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Commits on Nov 10, 2017

• Merge pull request #99 from NBISweden/Release-bump

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• Update main.nf

  viklund

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  4888851

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• Merge pull request #98 from NBISweden/add-license-1

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  viklund

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• Create LICENSE

  viklund

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Commits on Aug 21, 2017

• Merge pull request #97 from NBISweden/develop

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  viklund

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• Version bump

  viklund

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• Removed section on "SLURM usage", documented elsewhere

  viklund

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• Fixed documentation on profile usage

  viklund

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• Made profile a required setting and documented them properly.

  viklund

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Commits on Aug 18, 2017

• More readme updates

  viklund

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• Config for running entire workflow on one node on bianca.

  viklund

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• Handle different versions of vep and different vep cache locations

  viklund

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• Forgot one swegen to cohort rename

  viklund

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• Better CPU handling in processes

  viklund

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Commits on Aug 16, 2017

• Better documentation of the masking step

  viklund

  committed
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• Renamed commandline options: mask_dir_* into mask_*_dir

  viklund

  committed
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• Renamed filter step into mask_cohort

  viklund

  committed
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• Adds help message for --mask_dir_{artifacts,cohort}

  viklund

  committed
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• Cleaned up the bash for the masking processes.

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  viklund

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• Renamed filter into cohort and some other small things.

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Commits on May 8, 2017

• Merge pull request #94 from NBISweden/runfile_ignore_errors

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Commits on Apr 10, 2017

• Added bianca.config

  viklund

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• Spelling, need to escape single quotes.

  viklund

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• Correct time specification (should be a closure)

  viklund

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Commits on Apr 4, 2017

• Whitespace fix

  viklund

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• Trial and error to find out that != "" does not check for empty string, even though it is defined like it in params initialization

  

  glormph

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  viklund

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• Typo

  

  glormph

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  viklund

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• Also added errorStartegy to local profile (no slurm)

  

  glormph

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• Added errorStrategy ignore directive in case we have runfiles, keeping the SLURM-killed-retry-job mode

  

  glormph

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  viklund

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• Merge pull request #93 from NBISweden/mask_swegen

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• Updated documentation

  viklund

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• Whether to run the filter step is a workflow configuration

  viklund

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• Make sure that the fork option is handled correctly by vep.

  viklund

  committed
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• Removed unused var.

  viklund

  committed
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• The artifact masking step should not rename the output files.

  viklund

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