@datagrok-libraries/bio 5.32.2 → 5.32.3
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
package/package.json
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"notation-converter.d.ts","sourceRoot":"","sources":["notation-converter.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,YAAY,EAAC,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAc,YAAY,EAAC,MAAM,uBAAuB,CAAC;AAChE,OAAO,EAAC,QAAQ,EAAO,MAAM,wBAAwB,CAAC;AAGtD,iFAAiF;AACjF,qBAAa,iBAAkB,SAAQ,YAAY;IACjD,OAAO,CAAC,SAAS,CAA6B;IAE9C,SAAS,KAAK,QAAQ,IAAI,YAAY,CAIrC;IAEM,OAAO,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAE1C,WAAW,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAE9C,MAAM,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAEhD;;;;;;OAMG;IACH,OAAO,CAAC,uBAAuB;IAmB/B;;;;;OAKG;IACH,OAAO,CAAC,eAAe;IAiBvB,OAAO,CAAC,mBAAmB;
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1
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+
{"version":3,"file":"notation-converter.d.ts","sourceRoot":"","sources":["notation-converter.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,YAAY,EAAC,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAc,YAAY,EAAC,MAAM,uBAAuB,CAAC;AAChE,OAAO,EAAC,QAAQ,EAAO,MAAM,wBAAwB,CAAC;AAGtD,iFAAiF;AACjF,qBAAa,iBAAkB,SAAQ,YAAY;IACjD,OAAO,CAAC,SAAS,CAA6B;IAE9C,SAAS,KAAK,QAAQ,IAAI,YAAY,CAIrC;IAEM,OAAO,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAE1C,WAAW,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAE9C,MAAM,CAAC,cAAc,EAAE,QAAQ,GAAG,OAAO;IAEhD;;;;;;OAMG;IACH,OAAO,CAAC,uBAAuB;IAmB/B;;;;;OAKG;IACH,OAAO,CAAC,eAAe;IAiBvB,OAAO,CAAC,mBAAmB;IAoB3B;;;;;;;OAOG;IACI,mBAAmB,CACxB,aAAa,EAAE,MAAM,EACrB,eAAe,GAAE,MAAM,GAAG,IAAW,GACpC,MAAM;IAOT;;;;;OAKG;IACH,OAAO,CAAC,aAAa;IAgBrB;;;;;OAKG;IACH,OAAO,CAAC,uBAAuB;IA6B/B;;;;;;;;;OASG;IACI,2BAA2B,CAChC,WAAW,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,EAAE,YAAY,CAAC,EAAE,MAAM,EAAE,YAAY,CAAC,EAAE,MAAM,GACrF,MAAM;IAgCT;;;;;;;;OAQG;IACH,OAAO,CAAC,WAAW;IAqBnB,OAAO,CAAC,sBAAsB;IAK9B;;;;;OAKG;IACI,OAAO,CAAC,WAAW,EAAE,QAAQ,EAAE,YAAY,GAAE,MAAM,GAAG,IAAW,GAAG,EAAE,CAAC,MAAM;gBAuBjE,GAAG,EAAE,EAAE,CAAC,MAAM;CAGlC"}
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@@ -58,10 +58,13 @@ export class NotationConverter extends UnitsHandler {
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convertToHelmHelper(sourcePolymer, sourceGapSymbol, prefix, leftWrapper, rightWrapper, postfix) {
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const monomerArray = this.splitter(sourcePolymer);
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const monomerHelmArray = monomerArray.map((mm) => {
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-
if (!mm || mm === sourceGapSymbol)
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if (!mm || mm === sourceGapSymbol) {
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return UnitsHandler._defaultGapSymbolsDict.HELM;
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-
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}
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else {
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return mm.length == 1 ? `${leftWrapper}${mm}${rightWrapper}` :
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`${leftWrapper}[${mm}]${rightWrapper}`;
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}
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});
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return `${prefix}${monomerHelmArray.join('.')}${postfix}`;
