@jbrowse/plugin-bed 2.1.5 → 2.1.6
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/BedAdapter/BedAdapter.js +2 -2
- package/dist/BedAdapter/BedAdapter.js.map +1 -1
- package/dist/BedTabixAdapter/BedTabixAdapter.js +1 -1
- package/dist/BedTabixAdapter/BedTabixAdapter.js.map +1 -1
- package/esm/BedAdapter/BedAdapter.js +2 -2
- package/esm/BedAdapter/BedAdapter.js.map +1 -1
- package/esm/BedTabixAdapter/BedTabixAdapter.js +1 -1
- package/esm/BedTabixAdapter/BedTabixAdapter.js.map +1 -1
- package/package.json +3 -3
- package/src/BedAdapter/BedAdapter.ts +2 -2
- package/src/BedTabixAdapter/BedTabixAdapter.ts +1 -1
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@@ -28,7 +28,7 @@ class BedAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
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throw new Error('Data exceeds maximum string length (512MB)');
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}
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const data = new TextDecoder('utf8', { fatal: true }).decode(buffer);
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-
const lines = data.split(
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const lines = data.split(/\n|\r\n|\r/).filter(f => !!f);
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const headerLines = [];
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let i = 0;
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for (; i < lines.length && lines[i].startsWith('#'); i++) {
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@@ -85,7 +85,7 @@ class BedAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
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if (columnNames.length) {
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return columnNames;
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}
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-
const defs = header.split(
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+
const defs = header.split(/\n|\r\n|\r/).filter(f => !!f);
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const defline = defs[defs.length - 1];
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return (defline === null || defline === void 0 ? void 0 : defline.includes('\t'))
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? defline
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"BedAdapter.js","sourceRoot":"","sources":["../../src/BedAdapter/BedAdapter.ts"],"names":[],"mappings":";;;;;AAAA,oDAA2B;AAC3B,yEAGgD;AAChD,8CAAoD;AACpD,kDAA0D;AAE1D,kCAAqC;AACrC,8EAAoD;AACpD,2DAA6C;AAE7C,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAqB,UAAW,SAAQ,oCAAsB;IAA9D;;QAYY,kBAAa,GAEnB,EAAE,CAAA;IA6IR,CAAC;IAzIS,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QAC5C,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC1C,MAAM,GAAG,GAAG,MAAM,IAAA,iBAAY,EAAC,MAAM,EAAE,EAAE,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QACzD,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QACnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QACD,MAAM,IAAI,GAAG,IAAI,WAAW,CAAC,MAAM,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QACpE,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,
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1
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+
{"version":3,"file":"BedAdapter.js","sourceRoot":"","sources":["../../src/BedAdapter/BedAdapter.ts"],"names":[],"mappings":";;;;;AAAA,oDAA2B;AAC3B,yEAGgD;AAChD,8CAAoD;AACpD,kDAA0D;AAE1D,kCAAqC;AACrC,8EAAoD;AACpD,2DAA6C;AAE7C,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAqB,UAAW,SAAQ,oCAAsB;IAA9D;;QAYY,kBAAa,GAEnB,EAAE,CAAA;IA6IR,CAAC;IAzIS,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QAC5C,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC1C,MAAM,GAAG,GAAG,MAAM,IAAA,iBAAY,EAAC,MAAM,EAAE,EAAE,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QACzD,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QACnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QACD,MAAM,IAAI,GAAG,IAAI,WAAW,CAAC,MAAM,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QACpE,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACvD,MAAM,WAAW,GAAG,EAAE,CAAA;QACtB,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