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mkdir -p /gscratch/grandol1/NS6/rawdata
cd /gscratch/grandol1/NS6/rawdata
unpigz --to-stdout /project/microbiome/data_queue/seq/NS6/rawdata/NovaSeq6_pool_1.fq.gz | split -l 16000000 -d --suffix-length=3 --additional-suffix=.fastq - NS6_R1_ ;
unpigz --to-stdout /project/microbiome/data_queue/seq/NS6/rawdata/NovaSeq6_pool_2.fq.gz | split -l 16000000 -d --suffix-length=3 --additional-suffix=.fastq - NS6_R2_

making 256 257 R1 files and 256 257 R2 files, with structured names (e.g., for the R1 set):

/gscratch/grandol1/5ALA/rawdata/NS6_R1_000.fastq
/gscratch/grandol1/5ALA/rawdata/NS6_R1_001.fastq
etc.Stopped at above step on 1/31/23 2:41pm

run_parse_count_onSplitInput.pl also writes to /gscratch.

NS5NS6_Demux.csv is used to map MIDS to sample names and projects.

Stopped at above step on 2/01/23 1:41pm

Splitting to fastq for individuals

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