jbrowse-plugin-mafviewer 1.2.0 → 1.2.2
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/BgzipTaffyAdapter/BgzipTaffyAdapter.js +0 -1
- package/dist/BgzipTaffyAdapter/BgzipTaffyAdapter.js.map +1 -1
- package/dist/LinearMafDisplay/components/ColorLegend.js +1 -1
- package/dist/LinearMafDisplay/components/ColorLegend.js.map +1 -1
- package/dist/LinearMafDisplay/components/RectBg.js +1 -1
- package/dist/LinearMafDisplay/stateModel.d.ts +10 -0
- package/dist/LinearMafDisplay/stateModel.js +31 -11
- package/dist/LinearMafDisplay/stateModel.js.map +1 -1
- package/dist/LinearMafRenderer/makeImageData.js +1 -1
- package/dist/LinearMafRenderer/makeImageData.js.map +1 -1
- package/dist/LinearMafRenderer/util.js.map +1 -1
- package/dist/MafTabixAdapter/MafTabixAdapter.js +1 -6
- package/dist/MafTabixAdapter/MafTabixAdapter.js.map +1 -1
- package/dist/jbrowse-plugin-mafviewer.umd.production.min.js +7 -7
- package/dist/jbrowse-plugin-mafviewer.umd.production.min.js.map +3 -3
- package/package.json +2 -1
- package/src/BgzipTaffyAdapter/BgzipTaffyAdapter.ts +1 -2
- package/src/LinearMafDisplay/components/ColorLegend.tsx +2 -2
- package/src/LinearMafDisplay/components/RectBg.tsx +1 -1
- package/src/LinearMafDisplay/stateModel.ts +31 -11
- package/src/LinearMafRenderer/makeImageData.ts +0 -1
- package/src/LinearMafRenderer/util.ts +1 -0
- package/src/MafTabixAdapter/MafTabixAdapter.ts +1 -11
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@@ -69,7 +69,6 @@ export default class BgzipTaffyAdapter extends BaseFeatureDataAdapter {
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}
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getFeatures(query, opts) {
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const { statusCallback = () => { } } = opts || {};
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-
console.log(query.start, query.end, 'wtf');
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return ObservableCreate(async (observer) => {
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try {
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const byteRanges = await this.setup();
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"BgzipTaffyAdapter.js","sourceRoot":"","sources":["../../src/BgzipTaffyAdapter/BgzipTaffyAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,uBAAuB,CAAA;AAC7C,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAChD,OAAO,EAGL,aAAa,EACb,YAAY,GACb,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAC1D,OAAO,IAAI,MAAM,MAAM,CAAA;AAEvB,OAAO,aAAa,MAAM,iBAAiB,CAAA;AAC3C,OAAO,WAAW,MAAM,gBAAgB,CAAA;AACxC,OAAO,EAAE,SAAS,EAAE,MAAM,SAAS,CAAA;AACnC,OAAO,EAAE,oBAAoB,EAAE,MAAM,mBAAmB,CAAA;
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1
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+
{"version":3,"file":"BgzipTaffyAdapter.js","sourceRoot":"","sources":["../../src/BgzipTaffyAdapter/BgzipTaffyAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,uBAAuB,CAAA;AAC7C,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAChD,OAAO,EAGL,aAAa,EACb,YAAY,GACb,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAC1D,OAAO,IAAI,MAAM,MAAM,CAAA;AAEvB,OAAO,aAAa,MAAM,iBAAiB,CAAA;AAC3C,OAAO,WAAW,MAAM,gBAAgB,CAAA;AACxC,OAAO,EAAE,SAAS,EAAE,MAAM,SAAS,CAAA;AACnC,OAAO,EAAE,oBAAoB,EAAE,MAAM,mBAAmB,CAAA;AACxD,OAAO,EAAE,eAAe,EAAE,MAAM,QAAQ,CAAA;AAaxC,MAAM,GAAG,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAA;AAEvC,MAAM,CAAC,OAAO,OAAO,iBAAkB,SAAQ,sBAAsB;IAC5D,MAAM,CAAqB;IAElC,KAAK,CAAC,WAAW;QACf,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;QAC/B,OAAO,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;IAC1B,CAAC;IAED,QAAQ;QACN,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC;YACjB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,WAAW,EAAE,CAAC,KAAK,CAAC,CAAC,CAAU,EAAE,EAAE;gBACpD,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;QACJ,CAAC;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IACD,KAAK,CAAC,IAAkB;QACtB,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,OAAO,YAAY,CAAC,mBAAmB,EAAE,cAAc,EAAE,GAAG,EAAE,CAC5D,IAAI,CAAC,QAAQ,EAAE,CAChB,CAAA;IACH,CAAC;IAED,KAAK,CAAC,WAAW;QACf,MAAM,IAAI,GAAG,MAAM,YAAY,CAAC,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,QAAQ,CACnE,MAAM,CACP,CAAA;QACD,MAAM,KAAK,GAAG,IAAI;aACf,KAAK,CAAC,IAAI,CAAC;aACX,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;aAClB,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACzB,MAAM,OAAO,GAAG,EAAe,CAAA;QAC/B,IAAI,OAAO,GAAG,EAAE,CAAA;QAChB,IAAI,YAAY,GAAG,CAAC,CAAA;QACpB,IAAI,oBAAoB,GAAG,CAAC,CAAA;QAC5B,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;YACzB,MAAM,CAAC,GAAG,EAAE,QAAQ,EAAE,aAAa,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YACvD,MAAM,wBAAwB,GAAG,oBAAoB,GAAG,CAAC,aAAc,CAAA;YACvE,MAAM,OAAO,GAAG,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,GAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAE,CAAA;YAE/D,qEAAqE;YACrE,uEAAuE;YACvE,gDAAgD;YAChD,MAAM,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,wBAAwB,CAAC,CAAA;YACnD,MAAM,CAAC,GAAG,CAAC,CAAC,kBAAkB,CAAC,EAAE,CAAC,CAAA;YAClC,MAAM,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YACvB,MAAM,IAAI,GAAG,IAAI,aAAa,CAAC,CAAC,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,QAAQ,EAAE,CAAC,CAAA;YAE1D,IAAI,CAAC,OAAO,CAAC,OAAO,CAAC,EAAE,CAAC;gBACtB,OAAO,CAAC,OAAO,CAAC,GAAG,EAAE,CAAA;gBACrB,OAAO,GAAG,EAAE,CAAA;gBACZ,YAAY,GAAG,CAAC,CAAA;gBAChB,oBAAoB,GAAG,CAAC,CAAA;YAC1B,CAAC;YACD,MAAM,SAAS,GAAG,CAAC,QAAS,GAAG,YAAY,CAAA;YAC3C,OAAO,CAAC,OAAO,CAAC,CAAC,IAAI,CAAC;gBACpB,QAAQ,EAAE,SAAS;gBACnB,aAAa,EAAE,IAAI;aACpB,CAAC,CAAA;YACF,OAAO,GAAG,OAAO,CAAA;YACjB,YAAY,GAAG,SAAS,CAAA;YACxB,oBAAoB,GAAG,wBAAwB,CAAA;QACjD,CAAC;QACD,OAAO,OAAO,CAAA;IAChB,CAAC;IAED,WAAW,CAAC,KAAa,EAAE,IAAkB;QAC3C,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,OAAO,gBAAgB,CAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,IAAI,CAAC;gBACH,MAAM,UAAU,GAAG,MAAM,IAAI,CAAC,KAAK,EAAE,CAAA;gBACrC,MAAM,MAAM,GAAG,MAAM,YAAY,CAC/B,wBAAwB,EACxB,cAAc,EACd,GAAG,EAAE,CAAC,IAAI,CAAC,QAAQ,CAAC,KAAK,EAAE,UAAU,CAAC,CACvC,CAAA;gBACD,IAAI,MAAM,EAAE,CAAC;oBACX,MAAM,UAAU,GAAG,EAAoC,CAAA;oBACvD,MAAM,IAAI,GAAG,EAAa,CAAA;oBAC1B,IAAI,EAAO,CAAA;oBACX,IAAI,CAAC,GAAG,CAAC,CAAA;oBACT,IAAI,CAAC,GAAG,CAAC,CAAA;oBACT,eAAe,CAAC,MAAM,EAAE,IAAI,CAAC,EAAE;wBAC7B,IAAI,CAAC,EAAE,GAAG,GAAG,KAAK,CAAC,EAAE,CAAC;4BACpB,cAAc,CACZ,cAAc,GAAG,CAAC,CAAC,GAAG,SAAS,CAAC,IAAI,GAAG,CAAC,MAAM,CAAC,MAAM,GAAG,SAAS,CAAC,IAAI,CACvE,CAAA;wBACH,CAAC;wBACD,CAAC,IAAI,IAAI,CAAC,MAAM,CAAA;wBAChB,IAAI,IAAI,EAAE,CAAC;4BACT,MAAM,CAAC,QAAQ,EAAE,eAAe,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;4BACrD,IAAI,eAAe,EAAE,CAAC;gCACpB,KAAK,MAAM,GAAG,IAAI,oBAAoB,CAAC,eAAe,CAAC,EAAE,CAAC;oCACxD,IAAI,GAAG,CAAC,IAAI,KAAK,GAAG,EAAE,CAAC;wCACrB,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC,EAAE,GAAG,CAAC,CAAA;wCAC5B,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC;4CACzB,UAAU,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG;gDACpB,KAAK,EAAE,GAAG,CAAC,KAAK;gDAChB,MAAM,EAAE,GAAG,CAAC,MAAM;gDAClB,OAAO,EAAE,GAAG,CAAC,MAAM;gDACnB,GAAG,EAAE,GAAG,CAAC,GAAG;gDACZ,IAAI,EAAE,EAAE;6CACT,CAAA;wCACH,CAAC;wCACD,MAAM,CAAC,GAAG,UAAU,CAAC,GAAG,CAAC,GAAG,CAAE,CAAA;wCAC9B,CAAC,CAAC,IAAI,IAAI,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,CAAA,CAAC,cAAc;oCACrE,CAAC;yCAAM,IAAI,GAAG,CAAC,IAAI,KAAK,GAAG,EAAE,CAAC;wCAC5B,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC;4CACzB,UAAU,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG;gDACpB,KAAK,EAAE,GAAG,CAAC,KAAK;gDAChB,MAAM,EAAE,GAAG,CAAC,MAAM;gDAClB,OAAO,EAAE,GAAG,CAAC,MAAM;gDACnB,GAAG,EAAE,GAAG,CAAC,GAAG;gDACZ,IAAI,EAAE,EAAE;6CACT,CAAA;wCACH,CAAC;wCACD,MAAM,CAAC,GAAG,UAAU,CAAC,GAAG,CAAC,GAAG,CAAE,CAAA;wCAC9B,CAAC,CAAC,IAAI,IAAI,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,CAAA,CAAC,cAAc;wCACnE,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,GAAG,CAAA;oCACrB,CAAC;yCAAM,IAAI,GAAG,CAAC,IAAI,KAAK,GAAG,EAAE,CAAC;wCAC5B,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC,CAAC,CAAA;oCACzB,CAAC;oCAED,qBAAqB;oCACrB,+BAA+B;oCAC/B,IAAI;oCACJ,+BAA+B;oCAC/B,IAAI;gCACN,CAAC;gCACD,IAAI,CAAC,EAAE,EAAE,CAAC;oCACR,EAAE,GAAG,IAAI,CAAC,CAAC,CAAC,CAAA;gCACd,CAAC;4BACH,CAAC;4BACD,MAAM,OAAO,GAAG,QAAS,CAAC,MAAM,CAAA;4BAChC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,OAAO,EAAE,CAAC,EAAE,EAAE,CAAC;gCACjC,MAAM,MAAM,GAAG,QAAS,CAAC,CAAC,CAAC,CAAA;gCAC3B,MAAM,CAAC,GAAG,IAAI,CAAC,CAAC,CAAC,CAAA;gCACjB,IAAI,CAAC,EAAE,CAAC;oCACN,UAAU,CAAC,CAAC,CAAC,GAAG,CAAE,CAAC,IAAI,IAAI,MAAM,CAAA;gCACnC,CAAC;qCAAM,CAAC;oCACN,+DAA+D;gCACjE,CAAC;4BACH,CAAC;wBACH,CAAC;oBACH,CAAC,CAAC,CAAA;oBACF,IAAI,EAAE,EAAE,CAAC;wBACP,MAAM,IAAI,GAAG,UAAU,CAAC,EAAE,CAAC,GAAG,CAAE,CAAA;wBAEhC,MAAM;wBACN,gIAAgI;wBAChI,kCAAkC;wBAClC,EAAE;wBACF,6DAA6D;wBAC7D,oEAAoE;wBACpE,UAAU;wBACV,QAAQ,CAAC,IAAI,CACX,IAAI,aAAa,CAAC;4BAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,KAAK,IAAI,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;4BAC7C,OAAO,EAAE,KAAK,CAAC,OAAO;4BACtB,KAAK,EAAE,IAAI,CAAC,KAAK;4BACjB,GAAG,EAAE,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM;4BAClC,MAAM,EAAE,IAAI,CAAC,MAAM;4BACnB,UAAU;4BACV,GAAG,EAAE,IAAI,CAAC,IAAI;yBACf,CAAC,CACH,CAAA;oBACH,CAAC;gBACH,CAAC;gBACD,cAAc,CAAC,EAAE,CAAC,CAAA;gBAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;YACrB,CAAC;YAAC,OAAO,CAAC,EAAE,CAAC;gBACX,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;YACnB,CAAC;QACH,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,KAAK,CAAC,UAAU,CAAC,MAAc;QAC7B,MAAM,KAAK,GAAG,IAAI,CAAC,OAAO,CAAC,YAAY,CAAC,CAAA;QACxC,MAAM,EAAE,GACN,KAAK,CAAC,GAAG,KAAK,gBAAgB;YAC5B,CAAC,CAAC,SAAS;YACX,CAAC,CAAC,MAAM,YAAY,CAAC,KAAK,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAA;QAEhD,2EAA2E;QAC3E,OAAO;QACP,OAAO;YACL,OAAO,EAAE,SAAS,CAAC,IAAI,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC;YAC3C,IAAI,EAAE,EAAE,CAAC,CAAC,CAAC,WAAW,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;SACvC,CAAA;IACH,CAAC;IAED,qCAAqC;IACrC,KAAK,CAAC,QAAQ,CAAC,KAAa,EAAE,UAAqB;QACjD,MAAM,IAAI,GAAG,YAAY,CAAC,IAAI,CAAC,OAAO,CAAC,eAAe,CAAC,CAAC,CAAA;QACxD,MAAM,OAAO,GAAG,UAAU,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA;QACzC,IAAI,OAAO,EAAE,CAAC;YACZ,IAAI,UAAU,CAAA;YACd,IAAI,SAAS,CAAA;YAEb,YAAY;YACZ,sEAAsE;YACtE,OAAO;YACP,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;gBACxC,IAAI,OAAO,CAAC,CAAC,CAAE,CAAC,QAAQ,IAAI,KAAK,CAAC,KAAK,EAAE,CAAC;oBACxC,UAAU,GAAG,OAAO,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,CAAC,CAAA;oBACxC,MAAK;gBACP,CAAC;YACH,CAAC;YACD,wEAAwE;YACxE,mBAAmB;YACnB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;gBACxC,IAAI,KAAK,CAAC,GAAG,IAAI,OAAO,CAAC,CAAC,CAAE,CAAC,QAAQ,EAAE,CAAC;oBACtC,SAAS,GAAG,OAAO,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;oBAC1B,MAAK;gBACP,CAAC;YACH,CAAC;YAED,SAAS,GAAG,SAAS,IAAI,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;YACvC,uFAAuF;YACvF,yEAAyE;YACzE,gCAAgC;YAChC,IAAI,UAAU,IAAI,SAAS,EAAE,CAAC;gBAC5B,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,IAAI,CAC9B,SAAS,CAAC,aAAa,CAAC,aAAa;oBACnC,UAAU,CAAC,aAAa,CAAC,aAAa,EACxC,UAAU,CAAC,aAAa,CAAC,aAAa,CACvC,CAAA;gBACD,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC,QAAQ,CAAC,CAAA;gBACpC,OAAO,MAAM,CAAC,KAAK,CAAC,UAAU,CAAC,aAAa,CAAC,YAAY,CAAC,CAAA;YAC5D,CAAC;QACH,CAAC;QACD,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,aAAa,KAAU,CAAC;CACzB"}
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@@ -12,7 +12,7 @@ const ColorLegend = observer(function ({ model, labelWidth, svgFontSize, }) {
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React.createElement("g", { transform: `translate(${treeWidth + 5},0)` },
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samples.map((sample, idx) => (React.createElement(RectBg, { key: `${sample.id}-${idx}`, y: idx * rowHeight, x: 0, width: labelWidth + 5, height: boxHeight, color: sample.color }))),
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? samples.map((sample, idx) => (React.createElement("text", { key: `${sample.id}-${idx}`, y: idx * rowHeight + rowHeight / 2
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? samples.map((sample, idx) => (React.createElement("text", { key: `${sample.id}-${idx}`, dominantBaseline: "middle", fontSize: svgFontSize, x: 2, y: idx * rowHeight + rowHeight / 2 }, sample.label)))
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{"version":3,"file":"ColorLegend.js","sourceRoot":"","sources":["../../../src/LinearMafDisplay/components/ColorLegend.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAGrC,OAAO,MAAM,MAAM,UAAU,CAAA;AAC7B,OAAO,IAAI,MAAM,QAAQ,CAAA;AAEzB,MAAM,WAAW,GAAG,QAAQ,CAAC,UAAU,EACrC,KAAK,EACL,UAAU,EACV,WAAW,GAKZ;IACC,MAAM,EAAE,WAAW,EAAE,SAAS,EAAE,OAAO,GAAG,EAAE,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IACjE,MAAM,eAAe,GAAG,SAAS,IAAI,CAAC,CAAA;IACtC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;IAEzC,OAAO,CACL;QACE,oBAAC,MAAM,IACL,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,UAAU,GAAG,CAAC,GAAG,SAAS,EACjC,MAAM,EAAE,WAAW,GACnB;QACF,oBAAC,IAAI,IAAC,KAAK,EAAE,KAAK,GAAI;QACtB,2BAAG,SAAS,EAAE,aAAa,SAAS,GAAG,CAAC,KAAK;YAC1C,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,GAAG,EAAE,EAAE,CAAC,CAC5B,oBAAC,MAAM,IACL,GAAG,EAAE,GAAG,MAAM,CAAC,EAAE,IAAI,GAAG,EAAE,EAC1B,CAAC,EAAE,GAAG,GAAG,SAAS,EAClB,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,UAAU,GAAG,CAAC,EACrB,MAAM,EAAE,SAAS,EACjB,KAAK,EAAE,MAAM,CAAC,KAAK,GACnB,CACH,CAAC;YACD,eAAe;gBACd,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,GAAG,EAAE,EAAE,CAAC,CAC3B,8BACE,GAAG,EAAE,GAAG,MAAM,CAAC,EAAE,IAAI,GAAG,EAAE,EAC1B,
