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asterix-gerrit.ics.uci.edu / hyracks / 25488f28d9f111a3f9ab302f4ce6c1bbc4d72e67 / genomix
  1. 25488f2 Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  2. 593f13f seperate Simple and Complex version of bubblemerge by Anbang Xu · 12 years ago
  3. cca791e Fix error in package by Anbang Xu · 12 years ago
  4. 7d68ba4 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by Jake Biesinger · 12 years ago
  5. 4369e4a remove unused readIDIterator by Jake Biesinger · 12 years ago
  6. 35ac37c remove fromByte function in DIR by Jake Biesinger · 12 years ago
  7. 68bf4b8 rename setByRead to setFromStringBytes (and for reverse) by Jake Biesinger · 12 years ago
  8. 050323b FRAME_SIZE and FRAME_LIMITS are (only) set in the conf by Jake Biesinger · 12 years ago
  9. a503607 refactor jar distribution function to use getAbsolutePathFromURI by Jake Biesinger · 12 years ago
  10. 34e4b0c respect -graphClean_maxIterations in P* by Jake Biesinger · 12 years ago
  11. 83af358 static is redundant on enums by Jake Biesinger · 12 years ago
  12. c8dc2d1 remove -port and -ipAddress in favor of reading from conf by Jake Biesinger · 12 years ago
  13. d20e770 remove extraArguments from jobConf parser by Jake Biesinger · 12 years ago
  14. 773abad remove apache commons logger in minicluster.DriverUtils by Jake Biesinger · 12 years ago
  15. 9034bec remove TEXT output for HyracksDriver by Jake Biesinger · 12 years ago
  16. 2279e99 remove kmerSize from GenomixReducer by Jake Biesinger · 12 years ago
  17. ac60f5b plot histograms of all statistics (in bubble gum red...) by Jake Biesinger · 12 years ago
  18. d9cd82f Fix the hard coding in get majoyVertex and minorVertex by Anbang Xu · 12 years ago
  19. 4a1435f Rename previous/next to forward/reverse by Anbang Xu · 12 years ago
  20. 07b12a0 Code review on BubbleMerge -- 2013.9.26 by Anbang Xu · 12 years ago
  21. 7aae4f2 Keep simply version of BubbleMerge, clean some code and prepare to do code review by Anbang Xu · 12 years ago
  22. 2d23ae1 Throw an exception in remove tip. Fix based on today's code review by Anbang Xu · 12 years ago
  23. 8ab65f2 add brace to any control logic (remove tip) by Anbang Xu · 12 years ago
  24. db95e7b Remove some unnecesarry member variable by Anbang Xu · 12 years ago
  25. 3b376eb Delete some functions in BasicGraphClean and BasicPathMerge by Anbang Xu · 12 years ago
  26. fad808b Delete some unuse code by Anbang Xu · 12 years ago
  27. fac1179 IncomingMsg shouldn't be a member variable by Anbang Xu · 12 years ago
  28. c3782a9 refactor updateCounter to incrementCounter by Anbang Xu · 12 years ago
  29. 3747ef3 Move initVertex() to step1 by Anbang Xu · 12 years ago
  30. 6b5467c Never hard coding... Move into one loop by Anbang Xu · 12 years ago
  31. daaaade Merge with code review by Anbang Xu · 12 years ago
  32. b41f87f Code review on removeTip -- 2013.9.25 by Anbang Xu · 12 years ago
  33. 01927ed Add log to removetip by Anbang Xu · 12 years ago
  34. 97dd3be sort stats output by Jake Biesinger · 12 years ago
  35. 6bb2077 add STATS step, saving counters to txt file by Jake Biesinger · 12 years ago
  36. 8b4bef3 fix driver's args by Jake Biesinger · 12 years ago
  37. 79e61c0 pass conf directly to hadoop graphbuild by Jake Biesinger · 12 years ago
  38. 89a4708 standardize kmer name in hadoop graphbuild by Jake Biesinger · 12 years ago
  39. 11f92af change names of hyracks graphbuild enums by Jake Biesinger · 12 years ago
  40. 31f93d6 refactor driver init by Jake Biesinger · 12 years ago
  41. 787d6a2 refactor/reorder driver code by Jake Biesinger · 12 years ago
  42. 952da34 allow non-pregelix jobs to be interleaved with pregelix jobs by Jake Biesinger · 12 years ago
  43. 1a0ca94 restrict -pipelineOrder: BUILD* must occur at most once and come first by Jake Biesinger · 12 years ago
  44. 28162e5 add hadoop job for graph statistics (uses counters) by Jake Biesinger · 12 years ago
  45. 0d1f7ba Apply logReadIds to EdgeWritable by Anbang Xu · 12 years ago
  46. f65b2e5 Add logReadIds option to driver by Anbang Xu · 12 years ago
  47. bf8d060 ADD #iteration to log by Anbang Xu · 12 years ago
  48. 6b5caff Extract common method for P1 and P4 by Anbang Xu · 12 years ago
