Specify mosaik v. 1.1.0021 (last compatible with the wrapper). Add requirement for samtools.
Fix for failure preparing job: "NotFound: cannot find 'mfl'" with paired-end library.

Add mate FASTQ file to inputs.
'ls' param was not used.
Add missing '-mfl ' to MosaikBuild command.
Remove always empty $lm variable.
Add <version_command>.
Merged in nsoranzo/galaxy-central (pull request #271)

Fixes for MOSAIK tool