Changed KS transform from mean to median.
KS transform- update setup.py and Versions.txt
Some small edits for v1.0.4.2 . v1.0.4.3 has been revoked.
added support for alignment with bwa mem.
Fixed number of arguments bug in workerprocess module.
Merge branch 'master' into develop

o that if there are any conflicts, I can resolve in the development branch itself and my master remains clean.

Merge branch 'master' into develop