Commits · 412df3feba3bba2d1b02fd653e947c8f38215947 · Mirrors / biopet.biopet

27 Apr, 2016 30 commits
- Merge remote-tracking branch 'remotes/origin/develop' into feature-queue_licence · 412df3fe
  Peter van 't Hof authored Apr 27, 2016
  
  412df3fe
- Move public to root · 49517b11
  Peter van 't Hof authored Apr 27, 2016
  
  49517b11
- Remove protected dir · d61516a5
  Peter van 't Hof authored Apr 27, 2016
  
  d61516a5
- Move shiva testing to public · b10509f2
  Peter van 't Hof authored Apr 27, 2016
  
  b10509f2
- Move gatk variantcallers to correct package · d7b0ecdc
  Peter van 't Hof authored Apr 27, 2016
  
  d7b0ecdc
- Fixed package · d5c8751d
  Peter van 't Hof authored Apr 27, 2016
  
  d5c8751d
- Move unit testing variantcalling to public · 18c79226
  Peter van 't Hof authored Apr 27, 2016
  
  18c79226
- Remove protected executable · 76381e8c
  Peter van 't Hof authored Apr 27, 2016
  
  76381e8c
- Move preprocessing to public · e19b18ba
  Peter van 't Hof authored Apr 27, 2016
  
  e19b18ba
- Move variantcallers to public · a0959af0
  Peter van 't Hof authored Apr 27, 2016
  
  a0959af0
- Moved gatk extension to public · 8d6c71f8
  Peter van 't Hof authored Apr 27, 2016
  
  8d6c71f8
- Fixed extensions in testing · 98adc5f5
  Peter van 't Hof authored Apr 27, 2016
  
  98adc5f5
- Switch to beforeGraph · 8054aa2d
  Peter van 't Hof authored Apr 27, 2016
  
  8054aa2d
- Fixed compile errors · e274f59e
  Peter van 't Hof authored Apr 27, 2016
  
  e274f59e
- Style fixes · 7abb542a
  Peter van 't Hof authored Apr 27, 2016
  
  7abb542a
- Fixed indexes · 5f6b1817
  Peter van 't Hof authored Apr 27, 2016
  
  5f6b1817
- Fixed indexes · 217e8ee4
  Peter van 't Hof authored Apr 27, 2016
  
  217e8ee4
- Convert more to biopet values · ba03a58f
  Peter van 't Hof authored Apr 27, 2016
  
  ba03a58f
- Convert more to biopet values · 622b7500
  Peter van 't Hof authored Apr 27, 2016
  
  622b7500
- Fixed type · e57304d0
  Peter van 't Hof authored Apr 27, 2016
  
  e57304d0
- changed default memory · a508e6f8
  Peter van 't Hof authored Apr 27, 2016
  
  a508e6f8
- Changed baserecalibrator to biopet config values · 31b7ebfc
  Peter van 't Hof authored Apr 27, 2016
  
  31b7ebfc
- Added biopet config values to general gatk trait · d90ba499
  Peter van 't Hof authored Apr 27, 2016
  
  d90ba499
- Fixed type · a148d687
  Peter van 't Hof authored Apr 27, 2016
  
  a148d687
- Convert analysis_type to abstract value · 1aeba6d1
  Peter van 't Hof authored Apr 27, 2016
  
  1aeba6d1
- Added biopet config values · 59399b66
  Peter van 't Hof authored Apr 27, 2016
  
  59399b66
- Setting default for haplotypecaller · e430eb82
  Peter van 't Hof authored Apr 27, 2016
  
  e430eb82
- Disable gathering · ec59d68a
  Peter van 't Hof authored Apr 27, 2016
  
  ec59d68a
- Added int lists and double list to config conversions · dbc5cfbd
  Peter van 't Hof authored Apr 27, 2016
  
  dbc5cfbd
- Added method to get vcf index file · dd9036c8
  Peter van 't Hof authored Apr 27, 2016
  
  dd9036c8
26 Apr, 2016 10 commits
- Fixed reference · c640dc87
  Peter van 't Hof authored Apr 26, 2016
  
  c640dc87
- Adding dbsnp automatic again · a39f363c
  Peter van 't Hof authored Apr 26, 2016
  
  a39f363c
- Removed complete dependency from protected modules · 9e5c572d
  Peter van 't Hof authored Apr 26, 2016
  
  9e5c572d
- Make dict required for all gatk tools · 47e33420
  Peter van 't Hof authored Apr 26, 2016
  
  47e33420
- Fixed reference and added version · 5b09944b
  Peter van 't Hof authored Apr 26, 2016
  
  5b09944b
- Fixed cycle bug · b80652eb
  Peter van 't Hof authored Apr 26, 2016
  
  b80652eb
- Added gatk jar · 0986121f
  Peter van 't Hof authored Apr 26, 2016
  
  0986121f
- Fix compile errors · 62fef674
  Peter van 't Hof authored Apr 26, 2016
  
  62fef674
- Fixed default scattercount · b9a543ec
  Peter van 't Hof authored Apr 26, 2016
  
  b9a543ec
- Remove short name methods · 967dd7ee
  Peter van 't Hof authored Apr 26, 2016
  
  967dd7ee