Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/1a973e9635583ceb00b90f4696f91d/output/1029_IWL-T1-TDNA-1_A23MHWWLT4_1_S7_L005_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/af7471994ae0444837bb8fa836a452/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/af7471994ae0444837bb8fa836a452/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/1a973e9635583ceb00b90f4696f91d/output/1029_IWL-T1-TDNA-1_A23MHWWLT4_1_S7_L005_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: 43818660
total bases: 6616617660
Q20 bases: 6403650424(96.7813%)
Q30 bases: 6108199579(92.316%)
Q40 bases: 6108199579(92.316%)

Read2 before filtering:
total reads: 43818660
total bases: 6616617660
Q20 bases: 6426423917(97.1255%)
Q30 bases: 6105559084(92.2761%)
Q40 bases: 6105559084(92.2761%)

Read1 after filtering:
total reads: 43486698
total bases: 5670875510
Q20 bases: 5572718700(98.2691%)
Q30 bases: 5356231325(94.4516%)
Q40 bases: 5356231325(94.4516%)

Read2 after filtering:
total reads: 43486698
total bases: 5672282929
Q20 bases: 5570553165(98.2065%)
Q30 bases: 5356238715(94.4283%)
Q40 bases: 5356238715(94.4283%)

Filtering result:
reads passed filter: 86973396
reads failed due to low quality: 657472
reads failed due to too many N: 4268
reads failed due to too short: 2184
reads with adapter trimmed: 45027159
bases trimmed due to adapters: 1795578868

Duplication rate: 8.18372%

Insert size peak (evaluated by paired-end reads): 114

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

fastp --in1 1029_IWL-T1-TDNA-1_A23MHWWLT4_1_S7_L005_R1_001.fastq.gz --in2 1029_IWL-T1-TDNA-1_A23MHWWLT4_1_S7_L005_R2_001.fastq.gz --out1 1029_IWL-T1-TDNA-1_A23MHWWLT4_1/1029_IWL-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_IWL-T1-TDNA-1_A23MHWWLT4_1/1029_IWL-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_IWL-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_IWL-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 209 seconds