
|
|
113
131
|
let chain = chains[i];
|
|
114
|
-
if (chain.length === 1 &&
|
|
132
|
+
if (chain.length === 1 && drawLongRange) {
|
|
115
133
|
// singleton feature
|
|
116
134
|
const f = chain[0];
|
|
117
135
|
// special case where we look at RPOS/RNEXT
|
|
118
136
|
if (hasPaired) {
|
|
119
137
|
// eslint-disable-next-line @typescript-eslint/no-non-null-assertion
|
|
120
|
-
const refName =
|
|
138
|
+
const refName = f.next_ref;
|
|
121
139
|
// eslint-disable-next-line @typescript-eslint/no-non-null-assertion
|
|
122
140
|
const coord = f.next_pos;
|
|
123
|
-
draw(f, {
|
|
124
|
-
refName,
|
|
125
|
-
start: coord,
|
|
126
|
-
end: coord,
|
|
127
|
-
strand: f.strand,
|
|
128
|
-
}, true);
|
|
141
|
+
draw(f, { refName, start: coord, end: coord, strand: f.strand }, asm, true);
|
|
129
142
|
}
|
|
130
143
|
// special case where we look at SA
|
|
131
144
|
else {
|
|
@@ -134,12 +147,7 @@ async function drawFeats(self, ctx) {
|
|
|
134
147
|
for (let i = 0; i < features.length - 1; i++) {
|
|
135
148
|
const f = features[i];
|
|
136
149
|
const v1 = features[i + 1];
|
|
137
|
-
draw(f,
|
|
138
|
-
refName: (asm === null || asm === void 0 ? void 0 : asm.getCanonicalRefName(v1.refName)) || v1.refName,
|
|
139
|
-
start: v1.start,
|
|
140
|
-
end: v1.end,
|
|
141
|
-
strand: v1.strand,
|
|
142
|
-
}, true);
|
|
150
|
+
draw(f, v1, asm, true);
|
|
143
151
|
}
|
|
144
152
|
}
|
|
145
153
|
}
|
|
@@ -153,7 +161,7 @@ async function drawFeats(self, ctx) {
|
|
|
153
161
|
chain = chain.filter(f => !(f.flags & 2048));
|
|
154
162
|
}
|
|
155
163
|
for (let i = 0; i < chain.length - 1; i++) {
|
|
156
|
-
draw(chain[i], chain[i + 1], false);
|
|
164
|
+
draw(chain[i], chain[i + 1], asm, false);
|
|
157
165
|
}
|
|
158
166
|
}
|
|
159
167
|
}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"drawFeats.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/drawFeats.ts"],"names":[],"mappings":";;;AAAA,6CAAkE;AAGlE,SAAS;AACT,2CAIwB;AAExB,sDAA+C;
|
|
1
|
+
{"version":3,"file":"drawFeats.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/drawFeats.ts"],"names":[],"mappings":";;;AAAA,6CAAkE;AAGlE,SAAS;AACT,2CAIwB;AAExB,sDAA+C;AAG/C,SAAgB,cAAc,CAAC,QAAmB;IAChD,KAAK,MAAM,CAAC,IAAI,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,EAAE;QACxC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,EAAE;YAClB,OAAO,IAAI,CAAA;SACZ;KACF;IACD,OAAO,KAAK,CAAA;AACd,CAAC;AAPD,wCAOC;AAID,SAAS,MAAM,CAAC,CAAS;IACvB,OAAO,IAAI,CAAC,MAAM,EAAE,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAA;AAClC,CAAC;AASc,KAAK,UAAU,SAAS,CACrC,IAUC,EACD,GAA6B;IAE7B,MAAM,EACJ,SAAS,EACT,MAAM,EACN,OAAO,EACP,SAAS,EACT,aAAa,EACb,gBAAgB,EAChB,SAAS,GACV,GAAG,IAAI,CAAA;IACR,IAAI,CAAC,SAAS,EAAE;QACd,OAAM;KACP;IACD,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAAQ,CAAA;IAC3C,MAAM,EAAE,eAAe,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;IAC5C,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;IACxC,GAAG,CAAC,SAAS,GAAG,gBAAgB,CAAA;IAChC,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,SAAS,CAAA;IACnC,MAAM,SAAS,GAAG,cAAc,CAAC,SAAS,CAAC,CAAA;IAC3C,MAAM,YAAY,GAAG,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,CAAA;IAC1C,MAAM,GAAG,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAC7C,MAAM,IAAI,GAAG,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,KAAI,0BAA0B,CAAA;IACxD,IAAI,CAAC,GAAG,EAAE;QACR,OAAM;KACP;IAED,SAAS,gBAAgB,CAAC,CAAS,EAAE,CAAS;QAC5C,6EAA6E;QAC7E,GAAG,CAAC,WAAW,GAAG,CAAC,CAAA;QACnB,GAAG,CAAC,SAAS,EAAE,CAAA;QACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;QAChB,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,MAAM,CAAC,CAAA;QACrB,GAAG,CAAC,MAAM,EAAE,CAAA;IACd,CAAC;IAED,SAAS,IAAI,CACX,EAA2D,EAC3D,EAAY,EACZ,QAAkB,EAClB,SAAmB;QAEnB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QAEpB,MAAM,EAAE,GAAG,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAA;QACjC,MAAM,EAAE,GAAG,SAAS,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAA;QACxE,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,CAAA;QACpD,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,CAAA;QACpD,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,CAAA;QACnD,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,CAAA;QAEnD,IAAI,EAAE,IAAI,EAAE,EAAE;YACZ,MAAM,MAAM,GAAG,CAAC,EAAE,CAAC,QAAQ,GAAG,EAAE,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAA;YAC9C,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YAC/B,MAAM,CAAC,GAAG,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,CAAA;YACrC,MAAM,EAAE,GAAG,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,CAAA;YAEtC,yEAAyE;YACzE,uEAAuE;YACvE,uDAAuD;YACvD,IAAI,SAAS,EAAE;gBACb,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;gBAChB,GAAG,CAAC,SAAS,EAAE,CAAA;aAChB;iBAAM;gBACL,GAAG,CAAC,SAAS,EAAE,CAAA;gBACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;aACjB;YAED,IAAI,SAAS,EAAE;gBACb,GAAG,CAAC,WAAW,GAAG,KAAK,CAAA;aACxB;iBAAM;gBACL,IAAI,SAAS,EAAE;oBACb,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACvC,GAAG,CAAC,WAAW,GAAG,IAAA,wCAAgC,EAAC,EAAE,EAAE,EAAE,EAAE,KAAK,CAAC,CAAA;qBAClE;yBAAM,IAAI,IAAI,KAAK,aAAa,EAAE;wBACjC,GAAG,CAAC,WAAW,GAAG,IAAA,2BAAmB,EAAC,EAAE,CAAC,CAAA;qBAC1C;yBAAM,IAAI,IAAI,KAAK,YAAY,EAAE;wBAChC,GAAG,CAAC,WAAW,GAAG,IAAA,0BAAkB,EAAC,EAAE,EAAE,EAAE,EAAE,KAAK,CAAC,IAAI,MAAM,CAAA;qBAC9D;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;qBAAM;oBACL,IAAI,IAAI,KAAK,aAAa,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACjE,IAAI,EAAE,KAAK,CAAC,CAAC,IAAI,EAAE,KAAK,CAAC,EAAE;4BACzB,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;6BAAM,IAAI,EAAE,KAAK,CAAC,IAAI,EAAE,KAAK,CAAC,CAAC,EAAE;4BAChC,GAAG,CAAC,WAAW,GAAG,OAAO,CAAA;yBAC1B;6BAAM;4BACL,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;qBACF;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;aACF;YAED,MAAM,KAAK,GAAG,CAAC,GAAG,MAAM,GAAG,CAAC,CAAA;YAC5B,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,MAAM,CAAC,CAAA;YAC1D,IAAI,SAAS,EAAE;gBACb,gEAAgE;gBAChE,8BAA8B;gBAC9B,IAAI,MAAM,GAAG,MAAO,EAAE;oBACpB,gBAAgB,CAAC,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,KAAK,CAAC,CAAA;oBAC9C,gBAAgB,CAAC,EAAE,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,KAAK,CAAC,CAAA;iBAChD;qBAAM;oBACL,GAAG,CAAC,GAAG,CAAC,CAAC,GAAG,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,IAAI,CAAC,EAAE,CAAC,CAAA;oBAC9D,GAAG,CAAC,MAAM,EAAE,CAAA;iBACb;aACF;iBAAM;gBACL,GAAG,CAAC,aAAa,CACf,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EACrB,KAAK,EACL,KAAK,EACL,KAAK,EACL,KAAK,GAAG,MAAM,CAAC,SAAS,CAAC,EACzB,CAAC,CACF,CAAA;gBACD,GAAG,CAAC,MAAM,EAAE,CAAA;aACb;SACF;aAAM,IAAI,EAAE,IAAI,SAAS,EAAE;YAC1B,gBAAgB,CAAC,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAA;SACxD;IACH,CAAC;IAED,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;QACtC,IAAI,KAAK,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;QACrB,IAAI,KAAK,CAAC,MAAM,KAAK,CAAC,IAAI,aAAa,EAAE;YACvC,oBAAoB;YACpB,MAAM,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YAElB,2CAA2C;YAC3C,IAAI,SAAS,EAAE;gBACb,oEAAoE;gBACpE,MAAM,OAAO,GAAG,CAAC,CAAC,QAAS,CAAA;gBAC3B,oEAAoE;gBACpE,MAAM,KAAK,GAAG,CAAC,CAAC,QAAS,CAAA;gBACzB,IAAI,CACF,CAAC,EACD,EAAE,OAAO,EAAE,KAAK,EAAE,KAAK,EAAE,GAAG,EAAE,KAAK,EAAE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,EACvD,GAAG,EACH,IAAI,CACL,CAAA;aACF;YAED,mCAAmC;iBAC9B;gBACH,MAAM,QAAQ,GAAG,IAAA,4BAAW,EAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,IAAI,CAAC,CAAA;gBAC1D,MAAM,QAAQ,GAAG,CAAC,CAAC,EAAE,GAAG,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAAC,CAAA;gBACvE,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;oBAC5C,MAAM,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;oBACrB,MAAM,EAAE,GAAG,QAAQ,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;oBAC1B,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;iBACvB;aACF;SACF;aAAM;YACL,IAAI,CAAC,SAAS,EAAE;gBACd,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAAC,CAAA;gBAC3C,KAAK,GAAG,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,GAAG,CAAC,CAAC,CAAA;aAC5C;iBAAM;gBACL,8DAA8D;gBAC9D,KAAK,GAAG,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,CAAC,CAAA;aAC7C;YACD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;gBACzC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,EAAE,GAAG,EAAE,KAAK,CAAC,CAAA;aACzC;SACF;KACF;AACH,CAAC;AAtLD,4BAsLC"}
|
|
@@ -52,23 +52,28 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
|
|
|
52
52
|
}) => any;
|
|
53
53
|
renderProps: any;
|
|
54
54
|
} & {
|
|
55
|
-
doReload(): void;
|
|
55
|
+
doReload(): void; /**
|
|
56
|
+
* #action
|
|
57
|
+
*/
|
|
56
58
|
afterAttach(): void;
|
|
57
59
|
setStatus(message: string): void;
|
|
58
60
|
setLoading(abortController: AbortController): void;
|
|
59
61
|
setMessage(messageText: string): void;
|
|
60
62
|
setRendered(props: {
|
|
61
63
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reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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type: import("mobx-state-tree").ISimpleType<"LinearReadArcsDisplay">;
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configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
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filterBy: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
