npm - @datagrok-libraries/bio - Versions diffs - 5.41.2 → 5.41.4 - Mend

@datagrok-libraries/bio 5.41.2 → 5.41.4

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.

Files changed (13) hide show

package/CHANGELOG.md +9 -0
package/package.json +1 -1
package/src/utils/cell-renderer-monomer-placer.d.ts +1 -0
package/src/utils/cell-renderer-monomer-placer.d.ts.map +1 -1
package/src/utils/cell-renderer-monomer-placer.js +21 -25
package/src/utils/cell-renderer-monomer-placer.js.map +1 -1
package/src/utils/generator.d.ts +5 -0
package/src/utils/generator.d.ts.map +1 -0
package/src/utils/generator.js +23 -0
package/src/utils/generator.js.map +1 -0
package/src/utils/seq-handler.d.ts.map +1 -1
package/src/utils/seq-handler.js +5 -7
package/src/utils/seq-handler.js.map +1 -1

package/CHANGELOG.md CHANGED Viewed

@@ -1,5 +1,14 @@
 # bio changelog
+## 5.41.4 (2024-05-15)
+Move long/many sequence generators to bio lib
+Fix SeqHandler setTags optimizing call getStats
+## 5.41.3 (2024-05-15)
+Fix cell renderer monomer placer hit test
 ## 5.41.2 (2024-05-13)
 ### Bug fixes

package/package.json CHANGED Viewed

@@ -8,7 +8,7 @@
     "access": "public"
   },
   "friendlyName": "Datagrok bio library",
-  "version": "5.41.2",
+  "version": "5.41.4",
   "description": "Bio utilities, types supporting Macromolecule, Molecule3D data",
   "dependencies": {
     "@datagrok-libraries/gridext": "^1.3.71",

package/src/utils/cell-renderer-monomer-placer.d.ts CHANGED Viewed

@@ -10,6 +10,7 @@ type MonomerPlacerProps = {
     monomerToShort: MonomerToShortFunc;
     monomerLengthLimit: number;
 };
+export declare function hitBounds(bounds: number[], x: number): number | null;
 export declare class MonomerPlacer extends CellRendererBackBase<string> {
     private readonly propsProvider;
     private _monomerLengthList;

package/src/utils/cell-renderer-monomer-placer.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"cell-renderer-monomer-placer.d.ts","sourceRoot":"","sources":["cell-renderer-monomer-placer.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAKtC,OAAO,EAAC,UAAU,EAAC,MAAM,eAAe,CAAC;AACzC,OAAO,EAAC,kBAAkB,EAAC,MAAM,iBAAiB,CAAC;AAGnD,OAAO,EAAC,oBAAoB,EAAC,MAAM,2BAA2B,CAAC;AAC/D,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AAGjC,KAAK,kBAAkB,GAAG;IACxB,UAAU,EAAE,UAAU,CAAC;IACvB,gBAAgB,EAAE,MAAM,CAAC;IAAC,cAAc,EAAE,MAAM,CAAC;IACjD,cAAc,EAAE,kBAAkB,CAAC;IAAC,kBAAkB,EAAE,MAAM,CAAC;CAChE,CAAC;AAEF,qBAAa,aAAc,SAAQ,oBAAoB,CAAC,MAAM,CAAC;IAoB3D,OAAO,CAAC,QAAQ,CAAC,aAAa;IAnBhC,OAAO,CAAC,kBAAkB,CAA2B;IAGrD,OAAO,CAAC,cAAc,CAAK;IACpB,KAAK,EAAE,kBAAkB,CAAC;IACjC,OAAO,CAAC,cAAc,CAAY;IAClC,OAAO,CAAC,6BAA6B,CAAa;IAElD,OAAO,CAAC,QAAQ,CAAkB;IAClC,IAAW,OAAO,IAAI,OAAO,CAA0B;IAEhD,iBAAiB,EAAE;QAAE,CAAC,GAAG,EAAE,MAAM,GAAG,WAAW,CAAA;KAAE,CAAM;IACvD,oBAAoB,EAAE;QAAE,CAAC,GAAG,EAAE,MAAM,GAAG,WAAW,CAAA;KAAE,CAAM;IAEjE,sEAAsE;gBAEpE,OAAO,EAAE,EAAE,CAAC,UAAU,GAAG,IAAI,EAC7B,QAAQ,EAAE,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,EAC3B,MAAM,EAAE,OAAO,EACE,aAAa,EAAE,MAAM,kBAAkB;cAsBvC,KAAK,IAAI,IAAI;IAQhC,qGAAqG;IAC9F,qBAAqB,CAAC,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,GAAG,CAAC,MAAM,EAAE,EAAE,MAAM,EAAE,CAAC;IAWjF,OAAO,CAAC,2BAA2B;IA8BnC,OAAO,CAAC,8BAA8B;IAmDtC,yCAAyC;IAClC,WAAW,CAAC,MAAM,EAAE,MAAM,EAAE,CAAC,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,GAAG,MAAM,GAAG,IAAI;~~IAmCpE~~,qBAAqB,CAAC,KAAK,EAAE,MAAM,GAAG,IAAI;IAK1C,iBAAiB,CAAC,KAAK,EAAE,MAAM,GAAG,IAAI;IAKtC,KAAK,IAAI,OAAO;CAGxB"}
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package/src/utils/cell-renderer-monomer-placer.js CHANGED Viewed

