.command.err - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (aih-tih-sc-89cc59-R1_B23WHYVLT4_1)

File Info

Filename: .command.err
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/d5737d0668cf6d9d9361258ce51a38/.command.err
Size: 1.3 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (aih-tih-sc-89cc59-R1_B23WHYVLT4_1)
Attempt

Content

Done.
Error, no fusion contigs written at /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl line 251.
Traceback (most recent call last):
  File "/usr/local/src/STAR-Fusion/FusionInspector/FusionInspector", line 1942, in <module>
    FusionInspector().run()
  File "/usr/local/src/STAR-Fusion/FusionInspector/FusionInspector", line 1516, in run
    pipeliner.run()
  File "/usr/local/src/STAR-Fusion/FusionInspector/PyLib/Pipeliner.py", line 71, in run
    cmd.run(checkpoint_dir)
  File "/usr/local/src/STAR-Fusion/FusionInspector/PyLib/Pipeliner.py", line 132, in run
    raise RuntimeError(errmsg)
RuntimeError: Error, command: [ /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl --fusions aih-tih-sc-89cc59-R1_B23WHYVLT4_1.fusionreport.tsv --gtf /tmp/nxf.Pf3P196EYL/ctat_genome_lib_build_dir/ref_annot.gtf --genome_fa /tmp/nxf.Pf3P196EYL/ctat_genome_lib_build_dir/ref_genome.fa --out_prefix /tmp/nxf.Pf3P196EYL/aih-tih-sc-89cc59-R1_B23WHYVLT4_1 --shrink_introns --max_intron_length 1000  ] failed, stack trace: [ st: file:/usr/local/src/STAR-Fusion/FusionInspector/PyLib/Pipeliner.py, lineno:86
st: file:/usr/local/src/STAR-Fusion/FusionInspector/FusionInspector, lineno:654
st: file:/usr/local/src/STAR-Fusion/FusionInspector/FusionInspector, lineno:1942
 ]