@jbrowse/plugin-gtf 2.4.2 → 2.6.1

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Files changed (13) hide show
  1. package/dist/GtfAdapter/configSchema.d.ts +12 -1
  2. package/dist/GtfAdapter/configSchema.js +1 -0
  3. package/dist/GtfAdapter/configSchema.js.map +1 -1
  4. package/dist/util.js +3 -3
  5. package/dist/util.js.map +1 -1
  6. package/esm/GtfAdapter/configSchema.d.ts +12 -1
  7. package/esm/GtfAdapter/configSchema.js +1 -0
  8. package/esm/GtfAdapter/configSchema.js.map +1 -1
  9. package/esm/util.js +3 -3
  10. package/esm/util.js.map +1 -1
  11. package/package.json +3 -3
  12. package/src/GtfAdapter/configSchema.ts +1 -0
  13. package/src/util.ts +4 -4
package/dist/GtfAdapter/configSchema.d.ts CHANGED
@@ -1,2 +1,13 @@
1
- declare const GtfAdapter: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
1
+ declare const GtfAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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+ /**
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+ * #slot
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+ */
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+ gtfLocation: {
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+ type: string;
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+ defaultValue: {
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+ uri: string;
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+ locationType: string;
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+ };
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+ };
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
2
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  export default GtfAdapter;
package/dist/GtfAdapter/configSchema.js CHANGED
@@ -3,6 +3,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
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  const configuration_1 = require("@jbrowse/core/configuration");
4
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  /**
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  * #config GtfAdapter
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+ * #category adapter
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  */
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  function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
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  const GtfAdapter = (0, configuration_1.ConfigurationSchema)('GtfAdapter', {
package/dist/GtfAdapter/configSchema.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/GtfAdapter/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,UAAU,GAAG,IAAA,mCAAmB,EACpC,YAAY,EACZ;IACE;;OAEG;IACH,WAAW,EAAE;QACX,IAAI,EAAE,cAAc;QACpB,YAAY,EAAE,EAAE,GAAG,EAAE,iBAAiB,EAAE,YAAY,EAAE,aAAa,EAAE;KACtE;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA;AAED,kBAAe,UAAU,CAAA"}
1
+ {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/GtfAdapter/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,UAAU,GAAG,IAAA,mCAAmB,EACpC,YAAY,EACZ;IACE;;OAEG;IACH,WAAW,EAAE;QACX,IAAI,EAAE,cAAc;QACpB,YAAY,EAAE,EAAE,GAAG,EAAE,iBAAiB,EAAE,YAAY,EAAE,aAAa,EAAE;KACtE;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA;AAED,kBAAe,UAAU,CAAA"}
package/dist/util.js CHANGED
@@ -33,9 +33,9 @@ function featureData(data) {
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33