,OAAO,CAAC,GAAG,KAAK,CAAC,MAAM,IAAI,KAAK,CAAC,CAAC,CAAC,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;YACxD,WAAW,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;SAC3B;QACD,MAAM,MAAM,GAAG,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QACrC,MAAM,QAAQ,GAAG,EAA8B,CAAA;QAC/C,OAAO,CAAC,GAAG,KAAK,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC5B,MAAM,IAAI,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YACrB,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAA;YAC9B,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,GAAG,CAAC,CAAA;YAClC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC,EAAE;gBACtB,QAAQ,CAAC,OAAO,CAAC,GAAG,EAAE,CAAA;aACvB;YACD,QAAQ,CAAC,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAC7B;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAW,CAAA;QACjD,MAAM,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,OAAO,EAAE,CAAC,CAAA;QACnC,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;QACrC,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,UAAU,CAAC,CAAA;QACzC,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;QAErC,OAAO;YACL,MAAM;YACN,QAAQ;YACR,MAAM;YACN,WAAW;YACX,WAAW;YACX,MAAM;YACN,QAAQ;YACR,MAAM;SACP,CAAA;IACH,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,OAAoB,EAAE;QAC3C,IAAI,CAAC,IAAI,CAAC,WAAW,EAAE;YACrB,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAChD,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;gBAC5B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QAED,OAAO,IAAI,CAAC,WAAW,CAAA;IACzB,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,MAAM,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QAC9C,OAAO,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;IAC9B,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QACpC,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QAC5C,OAAO,MAAM,CAAA;IACf,CAAC;IAED,KAAK,CAAC,QAAQ;QACZ,MAAM,EAAE,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QACrD,IAAI,WAAW,CAAC,MAAM,EAAE;YACtB,OAAO,WAAW,CAAA;SACnB;QACD,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACxD,MAAM,OAAO,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAA;QACrC,OAAO,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,IAAI,CAAC;YAC5B,CAAC,CAAC,OAAO;iBACJ,KAAK,CAAC,CAAC,CAAC;iBACR,KAAK,CAAC,IAAI,CAAC;iBACX,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;YAC/B,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAEO,KAAK,CAAC,6BAA6B,CAAC,OAAe;QACzD,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,WAAW,EAAE,GAC/D,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QACvB,MAAM,KAAK,GAAG,QAAQ,CAAC,OAAO,CAAC,CAAA;QAC/B,IAAI,CAAC,KAAK,EAAE;YACV,OAAO,SAAS,CAAA;SACjB;QACD,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QAEnC,MAAM,YAAY,GAAG,IAAI,uBAAY,EAAE,CAAA;QACvC,MAAM,GAAG,GAAG,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;YAC7B,MAAM,QAAQ,GAAG,GAAG,IAAI,CAAC,EAAE,IAAI,OAAO,IAAI,CAAC,EAAE,CAAA;YAC7C,OAAO,IAAA,kBAAW,EAChB,CAAC,EACD,MAAM,EACN,QAAQ,EACR,MAAM,EACN,WAAW,EACX,MAAM,EACN,QAAQ,EACR,KAAK,CACN,CAAA;QACH,CAAC,CAAC,CAAA;QAEF,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YACnC,MAAM,GAAG,GAAG,GAAG,CAAC,CAAC,CAAC,CAAA;YAClB,YAAY,CAAC,MAAM,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,GAAG,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,EAAE,GAAG,CAAC,CAAA;SAC7D;QACD,OAAO,YAAY,CAAA;IACrB,CAAC;IAEO,KAAK,CAAC,uBAAuB,CAAC,OAAe;QACnD,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,EAAE;YAChC,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,IAAI,CAAC,6BAA6B,CAC9D,OAAO,CACR,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBACV,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,SAAS,CAAA;gBACvC,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;IACpC,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,OAAoB,EAAE;QACtD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,KAAK,EAAE,GAAG,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;YACrC,MAAM,YAAY,GAAG,MAAM,IAAI,CAAC,uBAAuB,CAAC,OAAO,CAAC,CAAA;YAChE,YAAY,aAAZ,YAAY,uBAAZ,YAAY,CAAE,MAAM,CAAC,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE,OAAO,CAAC,CAAC,CAAC,EAAE,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAA;YACjE,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,KAAU,CAAC;;AA1JjC,6BA2JC;AA3Ie,uBAAY,GAAG,CAAC,aAAa,EAAE,aAAa,CAAC,CAAA"}
