@gmod/cram 2.0.0 → 2.0.1

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.
Files changed (73) hide show
  1. package/dist/craiIndex.js.map +1 -1
  2. package/dist/cram-bundle.js +1 -1
  3. package/dist/cramFile/codecs/beta.js.map +1 -1
  4. package/dist/cramFile/codecs/byteArrayLength.js.map +1 -1
  5. package/dist/cramFile/codecs/byteArrayStop.js.map +1 -1
  6. package/dist/cramFile/codecs/external.js.map +1 -1
  7. package/dist/cramFile/codecs/gamma.js.map +1 -1
  8. package/dist/cramFile/codecs/getBits.js.map +1 -1
  9. package/dist/cramFile/codecs/huffman.js.map +1 -1
  10. package/dist/cramFile/codecs/index.js.map +1 -1
  11. package/dist/cramFile/codecs/subexp.js.map +1 -1
  12. package/dist/cramFile/container/compressionScheme.js.map +1 -1
  13. package/dist/cramFile/container/index.js.map +1 -1
  14. package/dist/cramFile/file.d.ts +8 -1
  15. package/dist/cramFile/file.js.map +1 -1
  16. package/dist/cramFile/record.js.map +1 -1
  17. package/dist/cramFile/sectionParsers.d.ts +1 -0
  18. package/dist/cramFile/sectionParsers.js +7 -7
  19. package/dist/cramFile/sectionParsers.js.map +1 -1
  20. package/dist/cramFile/slice/decodeRecord.js +1 -1
  21. package/dist/cramFile/slice/decodeRecord.js.map +1 -1
  22. package/dist/cramFile/slice/index.js.map +1 -1
  23. package/dist/cramFile/util.d.ts +1 -0
  24. package/dist/cramFile/util.js.map +1 -1
  25. package/dist/indexedCramFile.js.map +1 -1
  26. package/dist/io/index.js.map +1 -1
  27. package/dist/rans/d04.js.map +1 -1
  28. package/dist/rans/d14.js.map +1 -1
  29. package/dist/rans/decoding.js.map +1 -1
  30. package/dist/rans/frequencies.js.map +1 -1
  31. package/dist/rans/index.js.map +1 -1
  32. package/dist/sam.d.ts +5 -6
  33. package/dist/sam.js +23 -7
  34. package/dist/sam.js.map +1 -1
  35. package/dist/typescript.js.map +1 -1
  36. package/dist/unzip.d.ts +1 -0
  37. package/esm/craiIndex.js.map +1 -1
  38. package/esm/cramFile/codecs/beta.js.map +1 -1
  39. package/esm/cramFile/codecs/byteArrayLength.js.map +1 -1
  40. package/esm/cramFile/codecs/byteArrayStop.js.map +1 -1
  41. package/esm/cramFile/codecs/external.js.map +1 -1
  42. package/esm/cramFile/codecs/gamma.js.map +1 -1
  43. package/esm/cramFile/codecs/getBits.js.map +1 -1
  44. package/esm/cramFile/codecs/huffman.js.map +1 -1
  45. package/esm/cramFile/codecs/index.js.map +1 -1
  46. package/esm/cramFile/codecs/subexp.js.map +1 -1
  47. package/esm/cramFile/container/compressionScheme.js.map +1 -1
