@teselagen/bio-parsers 0.4.36 → 0.4.37
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/index.cjs +10 -3
- package/index.js +10 -3
- package/index.umd.cjs +10 -3
- package/package.json +1 -1
- package/src/snapgeneToJson.js +10 -5
package/index.cjs
CHANGED
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@@ -17145,17 +17145,20 @@ function snapgeneToJson(_0) {
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17145
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const b = new fxpExports.XMLParser({
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ignoreAttributes: false,
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attributeNamePrefix: "",
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17148
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-
isArray: /* @__PURE__ */ __name((name) =>
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17148
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+
isArray: /* @__PURE__ */ __name((name) => ["Feature", "Segment", "Q", "V"].includes(name), "isArray")
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17149
17149
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}).parse(xml);
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const { Features: { Feature = [] } = {} } = b;
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data.features = [];
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Feature.forEach((feat) => {
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17153
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var _a2, _b2, _c, _d;
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const { directionality, Segment = [], name, type } = feat;
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+
let color2;
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let maxStart = 0;
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let maxEnd = 0;
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const locations = Segment && Segment.map((seg) => {
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if (!seg) throw new Error("invalid feature definition");
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const { range } = seg;
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17161
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+
if (seg.color) color2 = seg.color;
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17159
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let { start, end } = getStartAndEndFromRangeString(range);
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start = isProtein ? start * 3 : start;
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end = isProtein ? end * 3 + 2 : end;
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@@ -17166,6 +17169,10 @@ function snapgeneToJson(_0) {
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end
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};
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});
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17172
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const colorQual = (_a2 = feat.Q) == null ? void 0 : _a2.find((q) => q.name === "color");
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17173
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if (colorQual) {
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17174
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color2 = ((_c = (_b2 = colorQual.V) == null ? void 0 : _b2[0]) == null ? void 0 : _c.text) || ((_d = colorQual.V) == null ? void 0 : _d[0]);
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+
}
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data.features.push(__spreadProps(__spreadValues({
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name,
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type
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@@ -17173,8 +17180,8 @@ function snapgeneToJson(_0) {
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strand: directionality ? strand_dict[directionality][0] : 1,
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arrowheadType: directionality ? strand_dict[directionality][1] : "NONE",
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start: maxStart,
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-
end: maxEnd
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-
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end: maxEnd,
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color: color2
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}));
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});
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} else if (ord(next_byte) === 6) {
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package/index.js
CHANGED
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@@ -17143,17 +17143,20 @@ function snapgeneToJson(_0) {
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const b = new fxpExports.XMLParser({
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ignoreAttributes: false,
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attributeNamePrefix: "",
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17146
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-
isArray: /* @__PURE__ */ __name((name) =>
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17146
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+
isArray: /* @__PURE__ */ __name((name) => ["Feature", "Segment", "Q", "V"].includes(name), "isArray")
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}).parse(xml);
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const { Features: { Feature = [] } = {} } = b;
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data.features = [];
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Feature.forEach((feat) => {
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17151
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+
var _a2, _b2, _c, _d;
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17151
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const { directionality, Segment = [], name, type } = feat;
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17153
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+
let color2;
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17152
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let maxStart = 0;
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17153
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let maxEnd = 0;
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17154
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const locations = Segment && Segment.map((seg) => {
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if (!seg) throw new Error("invalid feature definition");
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17156
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const { range } = seg;
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17159
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if (seg.color) color2 = seg.color;
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17157
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let { start, end } = getStartAndEndFromRangeString(range);
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17158
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start = isProtein ? start * 3 : start;
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end = isProtein ? end * 3 + 2 : end;
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@@ -17164,6 +17167,10 @@ function snapgeneToJson(_0) {
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end
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};
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});
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17170
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const colorQual = (_a2 = feat.Q) == null ? void 0 : _a2.find((q) => q.name === "color");
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17171
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if (colorQual) {
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color2 = ((_c = (_b2 = colorQual.V) == null ? void 0 : _b2[0]) == null ? void 0 : _c.text) || ((_d = colorQual.V) == null ? void 0 : _d[0]);
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}
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data.features.push(__spreadProps(__spreadValues({
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name,
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type
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@@ -17171,8 +17178,8 @@ function snapgeneToJson(_0) {
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17171
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strand: directionality ? strand_dict[directionality][0] : 1,
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17172
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arrowheadType: directionality ? strand_dict[directionality][1] : "NONE",
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17173
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start: maxStart,
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17174
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-
end: maxEnd
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17175
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-
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+
end: maxEnd,
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color: color2
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}));
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});
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} else if (ord(next_byte) === 6) {
