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asterix-gerrit.ics.uci.edu / hyracks / 6efdb29832f947bee26135bdd897ae8a72bd07b1 / genomix / genomix-data
  1. ff90e10 Add an iterable for Edge keys by Jake Biesinger · 12 years ago
  2. 4da7e66 add CHECK_SYMMETRY to driver by Jake Biesinger · 12 years ago
  3. 1491f7f refactor to use general NEXT and PREVIOUS directions by Anbang Xu · 12 years ago
  4. 53cc7e3 Merge branch 'wbiesing/debug' into genomix/fullstack_genomix by Jake Biesinger · 12 years ago
  5. 2bdc6fb Combine setNext/PrevToMeDir to setNeighborToMeDir(boolean) and throw exception when the merge dir degree is not 1 by Anbang Xu · 12 years ago
  6. a307ce9 use setLong from cmdline by Jake Biesinger · 12 years ago
  7. aea52c1 fix P4 to use (already available) cmdline random seed by Jake Biesinger · 12 years ago
  8. 6dbee34 debugging by Jake Biesinger · 12 years ago
  9. 1b43c6b check if degree is correct in updateEdges by Jake Biesinger · 12 years ago
  10. 7b57ae6 add RandomSeed by Anbang Xu · 12 years ago
  11. c981ca3 output error vertexId and vertexValue by Anbang Xu · 12 years ago
  12. 4d5eaf2 change ingoreMissing to true by Anbang Xu · 12 years ago
  13. 2de2366 use pregelix framesize by Jake Biesinger · 12 years ago
  14. 395ce71 Merge branch 'wbiesing/debug_hyracks_build' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  15. f30f2db remove max_readid_value in genomix-data, remove all hard-coding code for genomix-hyracks by Nan Zhang · 12 years ago
  16. 440f1ff Merge branch 'anbangx/log' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  17. d0cbe03 add beefier test case for EdgeListWritable by Jake Biesinger · 12 years ago
  18. 2eff046 use java.util.logging instead of apache commons logging by Jake Biesinger · 12 years ago
  19. 20a80e6 standardize logging across eclipse-test, eclipse-main, and maven by Jake Biesinger · 12 years ago
  20. ac2e96e fix graphviz in mac OS by Anbang Xu · 12 years ago
  21. bedbf44 Merge branch 'anbangx/P1' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  22. d17a2a2 remove NLineInputFormat for hadoop graph building by Nan Zhang · 12 years ago
  23. 64bb87e Add EdgeList.unionAdd(EdgeList) by Anbang Xu · 12 years ago
  24. c33e4b7 add option for hyracks driver to have text output by Nan Zhang · 12 years ago
  25. 3f9dc1d Merge branch 'nanzhang/hyracks_genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  26. e830955 Merge branch 'anbangx/fullstack_genomix' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
  27. 24f2ead add boolean flag to switch method between P2 and P4 by Anbang Xu · 12 years ago
  28. b775a8c fix -runLocal! preglix and hyracks use different CC's, NC's and ports by Jake Biesinger · 12 years ago
  29. d7ded9c small change on hyracks_genomix by Nan Zhang · 12 years ago
  30. 522b5ff Change update condition by Anbang Xu · 12 years ago
  31. 39b490b change updateEdges for processUpdate in pathmerge by Anbang Xu · 12 years ago
  32. 3274eac try to have 2 local stes of CCs and NCs (-runLocal not working) by Jake Biesinger · 12 years ago
  33. d688f36 don't use a max number of readids on edges by Jake Biesinger · 12 years ago
  34. da9eeaf hadoop uses |IO_DIRS| * #slaves reducers by Jake Biesinger · 12 years ago
  35. a9f475d use $IO_DIRS, not -coresPerMachine for hyracks partitions + hadoop #reducers by Jake Biesinger · 12 years ago
  36. 6dfc4bb Hadoop graphbuild works! by Jake Biesinger · 12 years ago
  37. b0aed82 hadoop dist cache must be an absolute path by Jake Biesinger · 12 years ago
  38. 7294ef7 hadoop jar deployment fix by Jake Biesinger · 12 years ago
  39. 7da37db P2 internalKmer merge is completed in single path test by Anbang Xu · 12 years ago
  40. 3d9ecc5 p2 pass test 2,3 by Anbang Xu · 12 years ago
  41. d21026a shut down previous clusters again by Jake Biesinger · 12 years ago
  42. f173509 tweak cluster shutdown by Jake Biesinger · 12 years ago
  43. a56a98a read FRAME_SIZE and FRAME_LIMIT from cluster.properties by Jake Biesinger · 12 years ago
  44. bb0540c fix shutdown bug when -runLocal=false by Jake Biesinger · 12 years ago
  45. 2d358c6 runLocal is working but doesn't shut down properly by Jake Biesinger · 12 years ago
  46. db95a42 only shut down pregelix cluster if it's running by Jake Biesinger · 12 years ago
  47. 0734cd2 STATS is a separate option and DUMP_FASTA can happen after any step by Jake Biesinger · 12 years ago
  48. 16a94ca WIP: partial support for local/nonlocal for hadoop, hyracks and pregelix by Jake Biesinger · 12 years ago
  49. b8ec304 fix framesize: 256MB buffer, 64k page by Jake Biesinger · 12 years ago
  50. ed5a065 less aggressive and adjustable cluster wait times by Jake Biesinger · 12 years ago
