v1.1.2

• code refactoring for better UI
  • all task level parameter variables (including resource settings) are moved to a workflow level. so that we can use the same input JSON format for dxWDL and cromwell. it's easier for users not to have task-level variables. it was very confusing.
• support for custom-built genomes with irregular chromosome name.
  • added keep_irregular_chr_in_bfilt_peak to keep irregular (which does not match pattern chr[\dMXY]+) chromosome name in peaks.
  • disabled chromosome name check in bedtools intersect (added -nonamecheck).
• bug fixes
  • fixed bug in xcor (when subsample is explicitly given as 0).
  • fixed typos in docs.
• CircleCI
  • google auth for workflow test (no need to submit jobs to cromwell server)
  • good bye Jenkins
• others
  • added genome data downloader (dowloading from GC).
  • added temporary directories in docker container (/mnt/ext_*/).
  • updated docs for singularity 3.0 (due to some changes in singularity pull)