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package/index.umd.cjs
CHANGED
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@@ -17147,17 +17147,20 @@ var __async = (__this, __arguments, generator) => {
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17147
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const b = new fxpExports.XMLParser({
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ignoreAttributes: false,
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attributeNamePrefix: "",
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17150
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-
isArray: /* @__PURE__ */ __name((name) =>
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17150
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+
isArray: /* @__PURE__ */ __name((name) => ["Feature", "Segment", "Q", "V"].includes(name), "isArray")
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17151
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}).parse(xml);
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17152
17152
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const { Features: { Feature = [] } = {} } = b;
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17153
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data.features = [];
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17154
17154
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Feature.forEach((feat) => {
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17155
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+
var _a2, _b2, _c, _d;
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17155
17156
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const { directionality, Segment = [], name, type } = feat;
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17157
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+
let color2;
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17156
17158
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let maxStart = 0;
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17157
17159
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let maxEnd = 0;
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17158
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const locations = Segment && Segment.map((seg) => {
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17159
17161
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if (!seg) throw new Error("invalid feature definition");
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17160
17162
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const { range } = seg;
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17163
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+
if (seg.color) color2 = seg.color;
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17161
17164
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let { start, end } = getStartAndEndFromRangeString(range);
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17162
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start = isProtein ? start * 3 : start;
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17163
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end = isProtein ? end * 3 + 2 : end;
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@@ -17168,6 +17171,10 @@ var __async = (__this, __arguments, generator) => {
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end
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};
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});
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17174
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+
const colorQual = (_a2 = feat.Q) == null ? void 0 : _a2.find((q) => q.name === "color");
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17175
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+
if (colorQual) {
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17176
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color2 = ((_c = (_b2 = colorQual.V) == null ? void 0 : _b2[0]) == null ? void 0 : _c.text) || ((_d = colorQual.V) == null ? void 0 : _d[0]);
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17177
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+
}
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data.features.push(__spreadProps(__spreadValues({
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name,
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17173
17180
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type
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@@ -17175,8 +17182,8 @@ var __async = (__this, __arguments, generator) => {
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17175
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strand: directionality ? strand_dict[directionality][0] : 1,
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17176
17183
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arrowheadType: directionality ? strand_dict[directionality][1] : "NONE",
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17177
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start: maxStart,
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17178
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-
end: maxEnd
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17179
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-
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17185
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+
end: maxEnd,
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color: color2
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}));
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});
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} else if (ord(next_byte) === 6) {
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package/package.json
CHANGED
package/src/snapgeneToJson.js
CHANGED
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@@ -113,13 +113,13 @@ async function snapgeneToJson(fileObj, options = {}) {
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const b = new XMLParser({
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ignoreAttributes: false,
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attributeNamePrefix: "",
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-
isArray: name =>
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+
isArray: name => ["Feature", "Segment", "Q", "V"].includes(name)
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}).parse(xml);
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const { Features: { Feature = [] } = {} } = b;
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data.features = [];
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Feature.forEach(feat => {
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const { directionality, Segment = [], name, type } = feat;
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-
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let color;
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let maxStart = 0;
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let maxEnd = 0;
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const locations =
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@@ -127,7 +127,7 @@ async function snapgeneToJson(fileObj, options = {}) {
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Segment.map(seg => {
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if (!seg) throw new Error("invalid feature definition");
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const { range } = seg;
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-
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if (seg.color) color = seg.color;
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let { start, end } = getStartAndEndFromRangeString(range);
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start = isProtein ? start * 3 : start;
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end = isProtein ? end * 3 + 2 : end;
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@@ -139,6 +139,11 @@ async function snapgeneToJson(fileObj, options = {}) {
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};
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});
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const colorQual = feat.Q?.find(q => q.name === "color");
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if (colorQual) {
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color = colorQual.V?.[0]?.text || colorQual.V?.[0];
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}
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+
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data.features.push({
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name,
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type,
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@@ -148,8 +153,8 @@ async function snapgeneToJson(fileObj, options = {}) {
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? strand_dict[directionality][1]
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: "NONE",
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start: maxStart,
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-
end: maxEnd
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-
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end: maxEnd,
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color
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});
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});
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} else if (ord(next_byte) === 6) {
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