@jbrowse/plugin-config 2.2.1 → 2.3.0
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/FromConfigAdapter/{fromConfig.d.ts → configSchema.d.ts} +0 -0
- package/dist/FromConfigAdapter/{fromConfig.js → configSchema.js} +1 -1
- package/dist/FromConfigAdapter/configSchema.js.map +1 -0
- package/dist/FromConfigAdapter/index.d.ts +3 -6
- package/dist/FromConfigAdapter/index.js +35 -13
- package/dist/FromConfigAdapter/index.js.map +1 -1
- package/dist/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.d.ts +0 -0
- package/dist/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.js +1 -1
- package/dist/FromConfigRegionsAdapter/FromConfigRegionsAdapter.js.map +1 -0
- package/dist/{FromConfigAdapter/fromConfigRegions.d.ts → FromConfigRegionsAdapter/configSchema.d.ts} +0 -0
- package/dist/{FromConfigAdapter/fromConfigRegions.js → FromConfigRegionsAdapter/configSchema.js} +1 -1
- package/dist/FromConfigRegionsAdapter/configSchema.js.map +1 -0
- package/dist/FromConfigRegionsAdapter/index.d.ts +3 -0
- package/dist/FromConfigRegionsAdapter/index.js +41 -0
- package/dist/FromConfigRegionsAdapter/index.js.map +1 -0
- package/{esm/FromConfigAdapter → dist/FromConfigSequenceAdapter}/FromConfigSequenceAdapter.d.ts +2 -2
- package/dist/{FromConfigAdapter → FromConfigSequenceAdapter}/FromConfigSequenceAdapter.js +3 -2
- package/dist/FromConfigSequenceAdapter/FromConfigSequenceAdapter.js.map +1 -0
- package/dist/{FromConfigAdapter/fromConfigSequence.d.ts → FromConfigSequenceAdapter/configSchema.d.ts} +0 -0
- package/dist/{FromConfigAdapter/fromConfigSequence.js → FromConfigSequenceAdapter/configSchema.js} +1 -1
- package/dist/FromConfigSequenceAdapter/configSchema.js.map +1 -0
- package/dist/FromConfigSequenceAdapter/index.d.ts +3 -0
- package/dist/FromConfigSequenceAdapter/index.js +41 -0
- package/dist/FromConfigSequenceAdapter/index.js.map +1 -0
- package/dist/RefNameAliasAdapter/index.d.ts +3 -2
- package/dist/RefNameAliasAdapter/index.js +35 -5
- package/dist/RefNameAliasAdapter/index.js.map +1 -1
- package/dist/index.js +8 -47
- package/dist/index.js.map +1 -1
- package/esm/FromConfigAdapter/{fromConfig.d.ts → configSchema.d.ts} +0 -0
- package/esm/FromConfigAdapter/{fromConfig.js → configSchema.js} +1 -1
- package/esm/FromConfigAdapter/configSchema.js.map +1 -0
- package/esm/FromConfigAdapter/index.d.ts +3 -6
- package/esm/FromConfigAdapter/index.js +12 -6
- package/esm/FromConfigAdapter/index.js.map +1 -1
- package/esm/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.d.ts +0 -0
- package/esm/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.js +1 -1
- package/esm/FromConfigRegionsAdapter/FromConfigRegionsAdapter.js.map +1 -0
- package/esm/{FromConfigAdapter/fromConfigRegions.d.ts → FromConfigRegionsAdapter/configSchema.d.ts} +0 -0
- package/esm/{FromConfigAdapter/fromConfigRegions.js → FromConfigRegionsAdapter/configSchema.js} +1 -1
- package/esm/FromConfigRegionsAdapter/configSchema.js.map +1 -0
- package/esm/FromConfigRegionsAdapter/index.d.ts +3 -0
- package/esm/FromConfigRegionsAdapter/index.js +13 -0
- package/esm/FromConfigRegionsAdapter/index.js.map +1 -0
- package/{dist/FromConfigAdapter → esm/FromConfigSequenceAdapter}/FromConfigSequenceAdapter.d.ts +2 -2
- package/esm/{FromConfigAdapter → FromConfigSequenceAdapter}/FromConfigSequenceAdapter.js +3 -2
- package/esm/FromConfigSequenceAdapter/FromConfigSequenceAdapter.js.map +1 -0
- package/esm/{FromConfigAdapter/fromConfigSequence.d.ts → FromConfigSequenceAdapter/configSchema.d.ts} +0 -0
- package/esm/{FromConfigAdapter/fromConfigSequence.js → FromConfigSequenceAdapter/configSchema.js} +1 -1
- package/esm/FromConfigSequenceAdapter/configSchema.js.map +1 -0
- package/esm/FromConfigSequenceAdapter/index.d.ts +3 -0
- package/esm/FromConfigSequenceAdapter/index.js +13 -0
- package/esm/FromConfigSequenceAdapter/index.js.map +1 -0
- package/esm/RefNameAliasAdapter/index.d.ts +3 -2
- package/esm/RefNameAliasAdapter/index.js +12 -2
- package/esm/RefNameAliasAdapter/index.js.map +1 -1
- package/esm/index.js +8 -47
- package/esm/index.js.map +1 -1
- package/package.json +4 -5
- package/src/ConfigurationEditorWidget/components/__snapshots__/ConfigurationEditor.test.tsx.snap +1 -1
- package/src/FromConfigAdapter/FromConfigAdapter.test.ts +1 -1
- package/src/FromConfigAdapter/{fromConfig.ts → configSchema.ts} +0 -0
- package/src/FromConfigAdapter/index.ts +18 -6
- package/src/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.test.ts +1 -1
- package/src/{FromConfigAdapter → FromConfigRegionsAdapter}/FromConfigRegionsAdapter.ts +2 -1
- package/src/{FromConfigAdapter/fromConfigRegions.ts → FromConfigRegionsAdapter/configSchema.ts} +0 -0
- package/src/FromConfigRegionsAdapter/index.ts +18 -0
- package/src/{FromConfigAdapter → FromConfigSequenceAdapter}/FromConfigSequenceAdapter.test.ts +1 -1
- package/src/{FromConfigAdapter → FromConfigSequenceAdapter}/FromConfigSequenceAdapter.ts +4 -2
- package/src/{FromConfigAdapter/fromConfigSequence.ts → FromConfigSequenceAdapter/configSchema.ts} +0 -0
- package/src/FromConfigSequenceAdapter/index.ts +19 -0
- package/src/RefNameAliasAdapter/index.ts +19 -2
- package/src/index.ts +8 -75
- package/dist/FromConfigAdapter/FromConfigRegionsAdapter.js.map +0 -1
- package/dist/FromConfigAdapter/FromConfigSequenceAdapter.js.map +0 -1
- package/dist/FromConfigAdapter/fromConfig.js.map +0 -1
- package/dist/FromConfigAdapter/fromConfigRegions.js.map +0 -1
- package/dist/FromConfigAdapter/fromConfigSequence.js.map +0 -1
- package/esm/FromConfigAdapter/FromConfigRegionsAdapter.js.map +0 -1
- package/esm/FromConfigAdapter/FromConfigSequenceAdapter.js.map +0 -1
- package/esm/FromConfigAdapter/fromConfig.js.map +0 -1
- package/esm/FromConfigAdapter/fromConfigRegions.js.map +0 -1
- package/esm/FromConfigAdapter/fromConfigSequence.js.map +0 -1
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@@ -15,4 +15,4 @@ const configSchema = (0, configuration_1.ConfigurationSchema)('FromConfigAdapter
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},
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exports.default = configSchema;
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{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,IAAA,mCAAmB,EACtC,mBAAmB,EACnB;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,kBAAe,YAAY,CAAA"}
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export { default as configSchema } from './fromConfig';
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export { default as regionsConfigSchema } from './fromConfig';
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export { default as sequenceConfigSchema } from './fromConfigSequence';
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Object.defineProperty(exports, "sequenceConfigSchema", { enumerable: true, get: function () { return __importDefault(fromConfigSequence_1).default; } });
