@datagrok-libraries/bio 5.63.4 → 5.63.5
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 +1 -1
- package/src/utils/macromolecule/consts.d.ts +5 -0
- package/src/utils/macromolecule/consts.d.ts.map +1 -1
- package/src/utils/macromolecule/consts.js +5 -0
- package/src/utils/macromolecule/consts.js.map +1 -1
- package/src/utils/macromolecule/types.d.ts +22 -0
- package/src/utils/macromolecule/types.d.ts.map +1 -1
- package/src/utils/macromolecule/types.js.map +1 -1
- package/src/utils/splitter.d.ts.map +1 -1
- package/src/utils/splitter.js +10 -2
- package/src/utils/splitter.js.map +1 -1
package/package.json
CHANGED
|
@@ -8,7 +8,7 @@
|
|
|
8
8
|
"access": "public"
|
|
9
9
|
},
|
|
10
10
|
"friendlyName": "Datagrok bio library",
|
|
11
|
-
"version": "5.63.
|
|
11
|
+
"version": "5.63.5",
|
|
12
12
|
"description": "Bio utilities, types supporting Macromolecule, Molecule3D data",
|
|
13
13
|
"dependencies": {
|
|
14
14
|
"@datagrok-libraries/chem-meta": "^1.2.7",
|
|
@@ -54,5 +54,10 @@ export declare const GapOriginals: {
|
|
|
54
54
|
[units: string]: string;
|
|
55
55
|
};
|
|
56
56
|
export declare const MONOMER_MOTIF_SPLITTER = " , ";
|
|
57
|
+
/** Tag on Monomer columns storing the nqName of a function that returns an IMonomerCanonicalizer.
|
|
58
|
+
* The `.%` prefix ensures this tag is persisted with projects. */
|
|
59
|
+
export declare const MONOMER_CANONICALIZER_FUNC_TAG = ".%monomer-canonicalizer-func";
|
|
60
|
+
/** Column temp key for the cached IMonomerCanonicalizer instance */
|
|
61
|
+
export declare const MONOMER_CANONICALIZER_TEMP = "monomer-canonicalizer";
|
|
57
62
|
export declare const NOTATION_PROVIDER_CONSTRUCTOR_ROLE = "notationProviderConstructor";
|
|
58
63
|
//# sourceMappingURL=consts.d.ts.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"consts.d.ts","sourceRoot":"","sources":["consts.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,aAAa,EAAC,MAAM,SAAS,CAAC;AAEtC,0EAA0E;AAC1E,oBAAY,QAAQ;IAClB,KAAK,UAAU;IACf,SAAS,cAAc;IACvB,IAAI,SAAS;IACmB,MAAM,WAAW;IACjB,IAAI,SAAS;CAC9C;AAED,0BAAkB,SAAS;IACzB,OAAO,YAAY;IACnB,GAAG,QAAQ;CACZ;AAED,oBAAY,QAAQ;IAClB,GAAG,QAAQ;IACX,GAAG,QAAQ;IACX,EAAE,OAAO;IACT,cAAc;IACd,EAAE,OAAO;CACV;AAED,oBAAY,IAAI;IACd,OAAO,YAAY;IACnB,QAAQ,aAAa;IACrB,YAAY,kBAAkB;IAC9B,mBAAmB,yBAAyB;IAC5C,SAAS,cAAc;IACvB,gBAAgB,sBAAsB;IACtC,aAAa,mBAAmB;IAChC,cAAc,oBAAoB;IAClC,OAAO,aAAa;IACpB,aAAa,mBAAmB;IAChC,gBAAgB,sBAAsB;IACtC,qBAAqB,2BAA2B;IAChD,WAAW,iBAAiB;IAC5B,eAAe,qBAAqB;IACpC,oBAAoB,0BAA0B;CAC/C;AAED,OAAO,EAAC,IAAI,IAAI,OAAO,EAAC,CAAC;AAEzB,eAAO,MAAM,iBAAiB,EAAE,MAAa,CAAC;AAE9C,eAAO,MAAM,SAAS,EAAE,MAAqD,CAAC;AAE9E,eAAO,MAAM,MAAM,EAAE,MAA0C,CAAC;AAChE,eAAO,MAAM,SAAS,EAAE,MAAyB,CAAC;AAElD,eAAO,MAAM,SAAS;;;;;;CASnB,CAAC;AAEJ,eAAO,MAAM,kBAAkB,EAAE,aAAa,EAI7C,CAAC;AAEF,2BAA2B;AAC3B,eAAO,MAAM,UAAU,EAAE,MAAoB,CAAC;AAE9C,eAAO,MAAM,YAAY,EAAE;IACzB,CAAC,KAAK,EAAE,MAAM,GAAG,MAAM,CAAA;CAMxB,CAAC;AAEF,eAAO,MAAM,sBAAsB,QAAQ,CAAC;
|
|
1
|
+
{"version":3,"file":"consts.d.ts","sourceRoot":"","sources":["consts.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,aAAa,EAAC,MAAM,SAAS,CAAC;AAEtC,0EAA0E;AAC1E,oBAAY,QAAQ;IAClB,KAAK,UAAU;IACf,SAAS,cAAc;IACvB,IAAI,SAAS;IACmB,MAAM,WAAW;IACjB,IAAI,SAAS;CAC9C;AAED,0BAAkB,SAAS;IACzB,OAAO,YAAY;IACnB,GAAG,QAAQ;CACZ;AAED,oBAAY,QAAQ;IAClB,GAAG,QAAQ;IACX,GAAG,QAAQ;IACX,EAAE,OAAO;IACT,cAAc;IACd,EAAE,OAAO;CACV;AAED,oBAAY,IAAI;IACd,OAAO,YAAY;IACnB,QAAQ,aAAa;IACrB,YAAY,kBAAkB;IAC9B,mBAAmB,yBAAyB;IAC5C,SAAS,cAAc;IACvB,gBAAgB,sBAAsB;IACtC,aAAa,mBAAmB;IAChC,cAAc,oBAAoB;IAClC,OAAO,aAAa;IACpB,aAAa,mBAAmB;IAChC,gBAAgB,sBAAsB;IACtC,qBAAqB,2BAA2B;IAChD,WAAW,iBAAiB;IAC5B,eAAe,qBAAqB;IACpC,oBAAoB,0BAA0B;CAC/C;AAED,OAAO,EAAC,IAAI,IAAI,OAAO,EAAC,CAAC;AAEzB,eAAO,MAAM,iBAAiB,EAAE,MAAa,CAAC;AAE9C,eAAO,MAAM,SAAS,EAAE,MAAqD,CAAC;AAE9E,eAAO,MAAM,MAAM,EAAE,MAA0C,CAAC;AAChE,eAAO,MAAM,SAAS,EAAE,MAAyB,CAAC;AAElD,eAAO,MAAM,SAAS;;;;;;CASnB,CAAC;AAEJ,eAAO,MAAM,kBAAkB,EAAE,aAAa,EAI7C,CAAC;AAEF,2BAA2B;AAC3B,eAAO,MAAM,UAAU,EAAE,MAAoB,CAAC;AAE9C,eAAO,MAAM,YAAY,EAAE;IACzB,CAAC,KAAK,EAAE,MAAM,GAAG,MAAM,CAAA;CAMxB,CAAC;AAEF,eAAO,MAAM,sBAAsB,QAAQ,CAAC;AAE5C;mEACmE;AACnE,eAAO,MAAM,8BAA8B,iCAAiC,CAAC;AAE7E,oEAAoE;AACpE,eAAO,MAAM,0BAA0B,0BAA0B,CAAC;AAClE,eAAO,MAAM,kCAAkC,gCAAgC,CAAC"}
|
|
@@ -65,5 +65,10 @@ export const GapOriginals = {
|
|
|
65
65
|
[NOTATION.BILN]: '',
|
|
66
66
|
};
|
|
67
67
|
export const MONOMER_MOTIF_SPLITTER = ' , ';
|
|
68
|
+
/** Tag on Monomer columns storing the nqName of a function that returns an IMonomerCanonicalizer.
