fix(qccollect_markdup): Moved record of alignment file to separate recipe level key to avoid qccollect scanning the entire bam/cram file.
fix(qccollect_markdup): Moved record of alignment file to separate
recipe level key to avoid qccollect scanning the entire bam/cram file.

- Removed extra "." from infile id for markduplicate_alignemnt in qccollect

henrikstranneheim/MIP,henrikstranneheim/MIP