  49. aafca2f Add logging to P1 by Anbang Xu · 12 years ago
  50. 9614206 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  51. ed271fd ADD some comments by Anbang Xu · 12 years ago
  52. be75f8e fix another NPE for -debugKmers by Jake Biesinger · 12 years ago
  53. 08d4d04 reformat code and remove some debug checks (msgs only from neighbors anyway) by Jake Biesinger · 12 years ago
  54. 8ba5da2 fix NPE for debugKmers by Jake Biesinger · 12 years ago
  55. 09036bb add cmdline option to specify kmers to log by Jake Biesinger · 12 years ago
  56. d0ae604 fix hyracks graphbuilding to match new interface (pass in normalizer) by Jake Biesinger · 12 years ago
  57. a3ec17d Merge branch 'genomix/fullstack_genomix' into wbiesing/refactor_p4 by Jake Biesinger · 12 years ago
  58. 81e67dc Remove jar deploy messages from hyracks driver by Jake Biesinger · 12 years ago
  59. 3e02877 refactor names in getKmerNeighbors.py by Jake Biesinger · 12 years ago
  60. 807b452 Add more restriction for chooseMergedir by Anbang Xu · 12 years ago
  61. b7bf37c Change driver to run P1 by Anbang Xu · 12 years ago
  62. 59ee6a1 Prepare to run P1 by Anbang Xu · 12 years ago
  63. fd9229e Clean up code and move to cluster to test P0 by Anbang Xu · 12 years ago
  64. 82a9005 P0(refactor version of P1) pass all small testcases by Anbang Xu · 12 years ago
  65. e5ddfc4 Sender msg edgetype need to fix by Anbang Xu · 12 years ago
  66. 671cf67 Simply P1 and add throw Exception to it by Anbang Xu · 12 years ago
  67. 8009477 Refactor P1 by Anbang Xu · 12 years ago
  68. 0a04676 use a list of kmers for verbose mode by Jake Biesinger · 12 years ago
  69. b633dc3 Merge with main branch after some refactor by Anbang Xu · 12 years ago
  70. 65a8336 Keep old version of ComplexBubbleMerge by Anbang Xu · 12 years ago
  71. b6a3caff Refactoring BubbleMerge by Anbang Xu · 12 years ago
  72. d47cd28 add 10 test cases for edgelistWritable by Nan Zhang · 12 years ago
  73. 52cb426 small tweaks for Edge Test by Nan Zhang · 12 years ago
  74. a128e4b Simplify the main compute function of removetip and removelowcoverage by Anbang Xu · 12 years ago
  75. 1c73130 Refactor removeLowCoverage by Anbang Xu · 12 years ago
  76. 9908512 Refactor tipremove by Anbang Xu · 12 years ago
  77. 14f3c71 Add DIR.edgeType() to covert dir to edgeTypew by Anbang Xu · 12 years ago
  78. f91c5bb Refactor broadcaseMerge to sendMergeMsg by Anbang Xu · 12 years ago
  79. cb7ebcd Finish integration by Anbang Xu · 12 years ago
  80. 0958af1 Pass tests by Anbang Xu · 12 years ago
  81. 88e742e Fix other pattherns by Anbang Xu · 12 years ago
  82. 205471f Apply EDGETYPE to P4 by Anbang Xu · 12 years ago
  83. f7d0baf Add enum EDGETYPE by Anbang Xu · 12 years ago
  84. 63f0132 add genomix root logger, turn off some other logging by Jake Biesinger · 12 years ago
  85. ada697a add option for verbose and log (one of) the problem kmer(s) by Jake Biesinger · 12 years ago
  86. f709d73 Merge with Jake's refactor branch by Anbang Xu · 12 years ago
  87. af493b5 Prepare to integrate by Anbang Xu · 12 years ago genomix/anbangx/before-pathmerge-refactor genomix/old-code v1.4
  88. 72db6e0 Code review on genomix-data -- 2013.9.20 by Anbang Xu · 12 years ago
  89. 71ddf5f BUGFIX: EdgeListWritable makes a deep copy by Jake Biesinger · 12 years ago
  90. a100ad9 BUGFIX: make a deep copy in EdgeListWritable by Jake Biesinger · 12 years ago
  91. ba2b0a7 only check for tandem repeats at start and after merge (not after updates) by Jake Biesinger · 12 years ago
  92. a4a5ae9 more consistent voteToHalt/activate in P4 by Jake Biesinger · 12 years ago
  93. 4494560 code review on P4 refactor by Jake Biesinger · 12 years ago
  94. f54b5e9 Fix syntax errors in P1 (probably still broken though) by Jake Biesinger · 12 years ago
  95. 6a19516 refactor of P4 passes test cases (P1 broken) by Jake Biesinger · 12 years ago
  96. fc3ddfa more helper functions for DIR and DirectionFlag by Jake Biesinger · 12 years ago
  97. db9186e Merge updateState and sendMsg into on step by Anbang Xu · 12 years ago
  98. ec97be2 Integrate with Jake's enum mergeDir by Anbang Xu · 12 years ago
  99. bc17671 Add some function util by Anbang Xu · 12 years ago
  100. 8fa68de use getDest by Anbang Xu · 12 years ago