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@@ -38,7 +38,7 @@ class BedTabixAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
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return this.columnNames;
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}
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const header = await this.bed.getHeader();
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const defs = header.split(
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const defs = header.split(/\n|\r\n|\r/).filter(f => !!f);
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const defline = defs[defs.length - 1];
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return (defline === null || defline === void 0 ? void 0 : defline.includes('\t'))
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-
{"version":3,"file":"BedTabixAdapter.js","sourceRoot":"","sources":["../../src/BedTabixAdapter/BedTabixAdapter.ts"],"names":[],"mappings":";;;;;AAAA,oDAA2B;AAC3B,yEAGgD;AAChD,8CAAoD;AACpD,kDAA0D;AAE1D,uCAA8C;AAC9C,kCAAqC;AAKrC,MAAqB,eAAgB,SAAQ,oCAAsB;IAWjE,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAiB,CAAA;QAC9D,MAAM,IAAI,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACjD,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QAC/C,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAC,CAAA;QACvC,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,IAAI,CAAC,GAAG,GAAG,IAAI,wBAAgB,CAAC;YAC9B,UAAU,EAAE,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC;YACtC,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,cAAc,EAAE,EAAE,GAAG,CAAC,IAAI,EAAE;SAC7B,CAAC,CAAA;QACF,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,OAAO,EAAE,CAAC,CAAA;IACpC,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,OAAO,IAAI,CAAC,GAAG,CAAC,yBAAyB,CAAC,IAAI,CAAC,CAAA;IACjD,CAAC;IAED,KAAK,CAAC,SAAS;QACb,OAAO,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;IAC7B,CAAC;IAED,KAAK,CAAC,QAAQ;QACZ,IAAI,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE;YAC3B,OAAO,IAAI,CAAC,WAAW,CAAA;SACxB;QACD,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;QACzC,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,CAAC,
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+
{"version":3,"file":"BedTabixAdapter.js","sourceRoot":"","sources":["../../src/BedTabixAdapter/BedTabixAdapter.ts"],"names":[],"mappings":";;;;;AAAA,oDAA2B;AAC3B,yEAGgD;AAChD,8CAAoD;AACpD,kDAA0D;AAE1D,uCAA8C;AAC9C,kCAAqC;AAKrC,MAAqB,eAAgB,SAAQ,oCAAsB;IAWjE,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAiB,CAAA;QAC9D,MAAM,IAAI,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACjD,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QAC/C,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAC,CAAA;QACvC,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,IAAI,CAAC,GAAG,GAAG,IAAI,wBAAgB,CAAC;YAC9B,UAAU,EAAE,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC;YACtC,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,cAAc,EAAE,EAAE,GAAG,CAAC,IAAI,EAAE;SAC7B,CAAC,CAAA;QACF,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,MAAM,GAAG,IAAI,aAAG,CAAC,EAAE,OAAO,EAAE,CAAC,CAAA;IACpC,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,OAAO,IAAI,CAAC,GAAG,CAAC,yBAAyB,CAAC,IAAI,CAAC,CAAA;IACjD,CAAC;IAED,KAAK,CAAC,SAAS;QACb,OAAO,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;IAC7B,CAAC;IAED,KAAK,CAAC,QAAQ;QACZ,IAAI,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE;YAC3B,OAAO,IAAI,CAAC,WAAW,CAAA;SACxB;QACD,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;QACzC,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACxD,MAAM,OAAO,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAA;QACrC,OAAO,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,IAAI,CAAC;YAC5B,CAAC,CAAC,OAAO;iBACJ,KAAK,CAAC,CAAC,CAAC;iBACR,KAAK,CAAC,IAAI,CAAC;iBACX,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;YACvB,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,OAAoB,EAAE;QACtD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,WAAW,EAAE,CAAA;YACzC,MAAM,EAAE,aAAa,EAAE,GAAG,IAAI,CAAA;YAC9B,MAAM,MAAM,GAAG,aAAa,CAAC,GAAG,GAAG,CAAC,CAAA;YACpC,MAAM,QAAQ,GAAG,aAAa,CAAC,KAAK,GAAG,CAAC,CAAA;YACxC,MAAM,MAAM,GAAG,aAAa,CAAC,GAAG,GAAG,CAAC,CAAA;YACpC,uEAAuE;YACvE,qEAAqE;YACrE,8DAA8D;YAC9D,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;YACnC,MAAM,IAAI,CAAC,GAAG,CAAC,QAAQ,CAAC,KAAK,CAAC,OAAO,EAAE,KAAK,CAAC,KAAK,EAAE,KAAK,CAAC,GAAG,EAAE;gBAC7D,YAAY,EAAE,CAAC,IAAI,EAAE,UAAU,EAAE,EAAE;oBACjC,QAAQ,CAAC,IAAI,CACX,IAAA,kBAAW,EACT,IAAI,EACJ,MAAM,EACN,QAAQ,EACR,MAAM,EACN,IAAI,CAAC,WAAW,EAChB,IAAI,CAAC,MAAM,EACX,GAAG,IAAI,CAAC,EAAE,IAAI,UAAU,EAAE,EAC1B,KAAK,CACN,CACF,CAAA;gBACH,CAAC;gBACD,MAAM,EAAE,IAAI,CAAC,MAAM;aACpB,CAAC,CAAA;YACF,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,KAAU,CAAC;;AAzFjC,kCA0FC;AAjFe,4BAAY,GAAG,CAAC,aAAa,EAAE,aAAa,CAAC,CAAA"}
|
|
@@ -23,7 +23,7 @@ export default class BedAdapter extends BaseFeatureDataAdapter {
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|
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|
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const lines = data.split(
|
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+
const lines = data.split(/\n|\r\n|\r/).filter(f => !!f);
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|
const headerLines = [];
|
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let i = 0;
|
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|
for (; i < lines.length && lines[i].startsWith('#'); i++) {
|
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@@ -80,7 +80,7 @@ export default class BedAdapter extends BaseFeatureDataAdapter {
|
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if (columnNames.length) {
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|
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-
const defs = header.split(
|
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+
const defs = header.split(/\n|\r\n|\r/).filter(f => !!f);
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|
const defline = defs[defs.length - 1];
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return (defline === null || defline === void 0 ? void 0 : defline.includes('\t'))
|
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|
? defline
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"BedAdapter.js","sourceRoot":"","sources":["../../src/BedAdapter/BedAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,GAAG,MAAM,WAAW,CAAA;AAC3B,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAChD,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AACrC,OAAO,YAAY,MAAM,2BAA2B,CAAA;AACpD,OAAO,EAAE,KAAK,EAAE,MAAM,uBAAuB,CAAA;AAE7C,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAM,CAAC,OAAO,OAAO,UAAW,SAAQ,sBAAsB;IAA9D;;QAYY,kBAAa,GAEnB,EAAE,CAAA;IA6IR,CAAC;IAzIS,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QAC5C,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC1C,MAAM,GAAG,GAAG,MAAM,YAAY,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QACzD,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QACnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QACD,MAAM,IAAI,GAAG,IAAI,WAAW,CAAC,MAAM,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QACpE,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,
|
|
1
|
+
{"version":3,"file":"BedAdapter.js","sourceRoot":"","sources":["../../src/BedAdapter/BedAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,GAAG,MAAM,WAAW,CAAA;AAC3B,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAChD,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AACrC,OAAO,YAAY,MAAM,2BAA2B,CAAA;AACpD,OAAO,EAAE,KAAK,EAAE,MAAM,uBAAuB,CAAA;AAE7C,SAAS,MAAM,CAAC,GAAW;IACzB,OAAO,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;AACxD,CAAC;AAED,MAAM,CAAC,OAAO,OAAO,UAAW,SAAQ,sBAAsB;IAA9D;;QAYY,kBAAa,GAEnB,EAAE,CAAA;IA6IR,CAAC;IAzIS,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QAC5C,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC1C,MAAM,GAAG,GAAG,MAAM,YAAY,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QACzD,MAAM,MAAM,GAAG,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;QACnD,2CAA2C;QAC3C,IAAI,MAAM,CAAC,MAAM,GAAG,SAAW,EAAE;YAC/B,MAAM,IAAI,KAAK,CAAC,4CAA4C,CAAC,CAAA;SAC9D;QACD,MAAM,IAAI,GAAG,IAAI,WAAW,CAAC,MAAM,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,CAAA;QACpE,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACvD,MAAM,WAAW,GAAG,EAAE,CAAA;QACtB,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,OAAO,CAAC,GAAG,KAAK,CAAC,MAAM,IAAI,KAAK,CAAC,CAAC,CAAC,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;YACxD,WAAW,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;SAC3B;QACD,MAAM,MAAM,GAAG,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QACrC,MAAM,QAAQ,GAAG,EAA8B,CAAA;QAC/C,OAAO,CAAC,GAAG,KAAK,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC5B,MAAM,IAAI,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YACrB,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAA;YAC9B,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,GAAG,CAAC,CAAA;YAClC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC,EAAE;gBACtB,QAAQ,CAAC,OAAO,CAAC,GAAG,EAAE,CAAA;aACvB;YACD,QAAQ,CAAC,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;SAC7B;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAW,CAAA;QACjD,MAAM,MAAM,GAAG,IAAI,GAAG,CAAC,EAAE,OAAO,EAAE,CAAC,CAAA;QACnC,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;QACrC,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,UAAU,CAAC,CAAA;QACzC,MAAM,MAAM,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;QAErC,OAAO;YACL,MAAM;YACN,QAAQ;YACR,MAAM;YACN,WAAW;YACX,WAAW;YACX,MAAM;YACN,QAAQ;YACR,MAAM;SACP,CAAA;IACH,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,OAAoB,EAAE;QAC3C,IAAI,CAAC,IAAI,CAAC,WAAW,EAAE;YACrB,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAChD,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;gBAC5B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QAED,OAAO,IAAI,CAAC,WAAW,CAAA;IACzB,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,MAAM,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QAC9C,OAAO,MAAM,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;IAC9B,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,OAAoB,EAAE;QACpC,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QAC5C,OAAO,MAAM,CAAA;IACf,CAAC;IAED,KAAK,CAAC,QAAQ;QACZ,MAAM,EAAE,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QACrD,IAAI,WAAW,CAAC,MAAM,EAAE;YACtB,OAAO,WAAW,CAAA;SACnB;QACD,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACxD,MAAM,OAAO,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAA;QACrC,OAAO,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,IAAI,CAAC;YAC5B,CAAC,CAAC,OAAO;iBACJ,KAAK,CAAC,CAAC,CAAC;iBACR,KAAK,CAAC,IAAI,CAAC;iBACX,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC;YAC/B,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAEO,KAAK,CAAC,6BAA6B,CAAC,OAAe;QACzD,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,WAAW,EAAE,GAC/D,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QACvB,MAAM,KAAK,GAAG,QAAQ,CAAC,OAAO,CAAC,CAAA;QAC/B,IAAI,CAAC,KAAK,EAAE;YACV,OAAO,SAAS,CAAA;SACjB;QACD,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;QAEnC,MAAM,YAAY,GAAG,IAAI,YAAY,EAAE,CAAA;QACvC,MAAM,GAAG,GAAG,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;YAC7B,MAAM,QAAQ,GAAG,GAAG,IAAI,CAAC,EAAE,IAAI,OAAO,IAAI,CAAC,EAAE,CAAA;YAC7C,OAAO,WAAW,CAChB,CAAC,EACD,MAAM,EACN,QAAQ,EACR,MAAM,EACN,WAAW,EACX,MAAM,EACN,QAAQ,EACR,KAAK,CACN,CAAA;QACH,CAAC,CAAC,CAAA;QAEF,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YACnC,MAAM,GAAG,GAAG,GAAG,CAAC,CAAC,CAAC,CAAA;YAClB,YAAY,CAAC,MAAM,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE,GAAG,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,EAAE,GAAG,CAAC,CAAA;SAC7D;QACD,OAAO,YAAY,CAAA;IACrB,CAAC;IAEO,KAAK,CAAC,uBAAuB,CAAC,OAAe;QACnD,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,EAAE;YAChC,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,IAAI,CAAC,6BAA6B,CAC9D,OAAO,CACR,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBACV,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,SAAS,CAAA;gBACvC,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;IACpC,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,OAAoB,EAAE;QACtD,OAAO,gBAAgB,CAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,KAAK,EAAE,GAAG,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;YACrC,MAAM,YAAY,GAAG,MAAM,IAAI,CAAC,uBAAuB,CAAC,OAAO,CAAC,CAAA;YAChE,YAAY,aAAZ,YAAY,uBAAZ,YAAY,CAAE,MAAM,CAAC,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE,OAAO,CAAC,CAAC,CAAC,EAAE,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAA;YACjE,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,KAAU,CAAC;;AA1IjB,uBAAY,GAAG,CAAC,aAAa,EAAE,aAAa,CAAC,CAAA"}
