Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/a9ef27208f05ba9f94d6d1a207ebad/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/a9ef27208f05ba9f94d6d1a207ebad/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/4d24a8043550ff7295820d491d8a43/output/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L007_R1_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/4d24a8043550ff7295820d491d8a43/output/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L007_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: 81349832
total bases: 12283824632
Q20 bases: 11936367034(97.1714%)
Q30 bases: 11282906362(91.8517%)
Q40 bases: 11282906362(91.8517%)

Read2 before filtering:
total reads: 81349832
total bases: 12283824632
Q20 bases: 11597799129(94.4152%)
Q30 bases: 10487627176(85.3775%)
Q40 bases: 10487627176(85.3775%)

Read1 after filtering:
total reads: 79497205
total bases: 11654299331
Q20 bases: 11382406583(97.667%)
Q30 bases: 10807381740(92.733%)
Q40 bases: 10807381740(92.733%)

Read2 after filtering:
total reads: 79497205
total bases: 11655169077
Q20 bases: 11130632170(95.4995%)
Q30 bases: 10155139631(87.1299%)
Q40 bases: 10155139631(87.1299%)

Filtering result:
reads passed filter: 158994410
reads failed due to low quality: 3690658
reads failed due to too many N: 12400
reads failed due to too short: 2196
reads with adapter trimmed: 19242494
bases trimmed due to adapters: 701573200

Duplication rate: 12.1662%

Insert size peak (evaluated by paired-end reads): 270

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

fastp --in1 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L007_R1_001.fastq.gz --in2 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L007_R2_001.fastq.gz --out1 1029_FZX-T1-TDNA-1_A23MHWWLT4_1/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_FZX-T1-TDNA-1_A23MHWWLT4_1/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 751 seconds