Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/dac8a967c7e5d8dc58cc4ef0654c78/rna_s1221_S42_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/57d713958b48eab1e02ec88c69dc75/rna_s1221_S42.inner_distance_freq.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/8d0d96a6ef1dae44f84274179cfa2d/rna_s1221_S42.md.bam.metrics
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c6/617d94e036a95c85894eb9ef44c071/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/005958f8b0b6503eebbf81b2dddb3d/rna_s1221_S42_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/2edde258b001c62d921eb3eadc0dbb/rna_s1221_S42.attempt1.command.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/46/f5fadb371c3c96faa4c4d8c81192bd/workflow_summary_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/83da429da21322cd23ef9bd0138867/rna_s1221_S42.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/e754d1dbb1f9187c7c568eac722643/rna_s1221_S42.fastp.html
  Downloading: s3://natera-platform-sandbox/users/smarinkovic/rnapipeline_vcf_bgzip_final_test/pipeline_info/nf_core_pipeline_software_mqc_versions.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/290f3d7ab1ea9cc3b6f78e8e37a331/rna_s1221_S42_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/19107ebe17d2dc434ec7dbcba17d6e/rna_s1221_S42.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/2edde258b001c62d921eb3eadc0dbb/rna_s1221_S42.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/df0ab2952c65132f5c197155559573/rna_s1221_S42_rseqc_extra_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/e754d1dbb1f9187c7c568eac722643/rna_s1221_S42.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/ce337fea0365b398bfbc4383e2f8b7/rna_s1221_S42_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/86/70cd0bdb55e5909ea9cd7203763eac/rna_s1221_S42_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/86/70cd0bdb55e5909ea9cd7203763eac/rna_s1221_S42_trimmed_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/ce337fea0365b398bfbc4383e2f8b7/rna_s1221_S42_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/ad2a31eb5dd917390b4c49ca5137ee/rna_s1221_S42_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/19863f5d07c85cc4ea6abb03bf8ee5/rna_s1221_S42_rna_metrics.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/3c15023005fc6ecaab130723455b3f/rna_s1221_S42.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/5456459721e32009e1450f612c5ab7/rna_s1221_S42.read_distribution.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-6314a9b4-bf63-41a4-8f62-f188478c8cdb/e3/03b161ec581b2163e5830287ae963a/multiqc_config.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5a/c531b76bd472beae7c8ec471686ebe/rna_s1221_S42_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/b9b5924a056b1699cda32d609e4c0c/rna_s1221_S42.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/3c15023005fc6ecaab130723455b3f/rna_s1221_S42.ReadsPerGene.out.tab
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/8627a5d7e47878493b81be4ffc033a/rna_s1221_S42.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/fc895e72ff2d36a3b7846c7c29f841/rna_s1221_S42_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d5/afc500985015a0ac35421bcd463977/rna_s1221_S42.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/a7/8b4d1326d0c1667f09037545ff853b/methods_description_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c6/617d94e036a95c85894eb9ef44c071/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/dc7767f4848925acd75fb1fc05a396/rna_s1221_S42.infer_experiment.txt
==> STAGING COMPLETE (33 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.PYsdysOoGV
|         searching | ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 70/70  
|    custom_content | seqtools_metrics: Found 1 General Statistics columns
|    custom_content | nf-core-rnafusion-summary: Found 1 sample (html)
|    custom_content | rna_contamination: Found 1 General Statistics columns
|    custom_content | rseqc_extra_metrics: Found 1 General Statistics columns
|    custom_content | preseq_metrics: Found 1 General Statistics columns
|    custom_content | nf-core-rnafusion-methods-description: Found 1 sample (html)
|    custom_content | kallisto_qc_metrics: Found 1 General Statistics columns
|          kallisto | Found 1 reports
|            picard | Found 1 InsertSizeMetrics reports
|            picard | Found 1 MarkDuplicates reports
|            picard | Found 1 RnaSeqMetrics reports
|            preseq | Found 1 reports
|             rseqc | Found 1 read_distribution reports
|             rseqc | Found 1 inner_distance reports
|             rseqc | Found 1 read_duplication reports
|             rseqc | Found 1 junction_annotation reports
|             rseqc | Found 1 junction_saturation reports
|             rseqc | Found 1 infer_experiment reports
|             rseqc | Found 1 bam_stat reports
|              star | Found 1 reports and 1 gene count files
|             fastp | Found 1 reports
|            fastqc | Found 4 reports
|            fastqc | Found 2 reports
|           multiqc | Report      : multiqc_report.html
|           multiqc | Data        : multiqc_data
|           multiqc | Plots       : multiqc_plots
|           multiqc | MultiQC complete