@gmod/cram 2.0.2 → 2.0.3

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Files changed (12) hide show
  1. package/CHANGELOG.md +9 -0
  2. package/dist/cram-bundle.js +1 -1
  3. package/dist/cramFile/file.d.ts +1 -1
  4. package/dist/sam.d.ts +1 -1
  5. package/dist/sam.js +2 -2
  6. package/dist/sam.js.map +1 -1
  7. package/esm/cramFile/file.d.ts +1 -1
  8. package/esm/sam.d.ts +1 -1
  9. package/esm/sam.js +2 -2
  10. package/esm/sam.js.map +1 -1
  11. package/package.json +1 -1
  12. package/src/sam.ts +3 -3
package/dist/cramFile/file.d.ts CHANGED
@@ -45,7 +45,7 @@ export default class CramFile {
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  tag: string;
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  data: {
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  tag: string;
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- value: string | undefined;
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+ value: string;
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  }[];
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  }[]>;
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  getHeaderText(): Promise<string | undefined>;
package/dist/sam.d.ts CHANGED
@@ -2,6 +2,6 @@ export declare function parseHeaderText(text: string): {
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  tag: string;
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  data: {
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  tag: string;
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- value: string | undefined;
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+ value: string;
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  }[];
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  }[];
package/dist/sam.js CHANGED
@@ -18,10 +18,10 @@ function parseHeaderText(text) {
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  }
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  : // @CO lines are not comma separated.
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  // See "samtools view -H c2\#pad.3.0.cram"
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- // so, just store value tag itself
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+ // so, just store value tag and value itself
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  {
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  tag: f,
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- value: undefined,
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+ value: '',
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  };
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  }),
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  });
package/dist/sam.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"sam.js","sourceRoot":"","sources":["../src/sam.ts"],"names":[],"mappings":";;;AAAA,SAAgB,eAAe,CAAC,IAAY;IAC1C,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA;IACjC,MAAM,IAAI,GAMJ,EAAE,CAAA;IACR,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;QACzB,MAAM,CAAC,GAAG,EAAE,GAAG,MAAM,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACzC,IAAI,GAAG,EAAE,CAAC;YACR,IAAI,CAAC,IAAI,CAAC;gBACR,GAAG,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC;gBACjB,IAAI,EAAE,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;oBACnB,MAAM,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;oBACxB,OAAO,CAAC,KAAK,CAAC,CAAC;wBACb,CAAC,CAAC;4BACE,GAAG,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC;4BAClB,KAAK,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC;yBACtB;wBACH,CAAC,CAAC,qCAAqC;4BACrC,0CAA0C;4BAC1C,kCAAkC;4BAClC;gCACE,GAAG,EAAE,CAAC;gCACN,KAAK,EAAE,SAAS;6BACjB,CAAA;gBACP,CAAC,CAAC;aACH,CAAC,CAAA;QACJ,CAAC;IACH,CAAC;IACD,OAAO,IAAI,CAAA;AACb,CAAC;AAjCD,0CAiCC"}
1
+ {"version":3,"file":"sam.js","sourceRoot":"","sources":["../src/sam.ts"],"names":[],"mappings":";;;AAAA,SAAgB,eAAe,CAAC,IAAY;IAC1C,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA;IACjC,MAAM,IAAI,GAMJ,EAAE,CAAA;IACR,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;QACzB,MAAM,CAAC,GAAG,EAAE,GAAG,MAAM,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACzC,IAAI,GAAG,EAAE,CAAC;YACR,IAAI,CAAC,IAAI,CAAC;gBACR,GAAG,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC;gBACjB,IAAI,EAAE,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;oBACnB,MAAM,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;oBACxB,OAAO,CAAC,KAAK,CAAC,CAAC;wBACb,CAAC,CAAC;4BACE,GAAG,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC;4BAClB,KAAK,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC;yBACtB;wBACH,CAAC,CAAC,qCAAqC;4BACrC,0CAA0C;4BAC1C,4CAA4C;4BAC5C;gCACE,GAAG,EAAE,CAAC;gCACN,KAAK,EAAE,EAAE;6BACV,CAAA;gBACP,CAAC,CAAC;aACH,CAAC,CAAA;QACJ,CAAC;IACH,CAAC;IACD,OAAO,IAAI,CAAA;AACb,CAAC;AAjCD,0CAiCC"}
package/esm/cramFile/file.d.ts CHANGED
@@ -45,7 +45,7 @@ export default class CramFile {
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  tag: string;
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  data: {
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  tag: string;
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- value: string | undefined;
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+ value: string;
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  }[];
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  }[]>;
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  getHeaderText(): Promise<string | undefined>;
package/esm/sam.d.ts CHANGED
@@ -2,6 +2,6 @@ export declare function parseHeaderText(text: string): {
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  tag: string;
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  data: {
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  tag: string;
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- value: string | undefined;
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+ value: string;
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  }[];
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  }[];
package/esm/sam.js CHANGED
@@ -15,10 +15,10 @@ export function parseHeaderText(text) {
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  }
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  : // @CO lines are not comma separated.
