Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/ace6d075a4bfebb8af1665430ce487/output/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L002_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/48fb523941ec77b4a5ac0af816e392/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/48fb523941ec77b4a5ac0af816e392/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/ace6d075a4bfebb8af1665430ce487/output/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L002_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: 33651351
total bases: 5081354001
Q20 bases: 4838000132(95.2108%)
Q30 bases: 4596658561(90.4613%)
Q40 bases: 4596658561(90.4613%)

Read2 before filtering:
total reads: 33651351
total bases: 5081354001
Q20 bases: 4898825759(96.4079%)
Q30 bases: 4646787552(91.4478%)
Q40 bases: 4646787552(91.4478%)

Read1 after filtering:
total reads: 33329369
total bases: 3844556386
Q20 bases: 3787955709(98.5278%)
Q30 bases: 3669011818(95.4339%)
Q40 bases: 3669011818(95.4339%)

Read2 after filtering:
total reads: 33329369
total bases: 3846987621
Q20 bases: 3788896378(98.49%)
Q30 bases: 3676396959(95.5656%)
Q40 bases: 3676396959(95.5656%)

Filtering result:
reads passed filter: 66658738
reads failed due to low quality: 630742
reads failed due to too many N: 9464
reads failed due to too short: 3758
reads with adapter trimmed: 50338580
bases trimmed due to adapters: 2382925190

Duplication rate: 6.4613%

Insert size peak (evaluated by paired-end reads): 98

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_L002_R1_001.fastq.gz --in2 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_S29_L002_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: 300 seconds