Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/3e4ce4ec146c1883c65ad7f3f36a8f/rna_s1221_S42_combined_fusions_arriba_visualisation.pdf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/af261eabe709fc2b9acc1ec17b16f4/rna_s1221_S42.infer_experiment.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/33d1144efae2fc796b3994700f3756/rna_s1221_S42_collectinsertsize.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/faf1026d4a05e02cad4d2e84b9ddfd/rna_s1221_S42_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/7ef8c0cd08224bdc5edbbb49632b56/rna_s1221_S42.inner_distance_freq.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/faf1026d4a05e02cad4d2e84b9ddfd/rna_s1221_S42_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/47/93f4b62d312f4d8fffc194c2cdf80b/rna_s1221_S42_kallisto_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/b2ec6a5e8e2c9415df34f192edce33/rna_s1221_S42.fastp.html
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5df30c04ae02cd15c48e8c816bc342/rna_s1221_S42.pos.DupRate.xls
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/16ef6100748e598d81779a6b6274fc/rna_s1221_S42.junction_annotation.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/f3d85b08bb548345c8df6a5d6dd93e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/238ef521c48a77e14a2231c250be08/rna_s1221_S42.attempt1.command.log
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/ba43131bf6df3013459f8b54d671e9/rna_s1221_S42_preseq_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/9e/fe4fb3f4eba5d84c69c918e26e3542/workflow_summary_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/d5b53f9da95d1a0eaaff92defb9378/rna_s1221_S42_rna_metrics.txt
  Downloading: s3://natera-platform-sandbox/users/smarinkovic/rnapipeline_vcf_bgzip_test/pipeline_info/nf_core_pipeline_software_mqc_versions.yml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/238ef521c48a77e14a2231c250be08/rna_s1221_S42.lc_extrap.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/c50d04fd55f3a010ad5247490e7241/rna_s1221_S42_rseqc_extra_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/362c8fc6228ec8c5bb5bf35254a289/rna_s1221_S42.read_distribution.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/9f963caafff5705d8165f4f8a9d42e/rna_s1221_S42_trimmed_1_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/e1df0cee2f7bd018ca5538c27962fe/rna_s1221_S42.bam_stat.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/9f963caafff5705d8165f4f8a9d42e/rna_s1221_S42_trimmed_2_fastqc.zip
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/b2ec6a5e8e2c9415df34f192edce33/rna_s1221_S42.fastp.json
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/21/77f6521aa147bd4bf2fd365c3f16aa/rna_s1221_S42.Log.final.out
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/14f4d62a43afe21ef546a18dadf555/rna_s1221_S42_contamination_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/17ff620bae81001efa734f313dd819/rna_s1221_S42.md.bam.metrics
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-7b3818c0-d4ea-4c00-9f17-cd6e279eadc4/35/9e91b9e32a1719f19750f57c7e4bef/multiqc_config.yml
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/43cb821bfc1d05068fa2ee66257c08/rna_s1221_S42.junctionSaturation_plot.r
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/tmp/d5/5bbbeb11f033fdf4b3b266bc873b9d/methods_description_mqc.yaml
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/b0456f34dae88683c0bea5513bab8a/rna_s1221_S42_seqtool_mqc.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/f3d85b08bb548345c8df6a5d6dd93e/.command.run
==> 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.csy6EddupY
|         searching | ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 70/70  
|    custom_content | kallisto_qc_metrics: Found 1 General Statistics columns
|    custom_content | preseq_metrics: Found 1 General Statistics columns
|    custom_content | nf-core-rnafusion-summary: Found 1 sample (html)
|    custom_content | rseqc_extra_metrics: Found 1 General Statistics columns
|    custom_content | rna_contamination: Found 1 General Statistics columns
|    custom_content | nf-core-rnafusion-methods-description: Found 1 sample (html)
|    custom_content | seqtools_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