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  // See "samtools view -H c2\#pad.3.0.cram"
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- // so, just store value tag itself
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+ // so, just store value tag and value itself
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  {
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  tag: f,
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- value: undefined,
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+ value: '',
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  };
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  }),
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  });
package/esm/sam.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"sam.js","sourceRoot":"","sources":["../src/sam.ts"],"names":[],"mappings":"AAAA,MAAM,UAAU,eAAe,CAAC,IAAY;IAC1C,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA;IACjC,MAAM,IAAI,GAMJ,EAAE,CAAA;IACR,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;QACzB,MAAM,CAAC,GAAG,EAAE,GAAG,MAAM,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACzC,IAAI,GAAG,EAAE,CAAC;YACR,IAAI,CAAC,IAAI,CAAC;gBACR,GAAG,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC;gBACjB,IAAI,EAAE,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;oBACnB,MAAM,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;oBACxB,OAAO,CAAC,KAAK,CAAC,CAAC;wBACb,CAAC,CAAC;4BACE,GAAG,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC;4BAClB,KAAK,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC;yBACtB;wBACH,CAAC,CAAC,qCAAqC;4BACrC,0CAA0C;4BAC1C,kCAAkC;4BAClC;gCACE,GAAG,EAAE,CAAC;gCACN,KAAK,EAAE,SAAS;6BACjB,CAAA;gBACP,CAAC,CAAC;aACH,CAAC,CAAA;QACJ,CAAC;IACH,CAAC;IACD,OAAO,IAAI,CAAA;AACb,CAAC"}
1
+ {"version":3,"file":"sam.js","sourceRoot":"","sources":["../src/sam.ts"],"names":[],"mappings":"AAAA,MAAM,UAAU,eAAe,CAAC,IAAY;IAC1C,MAAM,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA;IACjC,MAAM,IAAI,GAMJ,EAAE,CAAA;IACR,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;QACzB,MAAM,CAAC,GAAG,EAAE,GAAG,MAAM,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACzC,IAAI,GAAG,EAAE,CAAC;YACR,IAAI,CAAC,IAAI,CAAC;gBACR,GAAG,EAAE,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC;gBACjB,IAAI,EAAE,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;oBACnB,MAAM,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;oBACxB,OAAO,CAAC,KAAK,CAAC,CAAC;wBACb,CAAC,CAAC;4BACE,GAAG,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC;4BAClB,KAAK,EAAE,CAAC,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC;yBACtB;wBACH,CAAC,CAAC,qCAAqC;4BACrC,0CAA0C;4BAC1C,4CAA4C;4BAC5C;gCACE,GAAG,EAAE,CAAC;gCACN,KAAK,EAAE,EAAE;6BACV,CAAA;gBACP,CAAC,CAAC;aACH,CAAC,CAAA;QACJ,CAAC;IACH,CAAC;IACD,OAAO,IAAI,CAAA;AACb,CAAC"}
package/package.json CHANGED
@@ -1,6 +1,6 @@
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  {
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  "name": "@gmod/cram",
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- "version": "2.0.2",
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+ "version": "2.0.3",
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  "description": "read CRAM files with pure Javascript",
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  "license": "MIT",
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  "repository": "GMOD/cram-js",
package/src/sam.ts CHANGED
@@ -4,7 +4,7 @@ export function parseHeaderText(text: string) {
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  tag: string
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  data: {
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  tag: string
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- value: string | undefined
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+ value: string
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  }[]
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  }[] = []
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  for (const line of lines) {
@@ -21,10 +21,10 @@ export function parseHeaderText(text: string) {
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  }
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  : // @CO lines are not comma separated.
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  // See "samtools view -H c2\#pad.3.0.cram"
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- // so, just store value tag itself
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+ // so, just store value tag and value itself
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  {
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  tag: f,
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- value: undefined,
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+ value: '',
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  }
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  }),
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  })