Deepsomatic Invalid tumor sample name input

Healthcare & Life Sciences Parabricks
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1

Hey all,

I am trying to run Parabricks Deepsomatic with the full command below:

pbrun deepsomatic \
–-mode=ont \
–-ref=%(profile_genome_fa)s \
--in-normal-bam=%(normal_bam)s \
-–in-tumor-bam=%(tumor_bam)s \
--out-variants=%(output_dir)s/%(sample_name)s_deepsomatic.vcf.gz

But I keep getting the Invalid tumor sample name input, exiting. error, the full log is below:

[PB Info 2026-Feb-13 13:18:27] ------------------------------------------------------------------------------
[PB Info 2026-Feb-13 13:18:27] ||                 Parabricks accelerated Genomics Pipeline                 ||
[PB Info 2026-Feb-13 13:18:27] ||                              Version 4.6.0-1                             ||
[PB Info 2026-Feb-13 13:18:27] ||                                deepsomatic                               ||
[PB Info 2026-Feb-13 13:18:27] ------------------------------------------------------------------------------
[PB Info 2026-Feb-13 13:18:28] Starting DeepSomatic
[PB Info 2026-Feb-13 13:18:28] Running with 2 GPU devices, each with 4 group instances and 6 workers
[PB Error 2026-Feb-13 13:18:28][src2/readers.cpp:1936] Invalid tumor sample name input, exiting.
Process exited with failure. Please check the logs.
Process exited with failure. Please check the logs.
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Exiting…

Could not run deepsomatic
Exiting pbrun …

What is causing the error here? What should I need to change/add? I checked the Parabricks Deepsomatic documentation but could not find anything related to the sample name.

Thanks for your help and time!

2

Hi @irem.yucel , thank you for your question. Parabricks Deepsomatic requires that the tumor and normal samples have different sample names. Can you confirm that is the case here? You can find the sample name for a bam file by inspecting its header using a tool such as samtools.