Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/af6afb342ea146b5f21da60283a8c6/output/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L006_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/4cf274313d14f9d0508472816a79f7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/4cf274313d14f9d0508472816a79f7/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/af6afb342ea146b5f21da60283a8c6/output/1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L006_R1_001.fastq.gz
==> 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: 95156892
total bases: 14368690692
Q20 bases: 13934579234(96.9788%)
Q30 bases: 13134732662(91.4122%)
Q40 bases: 13134732662(91.4122%)

Read2 before filtering:
total reads: 95156892
total bases: 14368690692
Q20 bases: 13635434829(94.8968%)
Q30 bases: 12413094038(86.3899%)
Q40 bases: 12413094038(86.3899%)

Read1 after filtering:
total reads: 93414584
total bases: 13564943482
Q20 bases: 13226233355(97.503%)
Q30 bases: 12517218417(92.2762%)
Q40 bases: 12517218417(92.2762%)

Read2 after filtering:
total reads: 93414584
total bases: 13566213845
Q20 bases: 13003223481(95.8501%)
Q30 bases: 11935184343(87.9773%)
Q40 bases: 11935184343(87.9773%)

Filtering result:
reads passed filter: 186829168
reads failed due to low quality: 3467858
reads failed due to too many N: 13056
reads failed due to too short: 3702
reads with adapter trimmed: 29935495
bases trimmed due to adapters: 1084409130

Duplication rate: 10.5121%

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_L006_R1_001.fastq.gz --in2 1029_I9B-T1-TDNA-1_A23MHWWLT4_1_S27_L006_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: 1059 seconds