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const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
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const configSchema_1 = __importDefault(require("./configSchema"));
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exports.default = (pluginManager) => {
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pluginManager.addAdapterType(() => new pluggableElementTypes_1.AdapterType({
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name: 'FromConfigAdapter',
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configSchema: configSchema_1.default,
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getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./FromConfigAdapter'))).then(r => r.default),
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adapterMetadata: {
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hiddenFromGUI: true,
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}));
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};
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/index.ts"],"names":[],"mappings":"
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+EAAiE;AAEjE,kEAAyC;AAEzC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,mCAAW,CAAC;QACd,IAAI,EAAE,mBAAmB;QACzB,YAAY,EAAZ,sBAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,kDAAO,qBAAqB,IAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QACpD,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
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const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
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const FromConfigAdapter_1 = __importDefault(require("../FromConfigAdapter/FromConfigAdapter"));
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* Adapter that just returns the features defined in its `features` configuration
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{"version":3,"file":"FromConfigRegionsAdapter.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/FromConfigRegionsAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAKhD,+DAGoC;AAIpC,+FAAsE;AAEtE;;;;GAIG;AACH,MAAqB,wBACnB,SAAQ,yBAAW;IAKnB,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,IAAA,8BAAc,EAC7B,MAAM,EACN,UAAU,CACkB,CAAA;QAC9B,IAAI,CAAC,QAAQ,GAAG,2BAAiB,CAAC,YAAY,CAAC,QAAQ,IAAI,EAAE,CAAC,CAAA;IAChE,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,8BAA8B;QAC9B,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAA;QAE1D,OAAO,OAAO,CAAA;IAChB,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AA1DD,2CA0DC"}
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package/dist/{FromConfigAdapter/fromConfigRegions.d.ts → FromConfigRegionsAdapter/configSchema.d.ts}
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{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,mBAAmB,GAAG,IAAA,mCAAmB,EAC7C,0BAA0B,EAC1B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD;IACE,eAAe,EAAE,IAAI;IACrB,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AACD,kBAAe,mBAAmB,CAAA"}
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+EAAiE;AAEjE,kEAAyC;AAEzC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,mCAAW,CAAC;QACd,IAAI,EAAE,0BAA0B;QAChC,YAAY,EAAZ,sBAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,kDAAO,4BAA4B,IAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QAC3D,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
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|
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|
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// locals
|
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|
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const FromConfigAdapter_1 = __importDefault(require("../FromConfigAdapter/FromConfigAdapter"));
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|
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|
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|
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|
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|
|
@@ -62,7 +63,7 @@ class FromConfigSequenceAdapter extends FromConfigAdapter_1.default {
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/**
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|
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|
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|
freeResources( /* { region } */) { }
|
|
@@ -0,0 +1 @@
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1
|
+
{"version":3,"file":"FromConfigSequenceAdapter.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/FromConfigSequenceAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qFAAyE;AACzE,kDAA0D;AAE1D,8CAAwC;AAGxC,SAAS;AACT,+FAAsE;AAEtE,MAAqB,yBACnB,SAAQ,2BAAiB;IAGzB;;;;OAIG;IACH,WAAW,CAAC,MAAwB;QAClC,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,KAAK,GAAG,MAAM,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,SAAS,EAAE,CAAA;YACzE,MAAM,IAAI,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YACrB,QAAQ,CAAC,IAAI,CACX,IAAI,uBAAa,CAAC;gBAChB,GAAG,IAAI,CAAC,MAAM,EAAE;gBAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,EAAE,IAAI,MAAM,CAAC,KAAK,IAAI,MAAM,CAAC,GAAG,EAAE;gBACtD,GAAG,EAAE,MAAM,CAAC,GAAG;gBACf,KAAK,EAAE,MAAM,CAAC,KAAK;gBACnB,GAAG,EAAE,IAAI;qBACN,GAAG,CAAC,KAAK,CAAC;qBACV,KAAK,CACJ,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,EAC7C,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,CAC5C;aACJ,CAAC,CACH,CAAA;YAED,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,CAAC,CAAA;IACJ,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,OAAO,OAAO,CAAA;IAChB,CAAC;IAED;;;;OAIG;IACH,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AAzED,4CAyEC"}
|
|
File without changes
|
package/dist/{FromConfigAdapter/fromConfigSequence.js → FromConfigSequenceAdapter/configSchema.js}
RENAMED
|
@@ -15,4 +15,4 @@ const sequenceConfigSchema = (0, configuration_1.ConfigurationSchema)('FromConfi
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},
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exports.default = sequenceConfigSchema;
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//# sourceMappingURL=
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//# sourceMappingURL=configSchema.js.map
|
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@@ -0,0 +1 @@
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1
|
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{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,oBAAoB,GAAG,IAAA,mCAAmB,EAC9C,2BAA2B,EAC3B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,kBAAe,oBAAoB,CAAA"}
|
|
@@ -0,0 +1,41 @@
|
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1
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+
"use strict";
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var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
