salloc --account=microbiome -t 0-05:00
cd /gscratch/grandol1/AMF1/rawdata
unpigz --to-stdout /project/microbiome/data_queue/seq/AMF1/rawdata/AMF1_Pool2_S1_L001_R1_001.fastq | split -l 1000000 -d --suffix-length=3 --additional-suffix=.fastq - AMF1_R1_ ;
unpigz --to-stdout /project/microbiome/data_queue/seq/AMF1/rawdata/AMF1_Pool2_S1_L001_R2_001.fastq | split -l 1000000 -d --suffix-length=3 --additional-suffix=.fastq - AMF1_R2_
//project/microbiome/data_queue/seq/AMF1/rawdata/run_parse_count_onSplitInput.pl
cd /project/microbiome/data_queue/seq/AMF1/rawdata
./run_splitFastq_fwd.sh
./run_splitFastq_rev.sh
Pickup here on 10-21-21
./run_aggregate.sh
cd /project/microbiome/data_queue/seq/AMF1/tfmergedreads
./run_slurm_mergereads.pl