Commits · af259d7dd19b05452f6d44bdf36ac8f52619e03c · biowdl / tasks

Jun 05, 2018
- centrifuge input from File to Array[File] and style fixes · af259d7d
  Pappas authored 6 years ago
  
  af259d7d
- Various style fixes · fc01ad36
  Pappas authored 6 years ago
  
  fc01ad36
May 30, 2018
- Merge pull request #15 from biowdl/BIOWDL-25 · d8fd7569
  Ruben Vorderman authored 6 years ago
  
  Biowdl 25
  Unverified
  
  d8fd7569
- requested changes and memory settings · fb1a2c68
  Cats authored 6 years ago
  
  fb1a2c68
- add makeStarRGline task · 9af789ca
  Cats authored 6 years ago
  
  9af789ca
May 28, 2018
- remove --slave from mergecounts · eab205b4
  Cats authored 6 years ago
  
  eab205b4
May 24, 2018
- fix mergeCounts · 08c1fa55
  Cats authored 6 years ago
  
  08c1fa55
- change R script · b52170d6
  Cats authored 6 years ago
  
  b52170d6
- fix mergeCounts · e3d1b73f
  Cats authored 6 years ago
  
  e3d1b73f
May 22, 2018
- expression counting fixes · 67342e03
  Cats authored 6 years ago
  
  67342e03
- Merge branch 'master' into BIOWDL-25 · c078fe7c
  Cats authored 6 years ago
  
  c078fe7c
May 21, 2018
- Merge pull request #11 from biowdl/SASC-741 · 306d5ec0
  Peter van 't Hof authored 6 years ago
  
  Changes needed for the iterative assembly pipeline
  Unverified
  
  306d5ec0
- Merge branch 'master' into SASC-741 · 34bda02c
  Peter van 't Hof authored 6 years ago
  
  Unverified
  
  34bda02c
May 17, 2018
- fix Merge · d4c5ec42
  Cats authored 6 years ago
  
  d4c5ec42
- fix output samtools index · 372db4ea
  Cats authored 6 years ago
  
  372db4ea
- add output to index command · 7d3590e6
  Cats authored 6 years ago
  
  7d3590e6
- call caching fixes · 8aaf9153
  Cats authored 6 years ago
  
  8aaf9153
- 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