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|
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|
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var __importStar = (this && this.__importStar) || function (mod) {
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if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
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__setModuleDefault(result, mod);
|
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return result;
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};
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Object.defineProperty(exports, "__esModule", { value: true });
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const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
|
|
30
|
+
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
31
|
+
exports.default = (pluginManager) => {
|
|
32
|
+
pluginManager.addAdapterType(() => new pluggableElementTypes_1.AdapterType({
|
|
33
|
+
name: 'FromConfigSequenceAdapter',
|
|
34
|
+
configSchema: configSchema_1.default,
|
|
35
|
+
getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./FromConfigSequenceAdapter'))).then(r => r.default),
|
|
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+
adapterMetadata: {
|
|
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|
+
hiddenFromGUI: true,
|
|
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},
|
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}));
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};
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//# sourceMappingURL=index.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+EAAiE;AAGjE,kEAAyC;AAEzC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,mCAAW,CAAC;QACd,IAAI,EAAE,2BAA2B;QACjC,YAAY,EAAZ,sBAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,kDAAO,6BAA6B,IAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QAC5D,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
|
@@ -1,2 +1,3 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
1
|
+
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
+
declare const _default: (pluginManager: PluginManager) => void;
|
|
3
|
+
export default _default;
|
|
@@ -1,11 +1,41 @@
|
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|
1
1
|
"use strict";
|
|
2
|
+
var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
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|
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if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
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|
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}
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|
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9
|
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}) : (function(o, m, k, k2) {
|
|
10
|
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if (k2 === undefined) k2 = k;
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|
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|
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|
|
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}));
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|
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var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
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|
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Object.defineProperty(o, "default", { enumerable: true, value: v });
|
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|
+
}) : function(o, v) {
|
|
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|
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o["default"] = v;
|
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|
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});
|
|
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|
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var __importStar = (this && this.__importStar) || function (mod) {
|
|
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|
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|
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|
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__setModuleDefault(result, mod);
|
|
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|
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return result;
|
|
24
|
+
};
|
|
2
25
|
var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
3
26
|
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|
|
4
27
|
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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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const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
|
|
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|
+
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
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|
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exports.default = (pluginManager) => {
|
|
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|
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pluginManager.addAdapterType(() => new pluggableElementTypes_1.AdapterType({
|
|
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|
+
name: 'RefNameAliasAdapter',
|
|
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|
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configSchema: configSchema_1.default,
|
|
35
|
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getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./RefNameAliasAdapter'))).then(r => r.default),
|
|
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|
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adapterMetadata: {
|
|
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|
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hiddenFromGUI: true,
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|
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|
+
},
|
|
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|
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}));
|
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|
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};
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//# sourceMappingURL=index.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/RefNameAliasAdapter/index.ts"],"names":[],"mappings":"
|
|
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|
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/RefNameAliasAdapter/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+EAAiE;AAGjE,kEAAyC;AAEzC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,mCAAW,CAAC;QACd,IAAI,EAAE,qBAAqB;QAC3B,YAAY,EAAZ,sBAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,kDAAO,uBAAuB,IAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QACtD,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
