File detection improved
Iterative mapping option added
Bugfixes for iterative mapping
forcesingle removed
bugfix trimlog
iterative mapping tested
Merge branch 'master' into filedetection

Conflicts:
	mods/trimmomatic.sh
quote characters replaced
Bugfix Circos mod and read pair detection
Bugfix iterative mapping
Smokebox updated
default resource adjustments
BLAT resource added
iterative mapping parameter renamed
indicator for fastq renamed
tagdir generation improved
Filedetection improved
remove dummy if in recovery mode and nothing is to be done
Bugfix trimmomatic filedetection
Bowtie unmapped and multi-mapper bams removed due to redundancy with asd.bam