@@ -3,6 +3,26 @@ import wu from 'wu';
 import { SeqHandler } from './seq-handler';
 import { CellRendererBackBase } from './cell-renderer-back-base';
 import { getMonomerLibHelper } from '../monomer-works/monomer-utils';
+export function hitBounds(bounds, x) {
+    let iterationCount = 100;
+    let leftI = 0;
+    let rightI = bounds.length - 1;
+    let midI;
+    while (leftI <= rightI) {
+        midI = Math.floor((rightI + leftI) / 2);
+        if (bounds[midI] <= x && x < bounds[midI + 1])
+            return midI;
+        else if (x < bounds[midI])
+            rightI = midI - 1;
+        else /* if (bounds[midI + 1] <= x) */
+            leftI = midI + 1;
+        if (--iterationCount <= 0) {
+            throw new Error(`Get position for pointer x = ${x} searching has not converged ` +
+                `on ${JSON.stringify(bounds)}. `);
+        }
+    }
+    return null;
+}
 export class MonomerPlacer extends CellRendererBackBase {
     get updated() { return this._updated; }
     /** View is required to subscribe and handle for data frame changes */
@@ -136,31 +156,7 @@ export class MonomerPlacer extends CellRendererBackBase {
         const seqMonList = wu(sh.getSplitted(rowIdx).originals).toArray();
         if (seqMonList.length === 0)
             return null;
-        let iterationCount = 100;
-        let left = null;
-        let right = seqMonList.length;
-        let found = false;
-        let mid = 0;
-        if (monomerMaxLengthSumList[0] <= x && x < monomerMaxLengthSumList.slice(-1)[0]) {
-            while (!found) {
-                mid = Math.floor((right + (left ?? 0)) / 2);
-                if (x >= monomerMaxLengthSumList[mid] && x <= monomerMaxLengthSumList[mid + 1]) {
-                    left = mid;
-                    found = true;
-                }
-                else if (x < monomerMaxLengthSumList[mid])
-                    right = mid - 1;
-                else if (x > monomerMaxLengthSumList[mid + 1])
-                    left = mid + 1;
-                if (left == right)
-                    found = true;
-                if (--iterationCount <= 0) {
-                    throw new Error(`Get position for pointer x = ${x} searching has not converged ` +
-                        `on ${JSON.stringify(monomerMaxLengthSumList)}. `);
-                }
-            }
-        }
-        return left;
+        return hitBounds(monomerMaxLengthSumList, x);
     }
     setMonomerLengthLimit(limit) {
         this.props.monomerLengthLimit = limit;

