accept streaming interleaved reads

[macmanes]

Li:

Enhancement: Accept interleaved reads with -i or --interleaved.

I'd like to do this:

seqtk mergepe $HOME/reads/kidney.1.fq.gz $HOME/reads/kidney.2.fq.gz \
  | skewer -l 25 -m pe --mean-quality $trim --end-quality $trim -t 8 -x $HOME/TruSeq3-PE.fa - -1 \
  | perl $HOME/Rcorrector/run_rcorrector.pl -t 8 -k 25 --interleaved -

[mourisl]

You can use "-i" to specify interleaved reads now.

Since Rcorrector scans the input several times, it is difficult to put it into pipeline in that fashion.