|
|
69
|
+
* The `.%` prefix ensures this tag is persisted with projects. */
|
|
70
|
+
export const MONOMER_CANONICALIZER_FUNC_TAG = '.%monomer-canonicalizer-func';
|
|
71
|
+
/** Column temp key for the cached IMonomerCanonicalizer instance */
|
|
72
|
+
export const MONOMER_CANONICALIZER_TEMP = 'monomer-canonicalizer';
|
|
68
73
|
export const NOTATION_PROVIDER_CONSTRUCTOR_ROLE = 'notationProviderConstructor';
|
|
69
74
|
//# sourceMappingURL=consts.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"consts.js","sourceRoot":"","sources":["consts.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,aAAa,EAAC,MAAM,SAAS,CAAC;AAEtC,0EAA0E;AAC1E,MAAM,CAAN,IAAY,QAMX;AAND,WAAY,QAAQ;IAClB,2BAAe,CAAA;IACf,mCAAuB,CAAA;IACvB,yBAAa,CAAA;IACb,+BAA+B,CAAC,6BAAiB,CAAA;IACjD,+BAA+B,CAAC,yBAAa,CAAA;AAC/C,CAAC,EANW,QAAQ,KAAR,QAAQ,QAMnB;AAOD,MAAM,CAAN,IAAY,QAMX;AAND,WAAY,QAAQ;IAClB,uBAAW,CAAA;IACX,uBAAW,CAAA;IACX,qBAAS,CAAA;IACT,cAAc;IACd,qBAAS,CAAA;AACX,CAAC,EANW,QAAQ,KAAR,QAAQ,QAMnB;AAED,MAAM,CAAN,IAAY,IAgBX;AAhBD,WAAY,IAAI;IACd,2BAAmB,CAAA;IACnB,6BAAqB,CAAA;IACrB,sCAA8B,CAAA;IAC9B,oDAA4C,CAAA;IAC5C,+BAAuB,CAAA;IACvB,8CAAsC,CAAA;IACtC,wCAAgC,CAAA;IAChC,0CAAkC,CAAA;IAClC,4BAAoB,CAAA;IACpB,wCAAgC,CAAA;IAChC,8CAAsC,CAAA;IACtC,wDAAgD,CAAA;IAChD,oCAA4B,CAAA;IAC5B,4CAAoC,CAAA;IACpC,sDAA8C,CAAA;AAChD,CAAC,EAhBW,IAAI,KAAJ,IAAI,QAgBf;AAED,OAAO,EAAC,IAAI,IAAI,OAAO,EAAC,CAAC;AAEzB,MAAM,CAAC,MAAM,iBAAiB,GAAW,IAAI,CAAC;AAE9C,MAAM,CAAC,MAAM,SAAS,GAAW,4CAA4C,CAAC;AAE9E,MAAM,CAAC,MAAM,MAAM,GAAW,iCAAiC,CAAC;AAChE,MAAM,CAAC,MAAM,SAAS,GAAW,gBAAgB,CAAC;AAElD,MAAM,CAAC,MAAM,SAAS,GAAG,IAAI;IAAA;QAC3B,UAAK,GAAG;YACN,OAAO,EAAE,IAAI,GAAG,CAAS;gBACvB,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG;gBAChD,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG;aACjD,CAAC;YACF,GAAG,EAAE,IAAI,GAAG,CAAS,CAAC,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC;YAC1C,GAAG,EAAE,IAAI,GAAG,CAAS,CAAC,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC;SAC3C,CAAC;IACJ,CAAC;CAAA,EAAE,CAAC;AAEJ,MAAM,CAAC,MAAM,kBAAkB,GAAoB;IACjD,IAAI,aAAa,CAAC,QAAQ,CAAC,EAAE,EAAE,SAAS,CAAC,KAAK,CAAC,OAAO,EAAE,IAAI,CAAC;IAC7D,IAAI,aAAa,CAAC,QAAQ,CAAC,GAAG,EAAE,SAAS,CAAC,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC;IAC1D,IAAI,aAAa,CAAC,QAAQ,CAAC,GAAG,EAAE,SAAS,CAAC,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC;CAC3D,CAAC;AAEF,2BAA2B;AAC3B,MAAM,CAAC,MAAM,UAAU,GAAW,EAAW,CAAC;AAE9C,MAAM,CAAC,MAAM,YAAY,GAErB;IACF,CAAC,QAAQ,CAAC,KAAK,CAAC,EAAE,GAAG;IACrB,CAAC,QAAQ,CAAC,SAAS,CAAC,EAAE,EAAE;IACxB,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,GAAG;IACpB,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,EAAE;CACpB,CAAC;AAEF,MAAM,CAAC,MAAM,sBAAsB,GAAG,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"consts.js","sourceRoot":"","sources":["consts.