Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/efa91fc1793af7e19448772a3cc5c1/output/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L008_R1_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/e1ae458903b7d2538227e9b630db7f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/efa91fc1793af7e19448772a3cc5c1/output/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L008_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/e1ae458903b7d2538227e9b630db7f/.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: 32587906
total bases: 4920773806
Q20 bases: 4678279180(95.072%)
Q30 bases: 4433198934(90.0915%)
Q40 bases: 4433198934(90.0915%)

Read2 before filtering:
total reads: 32587906
total bases: 4920773806
Q20 bases: 4738198464(96.2897%)
Q30 bases: 4478433748(91.0108%)
Q40 bases: 4478433748(91.0108%)

Read1 after filtering:
total reads: 32275097
total bases: 3724163387
Q20 bases: 3664659260(98.4022%)
Q30 bases: 3539865594(95.0513%)
Q40 bases: 3539865594(95.0513%)

Read2 after filtering:
total reads: 32275097
total bases: 3726466476
Q20 bases: 3663739056(98.3167%)
Q30 bases: 3541145035(95.0269%)
Q40 bases: 3541145035(95.0269%)

Filtering result:
reads passed filter: 64550194
reads failed due to low quality: 615922
reads failed due to too many N: 6326
reads failed due to too short: 3370
reads with adapter trimmed: 48674188
bases trimmed due to adapters: 2305017670

Duplication rate: 6.223%

Insert size peak (evaluated by paired-end reads): 96

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

fastp --in1 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L008_R1_001.fastq.gz --in2 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L008_R2_001.fastq.gz --out1 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 257 seconds