Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a9/3a3a6ce5e91852d1633f69d6011aa7/rna_s1221_S42.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/5d6cdc968abd8a3bb9bdd6f0c865a5/rna_s1221_S42_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/05afe018b400148637d178de38fb93/rna_s1200_S21_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/a944506c31bf3d70762e2461be40e6/rna_s1221_S42_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1e/da10cd0a7abed9d532bcb051c571b2/rna_s1221_S42.inner_distance_freq.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/e5698511a6cb1473ade8968151874d/rna_s1221_S42.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/28/3d6b470457c2a472e9d9f1bc32fb07/rna_s1200_S21_rna_metrics.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/1c4c4a227d7e0ded81b2a92b905701/rna_s1200_S21.ReadsPerGene.out.tab
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/4390eaae22aba660d24adb6134c060/rna_s1200_S21.md.bam.metrics
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/3b0e768aae6e2a211d3fca3d8631d4/rna_s1221_S42.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/08/47a0a1f88ea239b3c399e8a57f839f/workflow_summary_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c6/a060854d0038203e0ae4790ac55a41/rna_s1200_S21.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-s3-gitlab-results/rnafusion/build2758821/regression-run/62461755/pipeline_info/nf_core_pipeline_software_mqc_versions.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a1/639ddd6d0153879921e4404f51d760/rna_s1221_S42.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/76/f1de70a3a7d9c44deb64ce5c1ffd74/rna_s1221_S42_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/1c4c4a227d7e0ded81b2a92b905701/rna_s1200_S21.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7b/0214706b77e5ec75d61997bfcd1895/rna_s1200_S21.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ec/110041c394e178dbadfd3b48ed2293/rna_s1200_S21_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/d048afc3197de3dda959a275c8fdbc/rna_s1221_S42_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a1/776a970d4a587b4959dfdd4015164c/rna_s1200_S21_trimmed_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/01/630073679bbc4710286a56e04ca681/rna_s1221_S42.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/34b0db92547ed9fb6d7fe4083aaedb/rna_s1200_S21_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/938177c23db45271313e10a7187367/rna_s1200_S21.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/3b0e768aae6e2a211d3fca3d8631d4/rna_s1221_S42.ReadsPerGene.out.tab
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/7b242d16bb800affed317983ae8ec6/rna_s1200_S21.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/43699f312addc4f0a95b85bbcbd4fb/rna_s1200_S21_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/f6/e56ad2dc64401e52bb7b26656fc119/methods_description_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/6eb72fab70c7abccb39cd37d41b184/rna_s1200_S21.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/35aa62f21df0d0f773c5763a3f20d0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/4e9d6c173294a58fd9a06d05c782eb/rna_s1200_S21.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/e81b135fcd516ea78653372b52b306/rna_s1221_S42.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/5d6cdc968abd8a3bb9bdd6f0c865a5/rna_s1221_S42_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f8/93eec7aacc61e1ab3901442911e5d7/rna_s1200_S21.log
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/0fdd48182db41f5cb6f6bfe58b2901/rna_s1200_S21.inner_distance_freq.txt
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/9507d2dfb760474a6c2ce8f6d4598b/rna_s1221_S42_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/7b242d16bb800affed317983ae8ec6/rna_s1200_S21.attempt1.command.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/3f865fd025159d2e5d8fc2b9ba7634/rna_s1221_S42.infer_experiment.txt
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/9e2f884d6cc786412d759a25e3afb4/rna_s1200_S21_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/5e20b029cac14376d01fd1dda33331/rna_s1221_S42_rna_metrics.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/eb8062e7070ca928ff50aecd9f3ed2/rna_s1221_S42_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/7e454eb882637edf49886d7497a3f2/rna_s1200_S21_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/04d327a7a054b11d29f777d3685ae6/rna_s1221_S42_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/132eccca74c2d193709cfe9e0883f1/rna_s1221_S42.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/c53f3e5c248120f903e51c9075a313/rna_s1221_S42.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/97dc4a420e0eb784c1756c6aac8d69/rna_s1200_S21_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ec/c436b66836ea30d05146ef5913e1f8/rna_s1200_S21.infer_experiment.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/7e454eb882637edf49886d7497a3f2/rna_s1200_S21_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a1/776a970d4a587b4959dfdd4015164c/rna_s1200_S21_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-a8774190-30a3-438b-9e82-1b92d2f26799/52/33c0003ea9e89ed6818d50b2158fbf/multiqc_config.yml
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/420c03407f0d4249c05fad12fb857f/rna_s1221_S42_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/8e8b2212470085eac5ddf55cd9800f/rna_s1221_S42.read_distribution.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/f423a025dd1ff5ee96586a869c594b/rna_s1200_S21.read_distribution.txt
==> STAGING COMPLETE (58 inputs)


  /// MultiQC 🔍 | v1.21

|           multiqc | MultiQC Version v1.35 now available!
|           multiqc | Module(s) in config.run_modules are unknown: arriba
|           multiqc | Only using modules: custom_content, fastqc, fastp, star, samtools, picard, kallisto, rseqc, preseq
|           multiqc | Search path : /tmp/nxf.axw2rANxab
|         searching | ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 91/91  
|    custom_content | rna_contamination: Found 2 General Statistics columns
|    custom_content | preseq_metrics: Found 2 General Statistics columns
|    custom_content | nf-core-rnafusion-summary: Found 1 sample (html)
|    custom_content | nf-core-rnafusion-methods-description: Found 1 sample (html)
|    custom_content | kallisto_qc_metrics: Found 2 General Statistics columns
|    custom_content | seqtools_metrics: Found 2 General Statistics columns
|          kallisto | Found 2 reports
|            picard | Found 2 InsertSizeMetrics reports
|            picard | Found 2 MarkDuplicates reports
|            picard | Found 2 RnaSeqMetrics reports
|            preseq | Found 2 reports
|             rseqc | Found 2 read_distribution reports
|             rseqc | Found 2 inner_distance reports
|             rseqc | Found 2 read_duplication reports
|             rseqc | Found 2 junction_annotation reports
|             rseqc | Found 2 junction_saturation reports
|             rseqc | Found 2 infer_experiment reports
|             rseqc | Found 2 bam_stat reports
|              star | Found 2 reports and 2 gene count files
|             fastp | Found 2 reports
|            fastqc | Found 8 reports
|            fastqc | Found 4 reports
|           multiqc | Report      : multiqc_report.html
|           multiqc | Data        : multiqc_data
|           multiqc | Plots       : multiqc_plots
|           multiqc | MultiQC complete