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,aAAa,EAAC,MAAM,SAAS,CAAC;AAEtC,0EAA0E;AAC1E,MAAM,CAAN,IAAY,QAMX;AAND,WAAY,QAAQ;IAClB,2BAAe,CAAA;IACf,mCAAuB,CAAA;IACvB,yBAAa,CAAA;IACb,+BAA+B,CAAC,6BAAiB,CAAA;IACjD,+BAA+B,CAAC,yBAAa,CAAA;AAC/C,CAAC,EANW,QAAQ,KAAR,QAAQ,QAMnB;AAOD,MAAM,CAAN,IAAY,QAMX;AAND,WAAY,QAAQ;IAClB,uBAAW,CAAA;IACX,uBAAW,CAAA;IACX,qBAAS,CAAA;IACT,cAAc;IACd,qBAAS,CAAA;AACX,CAAC,EANW,QAAQ,KAAR,QAAQ,QAMnB;AAED,MAAM,CAAN,IAAY,IAgBX;AAhBD,WAAY,IAAI;IACd,2BAAmB,CAAA;IACnB,6BAAqB,CAAA;IACrB,sCAA8B,CAAA;IAC9B,oDAA4C,CAAA;IAC5C,+BAAuB,CAAA;IACvB,8CAAsC,CAAA;IACtC,wCAAgC,CAAA;IAChC,0CAAkC,CAAA;IAClC,4BAAoB,CAAA;IACpB,wCAAgC,CAAA;IAChC,8CAAsC,CAAA;IACtC,wDAAgD,CAAA;IAChD,oCAA4B,CAAA;IAC5B,4CAAoC,CAAA;IACpC,sDAA8C,CAAA;AAChD,CAAC,EAhBW,IAAI,KAAJ,IAAI,QAgBf;AAED,OAAO,EAAC,IAAI,IAAI,OAAO,EAAC,CAAC;AAEzB,MAAM,CAAC,MAAM,iBAAiB,GAAW,IAAI,CAAC;AAE9C,MAAM,CAAC,MAAM,SAAS,GAAW,4CAA4C,CAAC;AAE9E,MAAM,CAAC,MAAM,MAAM,GAAW,iCAAiC,CAAC;AAChE,MAAM,CAAC,MAAM,SAAS,GAAW,gBAAgB,CAAC;AAElD,MAAM,CAAC,MAAM,SAAS,GAAG,IAAI;IAAA;QAC3B,UAAK,GAAG;YACN,OAAO,EAAE,IAAI,GAAG,CAAS;gBACvB,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG;gBAChD,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG;aACjD,CAAC;YACF,GAAG,EAAE,IAAI,GAAG,CAAS,CAAC,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC;YAC1C,GAAG,EAAE,IAAI,GAAG,CAAS,CAAC,GAAG,EAAE,GAAG,EAAE,GAAG,EAAE,GAAG,CAAC,CAAC;SAC3C,CAAC;IACJ,CAAC;CAAA,EAAE,CAAC;AAEJ,MAAM,CAAC,MAAM,kBAAkB,GAAoB;IACjD,IAAI,aAAa,CAAC,QAAQ,CAAC,EAAE,EAAE,SAAS,CAAC,KAAK,CAAC,OAAO,EAAE,IAAI,CAAC;IAC7D,IAAI,aAAa,CAAC,QAAQ,CAAC,GAAG,EAAE,SAAS,CAAC,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC;IAC1D,IAAI,aAAa,CAAC,QAAQ,CAAC,GAAG,EAAE,SAAS,CAAC,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC;CAC3D,CAAC;AAEF,2BAA2B;AAC3B,MAAM,CAAC,MAAM,UAAU,GAAW,EAAW,CAAC;AAE9C,MAAM,CAAC,MAAM,YAAY,GAErB;IACF,CAAC,QAAQ,CAAC,KAAK,CAAC,EAAE,GAAG;IACrB,CAAC,QAAQ,CAAC,SAAS,CAAC,EAAE,EAAE;IACxB,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,GAAG;IACpB,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,EAAE;CACpB,CAAC;AAEF,MAAM,CAAC,MAAM,sBAAsB,GAAG,KAAK,CAAC;AAE5C;mEACmE;AACnE,MAAM,CAAC,MAAM,8BAA8B,GAAG,8BAA8B,CAAC;AAE7E,oEAAoE;AACpE,MAAM,CAAC,MAAM,0BAA0B,GAAG,uBAAuB,CAAC;AAClE,MAAM,CAAC,MAAM,kCAAkC,GAAG,6BAA6B,CAAC"}
|
|
@@ -35,6 +35,23 @@ export interface ISeqSplitted {
|
|
|
35
35
|
getOriginalRegion(start: number, end: number): string[];
|
|
36
36
|
get gapOriginal(): string;
|
|
37
37
|
}
|
|
38
|
+
/**
|
|
39
|
+
* Extracts displayable monomer symbol(s) from a raw position value.
|
|
40
|
+
* Used by the Monomer cell renderer when a notation provider needs custom
|
|
41
|
+
* interpretation of split-to-monomer position values.
