Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/c5896b19e23b3726d2d3fcadbf8e64/rna_s1200_S21.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/cb1ef4d62097f9d12a048f28247cfc/rna_s1221_S42.fastp.html
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/c74e8e59ed4e7371ca8ea45318a0a3/rna_s1221_S42_rseqc_extra_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/94a5f2893cf1f17883333eb418abb4/rna_s1221_S42_trimmed_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6b/0b70de8c8cbf7b1f9a46ce56a25713/rna_s1221_S42.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/75100f6af3627c09cee922f98adfb3/rna_s1221_S42_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/b2f5921f613a900fde1575f02017e4/rna_s1221_S42_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/d6b1db6951b654b95e38d0da1eb25f/rna_s1221_S42.md.bam.metrics
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/11/59e50814cce5fc0503b13f37cdcd2a/rna_s1221_S42_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/9307a8397c114e722e35750cbb17c2/rna_s1200_S21_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/a535c5c58819adca868b056f2b24cc/rna_s1200_S21.inner_distance_freq.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/d0a15acbbf024359f02df64850f9dc/rna_s1200_S21_rna_metrics.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/2804a108bad3deb4e81e4af46d96e6/rna_s1221_S42.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c6/3a39ddcaf66d50f32f35e4b3ffc2c3/rna_s1200_S21.ReadsPerGene.out.tab
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/d0/c00229f5bfd8f32c5acbb4afa0a859/workflow_summary_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/48/c9fb912d0cc4c004a1f58c88483e63/rna_s1200_S21_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/3fcfd334877bb10cbe4adce0499545/rna_s1221_S42_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/417b043c9ca8d075ece2e0d6ed4865/rna_s1200_S21_rseqc_extra_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c6/3a39ddcaf66d50f32f35e4b3ffc2c3/rna_s1200_S21.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/50e1cc160de75bbecc12883fb65d1c/rna_s1200_S21.fastp.html
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/48/d6fc6aecfff2e52879ab18b6362291/rna_s1200_S21.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/f9c51ba7e2a175b5c107469556ebfe/rna_s1200_S21_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/6fc25370a1cf34026f9bb2ff1dcbd1/rna_s1221_S42.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/32/233f7a48d90cde3f570d76f0befe59/rna_s1200_S21_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/2804a108bad3deb4e81e4af46d96e6/rna_s1221_S42.ReadsPerGene.out.tab
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/50e1cc160de75bbecc12883fb65d1c/rna_s1200_S21.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/8018207e3bf29993f6b09b1a6f4da7/rna_s1221_S42.infer_experiment.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/a4f1e138d962d9589477615cd27257/rna_s1221_S42_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/89c4e427572e4511d0ab01f23a35c2/rna_s1200_S21_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/84/ba815dba5ec67aec512abf321bb7ea/methods_description_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d0/c26be82e7d1cf3e354360a4f3d0dde/rna_s1221_S42.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/9fefdb5ab28204d09e85dbd7251d91/rna_s1200_S21_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/0498b8f06ae9c600599106c1f41075/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/2d23d1a345bb8ea8d7a225f6ee751a/rna_s1200_S21.infer_experiment.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/cb1ef4d62097f9d12a048f28247cfc/rna_s1221_S42.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/1d0e28dae395dff2b3a03a71e6fd8c/rna_s1221_S42.inner_distance_freq.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/75100f6af3627c09cee922f98adfb3/rna_s1221_S42_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/f4f413bd46dce3b53cf5b195d64f85/rna_s1221_S42_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/2cc01ea56e714a87d10d31aa9a855d/rna_s1200_S21.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/d2547afa4d4335b97e2ddbf1ca1478/rna_s1200_S21.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b3/6dd18804c3b3bd7d52899de2d6ff48/rna_s1200_S21.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/0498b8f06ae9c600599106c1f41075/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/9c509b0f158f7aa64a5060834256da/rna_s1221_S42_rna_metrics.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/94a5f2893cf1f17883333eb418abb4/rna_s1221_S42_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/6f8870a01d73b877b060e75010b1f8/rna_s1200_S21.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/adfce5880332aa74dbfed3bda4e87b/rna_s1221_S42_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/f9c51ba7e2a175b5c107469556ebfe/rna_s1200_S21_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/89c4e427572e4511d0ab01f23a35c2/rna_s1200_S21_trimmed_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-s3-gitlab-results/rnafusion/build2763435/baseline-run/62591139/pipeline_info/nf_core_pipeline_software_mqc_versions.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/6f8870a01d73b877b060e75010b1f8/rna_s1200_S21.attempt1.command.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/12330e93d54dd59d1980c267f60e3c/rna_s1200_S21_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d0/c26be82e7d1cf3e354360a4f3d0dde/rna_s1221_S42.attempt1.command.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/4ddb9fc265422ad42309e1c3a70ec5/rna_s1221_S42.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-710cfa46-106b-4609-b951-2a131c71e095/61/ec31f53f914473c12da527e3be57a8/multiqc_config.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/93d0abd942a6767814961e41b08fc8/rna_s1200_S21_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/619aa96b6620080701a23e813c2d60/rna_s1221_S42.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/5367ecc0d30895ddb944284c84db50/rna_s1221_S42.read_distribution.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/bec0dfa8ccbdd1204cf47eb4ea0861/rna_s1221_S42.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/83/ee25539f85d1baf1dcae3eb7486655/rna_s1200_S21.read_distribution.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/1914fbd20e691c6127f174a249afaa/rna_s1200_S21.md.bam.metrics
==> STAGING COMPLETE (60 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.t1HaA34vRX
|         searching | ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 95/95  
|    custom_content | rseqc_extra_metrics: Found 2 General Statistics columns
|    custom_content | nf-core-rnafusion-summary: Found 1 sample (html)
|    custom_content | rna_contamination: Found 2 General Statistics columns
|    custom_content | seqtools_metrics: Found 2 General Statistics columns
|    custom_content | preseq_metrics: Found 2 General Statistics columns
|    custom_content | nf-core-rnafusion-methods-description: Found 1 sample (html)
|    custom_content | kallisto_qc_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