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{"version":3,"file":"ColorLegend.js","sourceRoot":"","sources":["../../../src/LinearMafDisplay/components/ColorLegend.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAGrC,OAAO,MAAM,MAAM,UAAU,CAAA;AAC7B,OAAO,IAAI,MAAM,QAAQ,CAAA;AAEzB,MAAM,WAAW,GAAG,QAAQ,CAAC,UAAU,EACrC,KAAK,EACL,UAAU,EACV,WAAW,GAKZ;IACC,MAAM,EAAE,WAAW,EAAE,SAAS,EAAE,OAAO,GAAG,EAAE,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IACjE,MAAM,eAAe,GAAG,SAAS,IAAI,CAAC,CAAA;IACtC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,SAAS,CAAC,CAAA;IAEzC,OAAO,CACL;QACE,oBAAC,MAAM,IACL,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,UAAU,GAAG,CAAC,GAAG,SAAS,EACjC,MAAM,EAAE,WAAW,GACnB;QACF,oBAAC,IAAI,IAAC,KAAK,EAAE,KAAK,GAAI;QACtB,2BAAG,SAAS,EAAE,aAAa,SAAS,GAAG,CAAC,KAAK;YAC1C,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,GAAG,EAAE,EAAE,CAAC,CAC5B,oBAAC,MAAM,IACL,GAAG,EAAE,GAAG,MAAM,CAAC,EAAE,IAAI,GAAG,EAAE,EAC1B,CAAC,EAAE,GAAG,GAAG,SAAS,EAClB,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,UAAU,GAAG,CAAC,EACrB,MAAM,EAAE,SAAS,EACjB,KAAK,EAAE,MAAM,CAAC,KAAK,GACnB,CACH,CAAC;YACD,eAAe;gBACd,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,GAAG,EAAE,EAAE,CAAC,CAC3B,8BACE,GAAG,EAAE,GAAG,MAAM,CAAC,EAAE,IAAI,GAAG,EAAE,EAC1B,gBAAgB,EAAC,QAAQ,EACzB,QAAQ,EAAE,WAAW,EACrB,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,GAAG,GAAG,SAAS,GAAG,SAAS,GAAG,CAAC,IAEjC,MAAM,CAAC,KAAK,CACR,CACR,CAAC;gBACJ,CAAC,CAAC,IAAI,CACN,CACH,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,WAAW,CAAA"}
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@@ -320,10 +320,20 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
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* #method
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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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@@ -3,9 +3,9 @@ import { getEnv, getSession } from '@jbrowse/core/util';
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3
|
import { getRpcSessionId } from '@jbrowse/core/util/tracks';
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|
import { ascending } from 'd3-array';
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|
import { cluster, hierarchy } from 'd3-hierarchy';
|
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|
+
import deepEqual from 'fast-deep-equal';
|
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6
7
|
import { autorun } from 'mobx';
|
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8
|
import { addDisposer, isAlive, types } from 'mobx-state-tree';
|
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|
-
import deepEqual from 'fast-deep-equal';
|
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9
|
import SetRowHeightDialog from './components/SetRowHeight';
|
|
10
10
|
import { maxLength, setBrLength } from './types';
|
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11
11
|
import { normalize } from '../util';
|
|
@@ -200,7 +200,7 @@ export default function stateModelFactory(configSchema, pluginManager) {
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|
const s = superRenderProps();
|
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|
return {
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|
...s,
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|
-
notReady: !self.volatileSamples
|
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|
+
notReady: (!self.volatileSamples && !self.volatileTree) || super.notReady,
|
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|
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|
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|
samples,
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|
rowHeight,
|
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@@ -216,16 +216,36 @@ export default function stateModelFactory(configSchema, pluginManager) {
|
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|
return [
|
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|
...superTrackMenuItems(),
|
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|
{
|
|
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|
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label: 'Set
|
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|
