salloc --account=microbiome -t 0-05:00
cd /gscratch/grandol1/2AMF/rawdata
unpigz --to-stdout /project/gtl/data/raw/2AMF/rawdata/2AMF_R1.fq.gz | split -l 1000000 -d --suffix-length=3 --additional-suffix=.fastq - 2AMF_R1_ ;
unpigz --to-stdout /project/gtl/data/raw/2AMF/rawdata/2AMF_R2.fq.gz | split -l 1000000 -d --suffix-length=3 --additional-suffix=.fastq - 2AMF_R2_
//project/gtl/data/raw/2AMF/rawdata/run_parse_count_onSplitInput.pl
above step running 12-30-22
cd /project/gtl/data/raw/2AMF/rawdata
./run_splitFastq_fwd.sh
./run_splitFastq_rev.sh
./run_aggregate.sh
cd /project/gtl/data/raw/2AMF/tfmergedreads
./run_slurm_mergereads.pl
cd /project/gtl/data/raw/2AMF/otu
./run_slurm_mkotu.pl