Commits · c6eb077f633198a14832ef76497e71a191daaf30 · biowdl / tasks

Jun 24, 2020
- correct memory calculation · c6eb077f
  Ruben Vorderman authored 4 years ago
  
  c6eb077f
- add threads on index as well · 45ffa553
  Ruben Vorderman authored 4 years ago
  
  45ffa553
- Fix sambamba index command in sort · f4a8fac6
  Ruben Vorderman authored 4 years ago
  
  f4a8fac6
- Add sortSam task · 0665c22f
  Ruben Vorderman authored 4 years ago
  
  0665c22f
- update parameter_meta · 4f6bd9ad
  Ruben Vorderman authored 4 years ago
  
  4f6bd9ad
- Make sure samtools uses memory · 99647123
  Ruben Vorderman authored 4 years ago
  
  99647123
- 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
- Update samtools sort to also index · 0c9ba9ae
  Ruben Vorderman authored 4 years ago
  
  0c9ba9ae
- 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
Jun 17, 2020
- Merge pull request #224 from biowdl/chunkedscatter · c7e165f9
  Ruben Vorderman authored 4 years ago
  
  Update image for chunked scatter.
  Unverified
  
  c7e165f9
- Update parameter_meta · a0fccc3c
  Ruben Vorderman authored 4 years ago
  
  a0fccc3c
- Update changelog · aea930c6
  Ruben Vorderman authored 4 years ago
  
  aea930c6
- Update image and tasks for chunk scatter · 4402a95d
  Ruben Vorderman authored 4 years ago
  
  4402a95d
Jun 16, 2020
- Merge pull request #223 from biowdl/BIOWDL-471 · 3b583e41
  Ruben Vorderman authored 4 years ago
  
  Updated resource requirements for the RNA-seq pipeline.
  Unverified
  
  3b583e41
- Remove memoryGb from the input section · 5c9b7c83
  Ruben Vorderman authored 4 years ago
  
  5c9b7c83
- add javaxmx parameter_meta · e45b413f
  Ruben Vorderman authored 4 years ago
  
  e45b413f
- Merge branch 'BIOWDL-471' of https://github.com/biowdl/tasks into BIOWDL-471 · 95b19cd5
  Ruben Vorderman authored 4 years ago
  
  95b19cd5
- Update changelog · 88a1d405
  Ruben Vorderman authored 4 years ago
  
  88a1d405
- update gatk varianteval times · f3006d5a
  Ruben Vorderman authored 4 years ago
  
  f3006d5a
- Add scatter-regions to changelog · 5c1625e3
  Ruben Vorderman authored 4 years ago
  
  5c1625e3
- Merge branch 'develop' into BIOWDL-471 · c36bae77
  Ruben Vorderman authored 4 years ago
  
  Unverified
  
  c36bae77
- resource requirements for multiqc · 7db296e7
  Ruben Vorderman authored 4 years ago
  
  7db296e7
- Merge branch 'BIOWDL-471' of https://github.com/biowdl/tasks into BIOWDL-471 · 889b444d
  Ruben Vorderman authored 4 years ago
  
  889b444d
- Also read reference and dbsnpvcf as part of time estimate · edb371e3
  Ruben Vorderman authored 4 years ago
  
  edb371e3
- 300 minutes per G of input · a5cdc705
  Ruben Vorderman authored 4 years ago
  
  a5cdc705
Jun 15, 2020
- use the same prefix as the biopet-scatterregions tool · 5068af10
  Ruben Vorderman authored 4 years ago
  
  5068af10
- typo · 5f13c04f
  Ruben Vorderman authored 4 years ago
  
  5f13c04f
- Add scatter-regions task · 2cb77beb
  Ruben Vorderman authored 4 years ago
  
  2cb77beb
- Merge pull request #222 from biowdl/BIOWDL-474 · 4048bb82
  Jasper authored 4 years ago
  
  BIOWDL-474: Add new STAR options for processing rRNA depleted samples.
  Unverified
  
  4048bb82
- Fix command section now that new inputs are optional. · 0ad2ddbe
  JasperBoom authored 4 years ago
  
  0ad2ddbe
- Change new options to optional. · c8d87481
  JasperBoom authored 4 years ago
  
  c8d87481
Jun 12, 2020
- Update CHANGELOG. · 1d784bfd
  JasperBoom authored 4 years ago
  
  1d784bfd
- Merge branch 'develop' of https://github.com/biowdl/tasks into BIOWDL-474 · 8a48751c
  JasperBoom authored 4 years ago
  
  8a48751c
- Add new STAR options. · 92c8725f
  JasperBoom authored 4 years ago
  
  92c8725f
- Merge pull request #221 from biowdl/BIOWDL-472 · fe74bead
  Jasper authored 4 years ago
  
  BIOWDL-472: Update minimumIdentity to correct type and default.
  Unverified
  
  fe74bead