Add Adapter, make release and then Containerize iAnnotateSV and write CWL for it

[rhshah]

• Add additional scripts for the Manta as part of iAnnotateSV in iAnnotateSV/utilities/manta

  • vcf_ct_edits.R (https://github.com/mskcc/ACCESS_SV/blob/master/scripts/vcf_ct_edits.R)
  • manta_vcf2tab.py (https://github.com/mskcc/ACCESS_SV/blob/master/scripts/manta_vcf2tab.py)
  • merge_vcf_tab.R (https://github.com/mskcc/ACCESS_SV/blob/master/scripts/merge_vcf_tab.R)

• https://github.com/rhshah/iAnnotateSV

• version: 1.1.0

• R (version: 3.5.0) requirements:

  • library(data.table)
  • library(argparse)
  • library(stringr)
  • library(vcfR)
  • library(dplyr)
  • library(memuse)