Commits · 8c0431ee433ba70ece1ec88516ea57edaf6fe121 · Mirrors / biopet.biopet

21 Jul, 2017 1 commit
- Adding option to also run qiime with multiple samples at once · 8c0431ee
  pjvan_thof authored Jul 21, 2017
  
  8c0431ee
14 Jul, 2017 5 commits
- Merge pull request #161 from biopet/fix-BIOPET-746 · 03c4d7d7
  Peter van 't Hof authored Jul 14, 2017
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Fixing compile and code warnings
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  03c4d7d7
- Fixing failing test · 1913955a
  pjvan_thof authored Jul 14, 2017
  
  1913955a
- Fixed compile error · 1bc4e07b
  Peter van 't Hof authored Jul 14, 2017
  
  1bc4e07b
- Fixing compile error · 37789bb4
  Peter van 't Hof authored Jul 14, 2017
  
  37789bb4
- Put back type changes · 71957bc9
  Peter van 't Hof authored Jul 14, 2017
  
  71957bc9
13 Jul, 2017 16 commits
- Inspection round pipelines · caf71f04
  Peter van 't Hof authored Jul 13, 2017
  
  caf71f04
- Inspection round biopet utils · 2540e8fd
  Peter van 't Hof authored Jul 13, 2017
  
  2540e8fd
- Merge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-746 · 2c840f96
  Peter van 't Hof authored Jul 13, 2017
  
  2c840f96
- Style fixes · 04434f88
  Peter van 't Hof authored Jul 13, 2017
  
  04434f88
- Inspection round Biopet Extensions · 1be6069f
  Peter van 't Hof authored Jul 13, 2017
  
  1be6069f
- Style fixes · cbb4d0e2
  Peter van 't Hof authored Jul 13, 2017
  
  cbb4d0e2
- Merge pull request #160 from biopet/fix-BIOPET-747 · 08851b43
  Peter van 't Hof authored Jul 13, 2017
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Upgrade gather methods
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  08851b43
- Fixed compile issues · f74579d3
  Peter van 't Hof authored Jul 13, 2017
  
  f74579d3
- Code warning found biopet tools · 63547f9b
  Peter van 't Hof authored Jul 13, 2017
  
  63547f9b
- Fix compile error · 0c5a9bbe
  Peter van 't Hof authored Jul 13, 2017
  
  0c5a9bbe
- Style issues · 9ca759c7
  Peter van 't Hof authored Jul 13, 2017
  
  9ca759c7
- Workaround for index creation · c3e801d4
  Peter van 't Hof authored Jul 13, 2017
  
  c3e801d4
- Workaround for making indexes · cb4cfc7e
  Peter van 't Hof authored Jul 13, 2017
  
  cb4cfc7e
- Biopet core code inspection round · 385c71e9
  Peter van 't Hof authored Jul 13, 2017
  
  385c71e9
- Fixing compile and code warnings · c181bccd
  Peter van 't Hof authored Jul 13, 2017
  
  c181bccd
- Switch to GatherBamFiles · a0cfa199
  Peter van 't Hof authored Jul 13, 2017
  
  a0cfa199
12 Jul, 2017 3 commits
- Moving scatter and gather functions to a new package · 3e834749
  pjvan_thof authored Jul 12, 2017
  
  3e834749
- Merge pull request #150 from biopet/fix-BIOPET-492 · 23f8f923
  Peter van 't Hof authored Jul 12, 2017
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First implementation of PIM in biopet
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  23f8f923
- Merge pull request #158 from biopet/fix-BIOPET-744 · 6edd8e7b
  Peter van 't Hof authored Jul 12, 2017
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Fixed nullpointer coming from Queue scattering
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  6edd8e7b
11 Jul, 2017 9 commits
- Fixed nullpointer coming from Queue scattering · fa98c8a3
  Peter van 't Hof authored Jul 11, 2017
  
  fa98c8a3
- Merge pull request #149 from biopet/fix-BIOPET-380 · 463d949f
  Peter van 't Hof authored Jul 11, 2017
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Adding general strand stats to BaseCounter
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  463d949f
- Better error catching · 8d5abea6
  pjvan_thof authored Jul 11, 2017
  
  8d5abea6
- Merge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-380 · 37214be5
  pjvan_thof authored Jul 11, 2017
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# Conflicts:
#	biopet-utils/src/main/scala/nl/lumc/sasc/biopet/utils/IoUtils.scala
```
  37214be5
- Merge pull request #157 from biopet/fix-BIOPET-736-peter · b049eb31
  Peter van 't Hof authored Jul 11, 2017
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Adding mutect2 pipeline
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  b049eb31
- Adding missing argument · b0ef88db
  pjvan_thof authored Jul 11, 2017
  
  b0ef88db
- Adding scaladocs · 1dc47660
  pjvan_thof authored Jul 11, 2017
  
  1dc47660
- Typo · cc5db58a
  pjvan_thof authored Jul 11, 2017
  
  cc5db58a
- Merge pull request #144 from biopet/refactorDelly · 76e1a93b
  Peter van 't Hof authored Jul 11, 2017
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Refactor delly
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  76e1a93b
10 Jul, 2017 6 commits
- Merge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-492 · 155cf263
  pjvan_thof authored Jul 10, 2017
  
  155cf263
- Merge pull request #156 from biopet/fix-BIOPET-741 · 4626aad3
  Sander Bollen authored Jul 10, 2017
```
Fixing grouping in GenotypeGVCFs
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  4626aad3
- Adding unit tests to MuTect2 · 8db9bc07
  pjvan_thof authored Jul 10, 2017
  
  8db9bc07
- Fixing unit tests · d22fc2f7
  Peter van 't Hof authored Jul 10, 2017
  
  d22fc2f7
- Fixing compile issues · 5760560d
  Peter van 't Hof authored Jul 10, 2017
  
  5760560d
- Merge branch 'develop' into fix-BIOPET-736-peter · e8609425
  Peter van 't Hof authored Jul 10, 2017
  
  e8609425