Replace old naming
Fix doc Makefile
Improve Makefile
Merge branch 'meta' into dev
Fix align report bug

Until now align reports were uncorrectly only generated if the
remapping was activated.
Merge branch 'fix_report_bug' into dev
Update installation doc - Ubuntu 14.04
Merge branch 'doc_update' into dev
Merge branch 'dev' into release_v0.2.7
Set version to 0.2.7
Merge branch 'release_v0.2.7'