- 59ee6a1 Prepare to run P1 by Anbang Xu · 12 years ago
- fd9229e Clean up code and move to cluster to test P0 by Anbang Xu · 12 years ago
- 82a9005 P0(refactor version of P1) pass all small testcases by Anbang Xu · 12 years ago
- e5ddfc4 Sender msg edgetype need to fix by Anbang Xu · 12 years ago
- 671cf67 Simply P1 and add throw Exception to it by Anbang Xu · 12 years ago
- 8009477 Refactor P1 by Anbang Xu · 12 years ago
- 65a8336 Keep old version of ComplexBubbleMerge by Anbang Xu · 12 years ago
- b6a3caff Refactoring BubbleMerge by Anbang Xu · 12 years ago
- a128e4b Simplify the main compute function of removetip and removelowcoverage by Anbang Xu · 12 years ago
- 1c73130 Refactor removeLowCoverage by Anbang Xu · 12 years ago
- 9908512 Refactor tipremove by Anbang Xu · 12 years ago
- 14f3c71 Add DIR.edgeType() to covert dir to edgeTypew by Anbang Xu · 12 years ago
- f91c5bb Refactor broadcaseMerge to sendMergeMsg by Anbang Xu · 12 years ago
- cb7ebcd Finish integration by Anbang Xu · 12 years ago
- 0958af1 Pass tests by Anbang Xu · 12 years ago
- 88e742e Fix other pattherns by Anbang Xu · 12 years ago
- 205471f Apply EDGETYPE to P4 by Anbang Xu · 12 years ago
- f7d0baf Add enum EDGETYPE by Anbang Xu · 12 years ago
- f709d73 Merge with Jake's refactor branch by Anbang Xu · 12 years ago
- af493b5 Prepare to integrate by Anbang Xu · 12 years ago genomix/anbangx/before-pathmerge-refactor genomix/old-code v1.4
- ba2b0a7 only check for tandem repeats at start and after merge (not after updates) by Jake Biesinger · 12 years ago
- a4a5ae9 more consistent voteToHalt/activate in P4 by Jake Biesinger · 12 years ago
- 4494560 code review on P4 refactor by Jake Biesinger · 12 years ago
- f54b5e9 Fix syntax errors in P1 (probably still broken though) by Jake Biesinger · 12 years ago
- 6a19516 refactor of P4 passes test cases (P1 broken) by Jake Biesinger · 12 years ago
- db9186e Merge updateState and sendMsg into on step by Anbang Xu · 12 years ago
- ec97be2 Integrate with Jake's enum mergeDir by Anbang Xu · 12 years ago
- bc17671 Add some function util by Anbang Xu · 12 years ago
- 8fa68de use getDest by Anbang Xu · 12 years ago
- 3b5c6bd WIP: refactor P4 (broken) by Jake Biesinger · 12 years ago
- 6efdb29 fix logging file for pregelix test cases by Jake Biesinger · 12 years ago
- ff90e10 Add an iterable for Edge keys by Jake Biesinger · 12 years ago
- 21e8120 getDestVertexId has some issues, which may cause problem on P4 by Anbang Xu · 12 years ago
- ecdc0f6 Make setReplaceDir and setDeleteDir by Anbang Xu · 12 years ago
- 88640f6 Use mergeDir in check condition and move setMergeDir and sendUpdateMsg out of check condition by Anbang Xu · 12 years ago
- 3afaa26 Simply sendMergeMsg() by Anbang Xu · 12 years ago
- 1848aa3 Process information before sending message by Anbang Xu · 12 years ago
- af88e04 Aggregate all the incomingMsgs first, then make a decision based aggregateMsg by Anbang Xu · 12 years ago
- 9703a5c Change non-head to path by Anbang Xu · 12 years ago
- 1491f7f refactor to use general NEXT and PREVIOUS directions by Anbang Xu · 12 years ago
- 2876f0e Merge branch 'anbangx/code_review2' into genomix/fullstack_genomix by Anbang Xu · 12 years ago
- f307307 Clean up some code by Anbang Xu · 12 years ago
- efbeca5 Simplifying sendSettleMsgs by Anbang Xu · 12 years ago
- ee1e1e1 bit clean and move the member of subclass to derived class by Anbang Xu · 12 years ago
- 53cc7e3 Merge branch 'wbiesing/debug' into genomix/fullstack_genomix by Jake Biesinger · 12 years ago
- 2bdc6fb Combine setNext/PrevToMeDir to setNeighborToMeDir(boolean) and throw exception when the merge dir degree is not 1 by Anbang Xu · 12 years ago
- deeb3c8 REMOVE isfilp in sendMergeMsg() by Anbang Xu · 12 years ago
- 5dbc4e9 Call node.updateEdges directly by Anbang Xu · 12 years ago
- 7b773fd Change Num_TandemRepeat to Num_Cycles by Anbang Xu · 12 years ago
- b237604 Seperate function for each block in each iteration by Anbang Xu · 12 years ago
- 4273653 add ThreeNodesCycle, and it succeeds to pass test by Anbang Xu · 12 years ago
- 87dace3 Whenever detect the cycle, don't remove tandem repeats but DO stop merging by Anbang Xu · 12 years ago
