FileNotFound Error caused by missing sorted bam
While launching again a previous run because of erroneous results, I obtained a FileNotFound error because of a missing file.
I was launching dereplicate module : genosysmics run dereplicate --ri -k --profile config/sge
The error I obtained :
FileNotFoundError: [Errno 2] No such file or directory: 'intermediate_results/assembly/single_assembly/megahit/RH_S001/mapped_reads/RH_S001_pre_filtering.sorted.bam'
An expected behaviour would be that genosysmics simply calls previous rules in order to compute the missing file. Here, it does not.