Commits · 00eb908d58407bb6c38c152b164eff0b0cfd6ad8 · biowdl / tasks

Feb 22, 2018
- allocate extra memory to extract adapters fastqc · 00eb908d
  Ruben Vorderman authored 7 years ago
  
  00eb908d
Feb 21, 2018
- Merge branch 'spades' of git.lumc.nl:sasc/wdl-tasks into spades · dbf8d239
  Ruben Vorderman authored 7 years ago
  
  dbf8d239
- Merge branch 'spades' of git.lumc.nl:sasc/wdl-tasks into spades · d5b98b0a
  Ruben Vorderman authored 7 years ago
  
  d5b98b0a
- proper dirname creation · 264c68bc
  Ruben Vorderman authored 7 years ago
  
  264c68bc
Feb 09, 2018
- solved indexing issue · 00fd8d40
  Ruben Vorderman authored 7 years ago
  
  00fd8d40
Feb 08, 2018
- also give index · 0b157958
  Ruben Vorderman authored 7 years ago
  
  0b157958
- solved index problem · 5f7c9945
  Ruben Vorderman authored 7 years ago
  
  5f7c9945
- added bwa index task · 47035fb2
  Ruben Vorderman authored 7 years ago
  
  47035fb2
- use proper mkdir and dirname commands · e63040a8
  Ruben Vorderman authored 7 years ago
  
  e63040a8
- debugged spades · ca0344d5
  Ruben Vorderman authored 7 years ago
  
  ca0344d5
- debugged tasks · 47f2f310
  Ruben Vorderman authored 7 years ago
  
  47f2f310
- cutadapt only accepts arrays with at least one item for adapters · 4b8cd7a8
  Ruben Vorderman authored 7 years ago
  
  4b8cd7a8
- modify fastqc · b5552f5d
  Ruben Vorderman authored 7 years ago
  
  b5552f5d
Jan 31, 2018
- remove pipeline specific command from samtools.wdl · 85cdcf20
  Ruben Vorderman authored 7 years ago
  
  85cdcf20
- output as sorted and indexed bam · 05a55103
  Ruben Vorderman authored 7 years ago
  
  05a55103
- add output · 58b232cb
  Ruben Vorderman authored 7 years ago
  
  58b232cb
- add task to get contig with most coverage · 6c2f89bb
  Ruben Vorderman authored 7 years ago
  
  6c2f89bb
- bugfixes' · da93300a
  Ruben Vorderman authored 7 years ago
  
  da93300a
Jan 30, 2018
- added bwa mem · 0a01070f
  Ruben Vorderman authored 7 years ago
  
  0a01070f
- add spades task · dddc35b2
  Ruben Vorderman authored 7 years ago
  
  dddc35b2
- add seqtk sample task · b31f4001
  Ruben Vorderman authored 7 years ago
  
  b31f4001
- Merge branch 'QC' into 'develop' · 06ef73d9
  Ruben Vorderman authored 7 years ago
  
  Changes for flexiprep QC pipeline See merge request sasc/wdl-tasks!1
  06ef73d9
- add memory param · 52c8fe03
  Ruben Vorderman authored 7 years ago
  
  52c8fe03
Jan 29, 2018
- allow capturing of report · 767bc08a
  Ruben Vorderman authored 7 years ago
  
  767bc08a
- allow gzipped files · 4860b40d
  Ruben Vorderman authored 7 years ago
  
  4860b40d
- add mkdir statement · 4f383528
  Ruben Vorderman authored 7 years ago
  
  4f383528
- getConfiguration task · dce75b05
  Ruben Vorderman authored 7 years ago
  
  dce75b05
- add preCommand · 9f1537d0
  Ruben Vorderman authored 7 years ago
  
  9f1537d0
- work with adapterlist · 6cccf353
  Ruben Vorderman authored 7 years ago
  
  6cccf353
- debugged output file · 87c555a6
  Ruben Vorderman authored 7 years ago
  
  87c555a6
Jan 19, 2018
- some debugging · fa4a6785
  Ruben Vorderman authored 7 years ago
  
  fa4a6785
- some debugging · 31b9347a
  Ruben Vorderman authored 7 years ago
  
  31b9347a
- added extractAdapters task · ac34c1f8
  Ruben Vorderman authored 7 years ago
  
  ac34c1f8
- written fastqc task · eea04f4f
  Ruben Vorderman authored 7 years ago
  
  eea04f4f
- written cutadapt task · 266be107
  Ruben Vorderman authored 7 years ago
  
  266be107
Jan 18, 2018
- add new task files · b15166c3
  Ruben Vorderman authored 7 years ago
  
  b15166c3
Jan 17, 2018
- initial commit · 618df913
  Ruben Vorderman authored 7 years ago
  
  618df913