Commits · af929db9c2392cdc24a3ef2e7c644ca4d055cc3d · biowdl / tasks

Oct 25, 2022
- Use the basename of the input file for index names · af929db9
  Ruben Vorderman authored 2 years ago
  
  af929db9
Oct 24, 2022
- Make sure index task works · 4431b259
  Ruben Vorderman authored 2 years ago
  
  4431b259
- Add a Bwa index task · f05d968d
  Ruben Vorderman authored 2 years ago
  
  f05d968d
Aug 22, 2022
- Use gebibytes instead of gigabytes · 8993b5c6
  Ruben Vorderman authored 2 years ago
  
  8993b5c6
Mar 07, 2022
- Add parameter_meta for useSoftclippingforSupplementary · a73fd8a6
  Ruben Vorderman authored 3 years ago
  
  a73fd8a6
May 19, 2021
- adjust runtime settings · 32c08100
  Cats authored 3 years ago
  
  32c08100
Mar 25, 2021
- increase memory bwa · 2aba7899
  Cats authored 4 years ago
  
  2aba7899
- update memory and timeMinutes for cutadapt and bwa · 5db3dd91
  Cats authored 4 years ago
  
  5db3dd91
Feb 16, 2021
- update versions, memory, etc · 2792266f
  Cats authored 4 years ago
  
  2792266f
Feb 09, 2021
- small adjustments · eac2b302
  Cats authored 4 years ago
  
  eac2b302
Dec 16, 2020
- add purple outputs · 9896f4fc
  Cats authored 4 years ago
  
  9896f4fc
Nov 04, 2020
- Update bwa.wdl · c8e04300
  Jasper authored 4 years ago
  
  Unverified
  
  c8e04300
Nov 03, 2020
- Update bwa.wdl · d35543c9
  Jasper authored 4 years ago
  
  Unverified
  
  d35543c9
- Update bwa.wdl. · b96ec320
  Jasper authored 4 years ago
  
  Co-authored-by: Davy Cats <davycats.dc@gmail.com>
  Unverified
  
  b96ec320
Oct 30, 2020
- Update first set of tasks to uniform layout. · f4fee79b
  JasperBoom authored 4 years ago
  
  f4fee79b
Jul 23, 2020
- Add comments on comments · 2b073f66
  Ruben Vorderman authored 4 years ago
  
  2b073f66
- Enable/disable postalt with comment · 830eb515
  Ruben Vorderman authored 4 years ago
  
  830eb515
- Combine BWA and BW kit tasks · d15ee30f
  Ruben Vorderman authored 4 years ago
  
  d15ee30f
Jul 13, 2020
- Use more sort threads for alignment if more alignment threads are used · 3e7b0797
  Ruben Vorderman authored 4 years ago
  
  3e7b0797
Jul 06, 2020
- add parameter_meta · ca368e7e
  Ruben Vorderman authored 4 years ago
  
  ca368e7e
- 2GB per thread is sufficient · d9b05b58
  Ruben Vorderman authored 4 years ago
  
  d9b05b58
Jun 30, 2020
- Fix bwakit command · d604025c
  Ruben Vorderman authored 4 years ago
  
  d604025c
- Switch sorting to samtools. Do not index as it is not required for marking duplicates · 2aa28e29
  Ruben Vorderman authored 4 years ago
  
  2aa28e29
Jun 29, 2020
- Remove additional thread nonsense · 82e9c135
  Ruben Vorderman authored 4 years ago
  
  82e9c135
Jun 24, 2020
- correct memory calculation · c6eb077f
  Ruben Vorderman authored 4 years ago
  
  c6eb077f
- update parameter_meta · 4f6bd9ad
  Ruben Vorderman authored 4 years ago
  
  4f6bd9ad
- Put sorting back into bwakit task · 5b096cee
  Ruben Vorderman authored 4 years ago
  
  5b096cee
- Revert "Don't sort" · 0cb76481
  Ruben Vorderman authored 4 years ago
  
  This reverts commit b7d9dad9.
  0cb76481
Jun 23, 2020
- use newer more experimental image · 10c023ab
  Ruben Vorderman authored 4 years ago
  
  10c023ab
Jun 22, 2020
- use correct memory estimate · 424178d6
  Ruben Vorderman authored 4 years ago
  
  424178d6
- remove other sorting bits · feae6e79
  Ruben Vorderman authored 4 years ago
  
  feae6e79
- Don't sort · b7d9dad9
  Ruben Vorderman authored 4 years ago
  
  b7d9dad9
Jun 19, 2020
- Do not use unnecessary threads · 84f1235c
  Ruben Vorderman authored 4 years ago
  
  84f1235c
May 15, 2020
- fix variable used for time_minutes estimation in bwa · c535d259
  Cats authored 4 years ago
  
  c535d259
May 14, 2020
- adress comments · fa1901c4
  Cats authored 4 years ago
  
  fa1901c4
Apr 08, 2020
- even more time_minutes · 605bba8d
  Cats authored 4 years ago
  
  605bba8d
Apr 06, 2020
- add time_minutes part II · 2c9810f1
  Cats authored 4 years ago
  
  2c9810f1
Mar 26, 2020
- Update bwa.wdl · 310d63da
  Ruben Vorderman authored 5 years ago
  
  Co-Authored-By: Jasper <jboom@infernum.nl>
  Unverified
  
  310d63da
Mar 25, 2020
- update parameter_meta · 8318491a
  Ruben Vorderman authored 5 years ago
  
  8318491a
- update bwa kit defaults · 2e53d9be
  Ruben Vorderman authored 5 years ago
  
  2e53d9be