Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/ace6d075a4bfebb8af1665430ce487/output/1029_FRC-T1-TDNA-1_A23MHWWLT4_1_S35_L002_R1_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/af/7a7ff1945fb946f58194bf22a331eb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/af/7a7ff1945fb946f58194bf22a331eb/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/ace6d075a4bfebb8af1665430ce487/output/1029_FRC-T1-TDNA-1_A23MHWWLT4_1_S35_L002_R2_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: 92416610
total bases: 13954908110
Q20 bases: 13614892960(97.5635%)
Q30 bases: 12993344309(93.1095%)
Q40 bases: 12993344309(93.1095%)

Read2 before filtering:
total reads: 92416610
total bases: 13954908110
Q20 bases: 13387839786(95.9364%)
Q30 bases: 12423831659(89.0284%)
Q40 bases: 12423831659(89.0284%)

Read1 after filtering:
total reads: 91085624
total bases: 13164797973
Q20 bases: 12913653852(98.0923%)
Q30 bases: 12368746577(93.9532%)
Q40 bases: 12368746577(93.9532%)

Read2 after filtering:
total reads: 91085624
total bases: 13166003444
Q20 bases: 12740632569(96.7692%)
Q30 bases: 11905039114(90.4226%)
Q40 bases: 11905039114(90.4226%)

Filtering result:
reads passed filter: 182171248
reads failed due to low quality: 2635954
reads failed due to too many N: 21234
reads failed due to too short: 4784
reads with adapter trimmed: 31910588
bases trimmed due to adapters: 1181444832

Duplication rate: 13.7564%

Insert size peak (evaluated by paired-end reads): 182

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

fastp --in1 1029_FRC-T1-TDNA-1_A23MHWWLT4_1_S35_L002_R1_001.fastq.gz --in2 1029_FRC-T1-TDNA-1_A23MHWWLT4_1_S35_L002_R2_001.fastq.gz --out1 1029_FRC-T1-TDNA-1_A23MHWWLT4_1/1029_FRC-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_FRC-T1-TDNA-1_A23MHWWLT4_1/1029_FRC-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 646 seconds