Work Directory

Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (FFPE_V4_0001_RNA_0001_B23LG7FLT4_2)
Attempt
1
S3 Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/3a15a4f33c50e25a32aff362e63414

Files (108)

Name Size Modified
.command.begin 6 bytes Jun 08, 2026 3:21 AM
.command.err 248.4 KB Jun 08, 2026 5:33 AM
.command.log 283.4 KB Jun 08, 2026 5:33 AM
.command.out 34.3 KB Jun 08, 2026 5:33 AM
.command.run 14.4 KB Jun 08, 2026 3:20 AM
.command.sh 674 bytes Jun 08, 2026 3:20 AM
.command.trace 300 bytes Jun 08, 2026 5:33 AM
.command.yaml 3.9 KB Jun 08, 2026 3:20 AM
.exitcode 1 byte Jun 08, 2026 5:33 AM
FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.FusionInspector.fusions.abridged.tsv 8.4 KB Jun 08, 2026 5:33 AM
FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.FusionInspector.fusions.abridged.tsv.annotated.coding_effect 105.2 KB Jun 08, 2026 5:33 AM
FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.FusionInspector.fusions.tsv 10.6 MB Jun 08, 2026 5:33 AM
FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_inspector_web.html 3.1 MB Jun 08, 2026 5:33 AM
FusionInspector.log 44.1 KB Jun 08, 2026 5:33 AM
chckpts_dir/EM_adj_counts.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.bed.bedsort.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.bed.bgzip.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.bed.tabix.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.junction_reads.bam.bam_to_bed.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.junction_reads.bam.bedsort.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.junction_reads.bam.bgzip.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.junction_reads.bam.tabix.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.spanning_reads.bam.bam_to_bed.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.spanning_reads.bam.bedsort.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.spanning_reads.bam.bgzip.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.spanning_reads.bam.tabix.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/add_FFPM.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/add_splice_info.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/annot_filter.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/append_microH_info.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/blast_filter.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/coalesce_junc_n_span.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/cp_consol_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/cp_contigs_file_workdir 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/cp_final.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/cp_gtf_file_workdir.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/create_fi_igvjs.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/cytoband.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/filter_by_frag_threshs.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/final.abridged.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/fusion_annotator.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/fusion_coding_region_effect.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/fusion_contigs.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/fusion_reports_html.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/get_fusion_JUNCTION_reads_from_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/get_fusion_SPANNING_reads_from_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/index_consol_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/init_EM_adj_counts.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/init_spanning_reads_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/mark_dup_reads.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/mark_dups_reads.index.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/merged_contig_fai.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/merged_contig_gtf_to_bed.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/microH.dat.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_extract_junc_reads.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_junc_reads_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_juncspan_fmt.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_pfam_bed.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_pfam_gff3.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_sam_frag_coordss.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_seqsim_bed.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_igv_seqsim_gff3.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/prep_spanning_reads.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/run_STAR.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/samtools_idx_junc_reads_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/samtools_index_span_reads_bam.ok 0 bytes Jun 08, 2026 5:33 AM
chckpts_dir/span_reads_acc.ok 0 bytes Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fa 2.3 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary 15.2 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj 15.2 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.info 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter.info 10.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.fusion_junction_read_accs 1.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.fusion_preds.coalesced.summary.fusion_spanning_read_accs 11.8 KB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.gtf 4.2 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam 465.7 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.bai 266.7 KB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.failed_reads_during_span_analysis 29.0 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam 16.2 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.fusion_junction_info 1.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.fusion_span_reads.sam 78.2 KB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.fusion_spanning_info 13.6 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.read_align_counts.idx 1.2 GB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.read_align_counts.idx.ok 0 bytes Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.cSorted.dupsMarked.bam.spanning_reads_want.idx 16.0 KB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.sortedByCoord.out.bam 951.7 MB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.sortedByCoord.out.bam.bai 435.1 KB Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.sortedByCoord.out.bam.bai.ok 0 bytes Jun 08, 2026 5:33 AM
fi_workdir/FFPE_V4_0001_RNA_0001_B23LG7FLT4_2.star.sortedByCoord.out.bam.ok 0 bytes Jun 08, 2026 5:33 AM
fi_workdir/Log.final.out 2.0 KB Jun 08, 2026 5:33 AM
fi_workdir/Log.out 23.0 KB Jun 08, 2026 5:33 AM
fi_workdir/Log.progress.out 7.7 KB Jun 08, 2026 5:33 AM
fi_workdir/SJ.out.tab 16.5 MB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/exonGeTrInfo.tab 132.2 KB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/exonInfo.tab 62.4 KB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/geneInfo.tab 2.6 KB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/sjdbInfo.txt 10.8 MB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/sjdbList.fromGTF.out.tab 29.7 KB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/sjdbList.out.tab 9.6 MB Jun 08, 2026 5:33 AM
fi_workdir/_STARgenome/transcriptInfo.tab 35.0 KB Jun 08, 2026 5:33 AM
fi_workdir/microH.dat 2.4 MB Jun 08, 2026 5:33 AM
fi_workdir/pipeliner.1286.cmds 1005 bytes Jun 08, 2026 5:33 AM
fi_workdir/star_align.ok 0 bytes Jun 08, 2026 5:33 AM
versions.yml 103 bytes Jun 08, 2026 5:33 AM