  if (data.attributes[a] !== null) {
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  let attr = data.attributes[a];
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  if (Array.isArray(attr) && attr.length === 1) {
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- // gtf uses double quotes for text values in the attributes column, remove them
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- const formattedAttr = attr[0].replace(/^"|"$/g, '');
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- attr = formattedAttr;
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+ // gtf uses double quotes for text values in the attributes column,
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+ // remove them
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+ attr = `${attr[0]}`.replaceAll(/^"|"$/g, '');
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  }
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  f[b] = attr;
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  }
package/dist/util.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":";;;AAaA,SAAgB,WAAW,CAAC,IAAgB;IAC1C,MAAM,CAAC,GAA4B,EAAE,GAAG,IAAI,EAAE,CAC7C;IAAC,CAAC,CAAC,KAAgB,IAAI,CAAC,CAAA,CAAC,uBAAuB;IACjD,CAAC,CAAC,MAAM,GAAG,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,SAAS,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA,CAAC,iBAAiB;IACrF,CAAC,CAAC,KAAK,GAAG,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;IAC5B,CAAC,CAAC,OAAO,GAAG,IAAI,CAAC,QAAQ,CAAA;IACzB,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC;QAC5B,OAAO;QACP,KAAK;QACL,UAAU;QACV,OAAO;QACP,aAAa;QACb,QAAQ;QACR,OAAO;QACP,QAAQ;KACT,CAAC,CAAA;IACF,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,EAAE;QAC5C,IAAI,CAAC,GAAG,CAAC,CAAC,WAAW,EAAE,CAAA;QACvB,IAAI,aAAa,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;YACxB,gDAAgD;YAChD,gCAAgC;YAChC,CAAC,IAAI,GAAG,CAAA;SACT;QACD,IAAI,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,KAAK,IAAI,EAAE;YAC/B,IAAI,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,CAAA;YAC7B,IAAI,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC,EAAE;gBAC5C,+EAA+E;gBAC/E,MAAM,aAAa,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;gBACnD,IAAI,GAAG,aAAa,CAAA;aACrB;YACD,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,CAAA;SACZ;KACF;IACD,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,QAAQ,CAAA;IACtB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAA;IAEtB,gFAAgF;IAChF,IAAI,IAAI,CAAC,cAAc,IAAI,IAAI,CAAC,cAAc,CAAC,MAAM,GAAG,CAAC,EAAE;QACzD,CAAC,CAAC,WAAW,GAAG,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,SAAS,CAAC,EAAE,CACtD,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,CACjD,CAAA;KACF;IAED,OAAO,CAAC,CAAC,cAAc,CAAA;IACvB,OAAO,CAAC,CAAC,IAAI,CAAA;IACb,OAAO,CAAC,CAAC,gBAAgB,CAAA;IACzB,gDAAgD;IAChD,OAAO,CAAC,CAAC,SAAS,CAAA;IAClB,OAAO,CAAC,CAAC,UAAU,CAAA;IACnB,OAAO,CAAC,CAAC,QAAQ,CAAA;IACjB,OAAO,CAAC,CAAC,WAAW,CAAA;IACpB,OAAO,CAAC,CAAC,KAAK,CAAA;IAEd,IAAI,CAAC,CAAC,aAAa,EAAE;QACnB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,aAAa,CAAA;KACzB;IACD,OAAO,CAAC,CAAA;AACV,CAAC;AA/DD,kCA+DC"}
1