package/dist/index.js
CHANGED
|
@@ -28,12 +28,13 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
28
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|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
29
29
|
exports.ConfigurationEditor = exports.JsonEditor = void 0;
|
|
30
30
|
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|
|
31
|
-
const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
|
|
32
31
|
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|
|
33
32
|
const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
|
|
34
33
|
const ConfigurationEditorWidget_1 = require("./ConfigurationEditorWidget");
|
|
35
|
-
const FromConfigAdapter_1 = require("./FromConfigAdapter");
|
|
36
|
-
const
|
|
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|
+
const FromConfigAdapter_1 = __importDefault(require("./FromConfigAdapter"));
|
|
35
|
+
const FromConfigRegionsAdapter_1 = __importDefault(require("./FromConfigRegionsAdapter"));
|
|
36
|
+
const FromConfigSequenceAdapter_1 = __importDefault(require("./FromConfigSequenceAdapter"));
|
|
37
|
+
const RefNameAliasAdapter_1 = __importDefault(require("./RefNameAliasAdapter"));
|
|
37
38
|
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|
|
38
39
|
exports.ConfigurationEditor = LazyConfigurationEditorComponent;
|
|
39
40
|
class default_1 extends Plugin_1.default {
|
|
@@ -42,50 +43,10 @@ class default_1 extends Plugin_1.default {
|
|
|
42
43
|
this.name = 'ConfigurationPlugin';
|
|
43
44
|
}
|
|
44
45
|
install(pluginManager) {
|
|
45
|
-
|
|
46
|
-
|
|
47
|
-
|
|
48
|
-
|
|
49
|
-
adapterMetadata: {
|
|
50
|
-
category: null,
|
|
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|
-
hiddenFromGUI: true,
|
|
52
|
-
displayName: null,
|
|
53
|
-
description: null,
|
|
54
|
-
},
|
|
55
|
-
}));
|
|
56
|
-
pluginManager.addAdapterType(() => new AdapterType_1.default({
|
|
57
|
-
name: 'FromConfigRegionsAdapter',
|
|
58
|
-
configSchema: FromConfigAdapter_1.regionsConfigSchema,
|
|
59
|
-
getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./FromConfigAdapter/FromConfigRegionsAdapter'))).then(r => r.default),
|
|
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|
-
adapterMetadata: {
|
|
61
|
-
category: null,
|
|
62
|
-
hiddenFromGUI: true,
|
|
63
|
-
displayName: null,
|
|
64
|
-
description: null,
|
|
65
|
-
},
|
|
66
|
-
}));
|
|
67
|
-
pluginManager.addAdapterType(() => new AdapterType_1.default({
|
|
68
|
-
name: 'FromConfigSequenceAdapter',
|
|
69
|
-
configSchema: FromConfigAdapter_1.sequenceConfigSchema,
|
|
70
|
-
getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./FromConfigAdapter/FromConfigSequenceAdapter'))).then(r => r.default),
|
|
71
|
-
adapterMetadata: {
|
|
72
|
-
category: null,
|
|
73
|
-
hiddenFromGUI: true,
|
|
74
|
-
displayName: null,
|
|
75
|
-
description: null,
|
|
76
|
-
},
|
|
77
|
-
}));
|
|
78
|
-
pluginManager.addAdapterType(() => new AdapterType_1.default({
|
|
79
|
-
name: 'RefNameAliasAdapter',
|
|
80
|
-
configSchema: RefNameAliasAdapter_1.configSchema,
|
|
81
|
-
getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./RefNameAliasAdapter/RefNameAliasAdapter'))).then(r => r.default),
|
|
82
|
-
adapterMetadata: {
|
|
83
|
-
category: null,
|
|
84
|
-
hiddenFromGUI: true,
|
|
85
|
-
displayName: null,
|
|
86
|
-
description: null,
|
|
87
|
-
},
|
|
88
|
-
}));
|
|
46
|
+
(0, FromConfigAdapter_1.default)(pluginManager);
|
|
47
|
+
(0, FromConfigRegionsAdapter_1.default)(pluginManager);
|
|
48
|
+
(0, FromConfigSequenceAdapter_1.default)(pluginManager);
|
|
49
|
+
(0, RefNameAliasAdapter_1.default)(pluginManager);
|
|
89
50
|
pluginManager.addWidgetType(() => {
|
|
90
51
|
return new WidgetType_1.default({
|
|
91
52
|
name: 'ConfigurationEditorWidget',
|
package/dist/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,iCAA4B;AAC5B,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,iCAA4B;AAC5B,gGAAuE;AACvE,kEAAyC;AAEzC,2EAIoC;AACpC,4EAAoD;AACpD,0FAAkE;AAClE,4FAAoE;AACpE,gFAAwD;AAExD,MAAM,gCAAgC,GAAG,IAAA,YAAI,EAC3C,GAAG,EAAE,mDAAQ,4DAA4D,GAAC,CAC3E,CAAA;AAyB4C,+DAAmB;AAvBhE,eAAqB,SAAQ,gBAAM;IAAnC;;QACE,SAAI,GAAG,qBAAqB,CAAA;IAkB9B,CAAC;IAhBC,OAAO,CAAC,aAA4B;QAClC,IAAA,2BAAkB,EAAC,aAAa,CAAC,CAAA;QACjC,IAAA,kCAAyB,EAAC,aAAa,CAAC,CAAA;QACxC,IAAA,mCAA0B,EAAC,aAAa,CAAC,CAAA;QACzC,IAAA,6BAAoB,EAAC,aAAa,CAAC,CAAA;QAEnC,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,oBAAU,CAAC;gBACpB,IAAI,EAAE,2BAA2B;gBACjC,gBAAgB,EAAE,4CAAmC;gBACrD,YAAY,EAAE,wCAA+B;gBAC7C,UAAU,EAAE,IAAA,6CAAoC,EAAC,aAAa,CAAC;gBAC/D,cAAc,EAAE,gCAAgC;aACjD,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;IACJ,CAAC;CACF;AAnBD,4BAmBC;AAED,gFAAyF;AAAhF,yHAAA,OAAO,OAAc"}
|
|
File without changes
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,mBAAmB,CACtC,mBAAmB,EACnB;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,eAAe,YAAY,CAAA"}
|
|
@@ -1,6 +1,3 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
3
|
-
export
|
|
4
|
-
export { default as configSchema } from './fromConfig';
|
|
5
|
-
export { default as regionsConfigSchema } from './fromConfig';
|
|
6
|
-
export { default as sequenceConfigSchema } from './fromConfigSequence';
|
|
1
|
+
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
+
declare const _default: (pluginManager: PluginManager) => void;
|
|
3
|
+
export default _default;
|
|
@@ -1,7 +1,13 @@
|
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1
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-
|
|
2
|
-
|
|
3
|
-
export
|
|
4
|
-
|
|
5
|
-
|
|
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|
-
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
|
|
2
|
+
import configSchema from './configSchema';
|
|
3
|
+
export default (pluginManager) => {
|
|
4
|
+
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
|
+
name: 'FromConfigAdapter',
|
|
6
|
+
configSchema,
|
|
7
|
+
getAdapterClass: () => import('./FromConfigAdapter').then(r => r.default),
|
|
8
|
+
adapterMetadata: {
|
|
9
|
+
hiddenFromGUI: true,
|
|
10
|
+
},
|
|
11
|
+
}));
|
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12
|
+
};
|
|
7
13
|
//# sourceMappingURL=index.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAEjE,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,WAAW,CAAC;QACd,IAAI,EAAE,mBAAmB;QACzB,YAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,MAAM,CAAC,qBAAqB,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QACpD,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
|
File without changes
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
import { BaseAdapter, } from '@jbrowse/core/data_adapters/BaseAdapter';
|
|
2
2
|
import { readConfObject, } from '@jbrowse/core/configuration';
|
|
3
|
-
import FromConfigAdapter from '
|
|
3
|
+
import FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter';
