+ PRJN=PRJNA313294
+ RUNS=5
+ READS=2000
+ esearch -db sra -query PRJNA313294
+ efetch -format runinfo
+ cat runinfo.csv
+ cut -f 1 -d ,
+ head -5
+ grep SRR
+ mkdir -p reads
+ cat runids.txt
+ parallel fastq-dump --split-files -X 2000 -outdir reads '{}'
+ mkdir -p fastqc
+ fastqc -o fastqc reads/SRR3191542_1.fastq reads/SRR3191542_2.fastq reads/SRR3191543_1.fastq reads/SRR3191543_2.fastq reads/SRR3191544_1.fastq reads/SRR3191544_2.fastq reads/SRR3191545_1.fastq reads/SRR3191545_2.fastq reads/SRR3194428_1.fastq
Started analysis of SRR3191542_1.fastq
Approx 50% complete for SRR3191542_1.fastq
Approx 100% complete for SRR3191542_1.fastq
Started analysis of SRR3191542_2.fastq
Approx 50% complete for SRR3191542_2.fastq
Approx 100% complete for SRR3191542_2.fastq
Started analysis of SRR3191543_1.fastq
Approx 50% complete for SRR3191543_1.fastq
Approx 100% complete for SRR3191543_1.fastq
Started analysis of SRR3191543_2.fastq
Approx 50% complete for SRR3191543_2.fastq
Approx 100% complete for SRR3191543_2.fastq
Started analysis of SRR3191544_1.fastq
Approx 45% complete for SRR3191544_1.fastq
Approx 100% complete for SRR3191544_1.fastq
Started analysis of SRR3191544_2.fastq
Approx 50% complete for SRR3191544_2.fastq
Approx 100% complete for SRR3191544_2.fastq
Started analysis of SRR3191545_1.fastq
Approx 45% complete for SRR3191545_1.fastq
Approx 100% complete for SRR3191545_1.fastq
Started analysis of SRR3191545_2.fastq
Approx 50% complete for SRR3191545_2.fastq
Approx 100% complete for SRR3191545_2.fastq
Started analysis of SRR3194428_1.fastq
Approx 45% complete for SRR3194428_1.fastq
Approx 100% complete for SRR3194428_1.fastq
+ rm -f fastqc/SRR3191542_1_fastqc.zip fastqc/SRR3191542_2_fastqc.zip fastqc/SRR3191543_1_fastqc.zip fastqc/SRR3191543_2_fastqc.zip fastqc/SRR3191544_1_fastqc.zip fastqc/SRR3191544_2_fastqc.zip fastqc/SRR3191545_1_fastqc.zip fastqc/SRR3191545_2_fastqc.zip fastqc/SRR3194428_1_fastqc.zip