- 065aaeb Clean up some feedbacks from code review by Anbang Xu · 12 years ago
- 05f3eff Move all the setCounter to the end of this iteration by Anbang Xu · 12 years ago
- 0e9ff97 Use incomingMsg as a parameter in processMerge() by Anbang Xu · 12 years ago
- 1b8fc71 Move the checking condition outside the loop by Anbang Xu · 12 years ago
- 63c251c Pass incomingMsg as parameter in processUpdate() by Anbang Xu · 12 years ago
- daabce7 Simplifying all the setSateAsMergeDir by Anbang Xu · 12 years ago
- 6d3e6da Simplifing all the sendUpdateMsg by Anbang Xu · 12 years ago
- 4e0d144 add structural constraints to update directions by Jake Biesinger · 12 years ago
- 50e83b4 Combine ifFlipWithNext/Prev() to ifFlipWithNeighbor(boolean withPredecessor) and combine configureUpdateMsgFroPredecessor/Successor to sendUpdateMsg by Anbang Xu · 12 years ago
- aea52c1 fix P4 to use (already available) cmdline random seed by Jake Biesinger · 12 years ago
- de16f37 add AlreadyInEdge test case by Jake Biesinger · 12 years ago
- 972050a DON'T NEED TO SEARCH for this edge when sendUpdateMsg, so change it to get dir directly by Anbang Xu · 12 years ago
- 89e09d0 Code review on P4 -- 2013.9.16 by Anbang Xu · 12 years ago
- d8f9809 Merge with debug branch, which has one testcase and add real randomSeed by Anbang Xu · 12 years ago
- 21c030c clean up the code by Anbang Xu · 12 years ago
- aeb6a54 Seperate set state's MergeDir and sendUpdateMsgToNeighbor by Anbang Xu · 12 years ago
- 2250399 Change head/halt flag to check the vertex internal structure by Anbang Xu · 12 years ago
- 4575fb7 Extend flag of headMergeDir from 1-bit to 2-bit by Anbang Xu · 12 years ago
- c079e59 Change state/message flag from byte to short by Anbang Xu · 12 years ago
- bdecb7f Prepare to change state by Anbang Xu · 12 years ago
- e53a2fb Try to use check condition in vertex state instead of give a isHalt state flag, but it occurs some errors by Anbang Xu · 12 years ago
- 84539c0 Add isUnMergeVertex() by Anbang Xu · 12 years ago
- eca45b7 Change should to can, make it more meaningful by Anbang Xu · 12 years ago
- 8efea88 Move isHaltNode() outside the function in initState() by Anbang Xu · 12 years ago
- 0f1f820 clean up code by Anbang Xu · 12 years ago
- 43b3f56 Keep only one isTandemRepeat() by Anbang Xu · 12 years ago
- a7e295c Make getCopyWithoutTandemRepeats() function by Anbang Xu · 12 years ago
- a20c75e Remove some unnecessary flag by Anbang Xu · 12 years ago
- a864eb2 Move extra logic(check if it is a valid head) to inside of the function by Anbang Xu · 12 years ago
- a3b5878 change curKmer/preKmer/nextKmer from deep copy to shallow copy by Anbang Xu · 12 years ago
- e929dfc don't need to create "randGenerator" every iteration by Anbang Xu · 12 years ago
- b0fa812 Combine into one loop inside setNextInfo/setPreInfo by Anbang Xu · 12 years ago
- 1f5cf71 Code review on P4 -- 2013.9.14 by Anbang Xu · 12 years ago
- d62271f oops... killed initVertex by Jake Biesinger · 12 years ago
- 03ba0f7 Add simple RF FR RF test case by Jake Biesinger · 12 years ago
- 1dc8655 make the xml jobs directory if it doesn't exist by Jake Biesinger · 12 years ago
- 7b57ae6 add RandomSeed by Anbang Xu · 12 years ago
- d745605 add by Anbang Xu · 12 years ago
- c981ca3 output error vertexId and vertexValue by Anbang Xu · 12 years ago
- 5e03163 Add logging.properties to genomix-driver by Anbang Xu · 12 years ago
- aaf3af2 Delete old LogFormatter by Anbang Xu · 12 years ago
- 30ecc2d Refactore FineOnlyFormatter to PathMergeFormatter by Anbang Xu · 12 years ago
- 1be8865 use LogUtil by Anbang Xu · 12 years ago
- b78d555 Don't use customer formatter anymore, everything uses java.util.Logger by Anbang Xu · 12 years ago
- 20a80e6 standardize logging across eclipse-test, eclipse-main, and maven by Jake Biesinger · 12 years ago
- 668f8a3 configure parameter of java.util.logger and prepare to test simple logger by Anbang Xu · 12 years ago
- a3e7a7c Add setAsCopy to VertexValueWritable and MessageWritable and format the output of Logging by Anbang Xu · 12 years ago
- b6e7014 Logging message in pathmerge by Anbang Xu · 12 years ago