Commits · d207b97f9b8fd89b3da070a9b62bccf0710d0626 · Mirrors / biopet.biopet

Dec 10, 2015
- Update None pattern match to use catch-all clause · d207b97f
  bow authored 9 years ago
  
  d207b97f
- Update adapters summary stats to be Map[String, Any] instead of (String, Int) · c1ccaa97
  bow authored 9 years ago
  
  c1ccaa97
- Initial fix for #238 · e7541377
  bow authored 9 years ago
  
  The issue is caused by the Cutadapt summary not being aware of the clipped sequence names. This merge request extends the existing Cutadapt wrapper in the Flexiprep module and makes it so that the wrapper is aware of FastQC.
  e7541377
Nov 24, 2015
- Bump version to 0.6.0-SNAPSHOT · ac785920
  Peter van 't Hof authored 9 years ago
  
  ac785920
- Bump version to 0.5.0 · c5303e8c
  Peter van 't Hof authored 9 years ago
  
  c5303e8c
Nov 23, 2015
- Bump to 0.5.0-RC2 · 16d2711f
  Peter van 't Hof authored 9 years ago
  
  16d2711f
Nov 19, 2015
- Bumb version to 0.5.0-RC1 · 19a93bbb
  Peter van 't Hof authored 9 years ago
  
  19a93bbb
- Fixed license headers · fceb39a9
  Peter van 't Hof authored 9 years ago
  
  fceb39a9
- Fixed bug in loading the mainClass for biopet tools · 7f424eb9
  Peter van 't Hof authored 9 years ago
  
  7f424eb9
Oct 20, 2015
- Moved function to utils, this might be usefull in other pipelines · 954e0245
  Peter van 't Hof authored 9 years ago
  
  954e0245
Oct 19, 2015
- Use provided exts Set instead of zipExtensions · 6af00416
  bow authored 9 years ago
  
  6af00416
- Remove R1_ext and R2_ext from Flexiprep · 90eaaf09
  bow authored 9 years ago
  
  90eaaf09
- Add error message when a Flexiprep input file does not have the expected structure · 487324b4
  bow authored 9 years ago
  
  487324b4
- Refactor filename and extension retrieval in Flexiprep · b4b6785a
  bow authored 9 years ago
  
  b4b6785a
Oct 15, 2015
- Added jobs to pipejobs · d6272ab2
  Peter van 't Hof authored 9 years ago
  
  d6272ab2
- Code style · c82dc34f
  Peter van 't Hof authored 9 years ago
  
  c82dc34f
- Fix code warnings · 29923378
  Peter van 't Hof authored 9 years ago
  
  29923378
- Fixed version to single end executables · e2a873b6
  Peter van 't Hof authored 9 years ago
  
  e2a873b6
Oct 09, 2015
- Fix zcat for chunking · ca9c7e5c
  Peter van 't Hof authored 9 years ago
  
  ca9c7e5c
- Fix chunking · f4f1f4cb
  Peter van 't Hof authored 9 years ago
  
  f4f1f4cb
Oct 06, 2015
- Fixed tests in flexiprep · 95ae061e
  Peter van 't Hof authored 9 years ago
  
  95ae061e
- Always execute fastqc_qc · 85f7eb91
  Peter van 't Hof authored 9 years ago
  
  85f7eb91
- Added adapters to summary · 2d241e33
  Peter van 't Hof authored 9 years ago
  
  2d241e33
Oct 05, 2015
- Removed out commented tests · b733ff34
  Peter van 't Hof authored 9 years ago
  
  b733ff34
- Remove useless lines · 31822f0a
  Peter van 't Hof authored 9 years ago
  
  31822f0a
- Fix single end dependency · 936e77a0
  Peter van 't Hof authored 9 years ago
  
  936e77a0
Oct 02, 2015
- Fix code style warnings · 52928227
  Peter van 't Hof authored 9 years ago
  
  52928227
- Move input for gzip to stdin to not remove file · 2156f192
  Peter van 't Hof authored 9 years ago
  
  2156f192
- Fixed summary files of flexiprep · 5d5c30c1
  Peter van 't Hof authored 9 years ago
  
  5d5c30c1
Sep 30, 2015
- Removed test · 310b07ef
  Peter van 't Hof authored 9 years ago
  
  310b07ef
Sep 29, 2015
- Switch to fifo pipes · 8ae539f7
  Peter van 't Hof authored 9 years ago
  
  8ae539f7
Sep 28, 2015
- Changed own vmem · adb6ffe1
  Peter van 't Hof authored 9 years ago
  
  adb6ffe1
- Adding summary stats · f42be845
  Peter van 't Hof authored 9 years ago
  
  f42be845
- Fixed resources · 6fc77a78
  Peter van 't Hof authored 9 years ago
  
  6fc77a78
Sep 27, 2015
- Fixed single-end runs · 6bad7eaf
  Peter van 't Hof authored 9 years ago
  
  6bad7eaf
Sep 25, 2015
- Added deps · 5096c156
  Peter van 't Hof authored 9 years ago
  
  5096c156
- Fix fastqc dependency · 206c7f01
  Peter van 't Hof authored 9 years ago
  
  206c7f01
- Fixed QcCommand · 7a3bf3b2
  Peter van 't Hof authored 9 years ago
  
  7a3bf3b2
Sep 24, 2015
- Added FilePipes · 04210893
  Peter van 't Hof authored 9 years ago
  
  04210893
Sep 23, 2015
- Added support to have a pipe as input file · f298fe2c
  Peter van 't Hof authored 9 years ago
  
  f298fe2c