Workflow access to souporcell --ignore flag?
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Constantine Tzouanas
Feb 7, 2026, 3:02:43 AMFeb 7
to Cumulus Support
Hello,
Many thanks for your lovely work on cumulus; it's very enabling for a wide variety of analyses.
I'm testing out running souporcell on some Ultima sequencing data, and I'm running into error messages about "Less than 50% of first 100000 reads have UMI tag (UB), turn on --ignore True to ignore". From inspecting bam files derived from Ultima sequencing data, I believe that Ultima may indicate UMI's with "UM" rather than "UB" that souporcell is expecting.
Would it be possible to give the user access to set --ignore True as part of the wdl/Terra interface? That'd be one extra input to add and would help circumvent this error message.
Many thanks!
Sincerely,
Constantine Tzouanas
Many thanks for your lovely work on cumulus; it's very enabling for a wide variety of analyses.
I'm testing out running souporcell on some Ultima sequencing data, and I'm running into error messages about "Less than 50% of first 100000 reads have UMI tag (UB), turn on --ignore True to ignore". From inspecting bam files derived from Ultima sequencing data, I believe that Ultima may indicate UMI's with "UM" rather than "UB" that souporcell is expecting.
Would it be possible to give the user access to set --ignore True as part of the wdl/Terra interface? That'd be one extra input to add and would help circumvent this error message.
Many thanks!
Sincerely,
Constantine Tzouanas
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