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flagInclude: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
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flagInclude: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>; /**
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readName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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tagFilter: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
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}, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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}, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
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lineWidth: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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jitter: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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colorBy: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
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tag: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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}, {
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} & {
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readonly RenderingComponent: React.FC<{
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model: {
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rpcDriverName: string | undefined;
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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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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type: import("mobx-state-tree").ISimpleType<string>;
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} & {
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readonly lineWidthSetting: any;
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/**
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*/
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readonly jitterVal: number;
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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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label: string;
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icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
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muiName: string; /**
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* used during tests to detect when we can complete a snapshot test
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*/
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};
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onClick: () => void;
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subMenu?: undefined;
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type?: undefined;
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checked?: undefined;
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} | {
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label: string;
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subMenu: {
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type: string;
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checked: boolean;
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label: string;
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onClick: () => void;
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}[];
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icon?: undefined;
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type?: undefined;
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checked?: undefined;
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subMenu?: undefined;
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} | {
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label: string;
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type: string;
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@@ -312,7 +340,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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} | {
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label: string;
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icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
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muiName: string;
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+
muiName: string; /**
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* #action
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+
* used during tests to detect when we can complete a snapshot test
|
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|
+
*/
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};
|
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subMenu: {
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label: string;
|
|
@@ -64,6 +64,10 @@ function stateModelFactory(configSchema) {
|
|
|
64
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|
* #property
|
|
65
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|
*/
|
|
66
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|
lineWidth: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.number),
|
|
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|
+
/**
|
|
68
|
+
* #property
|
|
69
|
+
*/
|
|
70
|
+
jitter: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.number),
|
|
67
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|
/**
|
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* #property
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69
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|
*/
|
|
@@ -160,6 +164,14 @@ function stateModelFactory(configSchema) {
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160
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|
setLineWidth(n) {
|
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161
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|
self.lineWidth = n;
|
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162
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|
},
|
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+
/**
|
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|
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* #action
|
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169
|
+
* jitter val, helpful to jitter the x direction so you see better evidence when e.g. 100
|
|
170
|
+
* long reads map to same x position
|
|
171
|
+
*/
|
|
172
|
+
setJitter(n) {
|
|
173
|
+
self.jitter = n;
|
|
174
|
+
},
|
|
163
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|
}))
|
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164
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|
.views(self => {
|
|
165
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|
const { trackMenuItems: superTrackMenuItems, renderProps: superRenderProps, } = self;
|
|
@@ -171,6 +183,13 @@ function stateModelFactory(configSchema) {
|
|
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171
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|
var _a;
|
|
172
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|
return (_a = self.lineWidth) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, 'lineWidth');
|
|
173
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|
},
|
|
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|
+
/**
|
|
187
|
+
* #getter
|
|
188
|
+
*/
|
|
189
|
+
get jitterVal() {
|
|
190
|
+
var _a;
|
|
191
|
+
return (_a = self.jitter) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, 'jitter');
|
|
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|
+
},
|
|
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|
/**
|
|
175
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|
* #getter
|
|
176
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|
*/
|
|
@@ -225,6 +244,29 @@ function stateModelFactory(configSchema) {
|
|
|
225
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|
},
|
|
226
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|
],
|
|
227
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|
},
|
|
247
|
+
{
|
|
248
|
+
label: 'Jitter x-positions',
|
|
249
|
+
subMenu: [
|
|
250
|
+
{
|
|
251
|
+
type: 'checkbox',
|
|
252
|
+
checked: this.jitterVal === 0,
|
|
253
|
+
label: 'None',
|
|
254
|
+
onClick: () => self.setJitter(0),
|
|
255
|
+
},
|
|
256
|
+
{
|
|
257
|
+
type: 'checkbox',
|
|
258
|
+
checked: this.jitterVal === 2,
|
|
259
|
+
label: 'Small',
|
|
260
|
+
onClick: () => self.setJitter(2),
|
|
261
|
+
},
|
|
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|
+
{
|
|
263
|
+
type: 'checkbox',
|
|
264
|
+
checked: this.jitterVal === 10,
|
|
265
|
+
label: 'Large',
|
|
266
|
+
onClick: () => self.setJitter(10),
|
|
267
|
+
},
|
|
268
|
+
],
|
|
269
|
+
},
|
|
228
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|
{
|
|
229
271
|
label: 'Draw inter-region vertical lines',
|
|
230
272
|
type: 'checkbox',
|
|
@@ -1 +1 @@
|
|
|
1
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-
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