Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/928d434150a22d0ca11301a5843191/output/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L003_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/928d434150a22d0ca11301a5843191/output/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L003_R1_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/5643d4cd768bad81583e81d58ee6a6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/5643d4cd768bad81583e81d58ee6a6/.command.run
==> STAGING COMPLETE (4 inputs)

Detecting adapter sequence for read1...
>Illumina TruSeq Adapter Read 1
AGATCGGAAGAGCACACGTCTGAACTCCAGTCA

Detecting adapter sequence for read2...
>Illumina TruSeq Adapter Read 2
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT

Read1 before filtering:
total reads: 98339549
total bases: 14849271899
Q20 bases: 14450742504(97.3162%)
Q30 bases: 13712819906(92.3467%)
Q40 bases: 13712819906(92.3467%)

Read2 before filtering:
total reads: 98339549
total bases: 14849271899
Q20 bases: 14143116049(95.2445%)
Q30 bases: 12957965155(87.2633%)
Q40 bases: 12957965155(87.2633%)

Read1 after filtering:
total reads: 96599407
total bases: 14040371381
Q20 bases: 13734042365(97.8182%)
Q30 bases: 13082972581(93.1811%)
Q40 bases: 13082972581(93.1811%)

Read2 after filtering:
total reads: 96599407
total bases: 14041640401
Q20 bases: 13503854684(96.1701%)
Q30 bases: 12470441343(88.8104%)
Q40 bases: 12470441343(88.8104%)

Filtering result:
reads passed filter: 193198814
reads failed due to low quality: 3463698
reads failed due to too many N: 12650
reads failed due to too short: 3936
reads with adapter trimmed: 30306204
bases trimmed due to adapters: 1095385912

Duplication rate: 11.8266%

Insert size peak (evaluated by paired-end reads): 178

JSON report: 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.fastp.json
HTML report: 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.fastp.html

fastp --in1 1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L003_R1_001.fastq.gz --in2 1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L003_R2_001.fastq.gz --out1 1029_I9B-T1-TDNA-1_A23MHWWLT4_1/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_I9B-T1-TDNA-1_A23MHWWLT4_1/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 1179 seconds