Unused tool parameters

[bernt-matthias]

Tools that define input parameters that are not used in the command or anywhere else:

• tools/hisat/hisat.xml
  • ignore_quals
  • min_intron
  • max_intron

In this case the tool could also be deprecated since IUC has hisat2.

[nsoranzo]

👍 to deprecate hisat instead of fixing it.