Commits · 34bda02c2c2ba509d803b4c95171d2d000625200 · biowdl / tasks

May 21, 2018
- Merge branch 'master' into SASC-741 · 34bda02c
  Peter van 't Hof authored 6 years ago
  
  Unverified
  
  34bda02c
May 17, 2018
- Merge pull request #13 from biowdl/centrifuge-classify · 605c278c
  Peter van 't Hof authored 6 years ago
  
  Centrifuge classify and kreport tasks
  Unverified
  
  605c278c
- Merge branch 'master' into centrifuge-classify · bee92002
  Peter van 't Hof authored 6 years ago
  
  Unverified
  
  bee92002
- Merge pull request #12 from biowdl/flash · aebf426f
  Peter van 't Hof authored 6 years ago
  
  Adding flash task for combining overlapping reads
  Unverified
  
  aebf426f
- Merge branch 'master' into flash · d4219066
  Peter van 't Hof authored 6 years ago
  
  Unverified
  
  d4219066
- Merge pull request #14 from biowdl/STAR_limitBAMsortRAM · 61bba4a0
  Ruben Vorderman authored 6 years ago
  
  add limitBAMsortRAM to STAR and make sampleConfig write to file
  Unverified
  
  61bba4a0
- use stdout() and fix regex · 52a6e6b1
  Cats authored 6 years ago
  
  52a6e6b1
May 14, 2018
- tweak spades memory · 8ffea620
  Ruben Vorderman authored 6 years ago
  
  View commits for tag phhv1reassembly phhv1reassembly
  
  8ffea620
- memoryGB is a float · a161c72c
  Ruben Vorderman authored 6 years ago
  
  a161c72c
- fix spades memory allocation · dd9990d9
  Ruben Vorderman authored 6 years ago
  
  dd9990d9
- SamToFastq needs high memory · 4c0b9385
  Ruben Vorderman authored 6 years ago
  
  4c0b9385
- add runtime section for samtools view · 40852ab1
  Ruben Vorderman authored 6 years ago
  
  40852ab1
- Merge branch 'sampleConfig_to_file' into STAR_limitBAMsortRAM · 836e1648
  Cats authored 6 years ago
  
  836e1648
- stdout to file · 7e142153
  Cats authored 6 years ago
  
  7e142153
- Requested changes · 6cc4acb4
  Pappas authored 6 years ago
  
  6cc4acb4
- Merge branch 'master' into STAR_limitBAMsortRAM · 4795938f
  Cats authored 6 years ago
  
  4795938f
May 11, 2018
- Fix command indentation · a7a1986c
  Pappas authored 6 years ago
  
  a7a1986c
- Change copyright year · 45f40cb8
  Pappas authored 6 years ago
  
  45f40cb8
- Update centrifuge command and add kreport task · a8a6af81
  Pappas authored 6 years ago
  
  a8a6af81
May 09, 2018
- Added classify task and reordered alphabetically · c5815a22
  Pappas authored 6 years ago
  
  c5815a22
- solve caching problem in bwa.wdl · 9aa30710
  Ruben Vorderman authored 6 years ago
  
  9aa30710
- fix SamToFastq · fdf3af30
  Ruben Vorderman authored 6 years ago
  
  fdf3af30
- fix bwamem task · 3cb3a224
  Ruben Vorderman authored 6 years ago
  
  3cb3a224
- Remove capturing log as output · 801f813a
  Pappas authored 6 years ago
  
  801f813a
- fix output of bwa index task · e10f8acc
  Ruben Vorderman authored 6 years ago
  
  e10f8acc
- fix output of bwa index task · 71f30e02
  Ruben Vorderman authored 6 years ago
  
  71f30e02
- fix bwa index output file error · 4e4f4bf8
  Ruben Vorderman authored 6 years ago
  
  4e4f4bf8
May 08, 2018
- Add/remove runtime defaults · cd7e49ee
  Pappas authored 6 years ago
  
  cd7e49ee
- Remove comments for testing · 66f50ed9
  Pappas authored 6 years ago
  
  66f50ed9
- outDirPath to outdirPath for compatibility · f38b3de1
  Pappas authored 6 years ago
  
  f38b3de1
- Change cores to threads · d922d7b9
  Pappas authored 6 years ago
  
  d922d7b9
- Flash task · 91a6841a
  Pappas authored 6 years ago
  
  91a6841a
May 07, 2018
- output file should not be optional · ef2914cb
  Ruben Vorderman authored 6 years ago
  
  ef2914cb
- add picard SamToFastq · 5893adcc
  Ruben Vorderman authored 6 years ago
  
  5893adcc
- add samtools application · 264627ed
  Ruben Vorderman authored 6 years ago
  
  264627ed
- Merge branch 'SASC-741' of https://github.com/biowdl/tasks into SASC-741 · 910c9ab0
  Ruben Vorderman authored 6 years ago
  
  910c9ab0
- add FastQsync · 5a961182
  Ruben Vorderman authored 6 years ago
  
  5a961182
- alphabetic ordering · 11e8277e
  Ruben Vorderman authored 6 years ago
  
  11e8277e
- Merge pull request #10 from biowdl/iterative · 2aff5d1d
  Peter van 't Hof authored 6 years ago
  
  Extra tasks required for assembly.
  Unverified
  
  2aff5d1d
- add input bam · 89f4ea33
  Ruben Vorderman authored 6 years ago
  
  89f4ea33