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|
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|
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|
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|
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+
label: 'Set feature height',
|
|
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|
+
type: 'subMenu',
|
|
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|
+
subMenu: [
|
|
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|
+
{
|
|
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|
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label: 'Normal',
|
|
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|
+
onClick: () => {
|
|
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|
+
self.setRowHeight(15);
|
|
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|
+
self.setRowProportion(0.8);
|
|
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227
|
},
|
|
227
|
-
|
|
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|
-
|
|
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|
+
},
|
|
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|
+
{
|
|
230
|
+
label: 'Compact',
|
|
231
|
+
onClick: () => {
|
|
232
|
+
self.setRowHeight(8);
|
|
233
|
+
self.setRowProportion(0.9);
|
|
234
|
+
},
|
|
235
|
+
},
|
|
236
|
+
{
|
|
237
|
+
label: 'Manually set height',
|
|
238
|
+
onClick: () => {
|
|
239
|
+
getSession(self).queueDialog(handleClose => [
|
|
240
|
+
SetRowHeightDialog,
|
|
241
|
+
{
|
|
242
|
+
model: self,
|
|
243
|
+
handleClose,
|
|
244
|
+
},
|
|
245
|
+
]);
|
|
246
|
+
},
|
|
247
|
+
},
|
|
248
|
+
],
|
|
229
249
|
},
|
|
230
250
|
{
|
|
231
251
|
label: 'Show all letters',
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"stateModel.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/stateModel.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,sBAAsB,EAAE,OAAO,EAAE,MAAM,6BAA6B,CAAA;AAC7E,OAAO,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AACvD,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAA;AAC3D,OAAO,EAAE,SAAS,EAAE,MAAM,UAAU,CAAA;AACpC,OAAO,EAAE,OAAO,EAAE,SAAS,EAAE,MAAM,cAAc,CAAA;AACjD,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC9B,OAAO,EAAE,WAAW,EAAE,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;
|
|
1
|
+
{"version":3,"file":"stateModel.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/stateModel.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,sBAAsB,EAAE,OAAO,EAAE,MAAM,6BAA6B,CAAA;AAC7E,OAAO,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AACvD,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAA;AAC3D,OAAO,EAAE,SAAS,EAAE,MAAM,UAAU,CAAA;AACpC,OAAO,EAAE,OAAO,EAAE,SAAS,EAAE,MAAM,cAAc,CAAA;AACjD,OAAO,SAAS,MAAM,iBAAiB,CAAA;AACvC,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAC9B,OAAO,EAAE,WAAW,EAAE,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AAE7D,OAAO,kBAAkB,MAAM,2BAA2B,CAAA;AAC1D,OAAO,EAAE,SAAS,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AAChD,OAAO,EAAE,SAAS,EAAE,MAAM,SAAS,CAAA;AAkBnC;;;GAGG;AACH,MAAM,CAAC,OAAO,UAAU,iBAAiB,CACvC,YAAwC,EACxC,aAA4B;IAE5B,MAAM,kBAAkB,GAAG,aAAa,CAAC,SAAS,CAChD,wBAAwB,CAC+B,CAAA;IACzD,MAAM,EAAE,iBAAiB,EAAE,GAAG,kBAAkB,CAAC,OAAO,CAAA;IAExD,OAAO,KAAK;SACT,OAAO,CACN,kBAAkB,EAClB,iBAAiB,EACjB,KAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,kBAAkB,CAAC;QACvC;;WAEG;QACH,aAAa,EAAE,sBAAsB,CAAC,YAAY,CAAC;QACnD;;WAEG;QACH,SAAS,EAAE,EAAE;QACb;;WAEG;QACH,aAAa,EAAE,GAAG;QAClB;;WAEG;QACH,cAAc,EAAE,KAAK;QACrB;;WAEG;QACH,iBAAiB,EAAE,IAAI;QAEvB;;WAEG;QACH,aAAa,EAAE,KAAK;QAEpB;;WAEG;QACH,aAAa,EAAE,EAAE;KAClB,CAAC,CACH;SACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf;;WAEG;QACH,aAAa,EAAE,IAAI;QACnB;;WAEG;QACH,eAAe,EAAE,SAAiC;QAClD;;WAEG;QACH,YAAY,EAAE,SAAgB;KAC/B,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,YAAY,CAAC,CAAS;YACpB,IAAI,CAAC,SAAS,GAAG,CAAC,CAAA;QACpB,CAAC;QACD;;WAEG;QACH,gBAAgB,CAAC,CAAS;YACxB,IAAI,CAAC,aAAa,GAAG,CAAC,CAAA;QACxB,CAAC;QACD;;WAEG;QACH,iBAAiB,CAAC,CAAU;YAC1B,IAAI,CAAC,cAAc,GAAG,CAAC,CAAA;QACzB,CAAC;QACD;;WAEG;QACH,oBAAoB,CAAC,CAAU;YAC7B,IAAI,CAAC,iBAAiB,GAAG,CAAC,CAAA;QAC5B,CAAC;QACD;;WAEG;QACH,UAAU,CAAC,EAAE,OAAO,EAAE,IAAI,EAAwC;YAChE,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,IAAI,CAAC,eAAe,CAAC,EAAE,CAAC;gBAC9C,IAAI,CAAC,eAAe,GAAG,OAAO,CAAA;YAChC,CAAC;YACD,IAAI,CAAC,SAAS,CAAC,IAAI,EAAE,IAAI,CAAC,YAAY,CAAC,EAAE,CAAC;gBACxC,IAAI,CAAC,YAAY,GAAG,IAAI,CAAA;YAC1B,CAAC;