Resources for smokebox adjusted
Pindel setup revised
Resources adjusted
Jobname adjusted
seqlogo template dependencie added
Bugfix bowtie with paired reads
Bugfix file nameing
Bugfix Fastqc summary with paired end libraries
Clean up intermediate bam files unless specified otherwise
Bugfix Fastqc summary generation
Bugfix: filename of bam annotate plot truncated
Bugfix: rerun tests without make clean first
Enhancement: increased use tmp directory / scratch space
bamannotate plot name extended to use 60 character prefix
Patch 0.4.0.3