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@@ -33,7 +33,7 @@ export default class BedTabixAdapter extends BaseFeatureDataAdapter {
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|
33
33
|
return this.columnNames;
|
|
34
34
|
}
|
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35
35
|
const header = await this.bed.getHeader();
|
|
36
|
-
const defs = header.split(
|
|
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+
const defs = header.split(/\n|\r\n|\r/).filter(f => !!f);
|
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37
|
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38
|
return (defline === null || defline === void 0 ? void 0 : defline.includes('\t'))
|
|
39
39
|
? defline
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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|
|
1
|
+
{"version":3,"file":"BedTabixAdapter.js","sourceRoot":"","sources":["../../src/BedTabixAdapter/BedTabixAdapter.ts"],"names":[],"mappings":"AAAA,OAAO,GAAG,MAAM,WAAW,CAAA;AAC3B,OAAO,EACL,sBAAsB,GAEvB,MAAM,yCAAyC,CAAA;AAChD,OAAO,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAA;AACpD,OAAO,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAA;AAE1D,OAAO,EAAE,gBAAgB,EAAE,MAAM,aAAa,CAAA;AAC9C,OAAO,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AAKrC,MAAM,CAAC,OAAO,OAAO,eAAgB,SAAQ,sBAAsB;IAWjE,YACE,MAA6B,EAC7B,aAAiC,EACjC,aAA6B;QAE7B,KAAK,CAAC,MAAM,EAAE,aAAa,EAAE,aAAa,CAAC,CAAA;QAC3C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,eAAe,CAAiB,CAAA;QAC9D,MAAM,IAAI,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACjD,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QAC/C,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAC,CAAA;QACvC,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,IAAI,CAAC,GAAG,GAAG,IAAI,gBAAgB,CAAC;YAC9B,UAAU,EAAE,YAAY,CAAC,QAAQ,EAAE,EAAE,CAAC;YACtC,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,YAAY,CAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,aAAa,EAAE,IAAI,KAAK,KAAK,CAAC,CAAC,CAAC,YAAY,CAAC,GAAG,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YACjE,cAAc,EAAE,EAAE,GAAG,CAAC,IAAI,EAAE;SAC7B,CAAC,CAAA;QACF,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC9C,IAAI,CAAC,MAAM,GAAG,IAAI,GAAG,CAAC,EAAE,OAAO,EAAE,CAAC,CAAA;IACpC,CAAC;IAEM,KAAK,CAAC,WAAW,CAAC,OAAoB,EAAE;QAC7C,OAAO,IAAI,CAAC,GAAG,CAAC,yBAAyB,CAAC,IAAI,CAAC,CAAA;IACjD,CAAC;IAED,KAAK,CAAC,SAAS;QACb,OAAO,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;IAC7B,CAAC;IAED,KAAK,CAAC,QAAQ;QACZ,IAAI,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE;YAC3B,OAAO,IAAI,CAAC,WAAW,CAAA;SACxB;QACD,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA;QACzC,MAAM,IAAI,GAAG,MAAM,CAAC,KAAK,CAAC,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QACxD,MAAM,OAAO,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAA;QACrC,OAAO,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,IAAI,CAAC;YAC5B,CAAC,CAAC,OAAO;iBACJ,KAAK,CAAC,CAAC,CAAC;iBACR,KAAK,CAAC,IAAI,CAAC;iBACX,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;YACvB,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,OAAoB,EAAE;QACtD,OAAO,gBAAgB,CAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,WAAW,EAAE,CAAA;YACzC,MAAM,EAAE,aAAa,EAAE,GAAG,IAAI,CAAA;YAC9B,MAAM,MAAM,GAAG,aAAa,CAAC,GAAG,GAAG,CAAC,CAAA;YACpC,MAAM,QAAQ,GAAG,aAAa,CAAC,KAAK,GAAG,CAAC,CAAA;YACxC,MAAM,MAAM,GAAG,aAAa,CAAC,GAAG,GAAG,CAAC,CAAA;YACpC,uEAAuE;YACvE,qEAAqE;YACrE,8DAA8D;YAC9D,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAA;YACnC,MAAM,IAAI,CAAC,GAAG,CAAC,QAAQ,CAAC,KAAK,CAAC,OAAO,EAAE,KAAK,CAAC,KAAK,EAAE,KAAK,CAAC,GAAG,EAAE;gBAC7D,YAAY,EAAE,CAAC,IAAI,EAAE,UAAU,EAAE,EAAE;oBACjC,QAAQ,CAAC,IAAI,CACX,WAAW,CACT,IAAI,EACJ,MAAM,EACN,QAAQ,EACR,MAAM,EACN,IAAI,CAAC,WAAW,EAChB,IAAI,CAAC,MAAM,EACX,GAAG,IAAI,CAAC,EAAE,IAAI,UAAU,EAAE,EAC1B,KAAK,CACN,CACF,CAAA;gBACH,CAAC;gBACD,MAAM,EAAE,IAAI,CAAC,MAAM;aACpB,CAAC,CAAA;YACF,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACjB,CAAC;IAEM,aAAa,KAAU,CAAC;;AAhFjB,4BAAY,GAAG,CAAC,aAAa,EAAE,aAAa,CAAC,CAAA"}
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@jbrowse/plugin-bed",
|
|
3
|
-
"version": "2.1.