|
|
42
|
+
*
|
|
43
|
+
* For example, a Parabilis position `[VHL1379]*dLys` contains two monomers
|
|
44
|
+
* (`VHL1379` and `dLys`). The canonicalizer separates them with
|
|
45
|
+
* {@link MONOMER_MOTIF_SPLITTER} so the renderer can display/tooltip each one.
|
|
46
|
+
*/
|
|
47
|
+
export interface IMonomerCanonicalizer {
|
|
48
|
+
/** Convert a raw position value to a displayable monomer string.
|
|
49
|
+
* If the position contains multiple monomers, join them with
|
|
50
|
+
* {@link MONOMER_MOTIF_SPLITTER} (` , `). */
|
|
51
|
+
canonicalize(original: string): string;
|
|
52
|
+
/** Returns true if the raw position value represents a gap in this notation. */
|
|
53
|
+
isGap(original: string): boolean;
|
|
54
|
+
}
|
|
38
55
|
export interface INotationProvider {
|
|
39
56
|
get defaultGapOriginal(): string;
|
|
40
57
|
/** Adjust {@link seqHandler} units, {@link seqHandler.column.tags} by {@link seqHandler} constructor */
|
|
@@ -43,6 +60,11 @@ export interface INotationProvider {
|
|
|
43
60
|
/** Any Macromolecule can be presented as Helm notation */
|
|
44
61
|
getHelm(seq: string, options: any): string;
|
|
45
62
|
createCellRendererBack(gridCol: DG.GridColumn | null, tableCol: DG.Column<string>): CellRendererBackBase<string>;
|
|
63
|
+
/** nqName of a registered function that returns an {@link IMonomerCanonicalizer} instance.
|
|
64
|
+
* When set, split-to-monomers will tag Monomer columns with this function name so the
|
|
65
|
+
* monomer cell renderer can resolve display symbols from raw position values.
|
|
66
|
+
* Return null/undefined if no custom canonicalization is needed. */
|
|
67
|
+
readonly monomerCanonicalizerFuncName?: string | null;
|
|
46
68
|
}
|
|
47
69
|
export declare abstract class NotationProviderBase {
|
|
48
70
|
/** Name of the custom notation */
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["types.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,oBAAoB,EAAC,MAAM,4BAA4B,CAAC;AAChE,OAAO,EAAC,WAAW,EAAC,MAAM,eAAe,CAAC;AAC1C,OAAO,EAAC,WAAW,EAAC,MAAM,kBAAkB,CAAC;AAG7C,MAAM,MAAM,eAAe,GAAG,SAAS,CAAC,MAAM,CAAC,GAAG,QAAQ,CAAC,MAAM,CAAC,CAAC;AAEnE,MAAM,WAAW,cAAc;IAC7B,QAAQ,EAAE,WAAW,CAAC;IACtB,QAAQ,EAAE,WAAW,CAAC;IACtB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,aAAa,EAAE,MAAM,CAAC;IACtB,aAAa,EAAE,MAAM,CAAC;IACtB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;CACjB;AAED,MAAM,WAAW,aAAa;IAC5B,wFAAwF;IACxF,WAAW,EAAE,cAAc,EAAE,CAAC;IAC9B,0EAA0E;IAC1E,iBAAiB,EAAE,MAAM,EAAE,CAAC;IAC5B,kEAAkE;IAClE,YAAY,CAAC,EAAE,WAAW,EAAE,CAAC;CAC9B;AAED,MAAM,WAAW,YAAY;IAE3B,SAAS,CAAC,EAAE,aAAa,CAAC;IAE1B,KAAK,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC;IAE/B,MAAM;IACN,YAAY,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,CAAC;IAErC,uEAAuE;IACvE,WAAW,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,CAAC;IAKpC,MAAM,EAAE,MAAM,CAAC;IAEf,iEAAiE;IACjE,kBAAkB,