1. 13 Apr, 2015 2 commits
  2. 08 Apr, 2015 4 commits
    • Wai Yi Leung's avatar
      Merge branch 'patch-meta_in_summary' into 'develop' · c7dddadd
      Wai Yi Leung authored
      Patch meta in summary
      
      This pull request adds a `meta` entry to the root of each summary JSON file. The contents of the meta is:
      
      `last_commit_hash`: the commit hash of the repository when the JAR was built. If the repository has uncommitted changes, `-dirty` is appended to the commit hash.
      
      `pipeline_version`: the version of the pipeline (the one we put in the `pom.xml` file).
      
      This information is static across all modules and subpipelines to any given pipeline run, so I decided to put this in the root.
      
      See merge request !144
      c7dddadd
    • Wai Yi Leung's avatar
      Merge branch 'patch-extractalignedfastq' into 'develop' · 81fa8685
      Wai Yi Leung authored
      Patch extractalignedfastq
      
      The changeset + commit message should be clear enough :). This was caused by a passing a wrong variable to the `BasicFastqWriter` constructor.
      
      See merge request !142
      81fa8685
    • Wai Yi Leung's avatar
      Merge branch 'patch-mpileup' into 'develop' · 82ad6a8f
      Wai Yi Leung authored
      Fix intervals
      
      Fix for #128
      
      See merge request !145
      82ad6a8f
    • Wai Yi Leung's avatar
      Merge branch 'feature-yaml_support' into 'develop' · e35cb525
      Wai Yi Leung authored
      Feature yaml support
      
      Issue #142
      
      Now implemented a yaml parser and commandline argument to add values to config. Json still uses the old parser, when a file extension is ".yaml" the new parser is used. Later we might remove the old parser completely since SnakeYaml also supports json.
      
      See merge request !146
      e35cb525
  3. 06 Apr, 2015 9 commits
  4. 04 Apr, 2015 3 commits
  5. 27 Mar, 2015 5 commits
  6. 25 Mar, 2015 4 commits
  7. 24 Mar, 2015 5 commits
  8. 23 Mar, 2015 7 commits
  9. 20 Mar, 2015 1 commit