Commits · 8b6ed4bed1349bde687402b798370b95dba7ab2f · R3 / legacy / bedtools2 · GitLab

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Apr 09, 2014
- [ENH] all shuffle with -incl to follow data distribution · 4642a149
  arq5x authored 10 years ago
  
  4642a149
Apr 08, 2014
- Merge converted to PFM, first check-in · f36d6db4
  nkindlon authored 10 years ago
  
  f36d6db4
Apr 05, 2014
- fix most filetype issues. intersect still raises error with empty files. · ed71c8e0
  arq5x authored 10 years ago
  
  ed71c8e0
Mar 20, 2014
- just peak at first bit in isGzipFile() fix for issue46 · 6fbc3c26
  arq5x authored 11 years ago
  
  6fbc3c26
Mar 06, 2014
- Setting Release-Version v2.19.1 · a3fefa28
  arq5x authored 11 years ago
  
  v2.19.1
  
  a3fefa28
- Setting Release-Version v2.19.1 · 732f6830
  arq5x authored 11 years ago
  
  732f6830
- Setting Release-Version v2.19.1 · 37190385
  arq5x authored 11 years ago
  
  37190385
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 09, 2014
- Setting Release-Version v2.19.0 · d677066e
  arq5x authored 11 years ago
  
  v2.19.0
  
  d677066e
- Setting Release-Version v2.19.0 · be3415c7
  arq5x authored 11 years ago
  
  be3415c7
- Setting Release-Version v2.19.0 · ec052061
  arq5x authored 11 years ago
  
  ec052061
Feb 06, 2014
- Removed unnecessary NULL checks on delete. · d0fb3059
  nkindlon authored 11 years ago
  
  d0fb3059
- Refactored contexts for validation, added unit tests, enabled -plit for map. · b912d88c
  nkindlon authored 11 years ago
  
  b912d88c
Feb 02, 2014
- fix conflict. · ce50a83e
  arq5x authored 11 years ago
  
  ce50a83e
- fix conflict. · 61a63f95
  arq5x authored 11 years ago
  
  61a63f95
Feb 01, 2014
- reduce QuickString DEFAULT_CAPACITY to 8 instead of 256 to save memory. · 87f72e54
  arq5x authored 11 years ago
  
  87f72e54
- add a Context for Map tool. · ebf9a72c
  arq5x authored 11 years ago
  
  ebf9a72c
- add methods to extract column from record by its col. number (2) · a45f98c0
  arq5x authored 11 years ago
  
  a45f98c0
- add methods to extract column from record by its col. number · 61b7a976
  arq5x authored 11 years ago
  
  61b7a976
- allow RecordOutputMgr to print a record followed by arbitray string · c380cf59
  arq5x authored 11 years ago
  
  c380cf59
- add nullValue and ColOp to ContextBase for Map · 8489f019
  arq5x authored 11 years ago
  
  8489f019
- add option -fullHeader for fasta files · accf0a13
  Timothee Flutre authored 11 years ago
  
  accf0a13
Jan 31, 2014
- Corrections and unit tests for split bug. · 88ba7f18
  nkindlon authored 11 years ago
  
  88ba7f18
Jan 21, 2014
- Fixed split bug, added field number accessibility. · 300e9249
  nkindlon authored 11 years ago
  
  300e9249
Jan 20, 2014
- formatting · ca1d3bdd
  arq5x authored 11 years ago
  
  ca1d3bdd
- [ENH] add str() method to QuickString · e379c072
  arq5x authored 11 years ago
  
  e379c072
- [BUG] change getField() logic in GffRecord · e6cab1c6
  arq5x authored 11 years ago
  
  e6cab1c6
- [ENH] add absmin and absmax to VectorOps and map tool. · 99499249
  arq5x authored 11 years ago
  
  99499249
Jan 12, 2014
- first pass at using Context and PFM for the map tool. · c87afc9f
  arq5x authored 11 years ago
  
  c87afc9f
Jan 10, 2014
- Changed handling of strand in records to allow non-strand strings in sixth field of records. · 3baa8db2
  nkindlon authored 11 years ago
  
  3baa8db2
Jan 08, 2014
- Setting Release-Version v2.18.2 · 393fc3b9
  arq5x authored 11 years ago
  
  v2.18.2
  
  393fc3b9
- Refactored Context class into Base and Derived classes for cleaner future development. · 434901e5
  nkindlon authored 11 years ago
  
  434901e5
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 19, 2013
- Added -nobuf option, and changed flush to occur after every record if -nobuf is set. · 930ddf38
  nkindlon authored 11 years ago
  
  930ddf38
Dec 18, 2013
- Changed outbuf size constant to 16384 from 16386, which was a mistake. · bb49512d
  nkindlon authored 11 years ago
  
  bb49512d
- Corrected comment and constant for MAIN_BUF_READ_SIZE. · 284148c0
  nkindlon authored 11 years ago
  
  284148c0
- Changed input stream buffer to only 1Kb to improve performance for small files. · fba95089
  nkindlon authored 11 years ago
  
  fba95089
Dec 17, 2013
- Setting Release-Version v2.18.1 · 5173bf69
  arq5x authored 11 years ago
  
  v2.18.1
  
  5173bf69