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;IAEzD,oEAAoE;IACpE,iBAAiB,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;IAExD,IAAI,WAAW,IAAI,MAAM,CAAC;CAC3B;AAED,MAAM,WAAW,iBAAiB;IAChC,IAAI,kBAAkB,IAAI,MAAM,CAAC;IAEjC,wGAAwG;IACxG,QAAQ,CAAC,UAAU,EAAE,WAAW,GAAG,IAAI,CAAC;IAExC,IAAI,QAAQ,IAAI,YAAY,CAAC;IAE7B,0DAA0D;IAC1D,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,OAAO,EAAE,GAAG,GAAG,MAAM,CAAC;IAE3C,sBAAsB,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,GAAG,IAAI,EAAE,QAAQ,EAAE,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,GAAG,oBAAoB,CAAC,MAAM,CAAC,CAAC;
|
|
1
|
+
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["types.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,oBAAoB,EAAC,MAAM,4BAA4B,CAAC;AAChE,OAAO,EAAC,WAAW,EAAC,MAAM,eAAe,CAAC;AAC1C,OAAO,EAAC,WAAW,EAAC,MAAM,kBAAkB,CAAC;AAG7C,MAAM,MAAM,eAAe,GAAG,SAAS,CAAC,MAAM,CAAC,GAAG,QAAQ,CAAC,MAAM,CAAC,CAAC;AAEnE,MAAM,WAAW,cAAc;IAC7B,QAAQ,EAAE,WAAW,CAAC;IACtB,QAAQ,EAAE,WAAW,CAAC;IACtB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,aAAa,EAAE,MAAM,CAAC;IACtB,aAAa,EAAE,MAAM,CAAC;IACtB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;CACjB;AAED,MAAM,WAAW,aAAa;IAC5B,wFAAwF;IACxF,WAAW,EAAE,cAAc,EAAE,CAAC;IAC9B,0EAA0E;IAC1E,iBAAiB,EAAE,MAAM,EAAE,CAAC;IAC5B,kEAAkE;IAClE,YAAY,CAAC,EAAE,WAAW,EAAE,CAAC;CAC9B;AAED,MAAM,WAAW,YAAY;IAE3B,SAAS,CAAC,EAAE,aAAa,CAAC;IAE1B,KAAK,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC;IAE/B,MAAM;IACN,YAAY,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,CAAC;IAErC,uEAAuE;IACvE,WAAW,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,CAAC;IAKpC,MAAM,EAAE,MAAM,CAAC;IAEf,iEAAiE;IACjE,kBAAkB,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;IAEzD,oEAAoE;IACpE,iBAAiB,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;IAExD,IAAI,WAAW,IAAI,MAAM,CAAC;CAC3B;AAED;;;;;;;;GAQG;AACH,MAAM,WAAW,qBAAqB;IACpC;;kDAE8C;IAC9C,YAAY,CAAC,QAAQ,EAAE,MAAM,GAAG,MAAM,CAAC;IAEvC,gFAAgF;IAChF,KAAK,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC;CAClC;AAED,MAAM,WAAW,iBAAiB;IAChC,IAAI,kBAAkB,IAAI,MAAM,CAAC;IAEjC,wGAAwG;IACxG,QAAQ,CAAC,UAAU,EAAE,WAAW,GAAG,IAAI,CAAC;IAExC,IAAI,QAAQ,IAAI,YAAY,CAAC;IAE7B,0DAA0D;IAC1D,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,OAAO,EAAE,GAAG,GAAG,MAAM,CAAC;IAE3C,sBAAsB,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,GAAG,IAAI,EAAE,QAAQ,EAAE,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,GAAG,oBAAoB,CAAC,MAAM,CAAC,CAAC;IAEjH;;;yEAGqE;IACrE,QAAQ,CAAC,4BAA4B,CAAC,EAAE,MAAM,GAAG,IAAI,CAAC;CACvD;AAED,8BAAsB,oBAAoB;IACxC,kCAAkC;IAClC,MAAM,KAAK,YAAY,IAAI,MAAM,CAEhC;IAED,wFAAwF;IACxF,MAAM,KAAK,kBAAkB,IAAI,OAAO,CAEvC;IAED,kDAAkD;IAClD,MAAM,CAAC,eAAe,CAAC,IAAI,EAAE,MAAM,EAAE,OAAO,EAAE,GAAG,GAAG,MAAM;WAI7C,uBAAuB,IAAI,OAAO,CAAC,OAAO,oBAAoB,EAAE,CAAC;CAU/E;AAED,MAAM,MAAM,WAAW,GAAG;IAAE,IAAI,EAAE,YAAY,CAAC;IAAC,UAAU,EAAE,OAAO,CAAA;CAAE,CAAA;AACrE,MAAM,MAAM,YAAY