|
|
4
4
|
/**
|
|
5
5
|
* Adapter that just returns the features defined in its `features` configuration
|
|
6
6
|
* key, like:
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"FromConfigRegionsAdapter.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/FromConfigRegionsAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,WAAW,GAEZ,MAAM,yCAAyC,CAAA;AAKhD,OAAO,EAEL,cAAc,GACf,MAAM,6BAA6B,CAAA;AAIpC,OAAO,iBAAiB,MAAM,wCAAwC,CAAA;AAEtE;;;;GAIG;AACH,MAAM,CAAC,OAAO,OAAO,wBACnB,SAAQ,WAAW;IAKnB,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,cAAc,CAC7B,MAAM,EACN,UAAU,CACkB,CAAA;QAC9B,IAAI,CAAC,QAAQ,GAAG,iBAAiB,CAAC,YAAY,CAAC,QAAQ,IAAI,EAAE,CAAC,CAAA;IAChE,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,8BAA8B;QAC9B,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAA;QAE1D,OAAO,OAAO,CAAA;IAChB,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC"}
|
package/esm/{FromConfigAdapter/fromConfigRegions.d.ts → FromConfigRegionsAdapter/configSchema.d.ts}
RENAMED
|
File without changes
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,mBAAmB,GAAG,mBAAmB,CAC7C,0BAA0B,EAC1B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD;IACE,eAAe,EAAE,IAAI;IACrB,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AACD,eAAe,mBAAmB,CAAA"}
|
|
@@ -0,0 +1,13 @@
|
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
|
|
2
|
+
import configSchema from './configSchema';
|
|
3
|
+
export default (pluginManager) => {
|
|
4
|
+
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
|
+
name: 'FromConfigRegionsAdapter',
|
|
6
|
+
configSchema,
|
|
7
|
+
getAdapterClass: () => import('./FromConfigRegionsAdapter').then(r => r.default),
|
|
8
|
+
adapterMetadata: {
|
|
9
|
+
hiddenFromGUI: true,
|
|
10
|
+
},
|
|
11
|
+
}));
|
|
12
|
+
};
|
|
13
|
+
//# sourceMappingURL=index.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigRegionsAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAEjE,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,WAAW,CAAC;QACd,IAAI,EAAE,0BAA0B;QAChC,YAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,MAAM,CAAC,4BAA4B,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QAC3D,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
package/{dist/FromConfigAdapter → esm/FromConfigSequenceAdapter}/FromConfigSequenceAdapter.d.ts
RENAMED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
import { Feature } from '@jbrowse/core/util/simpleFeature';
|
|
2
2
|
import { NoAssemblyRegion } from '@jbrowse/core/util/types';
|
|
3
|
-
import FromConfigAdapter from './FromConfigAdapter';
|
|
4
3
|
import { RegionsAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
|
|
4
|
+
import FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter';
|
|
5
5
|
export default class FromConfigSequenceAdapter extends FromConfigAdapter implements RegionsAdapter {
|
|
6
6
|
/**
|
|
7
7
|
* Fetch features for a certain region
|
|
@@ -19,7 +19,7 @@ export default class FromConfigSequenceAdapter extends FromConfigAdapter impleme
|
|
|
19
19
|
}[]>;
|
|
20
20
|
/**
|
|
21
21
|
* called to provide a hint that data tied to a certain region
|
|
22
|
-
* will not be needed for the
|
|
22
|
+
* will not be needed for the foreseeable future and can be purged
|
|
23
23
|
* from caches, etc
|
|
24
24
|
*/
|
|
25
25
|
freeResources(): void;
|
|
@@ -1,7 +1,8 @@
|
|
|
1
1
|
import SimpleFeature from '@jbrowse/core/util/simpleFeature';
|
|
2
2
|
import { ObservableCreate } from '@jbrowse/core/util/rxjs';
|
|
3
3
|
import { toArray } from 'rxjs/operators';
|
|
4
|
-
|
|
4
|
+
// locals
|
|
5
|
+
import FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter';
|
|
5
6
|
export default class FromConfigSequenceAdapter extends FromConfigAdapter {
|
|
6
7
|
/**
|
|
7
8
|
* Fetch features for a certain region
|
|
@@ -57,7 +58,7 @@ export default class FromConfigSequenceAdapter extends FromConfigAdapter {
|
|
|
57
58
|
}
|
|
58
59
|
/**
|
|
59
60
|
* called to provide a hint that data tied to a certain region
|
|
60
|
-
* will not be needed for the
|
|
61
|
+
* will not be needed for the foreseeable future and can be purged
|
|
61
62
|
* from caches, etc
|
|
62
63
|
*/
|
|
63
64
|
freeResources( /* { region } */) { }
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"FromConfigSequenceAdapter.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/FromConfigSequenceAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,aAA0B,MAAM,kCAAkC,CAAA;AACzE,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,OAAO,EAAE,MAAM,gBAAgB,CAAA;AAGxC,SAAS;AACT,OAAO,iBAAiB,MAAM,wCAAwC,CAAA;AAEtE,MAAM,CAAC,OAAO,OAAO,yBACnB,SAAQ,iBAAiB;IAGzB;;;;OAIG;IACH,WAAW,CAAC,MAAwB;QAClC,OAAO,gBAAgB,CAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,KAAK,GAAG,MAAM,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,OAAO,EAAE,CAAC,CAAC,SAAS,EAAE,CAAA;YACzE,MAAM,IAAI,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YACrB,QAAQ,CAAC,IAAI,CACX,IAAI,aAAa,CAAC;gBAChB,GAAG,IAAI,CAAC,MAAM,EAAE;gBAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,EAAE,IAAI,MAAM,CAAC,KAAK,IAAI,MAAM,CAAC,GAAG,EAAE;gBACtD,GAAG,EAAE,MAAM,CAAC,GAAG;gBACf,KAAK,EAAE,MAAM,CAAC,KAAK;gBACnB,GAAG,EAAE,IAAI;qBACN,GAAG,CAAC,KAAK,CAAC;qBACV,KAAK,CACJ,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,EAC7C,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,CAC5C;aACJ,CAAC,CACH,CAAA;YAED,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,CAAC,CAAA;IACJ,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,OAAO,OAAO,CAAA;IAChB,CAAC;IAED;;;;OAIG;IACH,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC"}
|
|
File without changes
|
package/esm/{FromConfigAdapter/fromConfigSequence.js → FromConfigSequenceAdapter/configSchema.js}
RENAMED
|
@@ -13,4 +13,4 @@ const sequenceConfigSchema = ConfigurationSchema('FromConfigSequenceAdapter', {
|
|
|
13
13
|
},
|
|
14
14
|
}, { explicitlyTyped: true, implicitIdentifier: 'adapterId' });
|
|
15
15
|
export default sequenceConfigSchema;
|
|
16
|
-
//# sourceMappingURL=
|
|
16
|
+
//# sourceMappingURL=configSchema.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,oBAAoB,GAAG,mBAAmB,CAC9C,2BAA2B,EAC3B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,eAAe,oBAAoB,CAAA"}
|
|
@@ -0,0 +1,13 @@
|
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
|
|
2
|
+
import configSchema from './configSchema';
|
|
3
|
+
export default (pluginManager) => {
|
|
4
|
+
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
|
+
name: 'FromConfigSequenceAdapter',
|
|
6
|
+
configSchema,
|
|
7
|
+
getAdapterClass: () => import('./FromConfigSequenceAdapter').then(r => r.default),
|
|
8
|
+
adapterMetadata: {
|
|
9
|
+
hiddenFromGUI: true,
|
|
10
|
+
},
|
|
11
|
+
}));
|
|
12
|
+
};
|
|
13
|
+
