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asterix-gerrit.ics.uci.edu / hyracks / b92f4e5cb101e9ae4726256041917cb1e08ccc8e / genomix / genomix-data
  1. b92f4e5 add copy-based byte array serialization for NodeWritable by Jake Biesinger · 12 years ago
  2. 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
  3. 11b2760 Kmer factory uses VKmers by Jake Biesinger · 12 years ago
  4. bd58f1a .hashcode and .equals need to use storage with offsets; no more super methods. by Jake Biesinger · 12 years ago
  5. a9e482e update KmerListWritable to use fixed-length kmers by Jake Biesinger · 12 years ago
  6. 9ba730c no more inherited Kmers by Jake Biesinger · 12 years ago
  7. 5fb6805 use global, static length for fixed-length kmers by Jake Biesinger · 12 years ago
  8. f472a8b add the union list function on PostionListWritable by Nan Zhang · 12 years ago
  9. 7903077 Code review: refactor offset name by Anbang Xu · 12 years ago
  10. 4693b43 Use Hashset for unionUpdate-ing with another KmerListWritable by Jake Biesinger · 12 years ago
  11. 71d06c2 test cases for merging across multiple edge types and kmer vs vkmer by Jake Biesinger · 12 years ago
  12. 4f80fd9 BUGFIX: mergeWithRF uses inefficient, MUCH simpler merge by Jake Biesinger · 12 years ago
  13. 78aaae4 switch VKmer to use a saner offset by Jake Biesinger · 12 years ago
  14. 9ce648a refactor KmerBytesWritable into Kmer and variable-length VKmer by Jake Biesinger · 12 years ago
  15. 9691538 starting refactor of KmerList by Jake Biesinger · 12 years ago
  16. b811143 Refactor KmerBytesWritable to use internal length by Jake Biesinger · 12 years ago
  17. 67c5eef Merge branch 'genomix/fullstack_genomix' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  18. 4d50d8a Merge branch 'genomix/fullstack_genomix' into nanzhang/hyracks_genomix by Nan Zhang · 12 years ago
  19. a5e97c7 p4 pass test by Anbang Xu · 12 years ago
  20. 4416d3c debugging p4 by Anbang Xu · 12 years ago
  21. 311001a start to change graph clean part to 'contrail-graph' structure by Anbang Xu · 12 years ago
  22. dfa14d3 Fix NodeWritable and Finish contrail-graph Mapper/Reducer by Anbang Xu · 12 years ago genomix/velvet-graph-pregel
  23. 95138a4 hyracks contrail graph building partial completing by Nan Zhang · 12 years ago
  24. 84e385f Try to add globe kmerSize but fail in testing by Anbang Xu · 12 years ago
  25. bcf5a70 add hadoop test and keep both bin and txt by Anbang Xu · 12 years ago
  26. f7a23e4 add Reducer and change PositionWritable to PositionListWritable in NodeWritable by Anbang Xu · 12 years ago
  27. 0c644f4 Mapper passes test by Anbang Xu · 12 years ago
  28. 32bc798 finish Mapper and start Reducer by Anbang Xu · 12 years ago
  29. 08c7d2d change KmerListWritable and NodeWritable to new construction for new graph-'Kmer-Base system as key' by Anbang Xu · 12 years ago
  30. b14e7e6 Update for changing graph by Anbang Xu · 12 years ago
  31. 8dbe728 refactor 'size' to 'kmerByteSize' in KmerBytesWritable by Anbang Xu · 12 years ago
  32. f7fc945 refactor 'UniqueKey' to 'NodeId' by Anbang Xu · 12 years ago
  33. 1a02870 add ReadsKeyValueParserFactory for new graph using for read HDFS by Anbang Xu · 12 years ago
  34. 871743c add IntermediateNodeWritable and KmerListWritable by Anbang Xu · 12 years ago
  35. c642eeb new graph driver by Anbang Xu · 12 years ago
  36. 0a8e068 add makeUUID to PositionWritable; use for test cases by Jake Biesinger · 12 years ago
  37. aef7aaa meatier test case and tweaks for PositionWritable by Jake Biesinger · 12 years ago
  38. a9eafe7 Make PositionListWritable test code by Anbang Xu · 12 years ago
  39. 67254bc Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  40. 6010f35 Make the PositionWritable and Pass the test by Anbang Xu · 12 years ago
  41. 6b45971 Fix H4, test templates by Jake Biesinger · 12 years ago
  42. de2424c begin new graph building by Anbang Xu · 12 years ago
  43. de2a44b small adjustments to new node and position classes by Jake Biesinger · 12 years ago
  44. 970c74f move old key/value class to oldtype folder by Anbang Xu · 12 years ago
  45. 814540a remake new graph class - PositionWritable and NodeWritable by Anbang Xu · 12 years ago
  46. 9378de1 change directionFlag back by Anbang Xu · 12 years ago
  47. 3054c15 clear the code and fix messageFlag by Anbang Xu · 12 years ago
  48. b5c8428 test cases by AnbangX · 12 years ago
  49. da3b802 Apply undirected graph algorithm in p2 by AnbangX · 12 years ago
