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asterix-gerrit.ics.uci.edu / hyracks / 1afcd2b67d5902fefa0cf14a248a7f9a79857977 / genomix
  1. 1afcd2b add graph package by Anbang Xu · 12 years ago
  2. dfd2e50 fix genomix pom.xml's to use 0.2.10-SNAPSHOT by Jake Biesinger · 12 years ago
  3. e0b35ce Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  4. be39f91 Add AverageCoverage to graph construction(hadoop) and make graphviz more pretty by Anbang Xu · 12 years ago
  5. ac6b1a6 RemoveBridge pass test and add RemoveLowCoverage and Scaffolding by Anbang Xu · 12 years ago
  6. 4a5ee49 Hadoop TestSuite is completed and P2 pass test by Anbang Xu · 12 years ago
  7. 153c2d5 add expected results by Nan Zhang · 12 years ago
  8. 18c032a make TestSuite for graph building(hadoop) by Anbang Xu · 12 years ago
  9. 61bfb93 add computeSimilarity and mergeAverageCoverage to MergeBubbleVertex by Anbang Xu · 12 years ago
  10. 4ac4a5b Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  11. 3744b98 fix the pom.xml for genomix-hadoop by Nan Zhang · 12 years ago
  12. cb4391e clean pregel package for build by Anbang Xu · 12 years ago
  13. c4961c9 complete MergeBubbleVertex & wait for compute fracSimilarity by Anbang Xu · 12 years ago
  14. 3986b17 debugging BubbleMergeVertex by Anbang Xu · 12 years ago
  15. 8edaabd Add fracDissimilar to VKmer by Jake Biesinger · 12 years ago
  16. ef306ca Fix case of AssembleKeyIntoNodeOperator by Nan Zhang · 12 years ago
  17. 5f57f54 small change by Nan Zhang · 12 years ago
  18. 19b758e ervoer testUtils by Nan Zhang · 12 years ago
  19. 931fcc8 clean genomixMiniCluster by Nan Zhang · 12 years ago
  20. aeed6f0 delete the old driver by Nan Zhang · 12 years ago
  21. 852df2b complete the old code cleaning by Nan Zhang · 12 years ago
  22. 3e3144b cleanning continue by Nan Zhang · 12 years ago
  23. 7dc9400 clean the useless code for project by Nan Zhang · 12 years ago
  24. 3fc4fef Please enter the commit message for your changes. Lines starting by Nan Zhang · 12 years ago
  25. 8e8e99f Merge branch 'nanzhang/hyracks_genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  26. 9cc4380 merging partial code to main branch by Nan Zhang · 12 years ago
  27. 96465fb Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  28. 6ad60bf fix bug in readFields of KmerListWritable by Anbang Xu · 12 years ago
  29. 9dc35e0 fix merge test case by Jake Biesinger · 12 years ago
  30. d235865 catch too-short kmers when trying to merge by Jake Biesinger · 12 years ago
  31. 078e20a catch attempts at merging empty kmers by Jake Biesinger · 12 years ago
  32. b072b75 Add edit distance computation for VKmers by Jake Biesinger · 12 years ago
  33. 6981f1c adapt graph construction(hadoop) to VKmer by Anbang Xu · 12 years ago
  34. ad800e8 more cleanup of setByRead interface by Jake Biesinger · 12 years ago genomix/before-nodeid-graph-cleanup-Aug2013
  35. def02ee clean up interface for VKmer setByRead by Jake Biesinger · 12 years ago
  36. 1df93be Bugfix for Hadoop bug in VKmer and PositionList by Anbang Xu · 12 years ago
  37. 6a7344b add 3 tips test cases for hyracks and add sequence file by Nan Zhang · 12 years ago
  38. b8626fd make GraphViz for test by Anbang Xu · 12 years ago
  39. 79c5ccf Merge branch 'wbiesing/genomix/VKmers' into genomix/fullstack_genomix by Jake Biesinger · 12 years ago
  40. 999f6ac add coverage for hyracks graph building by Nan Zhang · 12 years ago
  41. 07011c1 Merge commit '164cc8091571ad11261a91eed68e06d2e73ea490' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  42. 9f949c4 MergeBubbleVertex half done by Anbang Xu · 12 years ago
  43. 164cc80 add compare-by-coverage Comparator for NodeWritable by Jake Biesinger · 12 years ago
  44. 39f1cf1 Merge commit '07acebba2c4470834919a82092faec0c982411e5' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  45. 53da888 code clean by Nan Zhang · 12 years ago
  46. 42036c1 add methods for node coverage merge/add; serialize coverage by Jake Biesinger · 12 years ago
  47. 07acebb Merge MergeBubbleMessageWritable to MessageWritable by Anbang Xu · 12 years ago
  48. ac6a090 Fix BubbleAddVertex and pass test by Anbang Xu · 12 years ago
  49. 6ffdef2 add 3 SplitRepeat TestCases and fix the PositionListWitable: UnionUpdate HashSet by Nan Zhang · 12 years ago