//# sourceMappingURL=index.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/FromConfigSequenceAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAGjE,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,WAAW,CAAC;QACd,IAAI,EAAE,2BAA2B;QACjC,YAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,MAAM,CAAC,6BAA6B,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QAC5D,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
|
@@ -1,2 +1,3 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
1
|
+
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
+
declare const _default: (pluginManager: PluginManager) => void;
|
|
3
|
+
export default _default;
|
|
@@ -1,3 +1,13 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
|
|
2
|
+
import configSchema from './configSchema';
|
|
3
|
+
export default (pluginManager) => {
|
|
4
|
+
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
|
+
name: 'RefNameAliasAdapter',
|
|
6
|
+
configSchema,
|
|
7
|
+
getAdapterClass: () => import('./RefNameAliasAdapter').then(r => r.default),
|
|
8
|
+
adapterMetadata: {
|
|
9
|
+
hiddenFromGUI: true,
|
|
10
|
+
},
|
|
11
|
+
}));
|
|
12
|
+
};
|
|
3
13
|
//# sourceMappingURL=index.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/RefNameAliasAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,uBAAuB,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/RefNameAliasAdapter/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAGjE,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAC1B,GAAG,EAAE,CACH,IAAI,WAAW,CAAC;QACd,IAAI,EAAE,qBAAqB;QAC3B,YAAY;QACZ,eAAe,EAAE,GAAG,EAAE,CACpB,MAAM,CAAC,uBAAuB,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC;QACtD,eAAe,EAAE;YACf,aAAa,EAAE,IAAI;SACpB;KACF,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}
|
package/esm/index.js
CHANGED
|
@@ -1,10 +1,11 @@
|
|
|
1
1
|
import { lazy } from 'react';
|
|
2
|
-
import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
|
|
3
2
|
import WidgetType from '@jbrowse/core/pluggableElementTypes/WidgetType';
|
|
4
3
|
import Plugin from '@jbrowse/core/Plugin';
|
|
5
4
|
import { configSchema as ConfigurationEditorConfigSchema, HeadingComponent as ConfigurationEditorHeadingComponent, stateModelFactory as ConfigurationEditorStateModelFactory, } from './ConfigurationEditorWidget';
|
|
6
|
-
import
|
|
7
|
-
import
|
|
5
|
+
import FromConfigAdapterF from './FromConfigAdapter';
|
|
6
|
+
import FromConfigRegionsAdapterF from './FromConfigRegionsAdapter';
|
|
7
|
+
import FromConfigSequenceAdapterF from './FromConfigSequenceAdapter';
|
|
8
|
+
import RefNameAliasAdapterF from './RefNameAliasAdapter';
|
|
8
9
|
const LazyConfigurationEditorComponent = lazy(() => import('./ConfigurationEditorWidget/components/ConfigurationEditor'));
|
|
9
10
|
export default class extends Plugin {
|
|
10
11
|
constructor() {
|
|
@@ -12,50 +13,10 @@ export default class extends Plugin {
|
|
|
12
13
|
this.name = 'ConfigurationPlugin';
|
|
13
14
|
}
|
|
14
15
|
install(pluginManager) {
|
|
15
|
-
pluginManager
|
|
16
|
-
|
|
17
|
-
|
|
18
|
-
|
|
19
|
-
adapterMetadata: {
|
|
20
|
-
category: null,
|
|
21
|
-
hiddenFromGUI: true,
|
|
22
|
-
displayName: null,
|
|
23
|
-
description: null,
|
|
24
|
-
},
|
|
25
|
-
}));
|
|
26
|
-
pluginManager.addAdapterType(() => new AdapterType({
|
|
27
|
-
name: 'FromConfigRegionsAdapter',
|
|
28
|
-
configSchema: fromConfigRegionsAdapterConfigSchema,
|
|
29
|
-
getAdapterClass: () => import('./FromConfigAdapter/FromConfigRegionsAdapter').then(r => r.default),
|
|
30
|
-
adapterMetadata: {
|
|
31
|
-
category: null,
|
|
32
|
-
hiddenFromGUI: true,
|
|
33
|
-
displayName: null,
|
|
34
|
-
description: null,
|
|
35
|
-
},
|
|
36
|
-
}));
|
|
37
|
-
pluginManager.addAdapterType(() => new AdapterType({
|
|
38
|
-
name: 'FromConfigSequenceAdapter',
|
|
39
|
-
configSchema: fromConfigSequenceAdapterConfigSchema,
|
|
40
|
-
getAdapterClass: () => import('./FromConfigAdapter/FromConfigSequenceAdapter').then(r => r.default),
|
|
41
|
-
adapterMetadata: {
|
|
42
|
-
category: null,
|
|
43
|
-
hiddenFromGUI: true,
|
|
44
|
-
displayName: null,
|
|
45
|
-
description: null,
|
|
46
|
-
},
|
|
47
|
-
}));
|
|
48
|
-
pluginManager.addAdapterType(() => new AdapterType({
|
|
49
|
-
name: 'RefNameAliasAdapter',
|
|
50
|
-
configSchema: refNameAliasAdapterConfigSchema,
|
|
51
|
-
getAdapterClass: () => import('./RefNameAliasAdapter/RefNameAliasAdapter').then(r => r.default),
|
|
52
|
-
adapterMetadata: {
|
|
53
|
-
category: null,
|
|
54
|
-
hiddenFromGUI: true,
|
|
55
|
-
displayName: null,
|
|
56
|
-
description: null,
|
|
57
|
-
},
|
|
58
|
-
}));
|
|
16
|
+
FromConfigAdapterF(pluginManager);
|
|
17
|
+
FromConfigRegionsAdapterF(pluginManager);
|
|
18
|
+
FromConfigSequenceAdapterF(pluginManager);
|
|
19
|
+
RefNameAliasAdapterF(pluginManager);
|
|
59
20
|
pluginManager.addWidgetType(() => {
|
|
60
21
|
return new WidgetType({
|
|
61
22
|
name: 'ConfigurationEditorWidget',
|
package/esm/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,UAAU,MAAM,gDAAgD,CAAA;AACvE,OAAO,MAAM,MAAM,sBAAsB,CAAA;AAEzC,OAAO,EACL,YAAY,IAAI,+BAA+B,EAC/C,gBAAgB,IAAI,mCAAmC,EACvD,iBAAiB,IAAI,oCAAoC,GAC1D,MAAM,6BAA6B,CAAA;AACpC,OAAO,kBAAkB,MAAM,qBAAqB,CAAA;AACpD,OAAO,yBAAyB,MAAM,4BAA4B,CAAA;AAClE,OAAO,0BAA0B,MAAM,6BAA6B,CAAA;AACpE,OAAO,oBAAoB,MAAM,uBAAuB,CAAA;AAExD,MAAM,gCAAgC,GAAG,IAAI,CAC3C,GAAG,EAAE,CAAC,MAAM,CAAC,4DAA4D,CAAC,CAC3E,CAAA;AAED,MAAM,CAAC,OAAO,MAAO,SAAQ,MAAM;IAAnC;;QACE,SAAI,GAAG,qBAAqB,CAAA;IAkB9B,CAAC;IAhBC,OAAO,CAAC,aAA4B;QAClC,kBAAkB,CAAC,aAAa,CAAC,CAAA;QACjC,yBAAyB,CAAC,aAAa,CAAC,CAAA;QACxC,0BAA0B,CAAC,aAAa,CAAC,CAAA;QACzC,oBAAoB,CAAC,aAAa,CAAC,CAAA;QAEnC,aAAa,CAAC,aAAa,CAAC,GAAG,EAAE;YAC/B,OAAO,IAAI,UAAU,CAAC;gBACpB,IAAI,EAAE,2BAA2B;gBACjC,gBAAgB,EAAE,mCAAmC;gBACrD,YAAY,EAAE,+BAA+B;gBAC7C,UAAU,EAAE,oCAAoC,CAAC,aAAa,CAAC;gBAC/D,cAAc,EAAE,gCAAgC;aACjD,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;IACJ,CAAC;CACF;AAED,OAAO,EAAE,OAAO,IAAI,UAAU,EAAE,MAAM,mDAAmD,CAAA;AAEzF,OAAO,EAAE,gCAAgC,IAAI,mBAAmB,EAAE,CAAA"}
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@jbrowse/plugin-config",
|
|
3
|
-
"version": "2.
|
|
3
|
+
"version": "2.3.0",
|
|
4
4
|
"description": "JBrowse 2 config utilities",
|
|
5
5
|
"keywords": [
|
|
6
6
|
"jbrowse",
|
|
@@ -27,7 +27,7 @@
|
|
|
27
27
|
"build": "npm-run-all build:*",
|
|
28
28
|
"test": "cd ../..; jest plugins/config",
|
|
29
29
|
"prepublishOnly": "yarn test",
|
|
30
|
-
"prepack": "yarn build
|
|
30
|
+
"prepack": "yarn build && yarn useDist",
|
|
31
31
|
"postpack": "yarn useSrc",
|
|
32
32
|
"useDist": "node ../../scripts/useDist.js",
|
|
33
33
|
"useSrc": "node ../../scripts/useSrc.js",
|
|
@@ -46,11 +46,10 @@
|
|
|
46
46
|
"mobx": "^6.0.0",
|
|
47
47
|
"mobx-react": "^7.0.0",
|
|
48
48
|
"mobx-state-tree": "^5.0.0",
|
|
49
|
-
"prop-types": "^15.0.0",
|
|
50
49
|
"react": ">=16.8.0",
|
|
51
50
|
"react-dom": ">=16.8.0",
|
|
52
51
|
"rxjs": "^6.0.0",
|
|
53
|
-
"tss-react": "^
|
|
52
|
+
"tss-react": "^4.0.0"
|
|
54
53
|
},
|
|
55
54
|
"publishConfig": {