package/src/utils/cell-renderer-monomer-placer.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"cell-renderer-monomer-placer.js","sourceRoot":"","sources":["cell-renderer-monomer-placer.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAGtC,OAAO,EAAE,MAAM,IAAI,CAAC;AAEpB,OAAO,EAAC,UAAU,EAAC,MAAM,eAAe,CAAC;AAIzC,OAAO,EAAC,oBAAoB,EAAC,MAAM,2BAA2B,CAAC;AAE/D,OAAO,EAAC,mBAAmB,EAAC,MAAM,gCAAgC,CAAC;AAQnE,MAAM,UAAU,SAAS,CAAC,MAAgB,EAAE,CAAS;IACnD,IAAI,cAAc,GAAW,GAAG,CAAC;IACjC,IAAI,KAAK,GAAW,CAAC,CAAC;IACtB,IAAI,MAAM,GAAG,MAAM,CAAC,MAAM,GAAG,CAAC,CAAC;IAC/B,IAAI,IAAI,CAAC;IACT,OAAO,KAAK,IAAI,MAAM,EAAE;QACtB,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,MAAM,GAAG,KAAK,CAAC,GAAG,CAAC,CAAC,CAAC;QACxC,IAAI,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,MAAM,CAAC,IAAI,GAAG,CAAC,CAAC;YAC3C,OAAO,IAAI,CAAC;aACT,IAAI,CAAC,GAAG,MAAM,CAAC,IAAI,CAAC;YACvB,MAAM,GAAG,IAAI,GAAG,CAAC,CAAC;aACf,gCAAgC;YACnC,KAAK,GAAG,IAAI,GAAG,CAAC,CAAC;QAEnB,IAAI,EAAE,cAAc,IAAI,CAAC,EAAE;YACzB,MAAM,IAAI,KAAK,CAAC,gCAAgC,CAAC,+BAA+B;gBAC9E,MAAM,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC;SACrC;KACF;IACD,OAAO,IAAI,CAAC;AACd,CAAC;AAED,MAAM,OAAO,aAAc,SAAQ,oBAA4B;IAU7D,IAAW,OAAO,KAAc,OAAO,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC;IAKvD,sEAAsE;IACtE,YACE,OAA6B,EAC7B,QAA2B,EAC3B,MAAe,EACE,aAAuC;QAExD,KAAK,CAAC,OAAO,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAC;QAFhB,kBAAa,GAAb,aAAa,CAA0B;QAnBlD,uBAAkB,GAAsB,IAAI,CAAC;QAErD,4BAA4B;QACpB,mBAAc,GAAG,CAAC,CAAC;QAGnB,kCAA6B,GAAW,CAAC,CAAC;QAE1C,aAAQ,GAAY,KAAK,CAAC;QAG3B,sBAAiB,GAAmC,EAAE,CAAC,CAAC,mDAAmD;QAC3G,yBAAoB,GAAmC,EAAE,CAAC,CAAC,2CAA2C;QAU3G,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,aAAa,EAAE,CAAC;QAClC,IAAI,CAAC,cAAc,GAAG,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,IAAI,CAAC,QAAS,CAAC,MAAM,CAAC,CAAC;QAE9D,IAAI,IAAI,CAAC,OAAO,EAAE;YAChB,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,GAAG,EAAE;gBACjE,IAAI,CAAC,WAAW,CAAC,IAAI,EAAE,CAAC;YAC1B,CAAC,CAAC,CAAC,CAAC;SACL;QAED,mBAAmB,EAAE,CAAC,IAAI,CAAC,CAAC,SAAS,EAAE,EAAE;YACvC,IAAI,IAAI,CAAC,SAAS;gBAAE,OAAO;YAC3B,MAAM,UAAU,GAAG,SAAS,CAAC,SAAS,EAAE,CAAC;YACzC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC,SAAS,CAAC,GAAG,EAAE;gBACjD,IAAI,CAAC,KAAK,EAAE,CAAC;gBACb,IAAI,CAAC,OAAO,EAAE,IAAI,EAAE,UAAU,EAAE,CAAC;YACnC,CAAC,CAAC,CAAC,CAAC;QACN,CAAC,CAAC,CAAC;IACL,CAAC;IAEkB,KAAK;QACtB,IAAI,IAAI,CAAC,aAAa;YAAE,IAAI,CAAC,KAAK,GAAG,IAAI,CAAC,aAAa,EAAE,CAAC;QAC1D,IAAI,CAAC,cAAc,GAAG,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,IAAI,CAAC,QAAS,CAAC,MAAM,CAAC,CAAC;QAC9D,IAAI,CAAC,kBAAkB,GAAG,IAAI,CAAC;QAC/B,IAAI,CAAC,iBAAiB,GAAG,EAAE,CAAC;QAC5B,IAAI,CAAC,oBAAoB,GAAG,EAAE,CAAC;IACjC,CAAC;IAED,qGAAqG;IAC9F,qBAAqB,CAAC,MAAc,EAAE,KAAa;QACxD,MAAM,GAAG,GAAa,IAAI,CAAC,KAAK,CAAC,UAAU,