  50. 8e4fbc3 test cases and fixes for H4 by Jake Biesinger · 12 years ago
  51. b5e81d6 Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by AnbangX · 12 years ago
  52. e6d7e7a code review with Jake by AnbangX · 12 years ago
  53. 64ae953 Add mergeInDir for kmers by Jake Biesinger · 12 years ago
  54. e1dbea7 add subclass BasicVertex and fixing p2 by AnbangX · 12 years ago
  55. 46fc86e add test cases for removeBridge, removeTip and mergeBubble by AnbangX · 12 years ago
  56. db5d564 WIP H4 1 mapper + 2 reducers by Jake Biesinger · 12 years ago
  57. 5adaeec add merge and update utility functions by Jake Biesinger · 12 years ago
  58. 71ea5d2 Fix RFMerge and add tests by Jake Biesinger · 12 years ago
  59. 01ad7c2 Merge and fix FRMerge. RF still doesn't work. by Jake Biesinger · 12 years ago
  60. ab171ba refactor kmer mergeNext and mergePre -> mergeFF etc. untested :) by Jake Biesinger · 12 years ago
  61. a7216ac Add helper functions for mutating PositionListWritable's by Jake Biesinger · 12 years ago
  62. 24e076f PathNodeInitial identifies nodes needing updates by Jake Biesinger · 12 years ago
  63. cc77cf7 add test cases for path merge and other data clean patterns by AnbangX · 12 years ago
  64. 2c41eb3 add remove in PositionListWritable and test by AnbangX · 12 years ago
  65. 1e43ac4 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into jianfeng/genomix by Jianfeng Jia · 12 years ago
  66. 09cf1d1 facilitate better testing via more constructors and proper hashing/equals by Jake Biesinger · 12 years ago
  67. bc7e15f Merge branch 'genomix/fullstack_genomix' into jianfeng/genomix by Jianfeng Jia · 12 years ago
  68. bf8f525 Fix spelling by Jake Biesinger · 12 years ago
  69. 37cc20b hadoop graph building completion by Nan Zhang · 12 years ago
  70. eb8d72a Merge commit '951870ef4642f2003c4240eeef702fc90600fe77' into nanzhang/genomix by Nan Zhang · 12 years ago
  71. 3a26a3a merge with jianfeng-reverse by Nan Zhang · 12 years ago
  72. a591f26 clean up code and add copyright header by JavierJia · 12 years ago
  73. 12b4280 Merge branch 'jianfeng/genomix' into jianfeng/genomix-reverse by Jianfeng Jia · 12 years ago
  74. 5ba19e2 add more information for larger data debug by Jianfeng Jia · 12 years ago genomix/unidirection
  75. 562116a finished framework. not test yet by Jianfeng Jia · 12 years ago
  76. 8528899 finish framework by Jianfeng Jia · 12 years ago
  77. 5033f6f Update comment. by Jianfeng Jia · 12 years ago
  78. 587ddb7 finished merge pre and merge next test by Jianfeng Jia · 12 years ago
  79. 7f506a1 modify the DeepGraphBuildingMapper by Nan Zhang · 12 years ago
  80. 8663daa Merge branch 'nanzhang/genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  81. 0669e98 add isPathNode to NodeWritable by Jake Biesinger · 12 years ago
  82. 7c14c8f Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into jianfeng/genomix by Jianfeng Jia · 12 years ago
  83. 369fccb update the velvetGrapubuilding package by Nan Zhang · 12 years ago
  84. f14c403 add mergeNext function to kmerWritable by Jianfeng Jia · 12 years ago
  85. 7636684 refine the logic of generate Node by Jianfeng Jia · 12 years ago
  86. 103df19 Merge branch 'genomix/fullstack_genomix' of https://code.google.com/p/hyracks into genomix/fullstack_genomix by AnbangX · 12 years ago
  87. f5d6db9 change all input and output format to new version by AnbangX · 12 years ago
  88. c49ce70 add package to build old package success by Nan Zhang · 12 years ago
  89. 529a089 finished EndToEnd test by Jianfeng Jia · 12 years ago
  90. 80b312a passed map kmer to readid operator by Jianfeng Jia · 12 years ago
  91. ee2e038 finished test framework by JavierJia · 12 years ago
  92. c61eeb4 Merge branch 'genomix/fullstack_genomix' into genomix/velvet_graphbuilding by Nan Zhang · 12 years ago
  93. cfb8871 delete the genomic.data.experiments by Nan Zhang · 12 years ago
  94. 1d11e0a finish position test by JavierJia · 12 years ago
  95. 5d192ad finished genomix-hyracks end to end by JavierJia · 12 years ago
  96. e85c8a7 merge with hadoop code by JavierJia · 12 years ago
  97. ee1fa17 Merge branch 'genomix/velvet_graphbuilding' of https://code.google.com/p/hyracks into genomix/velvet_graphbuilding by JavierJia · 12 years ago
  98. fe1391a passed genomix-data test by JavierJia · 12 years ago
  99. e34200e create some writable based on Jianfeng's hyracks by Nan Zhang · 12 years ago
  100. ba0d0d8 clean up kmerWritable by JavierJia · 12 years ago