+ {"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":";;;AAaA,SAAgB,WAAW,CAAC,IAAgB;IAC1C,MAAM,CAAC,GAA4B,EAAE,GAAG,IAAI,EAAE,CAC7C;IAAC,CAAC,CAAC,KAAgB,IAAI,CAAC,CAAA,CAAC,uBAAuB;IACjD,CAAC,CAAC,MAAM,GAAG,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,SAAS,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA,CAAC,iBAAiB;IACrF,CAAC,CAAC,KAAK,GAAG,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;IAC5B,CAAC,CAAC,OAAO,GAAG,IAAI,CAAC,QAAQ,CAAA;IACzB,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC;QAC5B,OAAO;QACP,KAAK;QACL,UAAU;QACV,OAAO;QACP,aAAa;QACb,QAAQ;QACR,OAAO;QACP,QAAQ;KACT,CAAC,CAAA;IACF,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,EAAE;QAC5C,IAAI,CAAC,GAAG,CAAC,CAAC,WAAW,EAAE,CAAA;QACvB,IAAI,aAAa,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;YACxB,gDAAgD;YAChD,gCAAgC;YAChC,CAAC,IAAI,GAAG,CAAA;SACT;QACD,IAAI,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,KAAK,IAAI,EAAE;YAC/B,IAAI,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAsB,CAAA;YAClD,IAAI,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC,EAAE;gBAC5C,mEAAmE;gBACnE,cAAc;gBACd,IAAI,GAAG,GAAG,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,UAAU,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;aAC7C;YACD,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,CAAA;SACZ;KACF;IACD,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,QAAQ,CAAA;IACtB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAA;IAEtB,gFAAgF;IAChF,IAAI,IAAI,CAAC,cAAc,IAAI,IAAI,CAAC,cAAc,CAAC,MAAM,GAAG,CAAC,EAAE;QACzD,CAAC,CAAC,WAAW,GAAG,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,SAAS,CAAC,EAAE,CACtD,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,CACjD,CAAA;KACF;IAED,OAAO,CAAC,CAAC,cAAc,CAAA;IACvB,OAAO,CAAC,CAAC,IAAI,CAAA;IACb,OAAO,CAAC,CAAC,gBAAgB,CAAA;IACzB,gDAAgD;IAChD,OAAO,CAAC,CAAC,SAAS,CAAA;IAClB,OAAO,CAAC,CAAC,UAAU,CAAA;IACnB,OAAO,CAAC,CAAC,QAAQ,CAAA;IACjB,OAAO,CAAC,CAAC,WAAW,CAAA;IACpB,OAAO,CAAC,CAAC,KAAK,CAAA;IAEd,IAAI,CAAC,CAAC,aAAa,EAAE;QACnB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,aAAa,CAAA;KACzB;IACD,OAAO,CAAC,CAAA;AACV,CAAC;AA/DD,kCA+DC"}
package/esm/GtfAdapter/configSchema.d.ts CHANGED
@@ -1,2 +1,13 @@
1
- declare const GtfAdapter: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
1
+ declare const GtfAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
2
+ /**
3
+ * #slot
4
+ */
5
+ gtfLocation: {
6
+ type: string;
7
+ defaultValue: {
8
+ uri: string;
9
+ locationType: string;
10
+ };
11
+ };
12
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
2
13
  export default GtfAdapter;
package/esm/GtfAdapter/configSchema.js CHANGED
@@ -1,6 +1,7 @@
1
1
  import { ConfigurationSchema } from '@jbrowse/core/configuration';
2
2
  /**
3
3
  * #config GtfAdapter
4
+ * #category adapter
4
5
  */
5
6
  function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
6
7
  const GtfAdapter = ConfigurationSchema('GtfAdapter', {
package/esm/GtfAdapter/configSchema.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/GtfAdapter/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,UAAU,GAAG,mBAAmB,CACpC,YAAY,EACZ;IACE;;OAEG;IACH,WAAW,EAAE;QACX,IAAI,EAAE,cAAc;QACpB,YAAY,EAAE,EAAE,GAAG,EAAE,iBAAiB,EAAE,YAAY,EAAE,aAAa,EAAE;KACtE;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA;AAED,eAAe,UAAU,CAAA"}
1
+ {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/GtfAdapter/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;;GAGG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,UAAU,GAAG,mBAAmB,CACpC,YAAY,EACZ;IACE;;OAEG;IACH,WAAW,EAAE;QACX,IAAI,EAAE,cAAc;QACpB,YAAY,EAAE,EAAE,GAAG,EAAE,iBAAiB,EAAE,YAAY,EAAE,aAAa,EAAE;KACtE;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA;AAED,eAAe,UAAU,CAAA"}