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,gBAAgB;YAClB,OAAO,mBAAmB,CAAA;QAC5B,CAAC;QAED;;WAEG;QACH,IAAI,cAAc;YAChB,MAAM,UAAU,GAAG,OAAO,CAAC,IAAI,EAAE,CAAC,UAAU,CAAC,CAAC,IAAI,EAAE,CAAA;YACpD,MAAM,MAAM,GAAG,UAA6C,CAAA;YAE5D,OAAO,IAAI,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,CAC1C;gBACE,GAAG,MAAM;gBACT,IAAI,EAAE,mBAAmB;aAC1B,EACD,MAAM,CAAC,IAAI,CAAC,CACb,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SAEF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,IAAI;YACN,OAAO,IAAI,CAAC,YAAY;gBACtB,CAAC,CAAC,SAAS,CAAC,IAAI,CAAC,YAAY,EAAE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC;oBAC3C,yEAAyE;qBACxE,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;qBAC9B,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,MAAM,IAAI,CAAC,EAAE,CAAC,CAAC,IAAI,CAAC,MAAM,IAAI,CAAC,CAAC,CAAC;gBACtE,CAAC,CAAC,SAAS,CAAA;QACf,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;;WAGG;QACH,IAAI,SAAS;YACX,MAAM,CAAC,GAAG,IAAI,CAAC,IAAI,CAAA;YACnB,IAAI,CAAC,EAAE,CAAC;gBACN,MAAM,KAAK,GAAG,IAAI,CAAC,aAAa,CAAA;gBAChC,MAAM,KAAK,GAAG,OAAO,EAAe;qBACjC,IAAI,CAAC,CAAC,IAAI,CAAC,WAAW,EAAE,KAAK,CAAC,CAAC;qBAC/B,UAAU,CAAC,GAAG,EAAE,CAAC,CAAC,CAAC,CAAA;gBACtB,KAAK,CAAC,CAAC,CAAC,CAAA;gBACR,WAAW,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,EAAE,KAAK,GAAG,SAAS,CAAC,CAAC,CAAC,CAAC,CAAA;gBACzD,OAAO,CAAwC,CAAA;YACjD,CAAC;iBAAM,CAAC;gBACN,OAAO,SAAS,CAAA;YAClB,CAAC;QACH,CAAC;QACD;;WAEG;QACH,IAAI,OAAO;YACT,OAAO,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,SAAS,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,eAAe,CAAA;QACxE,CAAC;QACD;;WAEG;QACH,IAAI,WAAW;YACb,OAAO,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,CAAA;QAChE,CAAC;QACD;;WAEG;QACH,IAAI,MAAM;YACR,OAAO,IAAI,CAAC,IAAI,EAAE,MAAM,EAAE,CAAA;QAC5B,CAAC;QACD;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,MAAM,EAAE,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QAC3C,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM;QACJ,6DAA6D;QAC7D,cAAc,EAAE,mBAAmB;QACnC,6DAA6D;QAC7D,WAAW,EAAE,gBAAgB,GAC9B,GAAG,IAAI,CAAA;QACR,OAAO;YACL;;eAEG;YACH,IAAI,SAAS;gBACX,OAAO,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAAA;YAChD,CAAC;YACD;;eAEG;YACH,WAAW;gBACT,MAAM,EACJ,cAAc,EACd,cAAc,EACd,OAAO,EACP,SAAS,EACT,aAAa,EACb,iBAAiB,GAClB,GAAG,IAAI,CAAA;gBACR,MAAM,CAAC,GAAG,gBAAgB,EAAE,CAAA;gBAC5B,OAAO;oBACL,GAAG,CAAC;oBACJ,QAAQ,EACN,CAAC,CAAC,IAAI,CAAC,eAAe,IAAI,CAAC,IAAI,CAAC,YAAY,CAAC,IAAI,KAAK,CAAC,QAAQ;oBACjE,MAAM,EAAE,cAAc;oBACtB,OAAO;oBACP,SAAS;oBACT,aAAa;oBACb,cAAc;oBACd,iBAAiB;iBAClB,CAAA;YACH,CAAC;YACD;;eAEG;YACH,cAAc;gBACZ,OAAO;oBACL,GAAG,mBAAmB,EAAE;oBACxB;wBACE,KAAK,EAAE,oBAAoB;wBAC3B,IAAI,EAAE,SAAS;wBACf,OAAO,EAAE;4BACP;gCACE,KAAK,EAAE,QAAQ;gCACf,OAAO,EAAE,GAAG,EAAE;oCACZ,IAAI,CAAC,YAAY,CAAC,EAAE,CAAC,CAAA;oCACrB,IAAI,CAAC,gBAAgB,CAAC,GAAG,CAAC,CAAA;gCAC5B,CAAC;6BACF;4BACD;gCACE,KAAK,EAAE,SAAS;gCAChB,OAAO,EAAE,GAAG,EAAE;oCACZ,IAAI,CAAC,YAAY,CAAC,CAAC,CAAC,CAAA;oCACpB,IA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|
|
@@ -2,7 +2,7 @@ import { createJBrowseTheme } from '@jbrowse/core/ui';
|
|
|
2
2
|
import { featureSpanPx } from '@jbrowse/core/util';
|
|
3
3
|
import { fillRect, getCharWidthHeight, getColorBaseMap, getContrastBaseMap, } from './util';
|
|
4
4
|
export function makeImageData({ ctx, renderArgs, }) {
|
|
5
|
-
const { regions, bpPerPx, rowHeight, showAllLetters, theme: configTheme, mismatchRendering, samples, rowProportion, features,
|
|
5
|
+
const { regions, bpPerPx, rowHeight, showAllLetters, theme: configTheme, mismatchRendering, samples, rowProportion, features, } = renderArgs;
|
|
6
6
|
const region = regions[0];
|
|
7
7
|
const canvasWidth = (region.end - region.start) / bpPerPx;
|
|
8
8
|
const h = rowHeight * rowProportion;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"makeImageData.js","sourceRoot":"","sources":["../../src/LinearMafRenderer/makeImageData.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,kBAAkB,EAAE,MAAM,kBAAkB,CAAA;AACrD,OAAO,EAAW,aAAa,EAAE,MAAM,oBAAoB,CAAA;AAE3D,OAAO,EACL,QAAQ,EACR,kBAAkB,EAClB,eAAe,EACf,kBAAkB,GACnB,MAAM,QAAQ,CAAA;AAgBf,MAAM,UAAU,aAAa,CAAC,EAC5B,GAAG,EACH,UAAU,GAIX;IACC,MAAM,EACJ,OAAO,EACP,OAAO,EACP,SAAS,EACT,cAAc,EACd,KAAK,EAAE,WAAW,EAClB,iBAAiB,EACjB,OAAO,EACP,aAAa,EACb,QAAQ,
|
|
1
|
+
