Commits · 4a5fc54a4d25ad717219de01954f3d8ad92dcda4 · R3 / legacy / bedtools2

May 23, 2014
- fix for slop bug in issue \#82 · 4a5fc54a
  arq5x authored 10 years ago
  
  4a5fc54a
May 22, 2014
- correct intersect unit test - was pointing to test binary · 69eb4eaa
  arq5x authored 10 years ago
  
  69eb4eaa
- More unit tests for column ops on BAM · bc90a1a0
  nkindlon authored 10 years ago
  
  bc90a1a0
May 17, 2014
- Changes fetch columns by number from BAM files. · 952140cc
  nkindlon authored 10 years ago
  
  952140cc
May 08, 2014
- Stripped whitespace and DOS endLine chars in parsing. · 2ae5c07a
  nkindlon authored 10 years ago
  
  2ae5c07a
May 06, 2014
- Updated map's unit test for allowance of numeric ops on non-num cols · 47a801b9
  nkindlon authored 10 years ago
  
  47a801b9
- Allowed numeric ops for non-numeric columns · 9ee6bac8
  nkindlon authored 10 years ago
  
  9ee6bac8
Apr 30, 2014
- Added unit test to merge to confirm precision · be32e1c1
  nkindlon authored 10 years ago
  
  be32e1c1
- Added stranded info to jaccard and merge help, fixed stranded jaccard bug · 39fffc97
  nkindlon authored 10 years ago
  
  39fffc97
Apr 25, 2014
- Added jaccard w/ -split and unit tests. Fixed Bam input as bam output bug,... · e2be0789
  nkindlon authored 10 years ago
  
  Added jaccard w/ -split and unit tests. Fixed Bam input as bam output bug, added unit test in sample.
  e2be0789
Apr 24, 2014
- Made Merge only print Bed3 output for BAM, added unit test · bbda1f41
  nkindlon authored 10 years ago
  
  bbda1f41
- merge bug fixes and unit tests · b740bbf4
  nkindlon authored 10 years ago
  
  b740bbf4
Apr 17, 2014
- cleanup unit tests. · 17ec9aa9
  arq5x authored 11 years ago
  
  17ec9aa9
- Final unit tests for merge, including stranded merge bug fixes. · 1b866b6e
  nkindlon authored 11 years ago
  
  1b866b6e
Apr 16, 2014
- Unit tests and bug fixes for merge release · 5eb3b68c
  nkindlon authored 11 years ago
  
  5eb3b68c
Apr 15, 2014
- Handling empty files with headers · fe5ea0ed
  nkindlon authored 11 years ago
  
  fe5ea0ed
Apr 09, 2014
- [TST] run shuffle tests. · bcbd75b7
  arq5x authored 11 years ago
  
  bcbd75b7
- [ENH] all shuffle with -incl to follow data distribution · 4642a149
  arq5x authored 11 years ago
  
  4642a149
Apr 08, 2014
- Merge converted to PFM, first check-in · f36d6db4
  nkindlon authored 11 years ago
  
  f36d6db4
Apr 05, 2014
- fix most filetype issues. intersect still raises error with empty files. · ed71c8e0
  arq5x authored 11 years ago
  
  ed71c8e0
Mar 21, 2014
- Access data via a DATA variable, allowing to override the location. · b9c717e3
  Charles Plessy authored 11 years ago
  
  b9c717e3
- Call bedtools via the BT variable, allowing to override the location. · c1fb7ab9
  Charles Plessy authored 11 years ago
  
  c1fb7ab9
Mar 18, 2014
- Fixed slop bug when slop factor exceeds MAX signed int. · 80820201
  nkindlon authored 11 years ago
  
  80820201
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 28, 2014
- Refactored KeyListOps, Context, mapFile for KeyListOps re-usability by other tools. · 2268ee4f
  nkindlon authored 11 years ago
  
  2268ee4f
Feb 19, 2014
- Created new KeyListOps class to replace vectorOps. Converted map tool to this. · 77c1bdad
  nkindlon authored 11 years ago
  
  77c1bdad
Feb 06, 2014
- Added unit test to intersect for gff files. · bf296c8c
  nkindlon authored 11 years ago
  
  bf296c8c
- Fixed a cut/paste error in unit test comment. · d92fdfdb
  nkindlon authored 11 years ago
  
  d92fdfdb
- Refactored contexts for validation, added unit tests, enabled -plit for map. · b912d88c
  nkindlon authored 11 years ago
  
  b912d88c
Feb 02, 2014
- fix bug in merge output and cleanup jaccard test · 526119e7
  arq5x authored 11 years ago
  
  526119e7
- [ENH] correct Jaccard output header · b77e0ebb
  arq5x authored 11 years ago
  
  b77e0ebb
- [ENH] add test when -fullHeader not provided · 4bbe86d3
  arq5x authored 11 years ago
  
  4bbe86d3
- [TST] add tests for map · 35619c1d
  arq5x authored 11 years ago
  
  35619c1d
Feb 01, 2014
- add option -fullHeader for fasta files · accf0a13
  Timothee Flutre authored 11 years ago
  
  accf0a13
- add files to test getfasta with full header · d5ecb195
  Timothee Flutre authored 11 years ago
  
  d5ecb195
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 20, 2014
- [TST] add new tests for map · 6f746dc3
  arq5x authored 11 years ago
  
  6f746dc3