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Commits on Jan 19, 2016

• Merge pull request marbl#31 from lhon/patch-1

  Show description for f00ca16
  skoren

  committed
  f00ca16

Commits on Jan 6, 2016

• Fix issue marbl#15, output error if corrected and raw sequences are mixed

  skoren

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  67b5323

Commits on Jan 5, 2016

• Fix fastq link

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  b1191fe

Commits on Jan 4, 2016

• Use AS_global types instead of uint32_t to fix issue marbl#12

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  b0688d9

Commits on Dec 30, 2015

• Update references in tutorial

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  b40751f

• Update tutorial.rst

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  a3ccc8e

Commits on Dec 29, 2015

• Update quick-start.rst

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  1eb5873

• Update LICENSE

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  6fe3c39

• Add boost dependencies for Linux and Darwin

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  de89613

• Lets try this boost dependency again, clean up and remove files, will re-add minimum required

  skoren

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  d6e29a8

• Update/add a few more missing boost includes for darwin

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  f76ccf3

• Add some missing boost files

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  2416fcc

• Merge branch 'master' of https://github.com/marbl/canu

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  1fe6438

• Update boost path

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  53b70fa

Commits on Dec 28, 2015

• Update quick-start.rst

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  5bca0dd

• Update quick-start.rst

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  0b90bf9

• Update quick-start.rst

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  1dbbf4f

• Pass error rate to utgcns

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  feb276b

• Do not use high-error alignments for consensus

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  1b05e04

• update make file to include pbdagcon includes

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  603579c

• Update pipelines to use pbdagcon

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  7eb7f98

• Add boost license file

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  782b445

• Port pbdagcon into canu and make it the default consensus module, update pbdagcon to use ND aligner rather than blasr library

  Show description for dafa6e2
  skoren

  committed
  dafa6e2

Commits on Dec 22, 2015

• Default to quick consensus for now

  skoren

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  8b22dc0

• Handle unplaced reads in quick consensus properly (by appending to the end)

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  b9578e7

Commits on Dec 17, 2015

• Revert quick mode on second try

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  0358519

• Store success files for parallel overlap store building stages. Bug was clearing # attempts when step 1 was finished/successful while step 2 kept failing, leading to infinite submit loop

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  ffc2794

• Update quick-start.rst

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  4919482

• Update quick mode to always fit a read in even given invalid positions

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  6220f8a

Commits on Dec 16, 2015

• Parameter updates

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  fa9c38f

• Switch to quick consensus if there is a crash on the initial attempt

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  42da1e4

Commits on Dec 15, 2015

• Disable random name on SGE for now as it was breaking dependency

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  c97741d

• Make sure store updates are flushed before moving onto next stage. Was casuing incomplete flushes on SGE systems.

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  9c5af30

Commits on Dec 14, 2015

• Update hold for resubmitted failed jobs to include all jobs not just last submitted, fixing bug in issue marbl#4.

  Show description for 3f7103b
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  committed
  3f7103b

Commits on Dec 11, 2015

• Update quick-start.rst

  skoren

  committed
  0fed791

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