  48. package/esm/cramFile/container/index.js.map +1 -1
  49. package/esm/cramFile/file.d.ts +8 -1
  50. package/esm/cramFile/file.js.map +1 -1
  51. package/esm/cramFile/record.js.map +1 -1
  52. package/esm/cramFile/sectionParsers.d.ts +1 -0
  53. package/esm/cramFile/sectionParsers.js +7 -7
  54. package/esm/cramFile/sectionParsers.js.map +1 -1
  55. package/esm/cramFile/slice/decodeRecord.js +1 -1
  56. package/esm/cramFile/slice/decodeRecord.js.map +1 -1
  57. package/esm/cramFile/slice/index.js.map +1 -1
  58. package/esm/cramFile/util.d.ts +1 -0
  59. package/esm/cramFile/util.js.map +1 -1
  60. package/esm/indexedCramFile.js.map +1 -1
  61. package/esm/io/index.js.map +1 -1
  62. package/esm/rans/d04.js.map +1 -1
  63. package/esm/rans/d14.js.map +1 -1
  64. package/esm/rans/decoding.js.map +1 -1
  65. package/esm/rans/frequencies.js.map +1 -1
  66. package/esm/rans/index.js.map +1 -1
  67. package/esm/sam.d.ts +5 -6
  68. package/esm/sam.js +23 -7
  69. package/esm/sam.js.map +1 -1
  70. package/esm/typescript.js.map +1 -1
  71. package/esm/unzip.d.ts +1 -0
  72. package/package.json +2 -2
  73. package/src/sam.ts +30 -14
@@ -1 +1 @@
1
- {"version":3,"file":"craiIndex.js","sourceRoot":"","sources":["../src/craiIndex.ts"],"names":[],"mappings":";;;;;;;;;;;;;;AAAA,sFAA2D;AAC3D,0DAAgC;AAChC,mCAA+B;AAC/B,6BAA2B;AAC3B,qCAA6C;AAI7C,MAAM,SAAS,GAAG,QAAQ,CAAA,CAAC,QAAQ;AAYnC,SAAS,gBAAgB,CAAC,KAAkB,EAAE,MAAgB;IAC5D,IAAI,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,SAAS,CAAC,EAAE;QACvC,MAAM,IAAI,2BAAkB,CAAC,0BAA0B,CAAC,CAAA;KACzD;IAED,MAAM,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,EAAE,cAAc,EAAE,UAAU,EAAE,UAAU,CAAC,GAAG,MAAM,CAAA;IAE3E,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,EAAE;QACjB,KAAK,CAAC,KAAK,CAAC,GAAG,EAAE,CAAA;KAClB;IAED,KAAK,CAAC,KAAK,CAAC,CAAC,IAAI,CAAC;QAChB,KAAK;QACL,IAAI;QACJ,cAAc;QACd,UAAU;QACV,UAAU;KACX,CAAC,CAAA;AACJ,CAAC;AAED,MAAqB,SAAS;IAY5B;;;;;;OAMG;IACH,YAAY,IAAoB;QAC9B,IAAI,CAAC,UAAU,GAAG,IAAA,SAAI,EAAC,IAAI,CAAC,GAAG,EAAE,IAAI,CAAC,IAAI,EAAE,IAAI,CAAC,UAAU,CAAC,CAAA;QAC5D,IAAI,CAAC,WAAW,GAAG,IAAI,iCAAqB,CAAuB;YACjE,KAAK,EAAE,IAAI,mBAAQ,CAAC,EAAE,OAAO,EAAE,CAAC,EAAE,CAAC;YACnC,IAAI,EAAE,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,CAAC,IAAI,CAAC,UAAU,EAAE;SAC1C,CAAC,CAAA;IACJ,CAAC;IAED,UAAU;QACR,MAAM,KAAK,GAAgB,EAAE,CAAA;QAC7B,OAAO,IAAI,CAAC,UAAU;aACnB,QAAQ,EAAE;aACV,IAAI,CAAC,IAAI,CAAC,EAAE;YACX,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;gBACrC,OAAO,IAAA,aAAK,EAAC,IAAI,CAAC,CAAA;aACnB;YACD,OAAO,IAAI,CAAA;QACb,CAAC,CAAC;aACD,IAAI,CAAC,kBAAkB,CAAC,EAAE;YACzB,IACE,kBAAkB,CAAC,MAAM,GAAG,CAAC;gBAC7B,kBAAkB,CAAC,YAAY,CAAC,CAAC,CAAC,KAAK,SAAS,EAChD;gBACA,MAAM,IAAI,2BAAkB,CAC1B,+IAA+I,CAChJ,CAAA;aACF;YACD,mDAAmD;YACnD,uDAAuD;YACvD,uEAAuE;YACvE,gDAAgD;YAChD,IAAI,aAAa,GAAa,EAAE,CAAA;YAChC,IAAI,aAAa,GAAG,EAAE,CAAA;YACtB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,kBAAkB,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;gBACrD,MAAM,QAAQ,GAAG,kBAAkB,CAAC,CAAC,CAAC,CAAA;gBACtC,IACE,CAAC,QAAQ,IAAI,EAAE,IAAI,QAAQ,IAAI,EAAE,CAAC,CAAC,SAAS;oBAC5C,CAAC,CAAC,aAAa,IAAI,QAAQ,KAAK,EAAE,CAAC,CAAC,eAAe,EACnD;oBACA,aAAa,IAAI,MAAM,CAAC,YAAY,CAAC,QAAQ,CAAC,CAAA;iBAC/C;qBAAM,IAAI,QAAQ,KAAK,CAAC,CAAC,QAAQ,EAAE;oBAClC,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;oBACtD,aAAa,GAAG,EAAE,CAAA;iBACnB;qBAAM,IAAI,QAAQ,KAAK,EAAE,CAAC,QAAQ,EAAE;oBACnC,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;oBACtD,aAAa,GAAG,EAAE,CAAA;oBAClB,gBAAgB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAA;oBACtC,aAAa,GAAG,EAAE,CAAA;iBACnB;qBAAM,IAAI,QAAQ,KAAK,EAAE,CAAC,QAAQ,IAAI,QAAQ,KAAK,EAAE,CAAC,WAAW,EAAE;oBAClE,oDAAoD;oBACpD,oCAAoC;oBACpC,MAAM,IAAI,2BAAkB,CAAC,0BAA0B,CAAC,CAAA;iBACzD;aACF;YAED,8DAA8D;YAC9D,IAAI,aAAa,EAAE;gBACjB,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;aACvD;YACD,IAAI,aAAa,CAAC,MAAM,KAAK,CAAC,EAAE;gBAC9B,gBAAgB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAA;aACvC;YAED,6BAA6B;YAC7B,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE,EAAE;gBAC7C,KAAK,CAAC,KAAK,CAAC,GAAG,GAAG,CAAC,IAAI,CACrB,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,KAAK,IAAI,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,IAAI,CAC/C,CAAA;YACH,CAAC,CAAC,CAAA;YACF,OAAO,KAAK,CAAA;QACd,CAAC,CAAC,CAAA;IACN,CAAC;IAED,QAAQ,CAAC,OAAiC,EAAE;QAC1C,OAAO,IAAI,CAAC,WAAW,CAAC,GAAG,CAAC,OAAO,EAAE,IAAI,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACzD,CAAC;IAED;;;;OAIG;IACG,2BAA2B,CAAC,KAAa;;YAC7C,OAAO,CAAC,CAAC,CAAC,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,CAAA;QACzC,CAAC;KAAA;IAED;;;;;;;;;;OAUG;IACG,kBAAkB,CACtB,KAAa,EACb,UAAkB,EAClB,QAAgB;;YAEhB,MAAM,UAAU,GAAG,CAAC,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,CAAA;YACjD,IAAI,CAAC,UAAU,EAAE;gBACf,OAAO,EAAE,CAAA;aACV;YAED,MAAM,OAAO,GAAG,CAAC,KAAY,EAAE,EAAE;gBAC/B,MAAM,UAAU,GAAG,KAAK,CAAC,KAAK,CAAA;gBAC9B,MAAM,QAAQ,GAAG,KAAK,CAAC,KAAK,GAAG,KAAK,CAAC,IAAI,CAAA;gBACzC,IAAI,UAAU,GAAG,QAAQ,EAAE;oBACzB,OAAO,CAAC,CAAC,CAAA;iBACV,CAAC,0BAA0B;gBAC5B,IAAI,QAAQ,IAAI,UAAU,EAAE;oBAC1B,OAAO,CAAC,CAAA;iBACT,CAAC,wBAAwB;gBAC1B,OAAO,CAAC,CAAA,CAAC,uBAAuB;YAClC,CAAC,CAAA;YACD,MAAM,IAAI,GAAG,EAAE,CAAA;YACf,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;gBAC7C,IAAI,OAAO,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,EAAE;oBAChC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,CAAA;iBACzB;aACF;YACD,OAAO,IAAI,CAAA;QACb,CAAC;KAAA;CACF;AAjJD,4BAiJC"}
1
+ {"version":3,"file":"craiIndex.js","sourceRoot":"","sources":["../src/craiIndex.ts"],"names":[],"mappings":";;;;;;;;;;;;;;AAAA,sFAA2D;AAC3D,0DAAgC;AAChC,mCAA+B;AAC/B,6BAA2B;AAC3B,qCAA6C;AAI7C,MAAM,SAAS,GAAG,QAAQ,CAAA,CAAC,QAAQ;AAYnC,SAAS,gBAAgB,CAAC,KAAkB,EAAE,MAAgB;IAC5D,IAAI,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,SAAS,CAAC,EAAE,CAAC;QACxC,MAAM,IAAI,2BAAkB,CAAC,0BAA0B,CAAC,CAAA;IAC1D,CAAC;IAED,MAAM,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,EAAE,cAAc,EAAE,UAAU,EAAE,UAAU,CAAC,GAAG,MAAM,CAAA;IAE3E,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,EAAE,CAAC;QAClB,KAAK,CAAC,KAAK,CAAC,GAAG,EAAE,CAAA;IACnB,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,CAAC,IAAI,CAAC;QAChB,KAAK;QACL,IAAI;QACJ,cAAc;QACd,UAAU;QACV,UAAU;KACX,CAAC,CAAA;AACJ,CAAC;AAED,MAAqB,SAAS;IAY5B;;;;;;OAMG;IACH,YAAY,IAAoB;QAC9B,IAAI,CAAC,UAAU,GAAG,IAAA,SAAI,EAAC,IAAI,CAAC,GAAG,EAAE,IAAI,CAAC,IAAI,EAAE,IAAI,CAAC,UAAU,CAAC,CAAA;QAC5D,IAAI,CAAC,WAAW,GAAG,IAAI,iCAAqB,CAAuB;YACjE,KAAK,EAAE,IAAI,mBAAQ,CAAC,EAAE,OAAO,EAAE,CAAC,EAAE,CAAC;YACnC,IAAI,EAAE,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,CAAC,IAAI,CAAC,UAAU,EAAE;SAC1C,CAAC,CAAA;IACJ,CAAC;IAED,UAAU;QACR,MAAM,KAAK,GAAgB,EAAE,CAAA;QAC7B,OAAO,IAAI,CAAC,UAAU;aACnB,QAAQ,EAAE;aACV,IAAI,CAAC,IAAI,CAAC,EAAE;YACX,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,EAAE,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE,CAAC;gBACtC,OAAO,IAAA,aAAK,EAAC,IAAI,CAAC,CAAA;YACpB,CAAC;YACD,OAAO,IAAI,CAAA;QACb,CAAC,CAAC;aACD,IAAI,CAAC,kBAAkB,CAAC,EAAE;YACzB,IACE,kBAAkB,CAAC,MAAM,GAAG,CAAC;gBAC7B,kBAAkB,CAAC,YAAY,CAAC,CAAC,CAAC,KAAK,SAAS,EAChD,CAAC;gBACD,MAAM,IAAI,2BAAkB,CAC1B,+IAA+I,CAChJ,CAAA;YACH,CAAC;YACD,mDAAmD;YACnD,uDAAuD;YACvD,uEAAuE;YACvE,gDAAgD;YAChD,IAAI,aAAa,GAAa,EAAE,CAAA;YAChC,IAAI,aAAa,GAAG,EAAE,CAAA;YACtB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,kBAAkB,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACtD,MAAM,QAAQ,GAAG,kBAAkB,CAAC,CAAC,CAAC,CAAA;gBACtC,IACE,CAAC,QAAQ,IAAI,EAAE,IAAI,QAAQ,IAAI,EAAE,CAAC,CAAC,SAAS;oBAC5C,CAAC,CAAC,aAAa,IAAI,QAAQ,KAAK,EAAE,CAAC,CAAC,eAAe,EACnD,CAAC;oBACD,aAAa,IAAI,MAAM,CAAC,YAAY,CAAC,QAAQ,CAAC,CAAA;gBAChD,CAAC;qBAAM,IAAI,QAAQ,KAAK,CAAC,CAAC,QAAQ,EAAE,CAAC;oBACnC,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;oBACtD,aAAa,GAAG,EAAE,CAAA;gBACpB,CAAC;qBAAM,IAAI,QAAQ,KAAK,EAAE,CAAC,QAAQ,EAAE,CAAC;oBACpC,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;oBACtD,aAAa,GAAG,EAAE,CAAA;oBAClB,gBAAgB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAA;oBACtC,aAAa,GAAG,EAAE,CAAA;gBACpB,CAAC;qBAAM,IAAI,QAAQ,KAAK,EAAE,CAAC,QAAQ,IAAI,QAAQ,KAAK,EAAE,CAAC,WAAW,EAAE,CAAC;oBACnE,oDAAoD;oBACpD,oCAAoC;oBACpC,MAAM,IAAI,2BAAkB,CAAC,0BAA0B,CAAC,CAAA;gBAC1D,CAAC;YACH,CAAC;YAED,8DAA8D;YAC9D,IAAI,aAAa,EAAE,CAAC;gBAClB,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,QAAQ,CAAC,aAAa,EAAE,EAAE,CAAC,CAAC,CAAA;YACxD,CAAC;YACD,IAAI,aAAa,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;gBAC/B,gBAAgB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAA;YACxC,CAAC;YAED,6BAA6B;YAC7B,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,KAAK,EAAE,GAAG,CAAC,EAAE,EAAE;gBAC7C,KAAK,CAAC,KAAK,CAAC,GAAG,GAAG,CAAC,IAAI,CACrB,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,KAAK,IAAI,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,IAAI,CAC/C,CAAA;YACH,CAAC,CAAC,CAAA;YACF,OAAO,KAAK,CAAA;QACd,CAAC,CAAC,CAAA;IACN,CAAC;IAED,QAAQ,CAAC,OAAiC,EAAE;QAC1C,OAAO,IAAI,CAAC,WAAW,CAAC,GAAG,CAAC,OAAO,EAAE,IAAI,EAAE,IAAI,CAAC,MAAM,CAAC,CAAA;IACzD,CAAC;IAED;;;;OAIG;IACG,2BAA2B,CAAC,KAAa;;YAC7C,OAAO,CAAC,CAAC,CAAC,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,CAAA;QACzC,CAAC;KAAA;IAED;;;;;;;;;;OAUG;IACG,kBAAkB,CACtB,KAAa,EACb,UAAkB,EAClB,QAAgB;;YAEhB,MAAM,UAAU,GAAG,CAAC,MAAM,IAAI,CAAC,QAAQ,EAAE,CAAC,CAAC,KAAK,CAAC,CAAA;YACjD,IAAI,CAAC,UAAU,EAAE,CAAC;gBAChB,OAAO,EAAE,CAAA;YACX,CAAC;YAED,MAAM,OAAO,GAAG,CAAC,KAAY,EAAE,EAAE;gBAC/B,MAAM,UAAU,GAAG,KAAK,CAAC,KAAK,CAAA;gBAC9B,MAAM,QAAQ,GAAG,KAAK,CAAC,KAAK,GAAG,KAAK,CAAC,IAAI,CAAA;gBACzC,IAAI,UAAU,GAAG,QAAQ,EAAE,CAAC;oBAC1B,OAAO,CAAC,CAAC,CAAA;gBACX,CAAC,CAAC,0BAA0B;gBAC5B,IAAI,QAAQ,IAAI,UAAU,EAAE,CAAC;oBAC3B,OAAO,CAAC,CAAA;gBACV,CAAC,CAAC,wBAAwB;gBAC1B,OAAO,CAAC,CAAA,CAAC,uBAAuB;YAClC,CAAC,CAAA;YACD,MAAM,IAAI,GAAG,EAAE,CAAA;YACf,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBAC9C,IAAI,OAAO,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,EAAE,CAAC;oBACjC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,CAAA;gBAC1B,CAAC;YACH,CAAC;YACD,OAAO,IAAI,CAAA;QACb,CAAC;KAAA;CACF;AAjJD,4BAiJC"}