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asterix-gerrit.ics.uci.edu / hyracks / 153c2d516a1ae5e50eaefe697e5d0fa1c5e11a6c / genomix / genomix-hadoop / src / main / java
  1. 7dc9400 clean the useless code for project by Nan Zhang · 12 years ago
  2. 6981f1c adapt graph construction(hadoop) to VKmer by Anbang Xu · 12 years ago
  3. 79c5ccf Merge branch 'wbiesing/genomix/VKmers' into genomix/fullstack_genomix by Jake Biesinger · 12 years ago
  4. aac7732 SimpleSplitRepeat is completed. An issue in graph building(hadoop): KmerList.appendList() doesn't check existed element by Anbang Xu · 12 years ago
  5. 1259632 refactor KmerList -> VKmerList by Jake Biesinger · 12 years ago
  6. 0f06660 start dependency refactor by Jake Biesinger · 12 years ago
  7. b811143 Refactor KmerBytesWritable to use internal length by Jake Biesinger · 12 years ago
  8. 4416d3c debugging p4 by Anbang Xu · 12 years ago
  9. dfa14d3 Fix NodeWritable and Finish contrail-graph Mapper/Reducer by Anbang Xu · 12 years ago genomix/velvet-graph-pregel
  10. 84e385f Try to add globe kmerSize but fail in testing by Anbang Xu · 12 years ago
  11. bcf5a70 add hadoop test and keep both bin and txt by Anbang Xu · 12 years ago
  12. f7a23e4 add Reducer and change PositionWritable to PositionListWritable in NodeWritable by Anbang Xu · 12 years ago
  13. 0c644f4 Mapper passes test by Anbang Xu · 12 years ago
  14. 32bc798 finish Mapper and start Reducer by Anbang Xu · 12 years ago
  15. 4e9262f add GenomixMapper for new graph - 'contrail' by Anbang Xu · 12 years ago
  16. 3335bb6 hadoop for contrail graph by Anbang Xu · 12 years ago
  17. 8dbe728 refactor 'size' to 'kmerByteSize' in KmerBytesWritable by Anbang Xu · 12 years ago
  18. 6b45971 Fix H4, test templates by Jake Biesinger · 12 years ago
  19. 970c74f move old key/value class to oldtype folder by Anbang Xu · 12 years ago
  20. 6a6f6bc Fix old merge leftovers by Jacob Biesinger · 12 years ago
  21. b5c8428 test cases by AnbangX · 12 years ago
  22. 8c8f194 test cases by Jake Biesinger · 12 years ago
  23. 8e4fbc3 test cases and fixes for H4 by Jake Biesinger · 12 years ago
  24. 1dea1ea PathNodeInitial uses 2 output bins instead of 3 by Jake Biesinger · 12 years ago
  25. d31a1b4 use local maximum (not min) for h4 by Jake Biesinger · 12 years ago
  26. 93e9c22 debugging p4 and fix random seed issue by AnbangX · 12 years ago
  27. 98dae20 H4 complete; fix probBeingHead by Jake Biesinger · 12 years ago
  28. 21ad290 Code review with Jake on H4 by AnbangX · 12 years ago
  29. 26d9f46 Fix nodewritable merge logic by Jake Biesinger · 12 years ago
  30. af826b9 gc optimize h4 reduce by Jake Biesinger · 12 years ago
  31. 64ae953 Add mergeInDir for kmers by Jake Biesinger · 12 years ago
  32. db5d564 WIP H4 1 mapper + 2 reducers by Jake Biesinger · 12 years ago
  33. 974c47f refactor h4 update mapper to use update messages by Jake Biesinger · 12 years ago
  34. 5adaeec add merge and update utility functions by Jake Biesinger · 12 years ago
  35. 1f0b7d5 refactor MergePaths message types to use directions and message types by Jake Biesinger · 12 years ago
  36. 3e70ffe PathNodeInitial updateable optimization by Jake Biesinger · 12 years ago
  37. 24e076f PathNodeInitial identifies nodes needing updates by Jake Biesinger · 12 years ago
  38. 1920264 refactor: MessageFlag is now MergeMessageFlag by Jake Biesinger · 12 years ago
  39. 7c1d870 H4 driver works with multipleOutputs by Jake Biesinger · 12 years ago
  40. f20a7e7 Fix path separators in test cases by Jake Biesinger · 12 years ago
  41. 76cc619 simplify graphbuilding driver by Jake Biesinger · 12 years ago
  42. 86e8c3a simplify driver and test case for h4 graph building by Jake Biesinger · 12 years ago
  43. 87a1029 mergepaths uses multipleoutputs properly (prep for update code) by Jake Biesinger · 12 years ago
  44. ec499a1 remove tips initial by Jake Biesinger · 12 years ago
  45. 82b237b Better testing for initial path merge by Jake Biesinger · 12 years ago
  46. 09cf1d1 facilitate better testing via more constructors and proper hashing/equals by Jake Biesinger · 12 years ago
  47. 90752e7 non-path nodes are pushed to "complete" output by Jake Biesinger · 12 years ago
