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Commits on Jun 4, 2022

• min_bp option for threading

  bjclavijo

  committedJun 4, 2022
  d7fbca9

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Commits on May 30, 2022

• Solve k-1 repeat linkage for 2:2 repeats on contigger

  bjclavijo

  committedMay 30, 2022
  499ca34

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• disabling old classes from API

  bjclavijo

  committedMay 30, 2022
  a479e31

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Commits on Feb 14, 2022

• LRR replace find_next_valid_block, which has bugs, for find_all_valid_blocks

  bjclavijo

  committedFeb 14, 2022
  387f06e

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Commits on Feb 10, 2022

• WS loading tidying up

  bjclavijo

  committedFeb 10, 2022
  589d3af

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• RTG:classify_all_threads max threads option

  bjclavijo

  committedFeb 10, 2022
  ca17d78

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• DG dump/load

  bjclavijo

  committedFeb 10, 2022
  d892e6a

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• FIX: race condition on kci cache

  bjclavijo

  committedFeb 10, 2022
  53da060

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Commits on Feb 8, 2022

• missing import

  bjclavijo

  committedFeb 8, 2022
  4c112de

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Commits on Jan 31, 2022

• rtg::merge and closest_reliable_connections/graph

  bjclavijo

  committedJan 31, 2022
  4ad9b7d

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• lrr::clean_sandwitch_matches

  bjclavijo

  committedJan 31, 2022
  3bbd0bb

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Commits on Jan 11, 2022

• fix partition threads

  bjclavijo

  committedJan 11, 2022
  73a38d5

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Commits on Jan 4, 2022

• RTG::list_threads

  bjclavijo

  committedJan 4, 2022
  80385b7

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• BUGFIX: sdg_dbg was using node 0 as a normal node

  bjclavijo

  committedJan 4, 2022
  c23288a

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Commits on Nov 5, 2021

• RTGPartition: skip unsupported threads as class founders

  bjclavijo

  committedNov 5, 2021
  b874f5e

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• Allow HS to place nodes with just one thread (it's not the placement algorithm's responsibility to check for linkage)

  bjclavijo

  committedNov 5, 2021
  a5b9b71

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• RTGPArtition::supported_thread checks if a thread is supported by other threads (to discard chimeras)

  bjclavijo

  committedNov 5, 2021
  f406481

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• Cleanup on RTGPArtition

  bjclavijo

  committedNov 5, 2021
  12296bf

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Commits on Nov 4, 2021

• Cleanup on RTGPArtition

  bjclavijo

  committedNov 4, 2021
  7532a5c

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Commits on Nov 2, 2021

• WS::dump option to skip all ds and kc

  bjclavijo

  committedNov 2, 2021
  3fd2517

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Commits on Oct 28, 2021

• KC::add_multicount counts from multiple files into multiple counts, to accelerate pipelines comparing coverage across different samples

  bjclavijo

  committedOct 28, 2021
  2bbefa7

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Commits on Oct 26, 2021

• LRM now works same as PRM

  bjclavijo

  committedOct 26, 2021
  2bea7d3

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• rtg_from_threads pre-allocation of link vectors

  bjclavijo

  committedOct 26, 2021
  70a416a

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• RTGPartition improved logs

  bjclavijo

  committedOct 26, 2021
  2bd2074

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Commits on Oct 20, 2021

• GC: new path-based canonical repeat solution

  bjclavijo

  committedOct 20, 2021
  35c0aa4

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• pe datastore now supports rle

  bjclavijo

  committedOct 20, 2021
  b5cc1ab

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Commits on Oct 18, 2021

• fix: GC: low kcov node removal

  bjclavijo

  committedOct 18, 2021
  78d7cd0

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• GC first remove lowkcov nodes implementation

  bjclavijo

  committedOct 18, 2021
  17d8b9f

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Commits on Oct 15, 2021

• LRR::anchormap maps with a KC filtered index

  bjclavijo

  committedOct 15, 2021
  86b3521

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• Improvements to GC tip clipping and bubble popping

  bjclavijo

  committedOct 15, 2021
  44dbfb4

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Commits on Oct 14, 2021

• PRM cleanup

  bjclavijo

  committedOct 14, 2021
  5dec51b

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• PRM now dumps and loads paths_in_node, to make loading/dumping workspaces faster

  bjclavijo

  committedOct 14, 2021
  7f9714d

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• improved tip/buble/repeat classification

  bjclavijo

  committedOct 14, 2021
  ad3bca2

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• PRM returns oriented paths in node

  bjclavijo

  committedOct 14, 2021
  aaec836

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• tidy up

  bjclavijo

  committedOct 14, 2021
  30c8823

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