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}
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@@ -226,8 +229,7 @@ export class NotationConverter extends UnitsHandler {
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else if (this.isSeparator() && this.toFasta(tgtNotation)) {
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return this.convertSeparatorToFasta();
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}
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229
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-
else if (this.isHelm() && this.toFasta(tgtNotation)) // the case of HELM
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230
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-
{
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else if (this.isHelm() && this.toFasta(tgtNotation)) { // the case of HELM
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return this.convertHelm(tgtNotation);
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}
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else if (this.isHelm() && this.toSeparator(tgtNotation)) {
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"notation-converter.js","sourceRoot":"","sources":["notation-converter.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,YAAY,EAAC,MAAM,iBAAiB,CAAC;AAG7C,OAAO,EAAC,oBAAoB,EAAC,MAAM,uBAAuB,CAAC;AAE3D,iFAAiF;AACjF,MAAM,OAAO,iBAAkB,SAAQ,YAAY;IAGjD,IAAc,QAAQ;QACpB,IAAI,IAAI,CAAC,SAAS,KAAK,IAAI;YACzB,IAAI,CAAC,SAAS,GAAG,oBAAoB,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QACrD,OAAO,IAAI,CAAC,SAAS,CAAC;IACxB,CAAC;IAEM,OAAO,CAAC,cAAwB,IAAa,OAAO,cAAc,iCAAmB,CAAC,CAAC,CAAC;IAExF,WAAW,CAAC,cAAwB,IAAa,OAAO,cAAc,yCAAuB,CAAC,CAAC,CAAC;IAEhG,MAAM,CAAC,cAAwB,IAAa,OAAO,cAAc,+BAAkB,CAAC,CAAC,CAAC;IAE7F;;;;;;OAMG;IACK,uBAAuB,CAAC,SAAiB,EAAE,iBAAgC,IAAI;QACrF,IAAI,cAAc,KAAK,IAAI;YACzB,cAAc,GAAG,IAAI,CAAC,gBAAgB,CAAC;QAEzC,MAAM,SAAS,GAAG,IAAI,CAAC,YAAY,uCAAqB,SAAS,CAAC,CAAC;QACnE,sDAAsD;QACtD,SAAS,CAAC,IAAI,CAAC,CAAC,GAAW,EAAE,EAAE;YAC7B,MAAM,YAAY,GAAG,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC;YAC1C,MAAM,kBAAkB,GAAG,IAAI,CAAC,QAAQ,CAAC,YAAY,CAAC,CAAC;YACvD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,kBAAkB,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBAClD,IAAI,kBAAkB,CAAC,CAAC,CAAC,KAAK,cAAc;oBAC1C,kBAAkB,CAAC,CAAC,CAAC,GAAG,YAAY,CAAC,sBAAsB,CAAC,SAAS,CAAC;aACzE;YACD,OAAO,kBAAkB,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;QAC5C,CAAC,CAAC,CAAC;QACH,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,uCAAqB,CAAC;QACpD,OAAO,SAAS,CAAC;IACnB,CAAC;IAED;;;;;OAKG;IACK,eAAe;QACrB,MAAM,MAAM,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC;YACvC,CAAC,IAAI,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,gBAAgB,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,WAAW,CAAC;QACpE,qCAAqC;QACrC,2DAA2D;QAE3D,4BAA4B;QAC5B,wDAAwD;QAExD,MAAM,OAAO,GAAG,OAAO,CAAC;QACxB,MAAM,WAAW,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC;YACzC,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,0BAA0B;QACxD,MAAM,YAAY,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,0BAA0B;QAC3F,OAAO,CAAC,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,CAAC;IACtD,CAAC;IAED,mDAAmD;IAC3C,mBAAmB,CACzB,aAAqB,EACrB,eAAuB,EACvB,MAAc,EACd,WAAmB,EACnB,YAAoB,EACpB,OAAe;QAEf,MAAM,YAAY,GAAG,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,CAAC;QAClD,MAAM,gBAAgB,GAAa,YAAY,CAAC,GAAG,CAAC,CAAC,EAAU,EAAE,EAAE;YACjE,IAAI,CAAC,EAAE,IAAI,EAAE,KAAK,eAAe;
