Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/42c2863bee9aa97086c87f3a7cd6d1/output/HCC1395_BL_S2_L003_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/a1f90cafce002be841e05d2d54f1ff/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/a1f90cafce002be841e05d2d54f1ff/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/42c2863bee9aa97086c87f3a7cd6d1/output/HCC1395_BL_S2_L003_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: 62275
total bases: 9341250
Q20 bases: 9173994(98.2095%)
Q30 bases: 8847351(94.7127%)
Q40 bases: 8847351(94.7127%)

Read2 before filtering:
total reads: 62275
total bases: 9341250
Q20 bases: 9114858(97.5764%)
Q30 bases: 8716485(93.3118%)
Q40 bases: 8716485(93.3118%)

Read1 after filtering:
total reads: 62274
total bases: 8991629
Q20 bases: 8859478(98.5303%)
Q30 bases: 8563509(95.2387%)
Q40 bases: 8563509(95.2387%)

Read2 after filtering:
total reads: 62274
total bases: 8991886
Q20 bases: 8797983(97.8436%)
Q30 bases: 8436445(93.8229%)
Q40 bases: 8436445(93.8229%)

Filtering result:
reads passed filter: 124548
reads failed due to low quality: 2
reads failed due to too many N: 0
reads failed due to too short: 0
reads with adapter trimmed: 19099
bases trimmed due to adapters: 698687

Duplication rate: 0.892814%

Insert size peak (evaluated by paired-end reads): 170

JSON report: HCC1395_BL.fastp.json
HTML report: HCC1395_BL.fastp.html

fastp --in1 HCC1395_BL_S2_L003_R1_001.fastq.gz --in2 HCC1395_BL_S2_L003_R2_001.fastq.gz --out1 HCC1395_BL/HCC1395_BL_R1.fastq.gz --out2 HCC1395_BL/HCC1395_BL_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json HCC1395_BL.fastp.json --html HCC1395_BL.fastp.html --thread 4 
fastp v1.0.1, time used: 2 seconds