Merge pull request #405 from weese/hotfix/fiona-vs8

[FIX] fixed fiona issues and mingw warnings
Merge pull request #402 from singerj/hotfix-knime-flexbar

Hotfix knime flexbar
Merge pull request #407 from singerj/hotfix-knime-flexbar

[FIX] Fixed a default value problem with the output files.
[FEATURE] Computing more statistics in compute_gain.
Merge pull request #409 from holtgrewe/feature/compute_gain_stats

[FEAUTRE] More statistics in compute_gain.
[FIX] Enabling indel mode in fiona again.
Merge branch 'master' into develop
Merge pull request #411 from holtgrewe/hotfix/fiona_allowindels

[FIX] Enabling indel mode in fiona again.