{"version":3,"file":"makeImageData.js","sourceRoot":"","sources":["../../src/LinearMafRenderer/makeImageData.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,kBAAkB,EAAE,MAAM,kBAAkB,CAAA;AACrD,OAAO,EAAW,aAAa,EAAE,MAAM,oBAAoB,CAAA;AAE3D,OAAO,EACL,QAAQ,EACR,kBAAkB,EAClB,eAAe,EACf,kBAAkB,GACnB,MAAM,QAAQ,CAAA;AAgBf,MAAM,UAAU,aAAa,CAAC,EAC5B,GAAG,EACH,UAAU,GAIX;IACC,MAAM,EACJ,OAAO,EACP,OAAO,EACP,SAAS,EACT,cAAc,EACd,KAAK,EAAE,WAAW,EAClB,iBAAiB,EACjB,OAAO,EACP,aAAa,EACb,QAAQ,GACT,GAAG,UAAU,CAAA;IACd,MAAM,MAAM,GAAG,OAAO,CAAC,CAAC,CAAE,CAAA;IAC1B,MAAM,WAAW,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;IACzD,MAAM,CAAC,GAAG,SAAS,GAAG,aAAa,CAAA;IACnC,MAAM,KAAK,GAAG,kBAAkB,CAAC,WAAW,CAAC,CAAA;IAC7C,MAAM,YAAY,GAAG,eAAe,CAAC,KAAK,CAAC,CAAA;IAC3C,MAAM,eAAe,GAAG,kBAAkB,CAAC,KAAK,CAAC,CAAA;IAEjD,MAAM,EAAE,UAAU,EAAE,GAAG,kBAAkB,EAAE,CAAA;IAC3C,MAAM,cAAc,GAAG,IAAI,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;IAChE,MAAM,KAAK,GAAG,CAAC,GAAG,OAAO,CAAA;IACzB,MAAM,CAAC,GAAG,GAAG,CAAA;IACb,MAAM,EAAE,GAAG,SAAS,GAAG,CAAC,CAAA;IACxB,MAAM,GAAG,GAAG,CAAC,GAAG,CAAC,CAAA;IACjB,MAAM,MAAM,GAAG,CAAC,SAAS,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;IAElC,uBAAuB;IACvB,GAAG,CAAC,IAAI,GAAG,iCAAiC,CAAA;IAE5C,KAAK,MAAM,OAAO,IAAI,QAAQ,CAAC,MAAM,EAAE,EAAE,CAAC;QACxC,MAAM,CAAC,MAAM,CAAC,GAAG,aAAa,CAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,CAAA;QACxD,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,YAAY,CAAqC,CAAA;QAC1E,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,WAAW,EAAE,CAAA;QAC5C,MAAM,CAAC,GAAG,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,CAAA;QAC9B,KAAK,MAAM,CAAC,MAAM,EAAE,GAAG,CAAC,IAAI,CAAC,EAAE,CAAC;YAC9B,MAAM,aAAa,GAAG,GAAG,CAAC,IAAI,CAAA;YAC9B,MAAM,SAAS,GAAG,aAAa,CAAC,WAAW,EAAE,CAAA;YAE7C,MAAM,GAAG,GAAG,cAAc,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YACtC,IAAI,GAAG,KAAK,SAAS,EAAE,CAAC;gBACtB,SAAQ;YACV,CAAC;YAED,MAAM,CAAC,GAAG,SAAS,GAAG,GAAG,CAAA;YAEzB,OAAO;YACP,GAAG,CAAC,SAAS,EAAE,CAAA;YACf,GAAG,CAAC,SAAS,GAAG,OAAO,CAAA;YACvB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;gBACjD,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;oBACnB,IAAI,SAAS,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;wBACzB,MAAM,CAAC,GAAG,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;wBAC5B,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;wBACrB,GAAG,CAAC,MAAM,CAAC,CAAC,GAAG,KAAK,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;oBACnC,CAAC;oBACD,CAAC,EAAE,CAAA;gBACL,CAAC;YACH,CAAC;YACD,GAAG,CAAC,MAAM,EAAE,CAAA;YAEZ,IAAI,CAAC,cAAc,EAAE,CAAC;gBACpB,UAAU;gBACV,GAAG,CAAC,SAAS,GAAG,WAAW,CAAA;gBAC3B,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;oBACjD,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;wBACnB,MAAM,CAAC,GAAG,SAAS,CAAC,CAAC,CAAC,CAAA;wBACtB,MAAM,CAAC,GAAG,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;wBAC5B,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,GAAG,EAAE,CAAC;4BAC9B,QAAQ,CAAC,GAAG,EAAE,CAAC,EAAE,MAAM,GAAG,CAAC,EAAE,KAAK,GAAG,CAAC,EAAE,CAAC,EAAE,WAAW,CAAC,CAAA;wBACzD,CAAC;wBACD,CAAC,EAAE,CAAA;oBACL,CAAC;gBACH,CAAC;YACH,CAAC;YAED,aAAa;YACb,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;gBACjD,MAAM,CAAC,GAAG,SAAS,CAAC,CAAC,CAAC,CAAA;gBACtB,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;oBACnB,IAAI,CAAC,KAAK,GAAG,EAAE,CAAC;wBACd,MAAM,CAAC,GAAG,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;wBAC5B,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,GAAG,EAAE,CAAC;4BAC9B,QAAQ,CACN,GAAG,EACH,CAAC,EACD,MAAM,GAAG,CAAC,EACV,KAAK,GAAG,CAAC,EACT,CAAC,EACD,WAAW,EACX,iBAAiB;gCACf,CAAC,CAAC,uEAAuE;oCACvE,CAAC,YAAY,CAAC,CAA8B,CAAC,IAAI,OAAO,CAAC;gCAC3D,CAAC,CAAC,QAAQ,CACb,CAAA;wBACH,CAAC;6BAAM,IAAI,cAAc,EAAE,CAAC;4BAC1B,QAAQ,CACN,GAAG,EACH,CAAC,EACD,MAAM,GAAG,CAAC,EACV,KAAK,GAAG,CAAC,EACT,CAAC,EACD,WAAW,EACX,iBAAiB;gCACf,CAAC,CAAC,uEAAuE;oCACvE,CAAC,YAAY,CAAC,CAA8B,CAAC,IAAI,OAAO,CAAC;gCAC3D,CAAC,CAAC,WAAW,CAChB,CAAA;wBACH,CAAC;oBACH,CAAC;oBACD,CAAC,EAAE,CAAA;gBACL,CAAC;YACH,CAAC;YAED,OAAO;YACP,MAAM,SAAS,GAAG,EAAE,CAAA;YACpB,IAAI,KAAK,IAAI,SAAS,EAAE,CAAC;gBACvB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;oBACjD,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;wBACnB,MAAM,CAAC,GAAG,MAAM,GAAG,KAAK,GAAG,CAAC,CAAA;wBAC5B,MAAM,MAAM,GAAG,CAAC,KAAK,GAAG,SAAS,CAAC,GAAG,CAAC,GAAG,CAAC,CAAA;wBAC1C,MAAM,CAAC,GAAG,SAAS,CAAC,CAAC,CAAE,CAAA;wBACvB,IAAI,CAAC,cAAc,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,IAAI,CAAC,KAAK,GAAG,EAAE,CAAC;4BAClD,GAAG,CAAC,SAAS,GAAG,iBAAiB;gCAC/B,CAAC,CAAC,CAAC,eAAe,CAAC,CAAC,CAAC,IAAI,OAAO,CAAC;gCACjC,CAAC,CAAC,OAAO,CAAA;4BACX,IAAI,SAAS,GAAG,UAAU,EAAE,CAAC;gCAC3B,GAAG,CAAC,QAAQ,CAAC,aAAa,CAAC,CAAC,CAAC,IAAI,EAAE,EAAE,