Commits · 567477f3f4acdfbf6b131491ab090fbc517d0c28 · R3 / legacy / bedtools2 · GitLab

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Apr 23, 2015
- Fixed bug 223, Insertions for VCF records. Added unit test. · 567477f3
  Neil Kindlon authored 9 years ago
  
  567477f3
Feb 23, 2015
- Fixed bug for -nonamecheck, added help, unit test · 78c266dc
  Neil Kindlon authored 10 years ago
  
  78c266dc
Feb 14, 2015
- forgot new test files for intersect unit tests · 4a9a6c2b
  Neil Kindlon authored 10 years ago
  
  4a9a6c2b
Feb 13, 2015
- bug fixes for kclosest sorted output, 0 length records, and map a vs b file with multi-dbs · dbc19ad2
  Neil Kindlon authored 10 years ago
  
  dbc19ad2
Jan 26, 2015
- Added files · 90892a6b
  Neil Kindlon authored 10 years ago
  
  90892a6b
- Added closest -fu and -fd, updated help · 29fe57fc
  Neil Kindlon authored 10 years ago
  
  29fe57fc
- addressing merge conflict · 60f99fb0
  Neil Kindlon authored 10 years ago
  
  60f99fb0
- K closest finally working; chrom name conventions test change · 24e97ccb
  Neil Kindlon authored 10 years ago
  
  24e97ccb
Jan 07, 2015
- Fixed bug167: stranded chromsweep wasn't working · 9d4ed4c7
  Neil Kindlon authored 10 years ago
  
  9d4ed4c7
Dec 20, 2014
- More sort order unit tests for chromsweep and closest; bug fixes and minor enhancements · 4422985d
  Neil Kindlon authored 10 years ago
  
  4422985d
Dec 18, 2014
- Bug fixes for closest and bug 155 · 436e6f4e
  Neil Kindlon authored 10 years ago
  
  436e6f4e
Dec 07, 2014
- Added tleonardi's changes for bug 150 re: overlap bases with -split in intersect · b70b6caf
  Neil Kindlon authored 10 years ago
  
  b70b6caf
Dec 06, 2014
- Cleaned up error message for sort order detection of missing chrom · a2cacdf7
  Neil Kindlon authored 10 years ago
  
  a2cacdf7
- Detect differently ordered files in chromsweep and closest. Merged Fisher changes. · 4c7213c5
  Neil Kindlon authored 10 years ago
  
  4c7213c5
Nov 11, 2014
- VcfRecord code cleanup, add intersect unit test test for VCF SV's. · 858cc4bd
  Neil Kindlon authored 10 years ago
  
  858cc4bd
Nov 10, 2014
- Fixed bug133, missing intersection of zero length records · 0ea1769d
  Neil Kindlon authored 10 years ago
  
  0ea1769d
Sep 18, 2014
- Stop Chromsweeep cache scan when DB is after query; allow BAM unmapped reads/chrom in genome file. · 7434d8a3
  nkindlon authored 10 years ago
  
  7434d8a3
Aug 15, 2014
- Changes for multi-DB intersection. · 56761cd4
  nkindlon authored 10 years ago
  
  56761cd4
Jul 07, 2014
- Corrected errors caused during merge-conflict resolution · 57ed945c
  nkindlon authored 10 years ago
  
  57ed945c
Jul 02, 2014
- Multiple DB intersect support with unit tests and updated help messages. · 509cc91d
  nkindlon authored 10 years ago
  
  509cc91d
May 29, 2014
- Added new -iobuf option and unit tests. · ccd125c1
  nkindlon authored 10 years ago
  
  ccd125c1
May 23, 2014
- Fixed bug for files with no newlines. · d8c62016
  nkindlon authored 10 years ago
  
  d8c62016
May 22, 2014
- correct intersect unit test - was pointing to test binary · 69eb4eaa
  arq5x authored 10 years ago
  
  69eb4eaa
May 08, 2014
- Stripped whitespace and DOS endLine chars in parsing. · 2ae5c07a
  nkindlon authored 10 years ago
  
  2ae5c07a
Apr 15, 2014
- Handling empty files with headers · fe5ea0ed
  nkindlon authored 10 years ago
  
  fe5ea0ed
Mar 04, 2014
- Fixed intersect bug so that bed query with Bam DB correctly gives bed output. Added unit test. · 95098092
  nkindlon authored 11 years ago
  
  95098092
Feb 06, 2014
- Added unit test to intersect for gff files. · bf296c8c
  nkindlon authored 11 years ago
  
  bf296c8c
- Refactored contexts for validation, added unit tests, enabled -plit for map. · b912d88c
  nkindlon authored 11 years ago
  
  b912d88c
Jan 31, 2014
- Forgot new file for unit tests · f23b047f
  nkindlon authored 11 years ago
  
  f23b047f
- Corrections and unit tests for split bug. · 88ba7f18
  nkindlon authored 11 years ago
  
  88ba7f18
Jan 27, 2014
- Added another file to intersect unit tests for split blocks testing. · 0330f301
  nkindlon authored 11 years ago
  
  0330f301
Jan 22, 2014
- New unit test for -split -wo · 69fda88a
  nkindlon authored 11 years ago
  
  69fda88a
Jan 11, 2014
- tweak · ce2d411b
  arq5x authored 11 years ago
  
  ce2d411b
- [TST] new unit tests for proper field reporting for BED* intersections · 420159aa
  arq5x authored 11 years ago
  
  420159aa
Jan 03, 2014
- Added fix for Bam files with empty headers. Added test for this to unit test. · a16562f4
  nkindlon authored 11 years ago
  
  a16562f4
Dec 09, 2013
- [TST] resolve platform-specific issues with GNU cut. · fedbb693
  arq5x authored 11 years ago
  
  fedbb693
Dec 06, 2013
- Actually needed j1.bed in test/intersect. · b94d9f5e
  nkindlon authored 11 years ago
  
  b94d9f5e
- Fixed sample and intersect unit tests; minor code changes; new repository. · 55c53173
  nkindlon authored 11 years ago
  
  55c53173
Nov 18, 2013
- Added unit test for unrecognized arguments. · 3b9fc3e1
  nkindlon authored 11 years ago
  
  3b9fc3e1
- Added unit test and changed error message for empty files. · 19b3e29f
  nkindlon authored 11 years ago
  
  19b3e29f