Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1f/a0d557773d3a9c2b740f3684069b86/aih-tih-sc-331e97-R1_A23WJ53LT4_1_2.fastp.fastq.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/ensembl/Homo_sapiens.GRCh38.102.gtf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/bc64e996e7b1197681a54270a2e98a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/5464a09423970b06d10705502a1736/kallisto
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/bc64e996e7b1197681a54270a2e98a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1f/a0d557773d3a9c2b740f3684069b86/aih-tih-sc-331e97-R1_A23WJ53LT4_1_1.fastp.fastq.gz
==> STAGING COMPLETE (6 inputs)


[quant] fragment length distribution will be estimated from the data
[index] k-mer length: 31
[index] number of targets: 194,360
[index] number of k-mers: 112,035,259
[quant] running in paired-end mode
[quant] will process pair 1: aih-tih-sc-331e97-R1_A23WJ53LT4_1_1.fastp.fastq.gz
                             aih-tih-sc-331e97-R1_A23WJ53LT4_1_2.fastp.fastq.gz
[quant] finding pseudoalignments for the reads ... done
[quant] processed 698,690 reads, 659,059 reads pseudoaligned
[quant] estimated average fragment length: 91.633
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 945 rounds