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Commits on Jul 2, 2020

• added MIT license to some non-GPL source files

  lh3

  committed
  436aceb

Commits on Jan 23, 2019

• r1198: exit if .alt is malformatted

  Show description for 20d0a13
  lh3

  committed
  20d0a13

Commits on May 10, 2017

• Only realloc(pac,...) if it needs to be made larger

  Show description for 1972a97
  jmarshall

  committed
  1972a97

Commits on Oct 15, 2014

• r896: more flexible ALT reading

  lh3

  committed
  71277f0

Commits on Oct 14, 2014

• r890: bns_intv2rid() may wrongly return -1

  lh3

  committed
  df20911

Commits on Oct 2, 2014

• r880: bug in writing .ann file

  lh3

  committed
  7b62fbb

Commits on Sep 5, 2014

• r816: read .alt file (not tested)

  lh3

  committed
  e4ad616

Commits on Aug 29, 2014

• r815: optionally output ref fasta header

  Show description for 35ac99b
  lh3

  committed
  35ac99b

Commits on Apr 14, 2014

• r713: a bug in retrieving ref seq on rev

  lh3

  committed
  836d464

Commits on Apr 13, 2014

• output extra debugging information

  lh3

  committed
  f2b7d67

Commits on Apr 11, 2014

• dev-472: get rid of bwa_fix_xref()

  Show description for 8638cfa
  lh3

  committed
  8638cfa

Commits on May 2, 2013

• Reduce dependency on utils.h - new malloc wrapping scheme.

  Show description for 96e445d
  

  Rob Davies

  committed
  96e445d

Commits on Mar 8, 2013

• Merge branch 'master' into master_fixes

  Show description for aabd990
  

  Rob Davies

  committed
  aabd990

Commits on Mar 7, 2013

• r334: added pemerge to bwa

  lh3

  committed
  042e1f4

Commits on Mar 5, 2013

• Merge branch 'master' into master_fixes

  Show description for 8a078cc
  

  Rob Davies

  committed
  8a078cc

Commits on Mar 4, 2013

• r316: don't allocate zero-length memory

  Show description for d35f33b
  lh3

  committed
  d35f33b

Commits on Mar 1, 2013

• Merge branch 'master' into master_fixes

  Show description for 3d33ab0
  

  Rob Davies

  committed
  3d33ab0

Commits on Feb 26, 2013

• r283: prepare for fixing cross-ref aln

  lh3

  committed
  61dd3bf

Commits on Feb 16, 2013

• forbid x-bounary bns_get_seq(); code backup

  lh3

  committed
  5f8c6ef

Commits on Feb 6, 2013

• updated to the latest kseq.h

  lh3

  committed
  5a0b32b

Commits on Feb 1, 2013

• routine to get subsequence from 2-bit pac

  lh3

  committed
  00e5302

Commits on Jan 3, 2013

• New wrapper for gzclose; added err_fflush calls and made it call fsync too.

  Show description for 55f1b36
  

  Rob Davies

  committed
  55f1b36

Commits on Dec 16, 2012

• Use wrapper functions to catch system errors

  Show description for b081ac9
  

  Rob Davies

  committed
  b081ac9

Commits on Nov 18, 2011

• fixed a segfault when there are too few good bases.

  

  Heng Li

  committed
  8f89f55

Commits on Oct 25, 2011

• concatenate for-rev sequences in the end

  

  Heng Li

  committed
  aabb807

• build .pac in memory; prepare for further changes

  

  Heng Li

  committed
  ca809a4

• backup the current debugging code; more changes

  

  Heng Li

  committed
  7626595

Commits on Oct 21, 2011

• use forward-only pac to reduce memory

  

  Heng Li

  committed
  1cb409a

• allow to pac forward strand only

  

  Heng Li

  committed
  fe9da3c

Commits on Oct 20, 2011

• PE seems working; more testing needed

  

  Heng Li

  committed
  ec307a1

• aln seems working

  

  Heng Li

  committed
  2d2db5d

• removed reverse pac; bwa is not working right now

  

  Heng Li

  committed
  4612363

• restructure bns_fasta2bntseq() for further changes

  

  Heng Li

  committed
  70da24e

Commits on Jun 9, 2011

• automatically choose the algorithm for BWT

  

  Heng Li

  committed
  72563c3

Commits on Jan 14, 2011

• Imported from my local bwa repository, the master repository.

  

  Heng Li

  committed
  007c3eb

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