cancerit/cgpCaVEManWrapper

Issues

• caveman.pl - Undocumented option -x/-exclude

  #40 opened 5 years ago by keiranmraine
  2

• protocol and seq_type are different

  #58 opened 2 years ago by davidrajones
  1

• if -index 1 is passed with -p flag only one split file is flagged

  #55 opened 4 years ago by jsmedmar
  3

• arg default doesn't match cli help: read-count

  #53 opened 4 years ago by keiranmraine
  0

• Latest version installation problem: Can't locate Tabix.pm in @INC

  #51 opened 4 years ago by jsmedmar
  1

• Missing run instructions

  #50 opened 4 years ago by winni2k
  2

• algorithm write up messed up

  #49 opened 4 years ago by keiranmraine
  0

• Misleading variable in docker file

  #45 opened 5 years ago by keiranmraine
  0

• flagging, species name differences

  #41 opened 5 years ago by lucystebbings
  0

• Pre-release tag for fragment analysis

  #35 opened 7 years ago by keiranmraine
  3

• flagging step - implement scatter gather

  #33 opened 7 years ago by keiranmraine
  0

• --debug option

  #29 opened 7 years ago by ramaniak
  4

• expose split size option

  #31 opened 7 years ago by keiranmraine
  0

• noflag option still requires flagging files

  #28 opened 8 years ago
  1

• noflag option addition results in loss of flagged VCF file

  #27 opened 9 years ago by keiranmraine
  0

• Addition of platform overrides to the wrapper script

  #12 opened 9 years ago
  0

• Expose -c and -d for caveman m/esteps

  #23 opened 9 years ago by keiranmraine
  0

• Typo in help - circular dependencies

  #22 opened 9 years ago
  1

• Version option incorrect text

  #14 opened 9 years ago by keiranmraine
  2

• Bug in flag step: species name.

  #24 opened 9 years ago by demh
  9

• '-h' and '-m' options reversed

  #13 opened 10 years ago by keiranmraine
  1

• -tumour-protocol default not set

  #6 opened 10 years ago by keiranmraine
  0

• -normal-protocol default not set

  #5 opened 10 years ago by keiranmraine
  0

• use a contained tempfolder for working files

  #2 opened 10 years ago by keiranmraine
  0

• tabs breaking -h alignment

  #4 opened 10 years ago by keiranmraine
  1