  48. 57971b6 path node works for complex starts by Jake Biesinger · 12 years ago
  49. e0fa424 Update H4 to new graph style by Jake Biesinger · 12 years ago
  50. 5932b3b fix test case paths by Jake Biesinger · 12 years ago
  51. bf8f525 Fix spelling by Jake Biesinger · 12 years ago
  52. 9ac3f6c reformat by Jake Biesinger · 12 years ago
  53. 03364d3 restore strangely deleted MergePaths code by Jake Biesinger · 12 years ago
  54. d91b4fb Fix H3 test case by Jake Biesinger · 12 years ago
  55. 5215ff5 Updated base class for tests allows mutliple Test cases by Jake Biesinger · 12 years ago
  56. 79da38a clean code by Nan Zhang · 12 years ago
  57. 37cc20b hadoop graph building completion by Nan Zhang · 12 years ago
  58. e66c773 build graph by Nan Zhang · 12 years ago
  59. 3a26a3a merge with jianfeng-reverse by Nan Zhang · 12 years ago
  60. 9bc1c38 modify building by Nan Zhang · 12 years ago
  61. c2a055b new graph building progress by Nan Zhang · 12 years ago
  62. 1181e3c modify the driver of velvet_graphbuilding by Nan Zhang · 12 years ago
  63. 7f506a1 modify the DeepGraphBuildingMapper by Nan Zhang · 12 years ago
  64. e215121 Merge branch 'nanzhang/genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  65. b8ae860 modify the velvet-graph building package by Nan Zhang · 12 years ago
  66. 8663daa Merge branch 'nanzhang/genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  67. d01123b Use different initial and subsequent mappers in H3 by Jake Biesinger · 12 years ago
  68. 01454bd H3 implemented, untested by Jake Biesinger · 12 years ago
  69. d891139 WIP: H3 implementation, using multiple tails by Jake Biesinger · 12 years ago
  70. 7c14c8f Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into jianfeng/genomix by Jianfeng Jia · 12 years ago
  71. 369fccb update the velvetGrapubuilding package by Nan Zhang · 12 years ago
  72. c49ce70 add package to build old package success by Nan Zhang · 12 years ago
  73. a688f7d change name of one package by Nan Zhang · 12 years ago
  74. c61eeb4 Merge branch 'genomix/fullstack_genomix' into genomix/velvet_graphbuilding by Nan Zhang · 12 years ago
  75. cfb8871 delete the genomic.data.experiments by Nan Zhang · 12 years ago
  76. 006ff46 new package for path merge by Nan Zhang · 12 years ago
  77. b1ee50c merge path update by Nan Zhang · 12 years ago
  78. b52a13d new update for new version graph-building by Nan Zhang · 12 years ago
  79. 0047d3c after code view h1 h2 update by Nan Zhang · 12 years ago
  80. bef5ad0 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  81. 9bb94d2 new GenomixMapper by Nan Zhang · 12 years ago
  82. c2aac14 new version of genomix graph building frameworks by Nan Zhang · 12 years ago
  83. 3991572 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  84. 18a954f add new version graph building frameworks by Nan Zhang · 12 years ago
  85. c9d802a Remove mac .DS_Store files and ignore them in the future. by Jake Biesinger · 12 years ago
  86. dbc32ae adjust h1 code by hadoop · 12 years ago
  87. a71ef93 delete the endnodefile by hadoop · 12 years ago
  88. 42a210a change new name for hadoop program by hadoop · 12 years ago
  89. ca08468 change name for files by hadoop · 12 years ago
  90. a3a8958 new h2 modified by hadoop · 12 years ago
  91. 5f3fce8 deleted all actual file by hadoop · 12 years ago
  92. 9f12f4e Merge branch 'fullstack_genomix' of https://code.google.com/p/hyracks into fullstack_genomix by hadoop · 12 years ago
  93. c07f6bf new h2 by hadoop · 12 years ago
  94. 8824dde Merge branch 'fullstack_genomix' of https://code.google.com/p/hyracks into fullstack_genomix by hadoop · 12 years ago
  95. 3c3f2b7 Change return value of shiftKmer from bitmap to genecode by JavierJia · 12 years ago
  96. 00f6336 h2h2 by hadoop · 12 years ago
  97. 99f0202 Please enter the commit message for your changes. Lines starting by hadoop · 12 years ago
  98. 4163db2 h1 changes by hadoop · 12 years ago
  99. 0c37dd0 make genomix-hadoop genomix-hyracks compilable by JavierJia · 12 years ago
  100. 74b72ca change fix bytes array to flexible bytes with offset and length in KmerUtil by jianfeng.jia@gmail.com · 12 years ago