|
|
56
55
|
"access": "public"
|
|
@@ -58,5 +57,5 @@
|
|
|
58
57
|
"distModule": "esm/index.js",
|
|
59
58
|
"srcModule": "src/index.ts",
|
|
60
59
|
"module": "esm/index.js",
|
|
61
|
-
"gitHead": "
|
|
60
|
+
"gitHead": "a85b280a8af4d1a11e81ab42913f5f6049e6e580"
|
|
62
61
|
}
|
package/src/ConfigurationEditorWidget/components/__snapshots__/ConfigurationEditor.test.tsx.snap
CHANGED
|
@@ -1405,7 +1405,7 @@ exports[`ConfigurationEditor widget renders with defaults of the PileupTrack sch
|
|
|
1405
1405
|
id="mui-18-helper-text"
|
|
1406
1406
|
>
|
|
1407
1407
|
<div>
|
|
1408
|
-
read sequencer
|
|
1408
|
+
read sequencer orientation. fr is normal "reads pointing at each other ---> <--- while some other sequencers can use other options
|
|
1409
1409
|
</div>
|
|
1410
1410
|
</div>
|
|
1411
1411
|
</div>
|
|
File without changes
|
|
@@ -1,6 +1,18 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
3
|
-
|
|
4
|
-
|
|
5
|
-
export
|
|
6
|
-
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes'
|
|
2
|
+
import PluginManager from '@jbrowse/core/PluginManager'
|
|
3
|
+
import configSchema from './configSchema'
|
|
4
|
+
|
|
5
|
+
export default (pluginManager: PluginManager) => {
|
|
6
|
+
pluginManager.addAdapterType(
|
|
7
|
+
() =>
|
|
8
|
+
new AdapterType({
|
|
9
|
+
name: 'FromConfigAdapter',
|
|
10
|
+
configSchema,
|
|
11
|
+
getAdapterClass: () =>
|
|
12
|
+
import('./FromConfigAdapter').then(r => r.default),
|
|
13
|
+
adapterMetadata: {
|
|
14
|
+
hiddenFromGUI: true,
|
|
15
|
+
},
|
|
16
|
+
}),
|
|
17
|
+
)
|
|
18
|
+
}
|
|
@@ -10,10 +10,11 @@ import {
|
|
|
10
10
|
AnyConfigurationModel,
|
|
11
11
|
readConfObject,
|
|
12
12
|
} from '@jbrowse/core/configuration'
|
|
13
|
-
import FromConfigAdapter from './FromConfigAdapter'
|
|
14
13
|
import PluginManager from '@jbrowse/core/PluginManager'
|
|
15
14
|
import { getSubAdapterType } from '@jbrowse/core/data_adapters/dataAdapterCache'
|
|
16
15
|
|
|
16
|
+
import FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter'
|
|
17
|
+
|
|
17
18
|
/**
|
|
18
19
|
* Adapter that just returns the features defined in its `features` configuration
|
|
19
20
|
* key, like:
|
package/src/{FromConfigAdapter/fromConfigRegions.ts → FromConfigRegionsAdapter/configSchema.ts}
RENAMED
|
File without changes
|
|
@@ -0,0 +1,18 @@
|
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes'
|
|
2
|
+
import PluginManager from '@jbrowse/core/PluginManager'
|
|
3
|
+
import configSchema from './configSchema'
|
|
4
|
+
|
|
5
|
+
export default (pluginManager: PluginManager) => {
|
|
6
|
+
pluginManager.addAdapterType(
|
|
7
|
+
() =>
|
|
8
|
+
new AdapterType({
|
|
9
|
+
name: 'FromConfigRegionsAdapter',
|
|
10
|
+
configSchema,
|
|
11
|
+
getAdapterClass: () =>
|
|
12
|
+
import('./FromConfigRegionsAdapter').then(r => r.default),
|
|
13
|
+
adapterMetadata: {
|
|
14
|
+
hiddenFromGUI: true,
|
|
15
|
+
},
|
|
16
|
+
}),
|
|
17
|
+
)
|
|
18
|
+
}
|
package/src/{FromConfigAdapter → FromConfigSequenceAdapter}/FromConfigSequenceAdapter.test.ts
RENAMED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
import { toArray } from 'rxjs/operators'
|
|
2
2
|
import Adapter from './FromConfigSequenceAdapter'
|
|
3
|
-
import sequenceConfigSchema from './
|
|
3
|
+
import sequenceConfigSchema from './configSchema'
|
|
4
4
|
|
|
5
5
|
test('adapter can fetch sequences when there is just one feature representing whole refseq', async () => {
|
|
6
6
|
const features = [
|
|
@@ -2,9 +2,11 @@ import SimpleFeature, { Feature } from '@jbrowse/core/util/simpleFeature'
|
|
|
2
2
|
import { ObservableCreate } from '@jbrowse/core/util/rxjs'
|
|
3
3
|
import { NoAssemblyRegion } from '@jbrowse/core/util/types'
|
|
4
4
|
import { toArray } from 'rxjs/operators'
|
|
5
|
-
import FromConfigAdapter from './FromConfigAdapter'
|
|
6
5
|
import { RegionsAdapter } from '@jbrowse/core/data_adapters/BaseAdapter'
|
|
7
6
|
|
|
7
|
+
// locals
|
|
8
|
+
import FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter'
|
|
9
|
+
|
|
8
10
|
export default class FromConfigSequenceAdapter
|
|
9
11
|
extends FromConfigAdapter
|
|
10
12
|
implements RegionsAdapter
|
|
@@ -74,7 +76,7 @@ export default class FromConfigSequenceAdapter
|
|
|
74
76
|
|
|
75
77
|
/**
|
|
76
78
|
* called to provide a hint that data tied to a certain region
|
|
77
|
-
* will not be needed for the
|
|
79
|
+
* will not be needed for the foreseeable future and can be purged
|
|
78
80
|
* from caches, etc
|
|
79
81
|
*/
|
|
80
82
|
freeResources(/* { region } */): void {}
|
package/src/{FromConfigAdapter/fromConfigSequence.ts → FromConfigSequenceAdapter/configSchema.ts}
RENAMED
|
File without changes
|
|
@@ -0,0 +1,19 @@
|
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes'
|
|
2
|
+
import PluginManager from '@jbrowse/core/PluginManager'
|
|
3
|
+
|
|
4
|
+
import configSchema from './configSchema'
|
|
5
|
+
|
|
6
|
+
export default (pluginManager: PluginManager) => {
|
|
7
|
+
pluginManager.addAdapterType(
|
|
8
|
+
() =>
|
|
9
|
+
new AdapterType({
|
|
10
|
+
name: 'FromConfigSequenceAdapter',
|
|
11
|
+
configSchema,
|
|
12
|
+
getAdapterClass: () =>
|
|
13
|
+
import('./FromConfigSequenceAdapter').then(r => r.default),
|
|
14
|
+
adapterMetadata: {
|
|
15
|
+
hiddenFromGUI: true,
|
|
16
|
+
},
|
|
17
|
+
}),
|
|
18
|
+
)
|
|
19
|
+
}
|
|
@@ -1,2 +1,19 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
1
|
+
import { AdapterType } from '@jbrowse/core/pluggableElementTypes'
|
|
2
|
+
import PluginManager from '@jbrowse/core/PluginManager'
|
|
3
|
+
|
|
4
|
+
import configSchema from './configSchema'
|
|
5
|
+
|
|
6
|
+
export default (pluginManager: PluginManager) => {
|
|
7
|
+
pluginManager.addAdapterType(
|
|
8
|
+
() =>
|
|
9
|
+
new AdapterType({
|
|
10
|
+
name: 'RefNameAliasAdapter',
|
|
11
|
+
configSchema,
|
|
12
|
+
getAdapterClass: () =>
|
|
13
|
+
import('./RefNameAliasAdapter').then(r => r.default),
|
|
14
|
+
adapterMetadata: {
|
|
15
|
+
hiddenFromGUI: true,
|
|
16
|
+
},
|
|
17
|
+
}),
|
|
18
|
+
)
|
|
19
|
+
}
|
package/src/index.ts
CHANGED
|
@@ -1,5 +1,4 @@
|
|
|
1
1
|
import { lazy } from 'react'
|
|
2
|
-
import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType'
|
|
3
2
|
import WidgetType from '@jbrowse/core/pluggableElementTypes/WidgetType'
|
|
4
3
|
import Plugin from '@jbrowse/core/Plugin'
|
|
5
4
|
import PluginManager from '@jbrowse/core/PluginManager'
|
|
@@ -8,12 +7,10 @@ import {
|
|
|
8
7
|
HeadingComponent as ConfigurationEditorHeadingComponent,
|
|
9
8
|
stateModelFactory as ConfigurationEditorStateModelFactory,
|
|
10
9
|
} from './ConfigurationEditorWidget'
|
|
11
|
-
import
|
|
12
|
-
|
|
13
|
-
|
|
14
|
-
|
|
15
|
-
} from './FromConfigAdapter'
|
|
16
|
-
import { configSchema as refNameAliasAdapterConfigSchema } from './RefNameAliasAdapter'
|
|
10
|
+
import FromConfigAdapterF from './FromConfigAdapter'
