@teselagen/bio-parsers 0.3.2 → 0.3.4

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Files changed (6) hide show
  1. package/index.js +5 -0
  2. package/index.mjs +5 -0
  3. package/index.umd.js +5 -0
  4. package/package.json +3 -3
  5. package/src/genbankToJson.js +4 -0
  6. package/src/utils/validateSequence.js +1 -0
package/index.js CHANGED
@@ -19363,6 +19363,7 @@ function validateSequence(sequence, options = {}) {
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  }
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  if (temp !== sequence.sequence) {
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  sequence.type = "RNA";
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+ sequence.sequence = temp;
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  } else {
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  sequence.type = "DNA";
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  }
@@ -19950,6 +19951,9 @@ function genbankToJson(string, options = {}) {
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  if (item.match(/ss-dna/i)) {
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  options.isSingleStrandedDNA = true;
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  }
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+ if (item.match(/rna/i)) {
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+ options.isRna = true;
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+ }
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  if (item.match(/rna/i) && !item.match(/ss-rna/i)) {
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  options.isDoubleStrandedRNA = true;
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  }
@@ -19964,6 +19968,7 @@ function genbankToJson(string, options = {}) {
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  result.parsedSequence.gbDivision = gbDivision;
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  result.parsedSequence.sequenceTypeFromLocus = options.sequenceTypeFromLocus;
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  result.parsedSequence.isSingleStrandedDNA = options.isSingleStrandedDNA;
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+ result.parsedSequence.isRna = options.isRna;
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  result.parsedSequence.isDoubleStrandedRNA = options.isDoubleStrandedRNA;
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  result.parsedSequence.date = date;
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  result.parsedSequence.circular = circular;
package/index.mjs CHANGED
@@ -19361,6 +19361,7 @@ function validateSequence(sequence, options = {}) {
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  }
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  if (temp !== sequence.sequence) {
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  sequence.type = "RNA";
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+ sequence.sequence = temp;
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  } else {
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  sequence.type = "DNA";
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  }
@@ -19948,6 +19949,9 @@ function genbankToJson(string, options = {}) {
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  if (item.match(/ss-dna/i)) {
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  options.isSingleStrandedDNA = true;
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  }
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+ if (item.match(/rna/i)) {
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+ options.isRna = true;
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+ }
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  if (item.match(/rna/i) && !item.match(/ss-rna/i)) {
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  options.isDoubleStrandedRNA = true;
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  }
@@ -19962,6 +19966,7 @@ function genbankToJson(string, options = {}) {
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  result.parsedSequence.gbDivision = gbDivision;
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  result.parsedSequence.sequenceTypeFromLocus = options.sequenceTypeFromLocus;
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  result.parsedSequence.isSingleStrandedDNA = options.isSingleStrandedDNA;
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+ result.parsedSequence.isRna = options.isRna;
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  result.parsedSequence.isDoubleStrandedRNA = options.isDoubleStrandedRNA;
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  result.parsedSequence.date = date;
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  result.parsedSequence.circular = circular;
package/index.umd.js CHANGED
@@ -19365,6 +19365,7 @@ var __async = (__this, __arguments, generator) => {
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  }
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  if (temp !== sequence.sequence) {
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  sequence.type = "RNA";
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+ sequence.sequence = temp;
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  } else {
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  sequence.type = "DNA";
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  }
@@ -19952,6 +19953,9 @@ var __async = (__this, __arguments, generator) => {
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  if (item.match(/ss-dna/i)) {
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  options.isSingleStrandedDNA = true;
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  }
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+ if (item.match(/rna/i)) {
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+ options.isRna = true;
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+ }
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  if (item.match(/rna/i) && !item.match(/ss-rna/i)) {
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  options.isDoubleStrandedRNA = true;
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  }
@@ -19966,6 +19970,7 @@ var __async = (__this, __arguments, generator) => {
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  result.parsedSequence.gbDivision = gbDivision;
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  result.parsedSequence.sequenceTypeFromLocus = options.sequenceTypeFromLocus;
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  result.parsedSequence.isSingleStrandedDNA = options.isSingleStrandedDNA;
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+ result.parsedSequence.isRna = options.isRna;
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  result.parsedSequence.isDoubleStrandedRNA = options.isDoubleStrandedRNA;
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  result.parsedSequence.date = date;
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  result.parsedSequence.circular = circular;
package/package.json CHANGED
@@ -1,10 +1,10 @@
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  {
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  "name": "@teselagen/bio-parsers",
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- "version": "0.3.2",
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+ "version": "0.3.4",
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  "type": "commonjs",
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  "dependencies": {
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- "@teselagen/sequence-utils": "0.3.2",
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- "@teselagen/range-utils": "0.3.2",
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+ "@teselagen/sequence-utils": "0.3.4",
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+ "@teselagen/range-utils": "0.3.4",
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  "@gmod/gff": "^1.2.1",
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  "buffer": "^6.0.3",
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  "bufferpack": "^0.0.6",
package/src/genbankToJson.js CHANGED
@@ -347,6 +347,9 @@ function genbankToJson(string, options = {}) {
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  if (item.match(/ss-dna/i)) {
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  options.isSingleStrandedDNA = true;
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  }
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+ if (item.match(/rna/i)) {
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+ options.isRna = true;
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+ }
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  if (item.match(/rna/i) && !item.match(/ss-rna/i)) {
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  options.isDoubleStrandedRNA = true;
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  }
@@ -371,6 +374,7 @@ function genbankToJson(string, options = {}) {
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  result.parsedSequence.gbDivision = gbDivision;
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  result.parsedSequence.sequenceTypeFromLocus = options.sequenceTypeFromLocus;
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  result.parsedSequence.isSingleStrandedDNA = options.isSingleStrandedDNA;
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+ result.parsedSequence.isRna = options.isRna;
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  result.parsedSequence.isDoubleStrandedRNA = options.isDoubleStrandedRNA;
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  result.parsedSequence.date = date;
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  result.parsedSequence.circular = circular;
package/src/utils/validateSequence.js CHANGED
@@ -104,6 +104,7 @@ export default function validateSequence(sequence, options = {}) {
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  }
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  if (temp !== sequence.sequence) {
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  sequence.type = "RNA";
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+ sequence.sequence = temp;
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  } else {
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  sequence.type = "DNA";
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  }