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,8BAA8B,CAAC,KAAK,CAAC,CAAC,CAAC;YAChG,IAAI,CAAC,2BAA2B,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;QAElD,MAAM,MAAM,GAAa,IAAI,KAAK,CAAS,GAAG,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC;QAC3D,MAAM,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,UAAU;QACzB,KAAK,IAAI,GAAG,GAAW,CAAC,EAAE,GAAG,GAAG,MAAM,CAAC,MAAM,EAAE,GAAG,EAAE;YAClD,MAAM,CAAC,GAAG,CAAC,GAAG,MAAM,CAAC,GAAG,GAAG,CAAC,CAAC,GAAG,GAAG,CAAC,GAAG,GAAG,CAAC,CAAC,CAAC;QAC/C,OAAO,CAAC,GAAG,EAAE,MAAM,CAAC,CAAC;IACvB,CAAC;IAEO,2BAA2B,CAAC,MAAc,EAAE,KAAa;QAC/D,IAAI,IAAI,CAAC,kBAAkB,KAAK,IAAI,EAAE;YACpC,IAAI,CAAC,kBAAkB,GAAG,IAAI,KAAK,CAAC,IAAI,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;YACrE,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC;SACtB;QAED,MAAM,WAAW,GAAG,IAAI,CAAC,KAAK,CAAC,cAAc,GAAG,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,gBAAgB,CAAC;QAChF,MAAM,mBAAmB,GAAW,IAAI,CAAC,IAAI,CAAC,KAAK,GAAG,WAAW,CAAC,CAAC;QACnE,MAAM,UAAU,GAAoB,UAAU,CAAC,SAAS,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,SAAS,CAAC;QACtG,MAAM,gBAAgB,GAAW,IAAI,CAAC,GAAG,CAAC,mBAAmB,EAAE,UAAU,CAAC,MAAM,CAAC,CAAC;QAElF,IAAI,GAAG,GAAa,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,CAAC;QACpD,IAAI,GAAG,KAAK,IAAI,IAAI,GAAG,CAAC,MAAM,GAAG,gBAAgB,EAAE;YACjD,GAAG,GAAG,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,GAAG,IAAI,KAAK,CAAS,UAAU,CAAC,MAAM,CAAC,CAAC;YAE7E,IAAI,QAAQ,GAAW,CAAC,CAAC;YACzB,KAAK,IAAI,OAAO,GAAG,CAAC,EAAE,OAAO,GAAG,gBAAgB,EAAE,EAAE,OAAO,EAAE;gBAC3D,MAAM,WAAW,GAAG,UAAU,CAAC,OAAO,CAAC,CAAC;gBACxC,MAAM,QAAQ,GAAW,IAAI,CAAC,KAAK,CAAC,cAAc,CAAC,WAAW,EAAE,IAAI,CAAC,KAAK,CAAC,kBAAkB,CAAC,CAAC;gBAC/F,MAAM,cAAc,GAAG,IAAI,CAAC,KAAK,CAAC,UAAU,CAAC,WAAW,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,cAAc,CAAC,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,cAAc,CAAC;gBAC7G,MAAM,WAAW,GAAW,cAAc,GAAG,QAAQ,CAAC,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,gBAAgB,CAAC;gBAC3F,GAAG,CAAC,OAAO,CAAC,GAAG,WAAW,CAAC;gBAC3B,QAAQ,IAAI,WAAW,CAAC;gBACxB,IAAI,QAAQ,GAAG,KAAK;oBAAE,MAAM;aAC7B;YACD,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC;SACtB;QACD,OAAO,GAAG,CAAC;IACb,CAAC;IAEO,8BAA8B,CAAC,KAAa;;QAClD,IAAI,IAAI,CAAC,kBAAkB,KAAK,IAAI,EAAE;YACpC,IAAI,CAAC,kBAAkB,GAAG,IAAI,KAAK,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;YAClD,IAAI,CAAC,QAAQ,GAAG,IAAI,CAAC;SACtB;QACD,MAAA,IAAI,CAAC,kBAAkB,EAAC,CAAC,SAAD,CAAC,IAAM,IAAI,KAAK,CAAC,CAAC,CAAC,EAAC;QAC5C,MAAM,GAAG,GAAG,IAAI,CAAC,kBAAkB,CAAC,CAAC,CAAC,CAAC;QACvC,mFAAmF;QACnF,8FAA8F;QAE9F,MAAM,EAAC,QAAQ,EAAE,MAAM,EAAC,GAAG,CAAC,GAAG,EAAE;YAC/B,IAAI;gBACF,MAAM,IAAI,GAAmB,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CA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package/src/utils/generator.d.ts ADDED Viewed