|
|
3
|
+
"version": "2.1.6",
|
|
4
4
|
"description": "JBrowse 2 bed adapters, tracks, etc.",
|
|
5
5
|
"keywords": [
|
|
6
6
|
"jbrowse",
|
|
@@ -38,7 +38,7 @@
|
|
|
38
38
|
},
|
|
39
39
|
"dependencies": {
|
|
40
40
|
"@flatten-js/interval-tree": "^1.0.15",
|
|
41
|
-
"@gmod/bbi": "^2.0.
|
|
41
|
+
"@gmod/bbi": "^2.0.3",
|
|
42
42
|
"@gmod/bed": "^2.1.2",
|
|
43
43
|
"@gmod/bgzf-filehandle": "^1.4.3",
|
|
44
44
|
"@gmod/tabix": "^1.5.2"
|
|
@@ -56,5 +56,5 @@
|
|
|
56
56
|
"distModule": "esm/index.js",
|
|
57
57
|
"srcModule": "src/index.ts",
|
|
58
58
|
"module": "esm/index.js",
|
|
59
|
-
"gitHead": "
|
|
59
|
+
"gitHead": "df810d2a4f057adcd8f5345d54972508fba007a7"
|
|
60
60
|
}
|
|
@@ -42,7 +42,7 @@ export default class BedAdapter extends BaseFeatureDataAdapter {
|
|
|
42
42
|
throw new Error('Data exceeds maximum string length (512MB)')
|
|
43
43
|
}
|
|
44
44
|
const data = new TextDecoder('utf8', { fatal: true }).decode(buffer)
|
|
45
|
-
const lines = data.split(
|
|
45
|
+
const lines = data.split(/\n|\r\n|\r/).filter(f => !!f)
|
|
46
46
|
const headerLines = []
|
|
47
47
|
let i = 0
|
|
48
48
|
for (; i < lines.length && lines[i].startsWith('#'); i++) {
|
|
@@ -106,7 +106,7 @@ export default class BedAdapter extends BaseFeatureDataAdapter {
|
|
|
106
106
|
if (columnNames.length) {
|
|
107
107
|
return columnNames
|
|
108
108
|
}
|
|
109
|
-
const defs = header.split(
|
|
109
|
+
const defs = header.split(/\n|\r\n|\r/).filter(f => !!f)
|
|
110
110
|
const defline = defs[defs.length - 1]
|
|
111
111
|
return defline?.includes('\t')
|
|
112
112
|
? defline
|
|
@@ -59,7 +59,7 @@ export default class BedTabixAdapter extends BaseFeatureDataAdapter {
|
|
|
59
59
|
return this.columnNames
|
|
60
60
|
}
|
|
61
61
|
const header = await this.bed.getHeader()
|
|
62
|
-
const defs = header.split(
|
|
62
|
+
const defs = header.split(/\n|\r\n|\r/).filter(f => !!f)
|
|
63
63
|
const defline = defs[defs.length - 1]
|
|
64
64
|
return defline?.includes('\t')
|
|
65
65
|
? defline
|