  51. f389e7e tweak framesize by Jake Biesinger · 12 years ago
  52. eecb337 increase wait time and add a shutdown hook that stops the clusters by Jake Biesinger · 12 years ago
  53. 2d72d3e add -followsGraphBuild for those inputs proceeding build by Jake Biesinger · 12 years ago
  54. 56af037 remove framesize from command-line parameters by Jake Biesinger · 12 years ago
  55. b6ca725 add the option of frame size by Nan Zhang · 12 years ago
  56. 15b6f47 add MAX_READ_IDS_PER_EDGE in opts parser and jobs by Jake Biesinger · 12 years ago
  57. d169c54 auto-discover CC port and IP settings (broke runLocal) by Jake Biesinger · 12 years ago
  58. 6a6ff67 modify the option of NlinesPerMap to false by Nan Zhang · 12 years ago
  59. 558ea60 Merge aggregator with main branch by Anbang Xu · 12 years ago
  60. 50b28b6 Adpat hadoop testsuite to have linespermap arg by Anbang Xu · 12 years ago
  61. 4da15b2 add many similar bubbles in one pattern test case and BubbleMerge pass test by Anbang Xu · 12 years ago
  62. a9c60b3 The aggregator for all the patterns are completed by Anbang Xu · 12 years ago
  63. 1aed014 add statistics counters to removeTip, pathMerge, removeBridge by Anbang Xu · 12 years ago
  64. 4e63417 fix location of stores.properties by Jake Biesinger · 12 years ago
  65. dd63616 add stores.properties (deleted by?) by Jake Biesinger · 12 years ago
  66. 476760d Add timed logging to genomix-driver jobs by Jake Biesinger · 12 years ago
  67. affc0b4 toString's on edgeList and positionList are sorted by Jake Biesinger · 12 years ago
  68. 65ee367 add STATS and DUMP_FASTA steps to the graph (run locally) by Jake Biesinger · 12 years ago
  69. 5be5c46 fix coresPerMachine's default values by Jake Biesinger · 12 years ago
  70. 28cbeae save intermediate results by default (found a bug in pregelix-core?) by Jake Biesinger · 12 years ago
  71. 8b79c57 don't save intermediate results by default; add option to do so by Jake Biesinger · 12 years ago
  72. f9e6e5f add hadoop building to the driver by Jake Biesinger · 12 years ago
  73. 1e03787 Merge branch 'anbangx/backupMergingWithMaster_errorcase' into wbiesing/merge_fs_backup by Jake Biesinger · 12 years ago
  74. d75565c add option for corespermachine in jobconf by Nan Zhang · 12 years ago
  75. 96eab83 Merge branch 'anbangx/backupMergingWithMaster' into wbiesing/driver_backup_merge by Jake Biesinger · 12 years ago
  76. 26e7332 BubbleMerge test is almost finished except grid test case by Anbang Xu · 12 years ago
  77. 0d6afba remove minidfs cluster (so writing directly to lcoal disk now) by Jake Biesinger · 12 years ago
  78. 34c19fd refactoring local mode by Jake Biesinger · 12 years ago
  79. febbaf1 add EdgeListWritable.addUnion(edge) by Jake Biesinger · 12 years ago
  80. 85dfedf Add broadcaseKillselfAndNoticeToUpdateEdges and responseToDeadVertexAndUpdateEdges by Anbang Xu · 12 years ago
  81. 002533a genomix driver -ip and -runLocal are mutually exclusive by Jake Biesinger · 12 years ago
  82. 3e1eb90 change bubble merge "add" to use boolean `flip` by Jake Biesinger · 12 years ago
  83. 97d97cd add bubble's addReadIDs by Jake Biesinger · 12 years ago
  84. e763a06 add complicated test case for BubbleMerge by Anbang Xu · 12 years ago
  85. 51a0502 separate genomix driver in/out to local/hdfs by Jake Biesinger · 12 years ago
  86. 9071ad4 Merge branch 'nanzhang/hyracks_genomix' into genomix/fullstack_genomix by Nan Zhang · 12 years ago
  87. 3aba0f0 SplitRepeat test is completed by Anbang Xu · 12 years ago
  88. 0ca485b Don't use l1 and l2 in VKmerBytesWritable by Anbang Xu · 12 years ago
  89. 41ffd05 Merge with main branch by Anbang Xu · 12 years ago
  90. 4a9e45c Add testcases for SplitRepeat by Anbang Xu · 12 years ago
  91. 6d42a69 add medification on jobconf by Nan Zhang · 12 years ago
  92. d688b5a Add skip tandem repeat to pathmerge. TODO: detect cycle in pathmerge by Anbang Xu · 12 years ago
  93. 87b679f Merge branch 'anbangx/fullstack_genomix' into wbiesing/driver by Jake Biesinger · 12 years ago
  94. c9fe0a9 driver adapts to build output (InitialGraphInputFormat) by Jake Biesinger · 12 years ago
  95. 9c01d09 Fix mergeReadID RF and RR by Jake Biesinger · 12 years ago
  96. 7a75b07 add updateEdges for pathmerge. Issue: mergeWithStartreads by Anbang Xu · 12 years ago
  97. 9ac0dda Modify mergeWithKmer to mergeWithNode by Anbang Xu · 12 years ago
  98. 2e92709 remove bogus reference to com.sun.tools.javac.util.List by Jake Biesinger · 12 years ago
  99. 6fc84f1 Add additional merge info to pathmerge by Anbang Xu · 12 years ago
  100. fea8393 add unrollTandem to driver by Jake Biesinger · 12 years ago