,GAAG,CAAC,GAAG,EAAE,MAAM,KAAK,YAAY,CAAC;AACzD,MAAM,MAAM,YAAY,GAAG;IAAE,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAAA;CAAE,CAAC;AAEnD,8BAA8B;AAC9B,qBAAa,aAAa;IACxB,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,GAAG,CAAC,MAAM,CAAC,CAAC;IACtB,MAAM,EAAE,MAAM,CAAC;gBAEH,IAAI,EAAE,MAAM,EAAE,QAAQ,EAAE,GAAG,CAAC,MAAM,CAAC,EAAE,MAAM,EAAE,MAAM;CAKhE;AAED,yCAAyC;AACzC,qBAAa,gBAAiB,SAAQ,aAAa;IACjD,IAAI,EAAE,YAAY,CAAC;IACnB,4BAA4B;IAC5B,UAAU,EAAE,MAAM,CAAC;gBAEP,SAAS,EAAE,aAAa,EAAE,IAAI,EAAE,YAAY,EAAE,UAAU,EAAE,MAAM;CAK7E"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"types.js","sourceRoot":"","sources":["types.ts"],"names":[],"mappings":"AAOA,OAAO,EAAC,kCAAkC,EAAC,MAAM,UAAU,CAAC;
|
|
1
|
+
{"version":3,"file":"types.js","sourceRoot":"","sources":["types.ts"],"names":[],"mappings":"AAOA,OAAO,EAAC,kCAAkC,EAAC,MAAM,UAAU,CAAC;AAyF5D,MAAM,OAAgB,oBAAoB;IACxC,kCAAkC;IAClC,MAAM,KAAK,YAAY;QACrB,OAAO,QAAQ,CAAC;IAClB,CAAC;IAAA,CAAC;IAEF,wFAAwF;IACxF,MAAM,KAAK,kBAAkB;QAC3B,OAAO,KAAK,CAAC;IACf,CAAC;IAAA,CAAC;IAEF,kDAAkD;IAClD,MAAM,CAAC,eAAe,CAAC,IAAY,EAAE,OAAY;QAC/C,MAAM,IAAI,KAAK,CAAC,mEAAmE,CAAC,CAAC;IACvF,CAAC;IAAA,CAAC;IAEF,MAAM,CAAC,KAAK,CAAC,uBAAuB;QAClC,wGAAwG;QACxG,aAAa;QACb,IAAI,MAAM,EAAE,EAAE,EAAE,CAAC;YACf,aAAa;YACb,MAAM,UAAU,GAAU,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,EAAC,IAAI,EAAE,EAAC,IAAI,EAAE,kCAAkC,EAAC,EAAC,CAAC,CAAC;YAClG,OAAO,OAAO,CAAC,GAAG,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC;QACzD,CAAC;QACD,OAAO,EAAE,CAAC;IACZ,CAAC;CACF;AAMD,8BAA8B;AAC9B,MAAM,OAAO,aAAa;IAKxB,YAAY,IAAY,EAAE,QAAqB,EAAE,MAAc;QAC7D,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC;QACjB,IAAI,CAAC,QAAQ,GAAG,QAAQ,CAAC;QACzB,IAAI,CAAC,MAAM,GAAG,MAAM,CAAC;IACvB,CAAC;CACF;AAED,yCAAyC;AACzC,MAAM,OAAO,gBAAiB,SAAQ,aAAa;IAKjD,YAAY,SAAwB,EAAE,IAAkB,EAAE,UAAkB;QAC1E,KAAK,CAAC,SAAS,CAAC,IAAI,EAAE,SAAS,CAAC,QAAQ,EAAE,SAAS,CAAC,MAAM,CAAC,CAAC;QAC5D,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC;QACjB,IAAI,CAAC,UAAU,GAAG,UAAU,CAAC;IAC/B,CAAC;CACF"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"splitter.d.ts","sourceRoot":"","sources":["splitter.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAItC,OAAO,EAAC,UAAU,EAAC,MAAM,cAAc,CAAC;
|
|
1
|
+
{"version":3,"file":"splitter.d.ts","sourceRoot":"","sources":["splitter.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAItC,OAAO,EAAC,UAAU,EAAC,MAAM,cAAc,CAAC;AAMxC,wBAAgB,qBAAqB,CAAC,cAAc,EAAE,EAAE,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,SAAS,EAAE,UAAU,GAAG,EAAE,CAAC,SAAS,CA+B5G"}
|
package/src/utils/splitter.js
CHANGED
|
@@ -1,4 +1,6 @@
|
|
|
1
1
|
import * as DG from 'datagrok-api/dg';
|
|
2
|
+
import { SeqTemps } from './macromolecule/seq-handler';
|
|
3
|
+
import { MONOMER_CANONICALIZER_FUNC_TAG } from './macromolecule/consts';
|
|
2
4
|
export function splitAlignedSequences(sequenceColumn, seqHelper) {
|
|
3
5
|
