.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONANNOTATION (A673_FFPE_RNA_0001_B23LG7FLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/7221e3ea5c3dfcf25475f65efc1a76/.command.log
Size: 1.4 KB
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONANNOTATION (A673_FFPE_RNA_0001_B23LG7FLT4_2)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/420c2a0cf5b37bcf5a661b99b51025/A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/13a0da7a90913d31925104f03d721b/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/7221e3ea5c3dfcf25475f65efc1a76/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/7221e3ea5c3dfcf25475f65efc1a76/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/993d7220d8446b61d7f0e428187633/A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

null device 
          1 
null device 
          1 
total = 306433525
[W::hts_idx_load3] The index file is older than the data file: A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	306433525
Known Splicing Events:	304029670
Partial Novel Splicing Events:	1622446
Novel Splicing Events:	694306
Filtered Splicing Events:	87103

Total splicing  Junctions:	599663
Known Splicing Junctions:	277258
Partial Novel Splicing Junctions:	179214
Novel Splicing Junctions:	143191

===================================================================
Create BED file ...
Create Interact file ...