@datagrok/sequence-translator 1.0.2 → 1.0.5
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/detectors.js +17 -16
- package/dist/package-test.js +41 -44
- package/dist/package.js +694 -567
- package/package.json +22 -17
- package/src/__jest__/remote.test.ts +33 -14
- package/src/autostart/registration.ts +194 -0
- package/src/{axolabsMap.ts → axolabs/constants.ts} +1 -1
- package/src/{defineAxolabsPattern.ts → axolabs/define-pattern.ts} +87 -62
- package/src/{drawAxolabsPattern.ts → axolabs/draw-svg.ts} +1 -1
- package/src/main/main-view.ts +225 -0
- package/src/package.ts +11 -370
- package/src/structures-works/converters.ts +4 -1
- package/src/structures-works/from-monomers.ts +4 -3
- package/src/structures-works/map.ts +1 -0
- package/src/structures-works/mol-transformations.ts +7 -5
- package/src/structures-works/sequence-codes-tools.ts +24 -24
- package/test-SequenceTranslator-4f0c8bae6479-6545fe31.html +276 -0
- package/vendors/openchemlib-full.js +293 -0
- package/webpack.config.js +1 -1
- package/test-SequenceTranslator-b5ff4c12f22d-f3bfb562.html +0 -245
package/detectors.js
CHANGED
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@@ -1,25 +1,26 @@
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class SequenceTranslatorPackageDetectors extends DG.Package {
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isDnaNucleotides(sequence) {return /^[ATGC]{6,}$/.test(sequence);}
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isRnaNucleotides(sequence) {return /^[AUGC]{6,}$/.test(sequence);}
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isAsoGapmerBioSpring(sequence) {return /^[*56789ATGC]{6,}$/.test(sequence);}
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isAsoGapmerGcrs(sequence) {return /^(?=.*moe)(?=.*5mC)(?=.*ps){6,}/.test(sequence);}
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isSiRnaBioSpring(sequence) {return /^[*1-8]{6,}$/.test(sequence);}
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isSiRnaAxolabs(sequence) {return /^[fsACGUacgu]{6,}$/.test(sequence);}
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isSiRnaGcrs(sequence) {return /^[fmpsACGU]{6,}$/.test(sequence);} // TODO: insert into detectNucleotides
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isGcrs(sequence) {return /^[fmpsACGU]{6,}$/.test(sequence);}
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isMermade12(sequence) {return /^[IiJjKkLlEeFfGgHhQq]{6,}$/.test(sequence);}
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//tags: semTypeDetector
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//input: column col
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//output: string semType
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detectNucleotides(col) {
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if (col.type === DG.TYPE.STRING) {
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if (DG.Detector.sampleCategories(col, (s) => isDnaNucleotides(s)))
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if (DG.Detector.sampleCategories(col, (s) =>
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if (DG.Detector.sampleCategories(col, (s) =>
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if (DG.Detector.sampleCategories(col, (s) =>
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if (DG.Detector.sampleCategories(col, (s) => isSiRnaBioSpring(s)))
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return 'BioSpring / siRNA';
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if (DG.Detector.sampleCategories(col, (s) => isSiRnaAxolabs(s)))
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return 'Axolabs / siRNA';
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if (DG.Detector.sampleCategories(col, (s) => isGcrs(s)))
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return 'GCRS';
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if (DG.Detector.sampleCategories(col, (s) => isMermade12(s)))
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return 'Mermade 12 / siRNA';
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if (DG.Detector.sampleCategories(col, (s) => this.isDnaNucleotides(s))) return 'DNA nucleotides';
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if (DG.Detector.sampleCategories(col, (s) => this.isRnaNucleotides(s))) return 'RNA nucleotides';
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if (DG.Detector.sampleCategories(col, (s) => this.isAsoGapmerBioSpring(s))) return 'BioSpring / Gapmers';
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if (DG.Detector.sampleCategories(col, (s) => this.isAsoGapmerGcrs(s))) return 'GCRS / Gapmers';
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if (DG.Detector.sampleCategories(col, (s) => this.isSiRnaBioSpring(s))) return 'BioSpring / siRNA';
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if (DG.Detector.sampleCategories(col, (s) => this.isSiRnaAxolabs(s))) return 'Axolabs / siRNA';
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if (DG.Detector.sampleCategories(col, (s) => this.isGcrs(s))) return 'GCRS';
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if (DG.Detector.sampleCategories(col, (s) => this.isMermade12(s))) return 'Mermade 12 / siRNA';
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}
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}
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}
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