const getCol = (index) => columnList[index] ?? null;
|
|
4
6
|
const createCol = (index) => {
|
|
@@ -13,11 +15,17 @@ export function splitAlignedSequences(sequenceColumn, seqHelper) {
|
|
|
13
15
|
for (let rowIdx = 0; rowIdx < rowCount; ++rowIdx) {
|
|
14
16
|
const currentMonomerList = uh.getSplitted(rowIdx);
|
|
15
17
|
for (let posIdx = 0; posIdx < currentMonomerList.length; ++posIdx) {
|
|
16
|
-
const
|
|
18
|
+
const om = currentMonomerList.getOriginal(posIdx);
|
|
17
19
|
const col = getCol(posIdx) || createCol(posIdx);
|
|
18
|
-
col.set(rowIdx,
|
|
20
|
+
col.set(rowIdx, om, false);
|
|
19
21
|
}
|
|
20
22
|
}
|
|
23
|
+
// If the notation provider specifies a monomer canonicalizer, tag all monomer columns
|
|
24
|
+
const notationProvider = sequenceColumn.temp[SeqTemps.notationProvider] ?? null;
|
|
25
|
+
const canonFuncName = notationProvider?.monomerCanonicalizerFuncName;
|
|
26
|
+
if (canonFuncName)
|
|
27
|
+
for (const col of columnList)
|
|
28
|
+
col.setTag(MONOMER_CANONICALIZER_FUNC_TAG, canonFuncName);
|
|
21
29
|
return resultDf;
|
|
22
30
|
}
|
|
23
31
|
//# sourceMappingURL=splitter.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"splitter.js","sourceRoot":"","sources":["splitter.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;
|
|
1
|
+
{"version":3,"file":"splitter.js","sourceRoot":"","sources":["splitter.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAMtC,OAAO,EAAC,QAAQ,EAAC,MAAM,6BAA6B,CAAC;AACrD,OAAO,EAAC,8BAA8B,EAAC,MAAM,wBAAwB,CAAC;AAGtE,MAAM,UAAU,qBAAqB,CAAC,cAAiC,EAAE,SAAqB;IAC5F,MAAM,MAAM,GAAG,CAAC,KAAa,EAA4B,EAAE,CAAC,UAAU,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC;IACtF,MAAM,SAAS,GAAG,CAAC,KAAa,EAAqB,EAAE;QACrD,MAAM,WAAW,GAAG,QAAQ,CAAC,OAAO,CAAC,YAAY,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,CAAC,QAAQ,EAAE,CAAC,CAAC;QAC1E,UAAU,CAAC,IAAI,CAAC,WAAW,CAAC,CAAC;QAC7B,OAAO,WAAW,CAAC;IACrB,CAAC,CAAC;IAEF,MAAM,UAAU,GAAwB,EAAE,CAAC;IAC3C,MAAM,QAAQ,GAAG,cAAc,CAAC,MAAM,CAAC;IACvC,MAAM,QAAQ,GAAG,EAAE,CAAC,SAAS,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC;IAE/C,MAAM,EAAE,GAAG,SAAS,CAAC,aAAa,CAAC,cAAc,CAAC,CAAC;IACnD,KAAK,IAAI,MAAM,GAAG,CAAC,EAAE,MAAM,GAAG,QAAQ,EAAE,EAAE,MAAM,EAAE,CAAC;QACjD,MAAM,kBAAkB,GAAG,EAAE,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC;QAClD,KAAK,IAAI,MAAM,GAAW,CAAC,EAAE,MAAM,GAAG,kBAAkB,CAAC,MAAM,EAAE,EAAE,MAAM,EAAE,CAAC;YAC1E,MAAM,EAAE,GAAW,kBAAkB,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC;YAC1D,MAAM,GAAG,GAAG,MAAM,CAAC,MAAM,CAAC,IAAI,SAAS,CAAC,MAAM,CAAC,CAAC;YAChD,GAAG,CAAC,GAAG,CAAC,MAAM,EAAE,EAAE,EAAE,KAAK,CAAC,CAAC;QAC7B,CAAC;IACH,CAAC;IAED,sFAAsF;IACtF,MAAM,gBAAgB,GACpB,cAAc,CAAC,IAAI,CAAC,QAAQ,CAAC,gBAAgB,CAAC,IAAI,IAAI,CAAC;IACzD,MAAM,aAAa,GAAG,gBAAgB,EAAE,4BAA4B,CAAC;IACrE,IAAI,aAAa;QACf,KAAK,MAAM,GAAG,IAAI,UAAU;YAC1B,GAAG,CAAC,MAAM,CAAC,8BAA8B,EAAE,aAAa,CAAC,CAAC;IAE9D,OAAO,QAAQ,CAAC;AAClB,CAAC"}
|