package/esm/util.js CHANGED
@@ -30,9 +30,9 @@ export function featureData(data) {
30
30
  if (data.attributes[a] !== null) {
31
31
  let attr = data.attributes[a];
32
32
  if (Array.isArray(attr) && attr.length === 1) {
33
- // gtf uses double quotes for text values in the attributes column, remove them
34
- const formattedAttr = attr[0].replace(/^"|"$/g, '');
35
- attr = formattedAttr;
33
+ // gtf uses double quotes for text values in the attributes column,
34
+ // remove them
35
+ attr = `${attr[0]}`.replaceAll(/^"|"$/g, '');
36
36
  }
37
37
  f[b] = attr;
38
38
  }
package/esm/util.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":"AAaA,MAAM,UAAU,WAAW,CAAC,IAAgB;IAC1C,MAAM,CAAC,GAA4B,EAAE,GAAG,IAAI,EAAE,CAC7C;IAAC,CAAC,CAAC,KAAgB,IAAI,CAAC,CAAA,CAAC,uBAAuB;IACjD,CAAC,CAAC,MAAM,GAAG,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,SAAS,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA,CAAC,iBAAiB;IACrF,CAAC,CAAC,KAAK,GAAG,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;IAC5B,CAAC,CAAC,OAAO,GAAG,IAAI,CAAC,QAAQ,CAAA;IACzB,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC;QAC5B,OAAO;QACP,KAAK;QACL,UAAU;QACV,OAAO;QACP,aAAa;QACb,QAAQ;QACR,OAAO;QACP,QAAQ;KACT,CAAC,CAAA;IACF,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,EAAE;QAC5C,IAAI,CAAC,GAAG,CAAC,CAAC,WAAW,EAAE,CAAA;QACvB,IAAI,aAAa,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;YACxB,gDAAgD;YAChD,gCAAgC;YAChC,CAAC,IAAI,GAAG,CAAA;SACT;QACD,IAAI,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,KAAK,IAAI,EAAE;YAC/B,IAAI,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,CAAA;YAC7B,IAAI,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC,EAAE;gBAC5C,+EAA+E;gBAC/E,MAAM,aAAa,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;gBACnD,IAAI,GAAG,aAAa,CAAA;aACrB;YACD,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,CAAA;SACZ;KACF;IACD,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,QAAQ,CAAA;IACtB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAA;IAEtB,gFAAgF;IAChF,IAAI,IAAI,CAAC,cAAc,IAAI,IAAI,CAAC,cAAc,CAAC,MAAM,GAAG,CAAC,EAAE;QACzD,CAAC,CAAC,WAAW,GAAG,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,SAAS,CAAC,EAAE,CACtD,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,CACjD,CAAA;KACF;IAED,OAAO,CAAC,CAAC,cAAc,CAAA;IACvB,OAAO,CAAC,CAAC,IAAI,CAAA;IACb,OAAO,CAAC,CAAC,gBAAgB,CAAA;IACzB,gDAAgD;IAChD,OAAO,CAAC,CAAC,SAAS,CAAA;IAClB,OAAO,CAAC,CAAC,UAAU,CAAA;IACnB,OAAO,CAAC,CAAC,QAAQ,CAAA;IACjB,OAAO,CAAC,CAAC,WAAW,CAAA;IACpB,OAAO,CAAC,CAAC,KAAK,CAAA;IAEd,IAAI,CAAC,CAAC,aAAa,EAAE;QACnB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,aAAa,CAAA;KACzB;IACD,OAAO,CAAC,CAAA;AACV,CAAC"}
1
+ {"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":"AAaA,MAAM,UAAU,WAAW,CAAC,IAAgB;IAC1C,MAAM,CAAC,GAA4B,EAAE,GAAG,IAAI,EAAE,CAC7C;IAAC,CAAC,CAAC,KAAgB,IAAI,CAAC,CAAA,CAAC,uBAAuB;IACjD,CAAC,CAAC,MAAM,GAAG,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,EAAE,GAAG,EAAE,SAAS,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA,CAAC,iBAAiB;IACrF,CAAC,CAAC,KAAK,GAAG,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;IAC5B,CAAC,CAAC,OAAO,GAAG,IAAI,CAAC,QAAQ,CAAA;IACzB,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,IAAI,IAAI,CAAC,KAAK,KAAK,IAAI,EAAE;QACvB,OAAO,CAAC,CAAC,KAAK,CAAA;KACf;IACD,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC;QAC5B,OAAO;QACP,KAAK;QACL,UAAU;QACV,OAAO;QACP,aAAa;QACb,QAAQ;QACR,OAAO;QACP,QAAQ;KACT,CAAC,CAAA;IACF,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,EAAE;QAC5C,IAAI,CAAC,GAAG,CAAC,CAAC,WAAW,EAAE,CAAA;QACvB,IAAI,aAAa,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;YACxB,gDAAgD;YAChD,gCAAgC;YAChC,CAAC,IAAI,GAAG,CAAA;SACT;QACD,IAAI,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,KAAK,IAAI,EAAE;YAC/B,IAAI,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAsB,CAAA;YAClD,IAAI,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC,EAAE;gBAC5C,mEAAmE;gBACnE,cAAc;gBACd,IAAI,GAAG,GAAG,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,UAAU,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;aAC7C;YACD,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,CAAA;SACZ;KACF;IACD,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,QAAQ,CAAA;IACtB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,WAAW,CAAA;IAEtB,gFAAgF;IAChF,IAAI,IAAI,CAAC,cAAc,IAAI,IAAI,CAAC,cAAc,CAAC,MAAM,GAAG,CAAC,EAAE;QACzD,CAAC,CAAC,WAAW,GAAG,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,SAAS,CAAC,EAAE,CACtD,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,CACjD,CAAA;KACF;IAED,OAAO,CAAC,CAAC,cAAc,CAAA;IACvB,OAAO,CAAC,CAAC,IAAI,CAAA;IACb,OAAO,CAAC,CAAC,gBAAgB,CAAA;IACzB,gDAAgD;IAChD,OAAO,CAAC,CAAC,SAAS,CAAA;IAClB,OAAO,CAAC,CAAC,UAAU,CAAA;IACnB,OAAO,CAAC,CAAC,QAAQ,CAAA;IACjB,OAAO,CAAC,CAAC,WAAW,CAAA;IACpB,OAAO,CAAC,CAAC,KAAK,CAAA;IAEd,IAAI,CAAC,CAAC,aAAa,EAAE;QACnB,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,aAAa,CAAA;KACzB;IACD,OAAO,CAAC,CAAA;AACV,CAAC"}
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-gtf",
3
- "version": "2.4.2",
3
+ "version": "2.6.1",
4
4
  "description": "JBrowse 2 gtf feature adapter",
5
5
  "keywords": [
6
6
  "jbrowse",
@@ -39,7 +39,7 @@
39
39
  "dependencies": {
40
40
  "@flatten-js/interval-tree": "^1.0.15",
41
41
  "@gmod/bgzf-filehandle": "^1.4.3",
42
- "@gmod/gtf": "^0.0.6"
42
+ "@gmod/gtf": "^0.0.8"
43
43
  },
44
44
  "peerDependencies": {
45
45
  "@jbrowse/core": "^2.0.0",
@@ -57,5 +57,5 @@
57
57
  "distModule": "esm/index.js",
58
58
  "srcModule": "src/index.ts",
59
59
  "module": "esm/index.js",
60
- "gitHead": "36e382a70e7d220343b873e7e6aba5c83e5342c8"
60
+ "gitHead": "1cbe7ba097fb2d2763c776e5e429e4670cdd583c"
61
61
  }
package/src/GtfAdapter/configSchema.ts CHANGED
@@ -2,6 +2,7 @@ import { ConfigurationSchema } from '@jbrowse/core/configuration'
2
2
 
3
3
  /**
4
4
  * #config GtfAdapter
5
+ * #category adapter
5
6
  */
6
7
  function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
7
8
 
package/src/util.ts CHANGED
@@ -41,11 +41,11 @@ export function featureData(data: FeatureLoc) {
41
41
  b += '2'
42
42
  }
43
43
  if (data.attributes[a] !== null) {
44
- let attr = data.attributes[a]
44
+ let attr = data.attributes[a] as string[] | string
45
45
  if (Array.isArray(attr) && attr.length === 1) {
46
- // gtf uses double quotes for text values in the attributes column, remove them
47
- const formattedAttr = attr[0].replace(/^"|"$/g, '')
48
- attr = formattedAttr
46
+ // gtf uses double quotes for text values in the attributes column,
47
+ // remove them
48
+ attr = `${attr[0]}`.replaceAll(/^"|"$/g, '')
49
49
  }
50
50
  f[b] = attr
51
51
  }