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+
{"version":3,"file":"notation-converter.js","sourceRoot":"","sources":["notation-converter.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,YAAY,EAAC,MAAM,iBAAiB,CAAC;AAG7C,OAAO,EAAC,oBAAoB,EAAC,MAAM,uBAAuB,CAAC;AAE3D,iFAAiF;AACjF,MAAM,OAAO,iBAAkB,SAAQ,YAAY;IAGjD,IAAc,QAAQ;QACpB,IAAI,IAAI,CAAC,SAAS,KAAK,IAAI;YACzB,IAAI,CAAC,SAAS,GAAG,oBAAoB,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QACrD,OAAO,IAAI,CAAC,SAAS,CAAC;IACxB,CAAC;IAEM,OAAO,CAAC,cAAwB,IAAa,OAAO,cAAc,iCAAmB,CAAC,CAAC,CAAC;IAExF,WAAW,CAAC,cAAwB,IAAa,OAAO,cAAc,yCAAuB,CAAC,CAAC,CAAC;IAEhG,MAAM,CAAC,cAAwB,IAAa,OAAO,cAAc,+BAAkB,CAAC,CAAC,CAAC;IAE7F;;;;;;OAMG;IACK,uBAAuB,CAAC,SAAiB,EAAE,iBAAgC,IAAI;QACrF,IAAI,cAAc,KAAK,IAAI;YACzB,cAAc,GAAG,IAAI,CAAC,gBAAgB,CAAC;QAEzC,MAAM,SAAS,GAAG,IAAI,CAAC,YAAY,uCAAqB,SAAS,CAAC,CAAC;QACnE,sDAAsD;QACtD,SAAS,CAAC,IAAI,CAAC,CAAC,GAAW,EAAE,EAAE;YAC7B,MAAM,YAAY,GAAG,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC;YAC1C,MAAM,kBAAkB,GAAG,IAAI,CAAC,QAAQ,CAAC,YAAY,CAAC,CAAC;YACvD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,kBAAkB,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBAClD,IAAI,kBAAkB,CAAC,CAAC,CAAC,KAAK,cAAc;oBAC1C,kBAAkB,CAAC,CAAC,CAAC,GAAG,YAAY,CAAC,sBAAsB,CAAC,SAAS,CAAC;aACzE;YACD,OAAO,kBAAkB,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;QAC5C,CAAC,CAAC,CAAC;QACH,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,uCAAqB,CAAC;QACpD,OAAO,SAAS,CAAC;IACnB,CAAC;IAED;;;;;OAKG;IACK,eAAe;QACrB,MAAM,MAAM,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC;YACvC,CAAC,IAAI,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,gBAAgB,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,WAAW,CAAC;QACpE,qCAAqC;QACrC,2DAA2D;QAE3D,4BAA4B;QAC5B,wDAAwD;QAExD,MAAM,OAAO,GAAG,OAAO,CAAC;QACxB,MAAM,WAAW,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC;YACzC,CAAC,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,0BAA0B;QACxD,MAAM,YAAY,GAAG,CAAC,IAAI,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,0BAA0B;QAC3F,OAAO,CAAC,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,CAAC;IACtD,CAAC;IAED,mDAAmD;IAC3C,mBAAmB,CACzB,aAAqB,EACrB,eAAuB,EACvB,MAAc,EACd,WAAmB,EACnB,YAAoB,EACpB,OAAe;QAEf,MAAM,YAAY,GAAG,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,CAAC;QAClD,MAAM,gBAAgB,GAAa,YAAY,CAAC,GAAG,CAAC,CAAC,EAAU,EAAE,EAAE;YACjE,IAAI,CAAC,EAAE,IAAI,EAAE,KAAK,eAAe,EAAE;gBACjC,OAAO,YAAY,CAAC,sBAAsB,CAAC,IAAI,CAAC;aACjD;iBAAM;gBACL,OAAO,EAAE,CAAC,MAAM,IAAI,CAAC,CAAC,CAAC,CAAC,GAAG,WAAW,GAAG,EAAE,GAAG,YAAY,EAAE,CAAC,CAAC;oBAC5D,GAAG,WAAW,IAAI,EAAE,IAAI,YAAY,EAAE,CAAC;aAC1C;QACH,CAAC,CAAC,CAAC;QACH,OAAO,GAAG,MAAM,GAAG,gBAAgB,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,OAAO,EAAE,CAAC;IAC5D,CAAC;IAED;;;;;;;OAOG;IACI,mBAAmB,CACxB,aAAqB,EACrB,kBAAiC,IAAI;QAErC,IAAI,eAAe,KAAK,IAAI;YAC1B,eAAe,GAAG,IAAI,CAAC,gBAAgB,CAAC;QAC1C,MAAM,CAAC,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,GAAG,IAAI,CAAC,eAAe,EAAE,CAAC;QAC5E,OAAO,IAAI,CAAC,mBAAmB,CAAC,aAAa,EAAE,eAAe,EAAE,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,CAAC;IAC9G,CAAC;IAED;;;;;OAKG;IACK,aAAa,CAAC,kBAAiC,IAAI;QACzD,IAAI,eAAe,KAAK,IAAI;YAC1B,eAAe,GAAG,IAAI,CAAC,gBAAgB,CAAC;QAE1C,MAAM,CAAC,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,GAAG,IAAI,CAAC,eAAe,EAAE,CAAC;QAE5E,MAAM,SAAS,GAAG,IAAI,CAAC,YAAY,4BAAe,CAAC;QACnD,wCAAwC;QACxC,SAAS,CAAC,IAAI,CAAC,CAAC,GAAW,EAAE,EAAE;YAC7B,MAAM,aAAa,GAAG,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC;YAC3C,OAAO,IAAI,CAAC,mBAAmB,CAAC,aAAa,EAAE,eAAgB,EAAE,MAAM,EAAE,WAAW,EAAE,YAAY,EAAE,OAAO,CAAC,CAAC;QAC/G,CAAC,CAAC,CAAC;QACH,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,6BAAgB,CAAC;QAC/C,OAAO,SAAS,CAAC;IACnB,CAAC;IAED;;;;;OAKG;IACK,uBAAuB,CAAC,iBAAgC,IAAI;QAClE,IAAI,cAAc,KAAK,IAAI;YACzB,cAAc,GAAG,YAAY,CAAC,sBAAsB,CAAC,KAAK,CAAC;QAE7D,MAAM,SAAS,GAAG,IAAI,CAAC,YAAY,8BAAgB,CAAC;QACpD,wCAAwC;QACxC,SAAS,CAAC,IAAI,CAAC,CAAC,GAAW,EAAE,EAAE;YAC7B,MAAM,gBAAgB,GAAG,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC;YAC9C,sCAAsC;YACtC,MAAM,mBAAmB,GAAG,IAAI,CAAC,QAAQ,CAAC,gBAAgB,CAAC,CAAC;YAC5D,MAAM,kBAAkB,GAAa,EAAE,CAAC;YACxC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,mBAAmB,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;gBACnD,MAAM,IAAI,GAAG,mBAAmB,CAAC,CAAC,CAAC,CAAC;gBACpC,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC,EAAE;oBACrB,kBAAkB,CAAC,IAAI,CAAC,cAAe,CAAC,CAAC;iBAC1C;qBAAM,IAAI,IAAI,CAAC,MAAM,GAAG,CAAC,EAAE;oBAC1B,wCAAwC;oBACxC,MAAM,OAAO,GAAG,GAAG,GAAG,IAAI,GAAG,GAAG,CAAC;oBACjC,kBAAkB,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC;iBAClC;qBAAM;oBACL,kBAAkB,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;iBAC/B;aACF;YACD,OAAO,kBAAkB,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACrC,CAAC,CAAC,CAAC;QACH,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,+BAAiB,CAAC;QAChD,OAAO,SAAS,CAAC;IACnB,CAAC;IAED;;;;;;;;;OASG;IACI,2BAA2B,CAChC,WAAmB,EAAE,WAAmB,EAAE,YAAqB,EAAE,YAAqB;QAEtF,IAAI,CAAC,YAAY,EAAE;YACjB,YAAY,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,WAAuB,CAAC,CAAC,CAAC,CAAC;gBACtD,YAAY,CAAC,sBAAsB,CAAC,KAAK,CAAC,CAAC;gBAC3C,YAAY,CAAC,sBAAsB,CAAC,SAAS,CAAC;SACjD;QAED,IAAI,CAAC,YAAY;YACf,YAAY,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,WAAuB,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,SAAS,CAAC;QAE/E,MAAM,cAAc,GAAG,iBAAiB,CAAC;QACzC,MAAM,YAAY,GAAG,WAAW,CAAC,UAAU,CAAC,KAAK,CAAC,IAAI,WAAW,CAAC,UAAU,CAAC,KAAK,CAAC,CAAC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@@ -205,7 +205,7 @@ export class UnitsHandler {
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|
|
205
205
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throw new Error(`Notation \'${"separator" /* NOTATION.SEPARATOR */}\' requires separator value.`);
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206
206
|
newColumn.setTag("separator" /* TAGS.separator */, separator);
|
|
207
207
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}
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208
|
-
newColumn.setTag(DG.TAGS.CELL_RENDERER, 'Macromolecule');
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208
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+
newColumn.setTag(DG.TAGS.CELL_RENDERER, 'Macromolecule'); // cell.renderer
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|
209
209
|
const srcAligned = col.getTag("aligned" /* TAGS.aligned */);
|
|
210
210
|
if (srcAligned)
|
|
211
211
|
newColumn.setTag("aligned" /* TAGS.aligned */, srcAligned);
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|
@@ -1 +1 @@
|
|
|
1
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-
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1
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+
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