CAAC,GAAG,MAAM,EAAE,GAAG,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;4BAC/D,CAAC;wBACH,CAAC;wBACD,CAAC,EAAE,CAAA;oBACL,CAAC;gBACH,CAAC;YACH,CAAC;QACH,CAAC;IACH,CAAC;IAED,mEAAmE;IACnE,uDAAuD;IACvD,KAAK,MAAM,OAAO,IAAI,QAAQ,CAAC,MAAM,EAAE,EAAE,CAAC;QACxC,MAAM,CAAC,MAAM,CAAC,GAAG,aAAa,CAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,CAAA;QACxD,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,YAAY,CAAqC,CAAA;QAC1E,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,WAAW,EAAE,CAAA;QAE5C,KAAK,MAAM,CAAC,MAAM,EAAE,GAAG,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC;YACjD,MAAM,aAAa,GAAG,GAAG,CAAC,IAAI,CAAA;YAC9B,MAAM,SAAS,GAAG,aAAa,CAAC,WAAW,EAAE,CAAA;YAC7C,MAAM,GAAG,GAAG,cAAc,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YACtC,IAAI,GAAG,KAAK,SAAS,EAAE,CAAC;gBACtB,SAAQ;YACV,CAAC;YAED,MAAM,CAAC,GAAG,SAAS,GAAG,GAAG,CAAA;YAEzB,GAAG,CAAC,SAAS,EAAE,CAAA;YACf,GAAG,CAAC,SAAS,GAAG,QAAQ,CAAA;YACxB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;gBACjD,IAAI,GAAG,GAAG,EAAE,CAAA;gBACZ,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;oBACtB,IAAI,SAAS,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,SAAS,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;wBACjD,GAAG,IAAI,SAAS,CAAC,CAAC,CAAC,CAAA;oBACrB,CAAC;oBACD,CAAC,EAAE,CAAA;gBACL,CAAC;gBACD,IAAI,GAAG,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;oBACnB,MAAM,CAAC,GAAG,MAAM,GAAG,KAAK,GAAG,CAAC,GAAG,CAAC,CAAA;oBAEhC,GAAG,CAAC,IAAI,CAAC,CAAC,EAAE,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,CAAA;oBAC7B,IAAI,OAAO,GAAG,CAAC,EAAE,CAAC;wBAChB,GAAG,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,EAAE,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,CAAA;wBACjC,GAAG,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,EAAE,MAAM,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,CAAA;oBAC3C,CAAC;gBACH,CAAC;gBACD,CAAC,EAAE,CAAA;YACL,CAAC;YACD,GAAG,CAAC,IAAI,EAAE,CAAA;QACZ,CAAC;IACH,CAAC;AACH,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"util.js","sourceRoot":"","sources":["../../src/LinearMafRenderer/util.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAA;
|
|
1
|
+
{"version":3,"file":"util.js","sourceRoot":"","sources":["../../src/LinearMafRenderer/util.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAA;AAIhD,MAAM,UAAU,kBAAkB,CAAC,KAAY;IAC7C,OAAO,MAAM,CAAC,WAAW,CACvB,MAAM,CAAC,OAAO,CAAC,eAAe,CAAC,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC;QAC3D,GAAG;QACH,KAAK,CAAC,OAAO,CAAC,eAAe,CAAC,KAAK,CAAC;KACrC,CAAC,CACH,CAAA;AACH,CAAC;AAED,MAAM,UAAU,eAAe,CAAC,KAAY;IAC1C,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAC,OAAO,CAAA;IAC/B,OAAO;QACL,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;QACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;QACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;QACf,CAAC,EAAE,KAAK,CAAC,CAAC,CAAC,IAAI;KAChB,CAAA;AACH,CAAC;AAED,MAAM,UAAU,QAAQ,CACtB,GAA6B,EAC7B,CAAS,EACT,CAAS,EACT,CAAS,EACT,CAAS,EACT,EAAU,EACV,KAAc;IAEd,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,EAAE,EAAE,CAAC;QACxB,OAAM;IACR,CAAC;IACD,IAAI,KAAK,EAAE,CAAC;QACV,GAAG,CAAC,SAAS,GAAG,KAAK,CAAA;IACvB,CAAC;IACD,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,CAAC,CAAC,CAAA;AAC1B,CAAC;AAED,+EAA+E;AAC/E,8BAA8B;AAC9B,MAAM,UAAU,kBAAkB;IAChC,MAAM,SAAS,GAAG,WAAW,CAAC,GAAG,CAAC,CAAA;IAClC,MAAM,UAAU,GAAG,WAAW,CAAC,GAAG,CAAC,GAAG,CAAC,CAAA;IACvC,OAAO,EAAE,SAAS,EAAE,UAAU,EAAE,CAAA;AAClC,CAAC"}
|
|
@@ -53,6 +53,7 @@ export default class MafTabixAdapter extends BaseFeatureDataAdapter {
|
|
|
53
53
|
for (const feature of features) {
|
|
54
54
|
const data = feature.get('field5').split(',');
|
|
55
55
|
const alignments = {};
|
|
56
|
+
// eslint-disable-next-line @typescript-eslint/prefer-for-of
|
|
56
57
|
for (let j = 0; j < data.length; j++) {
|
|
57
58
|
const elt = data[j];
|
|
58
59
|
const seq = elt.split(':')[5];
|
|
@@ -85,12 +86,6 @@ export default class MafTabixAdapter extends BaseFeatureDataAdapter {
|
|
|
85
86
|
};
|
|
86
87
|
}
|
|
87
88
|
}
|
|
88
|
-
console.log({
|
|
89
|
-
alignments,
|
|
90
|
-
firstAssemblyNameFound,
|
|
91
|
-
refAssemblyName,
|
|
92
|
-
q: query.assemblyName,
|
|
93
|
-
}, alignments[refAssemblyName], alignments[query.assemblyName], alignments[firstAssemblyNameFound]);
|
|
94
89
|
observer.next(new SimpleFeature({
|
|
95
90
|
id: feature.id(),
|
|
96
91
|
data: {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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