v0.16.2 - Includes essential bug fix for Bowtie 2 alignments

• Changed the Shebang in all scripts of the Bismark suite to #!/usr/bin/env perl instead of
  #!/usr/bin/perl

Bismark

• Essential: Fixed a bug for Bowtie 2 alignments where reads that should be considered ambiguous were incorrectly assigned to the first alignment thread. This error had crept in during the 'changing the behavior of
  corner cases' in v0.16.0). Thanks to John Gaspar for spotting this!

deduplicate_bismark

• Does now bail with a useful error message when the input files are empty.

bismark_genome_preparation

• Added new option --genomic_composition so that the genomic composition can be calculated and written right at the genome preparation stage rather than by using bam2nuc

bam2nuc

• Now also calculates a fold coverage for the various (di-)nucleotides. The changes in the nucleotide_stats text file are also picked up and plotted by bismark2report
• Added a new option --genomic_composition_only to just process the genomic sequence without requiring any data files

bismark2summary

• Added option -o/--basename <filename> to specify a certain filename. If not specified the name will
  remain bismark_summary_report.txt/html
• Added documentation and the options --help and --version to be consistent with the rest of Bismark
• Added option --title <string> to give the HTML report a different title