|
|
11
|
+
import FromConfigRegionsAdapterF from './FromConfigRegionsAdapter'
|
|
12
|
+
import FromConfigSequenceAdapterF from './FromConfigSequenceAdapter'
|
|
13
|
+
import RefNameAliasAdapterF from './RefNameAliasAdapter'
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pluginManager.addAdapterType(
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() =>
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new AdapterType({
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name: 'RefNameAliasAdapter',
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|
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},
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|
-
}),
|
|
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|
-
)
|
|
23
|
+
FromConfigAdapterF(pluginManager)
|
|
24
|
+
FromConfigRegionsAdapterF(pluginManager)
|
|
25
|
+
FromConfigSequenceAdapterF(pluginManager)
|
|
26
|
+
RefNameAliasAdapterF(pluginManager)
|
|
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|
|
|
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28
|
pluginManager.addWidgetType(() => {
|
|
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|
return new WidgetType({
|
|
@@ -1 +0,0 @@
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1
|
-
{"version":3,"file":"FromConfigRegionsAdapter.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/FromConfigRegionsAdapter.ts"],"names":[],"mappings":";;;;;AAAA,yEAGgD;AAKhD,+DAGoC;AACpC,4EAAmD;AAInD;;;;GAIG;AACH,MAAqB,wBACnB,SAAQ,yBAAW;IAKnB,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,IAAA,8BAAc,EAC7B,MAAM,EACN,UAAU,CACkB,CAAA;QAC9B,IAAI,CAAC,QAAQ,GAAG,2BAAiB,CAAC,YAAY,CAAC,QAAQ,IAAI,EAAE,CAAC,CAAA;IAChE,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,8BAA8B;QAC9B,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAA;QAE1D,OAAO,OAAO,CAAA;IAChB,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AA1DD,2CA0DC"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"FromConfigSequenceAdapter.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/FromConfigSequenceAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qFAAyE;AACzE,kDAA0D;AAE1D,8CAAwC;AACxC,4EAAmD;AAGnD,MAAqB,yBACnB,SAAQ,2BAAiB;IAGzB;;;;OAIG;IACH,WAAW,CAAC,MAAwB;QAClC,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,KAAK,GAAG,MAAM,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,SAAS,EAAE,CAAA;YACzE,MAAM,IAAI,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YACrB,QAAQ,CAAC,IAAI,CACX,IAAI,uBAAa,CAAC;gBAChB,GAAG,IAAI,CAAC,MAAM,EAAE;gBAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,EAAE,IAAI,MAAM,CAAC,KAAK,IAAI,MAAM,CAAC,GAAG,EAAE;gBACtD,GAAG,EAAE,MAAM,CAAC,GAAG;gBACf,KAAK,EAAE,MAAM,CAAC,KAAK;gBACnB,GAAG,EAAE,IAAI;qBACN,GAAG,CAAC,KAAK,CAAC;qBACV,KAAK,CACJ,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,EAC7C,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,IAAI,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,CAC5C;aACJ,CAAC,CACH,CAAA;YAED,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,CAAC,CAAA;IACJ,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,OAAO,OAAO,CAAA;IAChB,CAAC;IAED;;;;OAIG;IACH,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AAzED,4CAyEC"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfig.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfig.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,IAAA,mCAAmB,EACtC,mBAAmB,EACnB;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,kBAAe,YAAY,CAAA"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfigRegions.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfigRegions.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,mBAAmB,GAAG,IAAA,mCAAmB,EAC7C,0BAA0B,EAC1B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD;IACE,eAAe,EAAE,IAAI;IACrB,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AACD,kBAAe,mBAAmB,CAAA"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfigSequence.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfigSequence.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,oBAAoB,GAAG,IAAA,mCAAmB,EAC9C,2BAA2B,EAC3B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,kBAAe,oBAAoB,CAAA"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"FromConfigRegionsAdapter.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/FromConfigRegionsAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,WAAW,GAEZ,MAAM,yCAAyC,CAAA;AAKhD,OAAO,EAEL,cAAc,GACf,MAAM,6BAA6B,CAAA;AACpC,OAAO,iBAAiB,MAAM,qBAAqB,CAAA;AAInD;;;;GAIG;AACH,MAAM,CAAC,OAAO,OAAO,wBACnB,SAAQ,WAAW;IAKnB,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,cAAc,CAC7B,MAAM,EACN,UAAU,CACkB,CAAA;QAC9B,IAAI,CAAC,QAAQ,GAAG,iBAAiB,CAAC,YAAY,CAAC,QAAQ,IAAI,EAAE,CAAC,CAAA;IAChE,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,UAAU;QACd,MAAM,OAAO,GAAG,EAAE,CAAA;QAElB,wEAAwE;QACxE,KAAK,MAAM,CAAC,OAAO,EAAE,QAAQ,CAAC,IAAI,IAAI,CAAC,QAAQ,EAAE;YAC/C,IAAI,aAAa,CAAA;YACjB,KAAK,MAAM,OAAO,IAAI,QAAQ,EAAE;gBAC9B,IACE,aAAa;oBACb,aAAa,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;oBACzC,aAAa,CAAC,KAAK,IAAI,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,EACzC;oBACA,aAAa,CAAC,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;iBACvC;qBAAM;oBACL,IAAI,aAAa,EAAE;wBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;qBAC5B;oBACD,aAAa,GAAG;wBACd,OAAO;wBACP,KAAK,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC;wBAC3B,GAAG,EAAE,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC;qBACxB,CAAA;iBACF;aACF;YACD,IAAI,aAAa,EAAE;gBACjB,OAAO,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5B;SACF;QAED,8BAA8B;QAC9B,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAA;QAE1D,OAAO,OAAO,CAAA;IAChB,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
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|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfig.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfig.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,YAAY,GAAG,mBAAmB,CACtC,mBAAmB,EACnB;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,eAAe,YAAY,CAAA"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfigRegions.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfigRegions.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,mBAAmB,GAAG,mBAAmB,CAC7C,0BAA0B,EAC1B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD;IACE,eAAe,EAAE,IAAI;IACrB,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AACD,eAAe,mBAAmB,CAAA"}
|
|
@@ -1 +0,0 @@
|
|
|
1
|
-
{"version":3,"file":"fromConfigSequence.js","sourceRoot":"","sources":["../../src/FromConfigAdapter/fromConfigSequence.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,oBAAoB,GAAG,mBAAmB,CAC9C,2BAA2B,EAC3B;IACE;;OAEG;IACH,QAAQ,EAAE;QACR,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,EAAE;KACjB;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,kBAAkB,EAAE,WAAW,EAAE,CAC3D,CAAA;AAED,eAAe,oBAAoB,CAAA"}
|