@@ -0,0 +1,5 @@
+import * as DG from 'datagrok-api/dg';
+export declare function generateManySequences(): DG.Column[];
+/** Generates the column 'MSA' with sequences length of order 10^6 and the 'Activity' float column. */
+export declare function generateLongSequence(length?: number): DG.Column[];
+//# sourceMappingURL=generator.d.ts.map

package/src/utils/generator.d.ts.map ADDED Viewed

	@@ -0,0 +1 @@
1	+ {"version":3,"file":"generator.d.ts","sourceRoot":"","sources":["generator.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAItC,wBAAgB,qBAAqB,IAAI,EAAE,CAAC,MAAM,EAAE,CAQnD;AAED,sGAAsG;AACtG,wBAAgB,oBAAoB,CAAC,MAAM,GAAE,MAAgB,GAAG,EAAE,CAAC,MAAM,EAAE,CAc1E"}

package/src/utils/generator.js ADDED Viewed

@@ -0,0 +1,23 @@
+import * as DG from 'datagrok-api/dg';
+import { NOTATION } from './macromolecule';
+export function generateManySequences() {
+    const columns = [];
+    columns.push(DG.Column.fromList('string', 'MSA', new Array(10 ** 6).fill('meI/hHis/Aca/N/T/dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me')));
+    columns.push(DG.Column.fromList(DG.COLUMN_TYPE.FLOAT, 'Activity', new Array(10 ** 6).fill(5.30751)));
+    return columns;
+}
+/** Generates the column 'MSA' with sequences length of order 10^6 and the 'Activity' float column. */
+export function generateLongSequence(length = 10 ** 5) {
+    const columns = [];
+    const longSequence = `meI/hHis/Aca/N//dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe`.repeat(Math.ceil(length / 10)).slice(0, -1);
+    const msaCol = DG.Column.fromList(DG.COLUMN_TYPE.STRING, 'MSA', new Array(10 ** 2).fill(longSequence));
+    msaCol.semType = DG.SEMTYPE.MACROMOLECULE;
+    msaCol.setTag(DG.TAGS.UNITS, NOTATION.SEPARATOR);
+    msaCol.setTag("separator" /* TAGS.separator */, '/');
+    msaCol.setTag("alphabet" /* TAGS.alphabet */, "UN" /* ALPHABET.UN */);
+    msaCol.setTag(".alphabetIsMultichar" /* TAGS.alphabetIsMultichar */, 'true');
+    columns.push(msaCol);
+    columns.push(DG.Column.fromList(DG.COLUMN_TYPE.FLOAT, 'Activity', new Array(10 ** 2).fill(7.30751)));
+    return columns;
+}
+//# sourceMappingURL=generator.js.map

package/src/utils/generator.js.map ADDED Viewed

@@ -0,0 +1 @@

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package/src/utils/seq-handler.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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package/src/utils/seq-handler.js CHANGED Viewed

@@ -101,25 +101,23 @@ export class SeqHandler {
     /** From detectMacromolecule */
     static setTags(uh) {
         const units = uh.column.getTag(DG.TAGS.UNITS);
-        const stats = uh.stats;
-        const alphabetIsMultichar = Object.keys(stats.freq).some((m) => m.length > 1);
         if ([NOTATION.FASTA, NOTATION.SEPARATOR].includes(units)) {
             // Empty monomer alphabet is allowed, only if alphabet tag is annotated
-            if (!uh.column.getTag("alphabet" /* TAGS.alphabet */) && Object.keys(stats.freq).length === 0)
+            if (!uh.column.getTag("alphabet" /* TAGS.alphabet */) && Object.keys(uh.stats.freq).length === 0)
                 throw new Error('Alphabet is empty and not annotated.');
             let aligned = uh.column.getTag("aligned" /* TAGS.aligned */);
             if (aligned === null) {
-                aligned = stats.sameLength ? "SEQ.MSA" /* ALIGNMENT.SEQ_MSA */ : "SEQ" /* ALIGNMENT.SEQ */;
+                aligned = uh.stats.sameLength ? "SEQ.MSA" /* ALIGNMENT.SEQ_MSA */ : "SEQ" /* ALIGNMENT.SEQ */;
                 uh.column.setTag("aligned" /* TAGS.aligned */, aligned);
             }
             let alphabet = uh.column.getTag("alphabet" /* TAGS.alphabet */);
             if (alphabet === null) {
-                alphabet = detectAlphabet(stats.freq, candidateAlphabets);
+                alphabet = detectAlphabet(uh.stats.freq, candidateAlphabets);
                 uh.column.setTag("alphabet" /* TAGS.alphabet */, alphabet);
             }
             if (alphabet === "UN" /* ALPHABET.UN */) {
-                const alphabetSize = Object.keys(stats.freq).length;
-                const alphabetIsMultichar = Object.keys(stats.freq).some((m) => m.length > 1);
+                const alphabetSize = Object.keys(uh.stats.freq).length;
+                const alphabetIsMultichar = Object.keys(uh.stats.freq).some((m) => m.length > 1);
                 uh.column.setTag(".alphabetSize" /* TAGS.alphabetSize */, alphabetSize.toString());
                 uh.column.setTag(".alphabetIsMultichar" /* TAGS.alphabetIsMultichar */, alphabetIsMultichar ? 'true' : 'false');
             }

package/src/utils/seq-handler.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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