  50. b01f330 Merge commit '50e9f8614b4124288f606d90c3417caa2b5f80de' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  51. 016df5f finish the debugging by Nan Zhang · 12 years ago
  52. 6d8afff fix RemoveBridgeVertex and update for merge by Anbang Xu · 12 years ago
  53. 50e9f86 add conversions for Kmer <-> VKmer by Jake Biesinger · 12 years ago
  54. ec095b2 RemoveTipVertex pass test by Anbang Xu · 12 years ago
  55. 95c432c BridgeAddVertex pass test by Anbang Xu · 12 years ago
  56. 6f81b59 small update by Anbang Xu · 12 years ago
  57. 714d906 adapt BridgeAddVertex to new graph construction by Anbang Xu · 12 years ago
  58. d1075a0 adapt TipAddVertex to new graph construction by Anbang Xu · 12 years ago
  59. aac7732 SimpleSplitRepeat is completed. An issue in graph building(hadoop): KmerList.appendList() doesn't check existed element by Anbang Xu · 12 years ago
  60. 0b9da1e Merge branch 'wbiesing/genomix/VKmers' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  61. c68e510 finish the debugging by Nan Zhang · 12 years ago
  62. ff02e22 Use VKmers in lists by Jake Biesinger · 12 years ago
  63. 1259632 refactor KmerList -> VKmerList by Jake Biesinger · 12 years ago
  64. 34d3d73 there is an issue in KmerListWritable and try to fix it by Anbang Xu · 12 years ago
  65. 5eaa799 Merge commit '94e075b5c3db9aa613ef61c2581430a143b17bc8' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  66. ceab4c1 Merge branch 'wbiesing/genomix/VKmers' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  67. 94e075b update for merge by Anbang Xu · 12 years ago
  68. 071ec27 modify the test parameter by Nan Zhang · 12 years ago
  69. 6ee7bdf fix HashSet in SplitRepeat by Anbang Xu · 12 years ago
  70. 0049eac refactor 'NaiveAlgorithm' to 'P1' and add test case for SplitRepeat by Anbang Xu · 12 years ago
  71. 8379d7f add the read checker for hyracks by Nan Zhang · 12 years ago
  72. d57d7e5 add CreatedVertex and ConnectedTable by Anbang Xu · 12 years ago
  73. e90120f modify the test for graph building by Nan Zhang · 12 years ago
  74. 37c6933 start coding SplitRepeat by Anbang Xu · 12 years ago
  75. 5a69e16 refactor graph building in hyracks using new genomix-data code by Nan Zhang · 12 years ago
  76. 5412086 refactor LogAlgorithm to P2 by Anbang Xu · 12 years ago
  77. 9db1ea8 merge MapReduceVertex to p2 and p2 is completed by Anbang Xu · 12 years ago
  78. f2507bf debugging for hyracks by Nan Zhang · 12 years ago
  79. 844d774 update the genomix-data by Nan Zhang · 12 years ago
  80. d94f5f9 refactor 'BasicPathMergeVertex' to 'BasicGraphCleanVertex', make it more general by Anbang Xu · 12 years ago
  81. 29ebdc8 Map/Reduce version in pregel is completed by Anbang Xu · 12 years ago
  82. b89e7dc allow references in all variable-length elements by keeping track of originally allowed space by Jake Biesinger · 12 years ago
  83. 0f06660 start dependency refactor by Jake Biesinger · 12 years ago
  84. 1e68c8f PositionListWritable passes tests by Jake Biesinger · 12 years ago
  85. b92f4e5 add copy-based byte array serialization for NodeWritable by Jake Biesinger · 12 years ago
  86. d907eb4 remove reference code for variable-length lists. We don't keep track of onwership of our data block by Jake Biesinger · 12 years ago
  87. 5dfa7b6 add MapReduceVertex for mapper/reducer in pregel by Anbang Xu · 12 years ago
  88. d6276e7 p2 pass test by Anbang Xu · 12 years ago
  89. 11b2760 Kmer factory uses VKmers by Jake Biesinger · 12 years ago
  90. bd58f1a .hashcode and .equals need to use storage with offsets; no more super methods. by Jake Biesinger · 12 years ago
  91. a9e482e update KmerListWritable to use fixed-length kmers by Jake Biesinger · 12 years ago
  92. 8cea7fd new graph job built by Nan Zhang · 12 years ago
  93. 5b40242 build graph building job for hyracks by Nan Zhang · 12 years ago
  94. 9ba730c no more inherited Kmers by Jake Biesinger · 12 years ago
  95. 5fb6805 use global, static length for fixed-length kmers by Jake Biesinger · 12 years ago
  96. 0f33ece use new genomix-data by Nan Zhang · 12 years ago
  97. be0a038 modify the jobGeBrujinGraph by Nan Zhang · 12 years ago
  98. f472a8b add the union list function on PostionListWritable by Nan Zhang · 12 years ago
  99. b8e0097 p2 pass test9 by Anbang Xu · 12 years ago
  100. fe8cb0f Merge branch 'genomix/fullstack_genomix' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago