handle multiple unaligned directories in run folder
handle multiple unaligned directories in run folder

jun-wan/scilifelab,jun-wan/scilifelab,SciLifeLab/scilifelab,kate-v-stepanova/scilifelab,kate-v-stepanova/scilifelab,jun-wan/scilifelab,SciLifeLab/scilifelab,SciLifeLab/scilifelab,senthil10/scilifelab,senthil10/scilifelab,kate-v-stepanova/scilifelab,jun-wan/scilifelab,kate-v-stepanova/scilifelab,senthil10/scilifelab,senthil10/scilifelab,SciLifeLab/scilifelab