bug fix: cannot complete one run where some samples have input controls and some don't

[tovahmarkowitz]

Rule "inputnorm" errors out in the dry-run when some samples have input controls and some don't

[rroutsong]

@tovahmarkowitz can you include how you executed your dry run and how the input files look

[tovahmarkowitz]

@rroutsong I am attaching here the peakcall file I used and the run command. Please note that I ended up rerunning everything separately to make it all work and that due to folder space issues, the original run folder has been completely blown away.

peakcall.txt

/data/markowitzte/chrom-seek/chrom-seek run --assay ChIP \ --genome mm10 \ --input /data/RTB_GRS/IDSS_Projects/RTBGRS-115/fastq/*fastq.gz \ --output /data/RTB_GRS/IDSS_Projects/RTBGRS-115/chromseek \ --peakcall /data/RTB_GRS/IDSS_Projects/RTBGRS-115/peakcall.txt \ --mode slurm \ --sif-cache /data/OpenOmics/SIFs/ \ --dry-run