.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:SEQTOOL_TO_MULTIQC (BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/fe7d0c87f7a9cddcfd17cadf8bd0b4/.command.log
Size: 1.1 KB
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:SEQTOOL_TO_MULTIQC (BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/d7aa7634806624172b79dea4547fc8/BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1/BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1_full_basic_stats.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/fe7d0c87f7a9cddcfd17cadf8bd0b4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/fe7d0c87f7a9cddcfd17cadf8bd0b4/.command.run
==> STAGING COMPLETE (3 inputs)

Processing SeqTools file: BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1_full_basic_stats.tsv
Warning: scipy not available. GC bias calculation will be simplified.
Successfully converted BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1_full_basic_stats.tsv to BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1_seqtool_mqc.tsv
  Samples: 1
  SeqTools (general stats) columns: 18
  Metrics: reads, frac_unmapped, frac_dupes, unique_reads, frac_reads_on_target, frac_pairs_on_target, frac_reads_off_target, frac_pairs_off_target, reads_on_target, pairs_on_target, reads_off_target, pairs_off_target, mean_depth, q50_depth, frac_bases_gt30x, frac_bases_gt100x, n_q30, gc_bias